PaperBLAST
PaperBLAST Hits for reanno::Btheta:353284 N-succinylornithine aminotransferase (EC 2.6.1.81) (Bacteroides thetaiotaomicron VPI-5482) (373 a.a., MKLFDVYPLY...)
Show query sequence
>reanno::Btheta:353284 N-succinylornithine aminotransferase (EC 2.6.1.81) (Bacteroides thetaiotaomicron VPI-5482)
MKLFDVYPLYDINIVKGQGCKVWDENGTEYLDLYGGHAVISIGHAHPHYVEMISNQVATL
GFYSNSVINKLQQQVAERLGKISGYEDYSLFLINSGAEANENALKLASFYNGRTKVISFS
KAFHGRTSLAVEATNNPTIIAPINNNGHVTYLPLNDIEAMKQELAKGDVCAVIIEGIQGV
GGIKIPTTEFMQELRKVCTETGTILILDEIQSGYGRSGKFFAHQYNHIQPDIITVAKGIG
NGFPMAGVLISPMFKPVYGQLGTTFGGNHLACSAALAVMDVIEQDNLVENAKAVGDYLLE
ELKKFPQIKEVRGRGLMIGLEFEEPIKELRSRLIYDEHVFTGASGTNVLRLLPPLCLSME
EADEFLARFKRVL
Running BLASTp...
Found 250 similar proteins in the literature:
BT3758 N-succinylornithine aminotransferase (EC 2.6.1.81) from Bacteroides thetaiotaomicron VPI-5482
BT3758 acetylornithine aminotransferase from Bacteroides thetaiotaomicron VPI-5482
100% identity, 100% coverage
- mutant phenotype: Important for fitness in most defined media, except when arginine is provided. Similar to acetylornithine aminotransferases (such as argD from B. subtilis), but Bacteroidetes use succinylated intermediates for arginine synthesis (see PMC7311316).
- GapMind: Automated Annotation of Amino Acid Biosynthesis
Price, mSystems 2020 - “...mutants of this gene were at low abundance in the starting samples. Third, GapMind identified BT3758 as a potential aminotransferase for converting N -acylglutamate semialdehyde to N -acylornithine but with moderate confidence, because it was less than 40% identical to any characterized enzyme. BT3758 also is...”
Echvi_3848 N-succinylornithine aminotransferase (EC 2.6.1.81) from Echinicola vietnamensis KMM 6221, DSM 17526
55% identity, 98% coverage
- mutant phenotype: Important for fitness in most defined media, except when arginine or citrulline is provided. Similar to acetylornithine aminotransferases (such as argD from B. subtilis), but Bacteroidetes use succinylated intermediates for arginine synthesis (see PMC7311316).
BSU11220 acetylornithine aminotransferase from Bacillus subtilis subsp. subtilis str. 168
P36839 Acetylornithine aminotransferase from Bacillus subtilis (strain 168)
40% identity, 96% coverage
- rocF affects the production of tetramethylpyrazine in fermented soybeans with Bacillus subtilis BJ3-2
Liu, BMC biotechnology 2022 - “...Up BSU02350 68.903 174.218 1.34 9.74E-04 3.42E-02 Up BSU31050 64.173 161.213 1.33 1.13E-03 3.79E-02 Up BSU11220 71.588 176.107 1.3 1.30E-03 4.18E-02 Up BSU15510 1928.76 14.424 7.05 1.22E-13 2.22E-10 Down BSU15520 2240.655 18.756 6.89 1.97E-13 2.40E-10 Down BSU15500 1042.241 8.719 6.88 5.66E-13 4.13E-10 Down BSU15530 2030.044 18.342...”
- A Survey of Pyridoxal 5'-Phosphate-Dependent Proteins in the Gram-Positive Model Bacterium Bacillus subtilis
Richts, Frontiers in molecular biosciences 2019 - “...PDB no. b Function Pathway Regulation Paralogs/Protein familiy c References METABOLISM Amino acid biosynthesis ArgD BSU11220 No 2.6.1.11 2EH6 ( Aquifex aeolicus , 45%) Acetylornithine aminotransferase Arginine biosynthesis SigA, AhrC (), CodY (), YlxR () PLP AAT class III family AAT, ArgD subfamily Czaplewski et al.,...”
- Modular architecture of metabolic pathways revealed by conserved sequences of reactions
Muto, Journal of chemical information and modeling 2013 - “...PF0940 pyruvate 2-oxobutanoate M00535 (bth) BT_1858 BT_1860+BT_1859 BT_1857 RM002 2-aminoadipate lysine M00028 (bsu) BSU11200 BSU11210+BSU11190 BSU11220 glutamate ornithine M00031 (ttr) Tter_0315+Tter_0316 Tter_0320 Tter_0319 Tter_0321 Tter_0317 a KEGG organism codes are shown in parentheses: pfu (T00075), Pyrococcus furiosus DSM 3638; bth (T00122), Bacteroides thetaiotaomicrometer VPI-5482; bsu (T00010),...”
- Methanococci use the diaminopimelate aminotransferase (DapL) pathway for lysine biosynthesis
Liu, Journal of bacteriology 2010 - “...B. subtilis 2, BSU13580; B. subtilis 3, BSU11220; B. subtilis 4, BSU03900; Bacteroides, BF2666; Bordetella 1, BPP2543; Bordetella 2, BPP1996; Synechocystis,...”
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...P77646, P05707, P37769, P0A9P9, P37760, P32055, P09147, P67910, P37759, P0AC88, P27830), Class III Aminotransferase family (P36839, P94427, P53555, P71084, P30949, P33189, O34662, P38021, P22256, P50457, P12995, P23893, P48247, P18335, P77581, O30508, Q9I606, Q9I6 M4, Q9I693, Q9I700, Q9I6J2, Q9I6R7, Q9HV04, Q9HTP1, Q9HWU0, Q9HT50, P48247, Q9I168, P12677, Q82...”
UAI_00297 acetylornithine transaminase from Enterococcus malodoratus ATCC 43197
42% identity, 95% coverage
TTHA1755 acetylornithine/acetyl-lysine aminotransferase from Thermus thermophilus HB8
38% identity, 93% coverage
- Lysine propionylation is a prevalent post-translational modification in Thermus thermophilus
Okanishi, Molecular & cellular proteomics : MCP 2014 - “...TTHA1248 TTHA1262 TTHA0906 TTHA0980 TTHA1524 TTHA1698 TTHA1755 TTHA1781 TTHA1928 Carbohydrate transport and metabolism TTHA0002 TTHA0003 TTHA0106 TTHA0108...”
- Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...TTC0043 TTC1012 TTC1393 TTC1396 TTC1541* TTC1542* TTC1543* TTC1546* TTC1547* TTC1550* Thermus thermophilus HB8 TTHA0411 TTHA1378 TTHA1755 TTHA1757 TTHA1903* TTHA1904* TTHA1907* TTHA1910* TTHA1911* TTHA1914* Thermus scotoductus TSC_c05810 TSC_c20650 TSC_c03550 TSC_c3520 TSC_c01940* TSC_c01930* TSC_c01920* TSC_c01890* TSC_c01880* TSC_c01850* Meiothermus ruber Mrub_0871 Mrub_2738 Mrub_0027 Mrub_2721* Mrub_2723* Mrub_2724* Mrub_2727* Mrub_2728* Meiothermus...”
lysJ / Q93R93 L-2-aminoadipate semialdehyde transaminase monomer (EC 2.6.1.118) from Thermus thermophilus (strain ATCC BAA-163 / DSM 7039 / HB27) (see 2 papers)
LYSJ_THET2 / Q93R93 [LysW]-aminoadipate semialdehyde transaminase; EC 2.6.1.118 from Thermus thermophilus (strain ATCC BAA-163 / DSM 7039 / HB27) (see 2 papers)
Q93R93 [amino group carrier protein]-gamma-(L-lysyl)-L-glutamate aminotransferase (EC 2.6.1.118) from Thermus thermophilus (see 2 papers)
TTC1393 No description from Thermus thermophilus HB27
38% identity, 93% coverage
- function: Catalyzes the transfer of the amino group of L-glutamate to [LysW]-aminoadipate 6-semialdehyde, generating [LysW]-gamma-L-lysine (Probable). In vitro, can use N(2)-acetyl-L-ornithine and N(2)-acetyl- L-lysine (PubMed:11489859).
catalytic activity: [amino-group carrier protein]-C-terminal-gamma-(L-lysyl)-L- glutamate + 2-oxoglutarate = [amino-group carrier protein]-C- terminal-N-(1-carboxy-5-oxopentan-1-yl)-L-glutamine + L-glutamate (RHEA:41952)
cofactor: pyridoxal 5'-phosphate (Binds 1 pyridoxal phosphate per subunit.)
subunit: Homodimer.
disruption phenotype: Auxotroph for lysine. - Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...Enzyme 6 Enzyme 7 Enzyme 8 Enzyme 9 Enzyme 10 Thermus thermophilus HB27 TTC0043 TTC1012 TTC1393 TTC1396 TTC1541* TTC1542* TTC1543* TTC1546* TTC1547* TTC1550* Thermus thermophilus HB8 TTHA0411 TTHA1378 TTHA1755 TTHA1757 TTHA1903* TTHA1904* TTHA1907* TTHA1910* TTHA1911* TTHA1914* Thermus scotoductus TSC_c05810 TSC_c20650 TSC_c03550 TSC_c3520 TSC_c01940* TSC_c01930* TSC_c01920* TSC_c01890*...”
- Open Issues for Protein Function Assignment in Haloferax volcanii and Other Halophilic Archaea
Pfeiffer, Genes 2021 - “...] 27566549 only for Arg, not for Lys biosynthesis 2a HVO_0043 argD no 45% TT_C1393 Q93R93 [ 130 ] 11489859 for Arg, not for Lys biosynthesis 2a HVO_0043 (cont.) yes/no 40% Saci_0755 Q4JAP8 [ 126 ] 23434852 only for Arg, not for Lys biosynthesis 2a HVO_0043...”
- GapMind: Automated Annotation of Amino Acid Biosynthesis
Price, mSystems 2020 - “...that is involved in lysine biosynthesis ([LysW]-aminoadipate semialdehyde transaminase from Thermus thermophilus ; Swiss-Prot entry Q93R93 ), which creates some uncertainty about its role. The final gap was argininosuccinate synthase (ArgH). BT3760 was identified as a moderate-confidence candidate because it is less than 40% identical to...”
1vefA / Q5SHH5 Acetylornithine aminotransferase from thermus thermophilus hb8
38% identity, 95% coverage
- Ligand: pyridoxal-5'-phosphate (1vefA)
ATE50_RS13990 acetylornithine transaminase from Bacillus velezensis
40% identity, 93% coverage
BPP2543 acetylornithine aminotransferase from Bordetella parapertussis 12822
39% identity, 93% coverage
Pchl3084_2275 aspartate aminotransferase family protein from Pseudomonas chlororaphis subsp. aureofaciens 30-84
38% identity, 91% coverage
GL331_10540 acetylornithine transaminase from Bacillus velezensis
40% identity, 93% coverage
TSC_c03550 [LysW]-aminoadipate semialdehyde transaminase LysJ from Thermus scotoductus SA-01
38% identity, 93% coverage
- Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...HB8 TTHA0411 TTHA1378 TTHA1755 TTHA1757 TTHA1903* TTHA1904* TTHA1907* TTHA1910* TTHA1911* TTHA1914* Thermus scotoductus TSC_c05810 TSC_c20650 TSC_c03550 TSC_c3520 TSC_c01940* TSC_c01930* TSC_c01920* TSC_c01890* TSC_c01880* TSC_c01850* Meiothermus ruber Mrub_0871 Mrub_2738 Mrub_0027 Mrub_2721* Mrub_2723* Mrub_2724* Mrub_2727* Mrub_2728* Meiothermus silvanus Mesil_2567 Mesil_1337 Mesil_0348 Mesil_0347 Mesil_0435* Mesil_0436* Mesil_0438* Mesil_0441* Mesil_0442* Oceanithermus profundus...”
STH2881 N-acetylornithine aminotransferase from Symbiobacterium thermophilum IAM 14863
38% identity, 90% coverage
CYA_1537 acetylornithine transaminase from Synechococcus sp. JA-3-3Ab
39% identity, 89% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...Syc1030_d Synechococcus elongatus sp. PCC 7942 n.d. Synpcc7942_0943, Synpcc7942_0031 Synpcc7942_0489 Synechococcus Yellowstone sp. JA-3-3-AB CYA_0859 CYA_1537, CYA_0689 CYA_0364 Synechococcus Yellowstone sp. JA-2-3Ba (2-13) CYB_1744 CYB_1419, CYB_2128 CYB_0516, CYB_0715, CYB_1893 Thermosynechococcus elongatus BP-1 n.d. Tlr1328, Tlr0408, Tll1935 Tlr0416, Tlr0221 Synechocystis sp. PCC 6803 Sll1077, Sll0228 Slr1022 Sll1561,...”
- “...Syc1030_d Synechococcus elongatus sp. PCC 7942 n.d. Synpcc7942_0943, Synpcc7942_0031 Synpcc7942_0489 Synechococcus Yellowstone sp. JA-3-3-AB n.d. CYA_1537, CYA_0689 CYA_0364 Synechococcus Yellowstone sp. JA-2-3Ba (2-13) CYB_0250 CYB_1419, CYB_2128 CYB_0516, CYB_0715, CYB_1893 Thermosynechococcus elongatus BP-1 Tll0507 Tlr1328, Tlr0408, Tll1935 Tlr0416, Tlr0221 Synechocystis sp. PCC 6803 Sll1336 Slr1022 Sll1561, Slr0370,...”
lpg2968 N-acetylornithine aminotransferase ArgD from Legionella pneumophila subsp. pneumophila str. Philadelphia 1
38% identity, 96% coverage
Teth39_0226 acetylornithine and succinylornithine aminotransferase from Thermoanaerobacter ethanolicus ATCC 33223
40% identity, 92% coverage
CYB_1419 acetylornithine transaminase from Synechococcus sp. JA-2-3B'a(2-13)
38% identity, 85% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...Synpcc7942_0489 Synechococcus Yellowstone sp. JA-3-3-AB CYA_0859 CYA_1537, CYA_0689 CYA_0364 Synechococcus Yellowstone sp. JA-2-3Ba (2-13) CYB_1744 CYB_1419, CYB_2128 CYB_0516, CYB_0715, CYB_1893 Thermosynechococcus elongatus BP-1 n.d. Tlr1328, Tlr0408, Tll1935 Tlr0416, Tlr0221 Synechocystis sp. PCC 6803 Sll1077, Sll0228 Slr1022 Sll1561, Slr0370, Slr0091 Gloeobacter violaceus PCC 7421 n.d. Glr0547, Glr3849,...”
- “...Synpcc7942_0489 Synechococcus Yellowstone sp. JA-3-3-AB n.d. CYA_1537, CYA_0689 CYA_0364 Synechococcus Yellowstone sp. JA-2-3Ba (2-13) CYB_0250 CYB_1419, CYB_2128 CYB_0516, CYB_0715, CYB_1893 Thermosynechococcus elongatus BP-1 Tll0507 Tlr1328, Tlr0408, Tll1935 Tlr0416, Tlr0221 Synechocystis sp. PCC 6803 Sll1336 Slr1022 Sll1561, Slr0370, Slr0091 Gloeobacter violaceus PCC 7421 Glr1758 Glr0547, Glr3849, Gll2223...”
DET1258 acetylornithine aminotransferase from Dehalococcoides ethenogenes 195
39% identity, 91% coverage
Dgeo_1416 acetylornithine and succinylornithine aminotransferases from Deinococcus geothermalis DSM 11300
36% identity, 89% coverage
- Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...Deinococcus radiodurans DR_1674 DR_0794 DR_1413 DR_1420 DR_0963 DR_2194 DR_1614 DR_1610 DR_1238 Deinococcus geothermalis Dgeo_2084 Dgeo_1458 Dgeo_1416 Dgeo_1391 Dgeo_0678 Dgeo_0685 Dgeo_1151* Dgeo_1154* Dgeo_1156* Dgeo_1257 Deinococcus deserti Deide_09240 Deide_16910 Deide_17960 Deide_10430 Deide_10350 Deide_13430* Deide_13460* Deide_13470* Deide_13980 Deinococcus maricopensis Deima_0046 Deima_1545 Deima_2454 Deima_2593 Deima_1346* Deima_1349* Deima_1350* Deima_1353* Deima_1355* Deima_1358*...”
DR0794, DR_0794 acetylornithine aminotransferase from Deinococcus radiodurans R1
36% identity, 79% coverage
- Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...Ocepr_1779* Marinithermus hydrothermalis Marky_1533 Marky_0665* Marky_0663* Marky_0666* Marky_0667* Marky_0668* Marky_0671* Marky_0672* Marky_0673* Deinococcus radiodurans DR_1674 DR_0794 DR_1413 DR_1420 DR_0963 DR_2194 DR_1614 DR_1610 DR_1238 Deinococcus geothermalis Dgeo_2084 Dgeo_1458 Dgeo_1416 Dgeo_1391 Dgeo_0678 Dgeo_0685 Dgeo_1151* Dgeo_1154* Dgeo_1156* Dgeo_1257 Deinococcus deserti Deide_09240 Deide_16910 Deide_17960 Deide_10430 Deide_10350 Deide_13430* Deide_13460* Deide_13470* Deide_13980...”
- Functional and evolutionary relationship between arginine biosynthesis and prokaryotic lysine biosynthesis through alpha-aminoadipate
Miyazaki, Journal of bacteriology 2001 - “...LysJ showed considerable identity to that of the DR0794 gene product from Deinococcus radiodurans (61% identity) (36), which is consistent with the...”
- “...analyzed, LysJ was found to be closely related to DR0794 of D. radiodurans (61% identity), which is a bacterium closely related taxonomically to T. thermophilus...”
Deima_2454 aspartate aminotransferase family protein from Deinococcus maricopensis DSM 21211
37% identity, 89% coverage
- Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...Deinococcus deserti Deide_09240 Deide_16910 Deide_17960 Deide_10430 Deide_10350 Deide_13430* Deide_13460* Deide_13470* Deide_13980 Deinococcus maricopensis Deima_0046 Deima_1545 Deima_2454 Deima_2593 Deima_1346* Deima_1349* Deima_1350* Deima_1353* Deima_1355* Deima_1358* Deinococcus proteolyticus Deipr_0213 Truepera radiovictrix Trad_2841 Trad_1401* Trad_1404* Trad_1399* Trad_1395* Trad_1392* Trad_1390* Trad_1389* Trad_1388* Enzyme 1, -aminoadipate aminotransferase. Enzyme 2, Homoisocitrate dehydrogenase. Enzyme...”
ACIAD1231 acetylornithine aminotransferase from Acinetobacter sp. ADP1
38% identity, 91% coverage
Atu0428 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein from Agrobacterium tumefaciens str. C58 (Cereon)
Q8UI71 Acetylornithine aminotransferase from Agrobacterium fabrum (strain C58 / ATCC 33970)
39% identity, 92% coverage
- Coordinated Regulation of Species-Specific Hydroxycinnamic Acid Degradation and Siderophore Biosynthesis Pathways in Agrobacterium fabrum
Baude, Applied and environmental microbiology 2016 - “...of 12 other genes (atu0043, atu0080, atu0413, atu0428, atu1226, atu1250, atu1765, atu1766, atu3140, atu3356, atu3778, and atu3997). These genes encode proteins...”
- Diverse protein regulations on PHA formation in Ralstonia eutropha on short chain organic acids
Lee, International journal of biological sciences 2009 - “...cystathionine gamma-lyase 2 29 (21) Q59829 Streptomyces coelicolor Cysteine biosynthesis Acetylornitine aminotransferase 2 21 (17) Q8UI71 Agrobacterium tumefaciens Arginine biosynthesis Pyrimidine biosynthesis Quinolinate synthetase A 2 24 (17) Q9F364 Streptomyces coelicolor NAD biosynthesis Bifunctional purine biosynthesis protein purH 7 33 (19) Q9JZM7 Neisseria meningitidis Nucleotide biosynthesis...”
KO21_RS08195 acetylornithine transaminase from Listeria monocytogenes
38% identity, 96% coverage
2ordA / Q9X2A5 Crystal structure of acetylornithine aminotransferase (ec 2.6.1.11) (acoat) (tm1785) from thermotoga maritima at 1.40 a resolution
36% identity, 95% coverage
- Ligand: pyridoxal-5'-phosphate (2ordA)
TM1785 acetylornithine aminotransferase from Thermotoga maritima MSB8
36% identity, 97% coverage
- Acetylornithine aminotransferase TM1785 performs multiple functions in the hyperthermophile Thermotoga maritima
Miyamoto, FEBS letters 2021 (PubMed)- “...of d-amino acid metabolism remains limited. Herein, we identified and characterized T. maritima acetylornithine aminotransferase TM1785. The enzyme was most active towards acetyl-l-ornithine, but also utilized l-glutamate, l-ornithine and acetyl-l-lysine as amino donors, and 2-oxoglutarate was the preferred amino acceptor. TM1785 also displayed racemase activity towards...”
- “...Catalytic efficiency (kcat /Km ) was highest for aminotransferase activity and lowest for racemase activity. TM1785 is a novel acetylornithine aminotransferase associated with l-arginine biosynthesis that possesses two additional distinct activities....”
Q71Z79 Acetylornithine aminotransferase from Listeria monocytogenes serotype 4b (strain F2365)
38% identity, 96% coverage
D4I307 Acetylornithine/succinyldiaminopimelate aminotransferase from Erwinia amylovora (strain CFBP1430)
EAMY_3415 bifunctional acetylornithine delta-aminotransferase / N-succinyldiaminopimelate aminotransferase from Erwinia amylovora CFBP1430
36% identity, 91% coverage
- Novel Virulence Factors Deciphering Klebsiella pneumoniae KpC4 Infect Maize as a Crossing-Kingdom Pathogen: An Emerging Environmental Threat
Huang, International journal of molecular sciences 2022 - “...pump E. amylovora Q7WTQ9 Fire blight Apple KpC4_4696 argD 78.71 N-acetylornithine aminotransferase enzyme E. amylovora D4I307 Fire blight Pear/apple KpC4_0520 rsmAXoo 82.14 RNA-binding protein Xanthomonas oryzae pv. Oryzae E2J5T5 Bacterial leaf blight Rice KpC4_2459 iutA 75.93 Siderophore-mediated iron acquisition Pantoea stewartii H3RJF2 Stewart wilt of sweet...”
- Evaluating Eucalyptus leaf colonization by Brasilonema octagenarum (Cyanobacteria, Scytonemataceae) using in planta experiments and genomics
Alvarenga, PeerJ 2020 - “...and starvation response + + D4HXR8 AcrD resistance-nodulation-cell division transport + + + + + D4I307 ArgD N-acetylornithine aminotransferase + + + F5HCK8 IPMDH 3-isopropylmalate dehydrogenase + + + + + G4ML75 MET6 methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase + + + G4MTK2 MoARG1 arginine biosynthesis + + + +...”
- “...translated protein sequences from the Brasilonema genomes and proteins deposited in PHI-base ( C5A9K4 , D4I307 , F5HCK8 , G4ML75 , G4MTK2 , Q4UTV7 , Q4UUL4 , Q8XSV8 , Q8Y0J2 and Q9C1T0 ) are likely to indicate enzymes with roles in primary metabolism ( Cooley et...”
- The stringent response regulator (p) ppGpp mediates virulence gene expression and survival in Erwinia amylovora
Yang, BMC genomics 2020 - “...8.35 EAMY_0146 argH , argininosuccinate lyase 1.88 10.84 EAMY_0145 argG , argininosuccinate synthase 1.83 11.69 EAMY_3415 argD , 4-aminobutyrate aminotransferase 1.83 10.43 EAMY_2082 argS , arginyl-tRNA synthetase 1.37 8.58 EAMY_1631 astB , succinylarginine dihydrolase 3.05 6.66 EAMY_1630 astD , NAD-dependent aldehyde dehydrogenase 1.98 6.45 EAMY_1628 astC...”
B1XNF8 acetylornithine transaminase (EC 2.6.1.11); 4-aminobutyrate-2-oxoglutarate transaminase (EC 2.6.1.19) from Synechococcus sp. PCC 7002 (see paper)
SYNPCC7002_A0326 acetylornithine aminotransferase from Synechococcus sp. PCC 7002
35% identity, 88% coverage
Deide_16910 putative bifunctional protein: acetylornithine transaminase/acetyl-lysine aminotransferase from Deinococcus deserti VCD115
35% identity, 89% coverage
- Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...Deinococcus geothermalis Dgeo_2084 Dgeo_1458 Dgeo_1416 Dgeo_1391 Dgeo_0678 Dgeo_0685 Dgeo_1151* Dgeo_1154* Dgeo_1156* Dgeo_1257 Deinococcus deserti Deide_09240 Deide_16910 Deide_17960 Deide_10430 Deide_10350 Deide_13430* Deide_13460* Deide_13470* Deide_13980 Deinococcus maricopensis Deima_0046 Deima_1545 Deima_2454 Deima_2593 Deima_1346* Deima_1349* Deima_1350* Deima_1353* Deima_1355* Deima_1358* Deinococcus proteolyticus Deipr_0213 Truepera radiovictrix Trad_2841 Trad_1401* Trad_1404* Trad_1399* Trad_1395* Trad_1392*...”
PMI_RS13935 aspartate aminotransferase family protein from Proteus mirabilis HI4320
PMI2821 acetylornithine/succinyldiaminopimelate aminotransferase from Proteus mirabilis HI4320
37% identity, 92% coverage
GSU0151 acetylornithine aminotransferase from Geobacter sulfurreducens PCA
36% identity, 93% coverage
- Silica immobilization of Geobacter sulfurreducens for constructing ready-to-use artificial bioelectrodes
Estevez-Canales, Microbial biotechnology 2018 - “...biosynthetic process 3,92 FabG2 GSU1140 Methylaccepting sensory transducer class 34H. Signal transducer activity 3,83 mcp34H3 GSU0151 Acetylornithine aminotransferase. Arginine biosynthetic process 3,73 argD GSU0841 Sigma54dependenttranscriptional response regulator 3,68 GSU1607 Serine hydroxymethyltransferase. Glycine biosynthetic process 3,63 glyA GSU1602 MalonylCoA carrier protein transacylase. Fatty acid biosynthetic process 3,6...”
- “...include genes involved in the synthesis and metabolism of compatible solutes such as amino acids (GSU0151, GSU1607, GSU2371, GSU0153, GSU2874) and sugar alcohol (GSU3125), which were overexpressed between 4.8 and threefold. Another bacterial common response to environmental changes, including osmotic stress, is the modification of the...”
VC2618 acetylornithine aminotransferase from Vibrio cholerae O1 biovar eltor str. N16961
36% identity, 89% coverage
- cAMP Receptor Protein Controls Vibrio cholerae Gene Expression in Response to Host Colonization
Manneh-Roussel, mBio 2018 - “...1.5E03 GGTGATGGTCGCCACT pyrB No 2743349 2743361.5 8.1E04 ATCGCGTCACATCACA VC2561<> cpdB No 2787939 2787903.5 3.0E04 TGAGATAAACCCCACA VC2618 Yes 2845246 2845280.5 5.7E07 TGTGATTTTCATCACG VC2677 No 2864757 2864763.5 9.2E04 ATAGATAAAACTCTCA VC2698<> aspA Yes 2933468 2933432.5 7.5E04 TTTGATTATCATCAAC 16sg ND 2936869 2936904.5 3.1E04 TTCGATACCAAGCACA 23Sh ND ChromosomeII 12067 12085.5 5.4E08...”
- Conservation of the binding site for the arginine repressor in all bacterial lineages
Makarova, Genome biology 2001 - “...VC2316 -15 3.82 AaaGAATAAAAAgTCATT VC2390-89 -52 3.57 ttTGcAaAAtAATTtATT VC2508 -72 3.72 ttaaAATAtttATTCAcT -51 3.35 AtaGcATtttcATgCtTT VC2618 -120 3.83 AaTaAATgtAAATaCAaT VC2644-42 -76 3.00 AacacATAttAAaTCAcT -55 4.00 AGTGAATAAAAAaaCAaT VC2645 -79 3.50 AtTGttTttttATTCAcT -58 3.27 AGTGAtTtAAtATgtgTT VCA0757-60 -74 3.00 ttTtggTttttATaCATT -53 3.85 AtTGcATAAAAATaCgTT B. subtilis argCJBD -64 5.22 ATtAATTTtTATTCAT...”
SPISAL_06590 acetylornithine transaminase from Spiribacter salinus M19-40
38% identity, 93% coverage
- Compatible Solute Synthesis and Import by the Moderate Halophile Spiribacter salinus: Physiology and Genomics
León, Frontiers in microbiology 2018 - “...of the S. salinus M19-40 genome. In this way, we found three EctB-related proteins: SPISAL_02400, SPISAL_06590, and SPISAL_07805 ( Len et al., 2013 ; Lopez-Perez et al., 2013 ). To distinguish the potential EctB enzyme from the two other transaminases, we used the orthology IDs from...”
- “...SPISAL_07805 protein belongs to the orthology group K01845-hemL that comprises enzymes involved in heme biosynthesis. SPISAL_06590 belongs the orthology group K00821-argD comprises enzymes involved in arginine biosynthesis, and indeed the gene encoding SPISAL_06590 is flanked by a gene that is annotated in the S. salinus M19-40...”
2eh6A / O66442 Crystal structure of acetylornithine aminotransferase from aquifex aeolicus vf5
36% identity, 99% coverage
- Ligand: pyridoxal-5'-phosphate (2eh6A)
Cthe_1866 acetylornithine aminotransferase from Clostridium thermocellum ATCC 27405
38% identity, 89% coverage
- Transcriptomic analysis of Clostridium thermocellum Populus hydrolysate-tolerant mutant strain shows increased cellular efficiency in response to Populus hydrolysate compared to the wild type strain
Linville, BMC microbiology 2014 - “...PM has two mutations involved with glutamate catabolism; a possible gain in function in argD (Cthe_1866, E55G) and a possible loss in function in proB (Cthe_1766, A149T) [ 17 ]. These two mutations seem to be a beneficial shift from proline production to glutamate and arginine...”
- Industrial robustness: understanding the mechanism of tolerance for the Populus hydrolysate-tolerant mutant strain of Clostridium thermocellum
Linville, PloS one 2013 - “...Cthe_0948 (1, CDS ) , Cthe_0949 (1, CDS ) , Cthe_1766 (1, CDS ) , Cthe_1866 (1, CDS ), Cthe_2529 (1, CDS) Production of various amino acids 2 5 Cthe_2602 (2, NC ) * , Cthe_2603 (2, CDS), Cthe_2607 (1, CDS) Single transcription unit Cthe_2602-9: Subunits...”
- “...mutations involved with glutamate catabolism. A mutation to a gene in the arginine pathway, argD (Cthe_1866 E55G) resulted in a pfam score of +1180. This common mutation has been previously observed in the C. thermocellum DSM 1313 strain [ 3 ]. Another mutation to a gene...”
PBPRA0289 putative acetylornithine aminotransferase from Photobacterium profundum SS9
36% identity, 92% coverage
lmo1588 highly similar to N-acetylornithine aminotransferase from Listeria monocytogenes EGD-e
38% identity, 96% coverage
- Integrative genomic analysis identifies isoleucine and CodY as regulators of Listeria monocytogenes virulence
Lobel, PLoS genetics 2012 - “...rhaB 02420.6 (lmo2849) rhamnulokinase L-rhamnose utilization hisC 01072.6 (lmo1925) histidinol-phosphate aminotransferase Histidine biosynthesis argD 01379.6 (lmo1588) acetylornithine aminotransferase Arginine biosynthesis ilvC 01134.6 (lmo1986) ketol-acid reductoisomerase Branched chain amino acids biosynthesis Metabolic requirements influence the expression of major virulence genes Our analyses established that four anabolic pathways...”
8ht4B / Q59282 Crystal structure of acetylornithine aminotransferase complex with plp from corynebacterium glutamicum (see paper)
37% identity, 92% coverage
- Ligand: pyridoxal-5'-phosphate (8ht4B)
cg1583 acetylornithine aminotransferase from Corynebacterium glutamicum ATCC 13032
NCgl1343 acetylornithine transaminase from Corynebacterium glutamicum ATCC 13032
37% identity, 92% coverage
- Acetohydroxyacid synthase, a novel target for improvement of L-lysine production by Corynebacterium glutamicum
Blombach, Applied and environmental microbiology 2009 - “...acid biosynthesis cg1290 cg1436 cg1437 cg1487 cg1580 cg1582 cg1583 cg1584 cg1739 426 BLOMBACH ET AL. ACKNOWLEDGMENTS We thank Lothar Eggeling for providing...”
- Citrate utilization by Corynebacterium glutamicum is controlled by the CitAB two-component system through positive regulation of the citrate transport genes citH and tctCBA
Brocker, Journal of bacteriology 2009 - “...cg1380 cg3226 cg3227 cg3308 cg0810 cg1628 cg1581 cg1582 cg1583 cg3026 cg3027 cg3028 cg3029 cg1156 cg1451 cg0576 cg2894 cg1364 cg2157 cg1151 cg1386 cg0653 cg1147...”
- Functional genomics of pH homeostasis in Corynebacterium glutamicum revealed novel links between pH response, oxidative stress, iron homeostasis and methionine synthesis
Follmann, BMC genomics 2009 - “...kinase 0 1.84 n.d. 1.1 - -0.8 3.1 - 0.0 - - - ArgR 33 cg1583 v argD Acetylornithine aminotransferase 0 1.66 n.d. 1.9 0.9 0.2 - - - - - - ArgR 34 cg1584 v argF Ornithine carbamoyltransferase 0 1.75 -0.12 1.2 0.4 -0.2 -...”
- Adaptation of Corynebacterium glutamicum to ammonium limitation: a global analysis using transcriptome and proteome techniques
Silberbach, Applied and environmental microbiology 2005 - “...cg0303 cg0873 cg1129 cg1333 cg1334 cg1338 cg1580 cg1581 cg1582 cg1583 cg1584 cg1585 cg1586 cg1588 cg1697 cg2391 cg2900 codAb ureA ureB ureC ureE ureF ureG ureD...”
- High-yield production of L-serine through a novel identified exporter combined with synthetic pathway in Corynebacterium glutamicum
Zhang, Microbial cell factories 2020 - “...transporter periplasmic component NCgl1302 10.05 1.96 5.13 Aldo/keto reductase NCgl1344 286.87 55.96 5.12 Ornithine carbamoyltransferase NCgl1343 280.65 57.24 4.9 Acetylornithine aminotransferase NCgl0746 43.30 9.04 4.7 Hypothetical protein NCgl1342 134.70 29.07 4.63 Acetylglutamate kinase NCgl2946 672.93 155.87 4.31 Hypothetical protein NCgl1022 89.53 21.28 4.20 Cysteine sulfinate desulfinase...”
- Recent Advances of L-ornithine Biosynthesis in Metabolically Engineered Corynebacterium glutamicum
Wu, Frontiers in bioengineering and biotechnology 2019 - “...), N-acetyl-gamma-glutamyl-phosphate reductase (encoded by argC / NCgl1340 ), acetylornithine aminotransferase (encoded by argD / NCgl1343 ), and ornithine acetyltransferase (encoded by argJ / NCgl1341 ). Additionally, L-ornithine can be converted to L-citrulline and L-arginine through the enzymatic activities of ornithine carbamoyltransferase (encoded by argF /...”
- Methanococci use the diaminopimelate aminotransferase (DapL) pathway for lysine biosynthesis
Liu, Journal of bacteriology 2010 - “...Methanothermobacter, MTH52; Corynebacterium 1, NCgl1343; Corynebacterium 2, NCgl1058; Desulfitobacterium, Dhaf1761; Arabidopsis, AT4G33680; Syntrophobacter,...”
- Citrate utilization by Corynebacterium glutamicum is controlled by the CitAB two-component system through positive regulation of the citrate transport genes citH and tctCBA
Brocker, Journal of bacteriology 2009 - “...NCgl2817 NCgl2881 NCgl0676 NCgl1383 NCgl1341 NCgl1342 NCgl1343 NCgl2635 NCgl2636 NCgl2637 NCgl2638 NCgl0975 NCgl1235 NCgl0471 NCgl2523 NCgl1161 NCgl1892...”
- Functional analysis of all aminotransferase proteins inferred from the genome sequence of Corynebacterium glutamicum
Marienhagen, Journal of bacteriology 2005 - “...II IV I, II III IV I, II III IV NCgl1343 NCgl1500 NCgl2020 NCgl2123 NCgl2227 NCgl2355 NCgl2491 NCgl2510 NCgl2515 NCgl2747 a b pdxR III III argD sufS hisC ilvE...”
- Adaptation of Corynebacterium glutamicum to ammonium limitation: a global analysis using transcriptome and proteome techniques
Silberbach, Applied and environmental microbiology 2005 - “...NCgl1132 NCgl1133 NCgl1137 NCgl1340 NCgl1341 NCgl1342 NCgl1343 NCgl1344 NCgl1345 NCgl1346 NCgl1347 NCgl1446 NCgl2098 NCgl2528 cg0104 cg0113 cg0114 cg0115...”
- Global expression profiling and physiological characterization of Corynebacterium glutamicum grown in the presence of L-valine
Lange, Applied and environmental microbiology 2003 - “...carbamoyltransferase argF (C. glutamicum) e 2626 NCgl1343 Acelylornithine aminotransferase argD (C. glutamicum) e 2627 NCgl1342 Acetylglutamate kinase argB...”
BL1061 acetylornithine aminotransferase from Bifidobacterium longum NCC2705
36% identity, 83% coverage
UTI89_C3862 acetylornithine aminotransferase from Escherichia coli UTI89
35% identity, 91% coverage
HMPREF0010_00392 aspartate aminotransferase family protein from Acinetobacter baumannii ATCC 19606 = CIP 70.34 = JCM 6841
37% identity, 91% coverage
Sant_0398 aspartate aminotransferase family protein from Sodalis praecaptivus
36% identity, 91% coverage
tlr1328 N-acetylornithine aminotransferase from Thermosynechococcus elongatus BP-1
37% identity, 90% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...Synechococcus Yellowstone sp. JA-2-3Ba (2-13) CYB_1744 CYB_1419, CYB_2128 CYB_0516, CYB_0715, CYB_1893 Thermosynechococcus elongatus BP-1 n.d. Tlr1328, Tlr0408, Tll1935 Tlr0416, Tlr0221 Synechocystis sp. PCC 6803 Sll1077, Sll0228 Slr1022 Sll1561, Slr0370, Slr0091 Gloeobacter violaceus PCC 7421 n.d. Glr0547, Glr3849, Gll2223 Glr2755, Glr3848, Gll1504, Gll2805 Nostoc sp. PCC 7120...”
- “...Synechococcus Yellowstone sp. JA-2-3Ba (2-13) CYB_0250 CYB_1419, CYB_2128 CYB_0516, CYB_0715, CYB_1893 Thermosynechococcus elongatus BP-1 Tll0507 Tlr1328, Tlr0408, Tll1935 Tlr0416, Tlr0221 Synechocystis sp. PCC 6803 Sll1336 Slr1022 Sll1561, Slr0370, Slr0091 Gloeobacter violaceus PCC 7421 Glr1758 Glr0547, Glr3849, Gll2223 Glr2755, Glr3848, Gll1504, Gll2805 Nostoc sp. PCC 7120 Alr4495...”
ECs4210 acetylornithine delta-aminotransferase from Escherichia coli O157:H7 str. Sakai
Z4720 acetylornithine delta-aminotransferase from Escherichia coli O157:H7 EDL933
35% identity, 91% coverage
- Global transcriptional response of Escherichia coli O157:H7 to growth transitions in glucose minimal medium
Bergholz, BMC microbiology 2007 - “...- 3.24 2 ECs4758 metR -3.26 1 ECs4191 fusA -3.27 1 ECs4760 - 3.29 3 ECs4210 argD -2.36 1 ECs4774 fadB 6.58 2 ECs4212 fic 4.44 2 ECs4783 dsbA -2.15 1 ECs4213 yhfG 4.13 2 ECs4785 yihG 2.17 2 ECs4232 aroK -3.21 1 ECs4792 glnA -5.34...”
- Clonal and antigenic analysis of serogroup A Neisseria meningitidis with particular reference to epidemiological features of epidemic meningitis in the People's Republic of China
Wang, Infection and immunity 1992 - “...Z4313, Z4314, Z4315, Z4316, Z4317 I, IIa Z4713, Z4715, Z4716, Z4717, Z4718, Z4719, Z4720, Z4721, Z4722 I, IIa B375 29 30 31 32 33 34 35 J III 46 47 48 D D D D C...”
HP15_3042 acetylornithine aminotransferase (EC 2.6.1.11); succinylornithine aminotransferase (EC 2.6.1.81) from Marinobacter adhaerens HP15
36% identity, 91% coverage
- mutant phenotype: Important for fitness in many minimal media experiments, and mostly rescued by addition of arginine, which suggests a role as acetylornithine aminotransferase. Important for utilization of arginine as a nitrogen source, which suggests a role as succinylornithine aminotransferase in the AST pathway. 65% identical to O30508 (AruC) from P. aeruginosa, which is reported to have these two activities.
Tter_0321 acetylornithine and succinylornithine aminotransferase from Thermobaculum terrenum ATCC BAA-798
36% identity, 95% coverage
- Modular architecture of metabolic pathways revealed by conserved sequences of reactions
Muto, Journal of chemical information and modeling 2013 - “...RM002 2-aminoadipate lysine M00028 (bsu) BSU11200 BSU11210+BSU11190 BSU11220 glutamate ornithine M00031 (ttr) Tter_0315+Tter_0316 Tter_0320 Tter_0319 Tter_0321 Tter_0317 a KEGG organism codes are shown in parentheses: pfu (T00075), Pyrococcus furiosus DSM 3638; bth (T00122), Bacteroides thetaiotaomicrometer VPI-5482; bsu (T00010), Bacillus subtilis 168; ttr (T01134), Thermobaculum terrenum ATCC...”
Dtu / b3359 N-acetylornithine aminotransferase / N-succinyldiaminopimelate aminotransferase (EC 2.6.1.11; EC 2.6.1.17) from Escherichia coli K-12 substr. MG1655 (see 3 papers)
argD / P18335 N-acetylornithine aminotransferase / N-succinyldiaminopimelate aminotransferase (EC 2.6.1.11; EC 2.6.1.17) from Escherichia coli (strain K12) (see 12 papers)
ARGD_ECOLI / P18335 Acetylornithine/succinyldiaminopimelate aminotransferase; ACOAT; DapATase; Succinyldiaminopimelate transferase; EC 2.6.1.11; EC 2.6.1.17 from Escherichia coli (strain K12) (see paper)
b3359 bifunctional acetylornithine aminotransferase/ succinyldiaminopimelate aminotransferase from Escherichia coli str. K-12 substr. MG1655
NP_417818 N-acetylornithine aminotransferase/N-succinyldiaminopimelate aminotransferase from Escherichia coli str. K-12 substr. MG1655
34% identity, 91% coverage
- function: Involved in both the arginine and lysine biosynthetic pathways.
catalytic activity: N(2)-acetyl-L-ornithine + 2-oxoglutarate = N-acetyl-L- glutamate 5-semialdehyde + L-glutamate (RHEA:18049)
catalytic activity: N-succinyl-(2S,6S)-2,6-diaminoheptanedioate + 2-oxoglutarate = (S)-2-succinylamino-6-oxoheptanedioate + L-glutamate (RHEA:11960)
cofactor: pyridoxal 5'-phosphate (Binds 1 pyridoxal phosphate per subunit.)
subunit: Homodimer. - Improved Metabolic Models for E. coli and Mycoplasma genitalium from GlobalFit, an Algorithm That Simultaneously Matches Growth and Non-Growth Data Sets
Hartleb, PLoS computational biology 2016 - “...-77 b1702 PPS b2383 2x10 -22 2x10 -22 b3176 PGAMT b2048 3x10 -16 1x10 -18 b3359 SDPTA b1748 1x10 -180 1x10 -180 Solving FNp: Removing biomass components Removing metabolites from the biomass reaction can convert FNp to TPp, as all genes involved in the production (or,...”
- Global transcriptomic analysis of an engineered Escherichia coli strain lacking the phosphoenolpyruvate: carbohydrate phosphotransferase system during shikimic acid production in rich culture medium
Cortés-Tolalpa, Microbial cell factories 2014 - “...N-acetylglutamate kinase Amino acid metabolism 45.8143 argC b3958 N-acetylglutamylphosphate reductase Amino acid metabolism 53.4932 argD b3359 N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase Amino acid metabolism 21.9053 argE b3957 Acetylornithine deacetylase Amino acid metabolism 18.7485 argG b3172 Argininosuccinate synthase Amino acid metabolism 65.2192 argH b3960 Argininosuccinate lyase Amino acid metabolism 23.7859...”
- Quantitative assessment of thermodynamic constraints on the solution space of genome-scale metabolic models
Hamilton, Biophysical journal 2013 - “...serA Nonlethal Lethal Nonlethal Nonlethal Nonlethal Nonlethal b3359 argD Nonlethal Lethal Nonlethal Lethal Nonlethal Lethal b3429 glgA Nonlethal Lethal...”
- Gap-filling analysis of the iJO1366 Escherichia coli metabolic network reconstruction for discovery of metabolic functions
Orth, BMC systems biology 2012 - “...none identified folP (b3177) none identified yrbG (b3196) none identified kdsC (b3198) none identified argD (b3359) astC (b1748) 1.00E-146 gabT (b2662) 3.00E-64 puuE (b1302) 3.00E-54 patA (b3073) 4.00E-52 hemL (b0154) 3.00E-32 cysG (b3368) none identified ilvE (b3770) pabC (b1096) 8.00E-8 dapF (b3809) none identified argC (b3958)...”
- “...This indicates that uncharacterized isozymes are possible for aspC (b0928), pabC (b1096), aldA (b1415), argD (b3359), and hemE (b3397). Another solution suggested that false negatives for aspC strains could be corrected by adding the existing model reaction ASP1DC (aspartate 1-decarboxylase) in reverse. No literature evidence was...”
- Methanococci use the diaminopimelate aminotransferase (DapL) pathway for lysine biosynthesis
Liu, Journal of bacteriology 2010 - “...Chlamydia, CT390; E. coli 1, b2379; E. coli 2, b3359; Gloeobacter, glr4108; B. subtilis 1, BSU37690; B. subtilis 2, BSU13580; B. subtilis 3, BSU11220; B....”
- Genome-scale analysis to the impact of gene deletion on the metabolism of E. coli: constraint-based simulation approach
Xu, BMC bioinformatics 2009 - “...b0524 b2478 b0414, b0415, b0417 b3771 b0091 b0914 b2838 b0420, b0421, b0423 b3774 b0954 b0915 b3359 b0475, b0750, b0907 b1093 b0918 b3433 b1096, b1208, b1210 b1094 b1094 b3809 b1277, b1662, b1740 b1288 b1215 s0001 b1812, b2103, b2153 b2323 b3198 b2315, b2320, b2400 b3176 b3633 b2515, b2530,...”
- Human body temperature (37degrees C) increases the expression of iron, carbohydrate, and amino acid utilization genes in Escherichia coli K-12
White-Ziegler, Journal of bacteriology 2007 - “...transport and metabolism argD b3359 Acetylornithine delta-aminotransferase aroF b2601 3-deoxy-D-arabinoheptulosonate-7-phosphate synthase (DAHP synthetase),...”
- Experimental and computational assessment of conditionally essential genes in Escherichia coli
Joyce, Journal of bacteriology 2006 - “...(b3927) cysW (b2423) argB (b3959); argC (b3958); argD (b3359); argG (b3172) aspC (b0928) ilvY (b3773); ilvE (b3770); lrp (b0889) aldA (b1415) coaA (b3974); coaE...”
- More
- Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12.
Link, Electrophoresis 1997 (PubMed)- GeneRIF: N-terminus verified by Edman degradation on mature peptide
- Knowns and Unknowns of Vitamin B6 Metabolism in Escherichia coli
Tramonti, EcoSal Plus 2021 (secret) - Prediction of Metabolic Pathway Involvement in Prokaryotic UniProtKB Data by Association Rule Mining
Boudellioua, PloS one 2016 - “...Methanosarcinaceae, TAXON: Methanosarcina, IPR: IPR017896, IPR:IPR017900, IPR: IPR004460, IPR:IPR004137, IPR: IPR009051, IPR: IPR011254, IPR: IPR016099 P18335 PATHWAY: Amino-acid biosynthesis; L-arginine biosynthesis; N(2)-acetyl-L-ornithine from L-glutamate: step 4/4, PATHWAY: Amino-acid biosynthesis; L-lysine biosynthesis via DAP pathway; LL-2, 6-diaminopimelate from (S)-tetrahydrodipicolinate (succinylase route): step 2/3, TAXON: Bacteria, TAXON: Proteobacteria,...”
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...Aminotransferase family (P36839, P94427, P53555, P71084, P30949, P33189, O34662, P38021, P22256, P50457, P12995, P23893, P48247, P18335, P77581, O30508, Q9I606, Q9I6 M4, Q9I693, Q9I700, Q9I6J2, Q9I6R7, Q9HV04, Q9HTP1, Q9HWU0, Q9HT50, P48247, Q9I168, P12677, Q82 MM1, P21267, P40732, Q8ZPV2, Q8ZLX7), Thiamine Diphosphate Decarboxylase family (P96591, P37251, P23970, Q04789,...”
- The Escherichia coli proteome: past, present, and future prospects
Han, Microbiology and molecular biology reviews : MMBR 2006 - “...5.21/27,292.02 4.52/30,891 (DIGE 4.5-6.5) ArgD P18335 5.80/43,635.78 5.75/41,241 (DIGE 4.5-6.5) 5.19/33,559 (5-6) ArgF P06960 Acetylornithine/...”
- Novel archaeal alanine:glyoxylate aminotransferase from Thermococcus litoralis
Sakuraba, Journal of bacteriology 2004 - “...P25409 NP_418478a P04694 P06986 P07172 P16246 P17736 P17731 P18335 P18544 P04181 P07991 P28269 P22256 P17649 P14010 P19938 P00510 P21549 P23721 P19689 P10658...”
ACICU_01135 ornithine/acetylornithine aminotransferase from Acinetobacter baumannii ACICU
37% identity, 87% coverage
Ava_3730 Acetylornithine and succinylornithine aminotransferase from Anabaena variabilis ATCC 29413
35% identity, 87% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...73102 Npun02002114 Npun02005728, Npun02001164, Npun02001509 Npun02003702, Npun02006572, Npun02002895, Npun02002692 Anabaena variabilis ATCC 29413 Ava_0127 Ava_0214, Ava_3730, Ava_2839 Ava_2942, Ava_1554, Ava_3534, Ava_2258 N.d. = not detected. Table 7 Database entries of genes from 24 cyanobacterial genomes encoding putative L-arginine amidinotransferases (C1), L-ornithine transaminases (C2), and 1 pyrroline-5-carboxylate...”
- “...73102 Npun02001803 Npun02005728, Npun02001164, Npun02001509 Npun02003702, Npun02006572, Npun02002895, Npun02002692 Anabaena variabilis ATCC 29413 Ava_2273 Ava_0214, Ava_3730, Ava_2839 Ava_2942, Ava_1554, Ava_3534, Ava_2258 N.d. = not detected. Table 8 Database entries of genes from 24 cyanobacterial genomes encoding putative L-arginine deiminases (D1), L-ornithine transcarbamoylases (D2), carbamate kinases (D3),...”
BAU10_13850 aspartate aminotransferase family protein from Vibrio alginolyticus
36% identity, 92% coverage
alr1080 N-acetylornithine aminotransferase from Nostoc sp. PCC 7120
35% identity, 87% coverage
- The Anabaena sp. PCC 7120 Exoproteome: Taking a Peek outside the Box
Oliveira, Life (Basel, Switzerland) 2015 - “...Alr1050 Glucose-6-phosphate isomerase N 2 , NO 3 , NH 4 + Energy metabolism Anabaena Alr1080 Acetylornithine aminotransferase N 2 Amino acid biosynthesis - Alr1299 Phosphoribosylglycinamide formyltransferase 2 N 2 Purines, pyrimidines, nucleosides, and nucleotides - Alr1310 Alr1310 protein NH 4 + Conserved hypothetical protein -...”
- “...and processing (All2533, Alr0237, Alr0880, Alr0996, Alr1381, All4287, Alr1742, Alr4853, All2315, Alr1004, Alr1313, Alr2771, Alr0608, Alr1080, Alr2328 Alr4907, All1683, All4464), sugar breakdown and processing (Alr3608, Alr4448, All3964, All0167, All0168, All0875, Alr0169, Alr2190, All4539) and phosphor scavenge and transport (All0207, All2843, All4575, Alr4238, Alr4976). Detection of these...”
- Inactivation of agmatinase expressed in vegetative cells alters arginine catabolism and prevents diazotrophic growth in the heterocyst-forming cyanobacterium Anabaena
Burnat, MicrobiologyOpen 2014 - “...decarboxylase ( all3401 ); 2, agmatinase ( alr2310 ); 3, arginase; 4, ornithine transaminase ( alr1080 ); 5, 1 pyrroline-5-carboxylate reductase ( alr0488 ); 6, proline oxidase ( alr0540 ); 7, ornithine carbamoyltransferase ( alr4907 ); 8, arginine deiminase; 9, argininosuccinate synthetase ( alr4798 ); 10,...”
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...7421 n.d. Glr0547, Glr3849, Gll2223 Glr2755, Glr3848, Gll1504, Gll2805 Nostoc sp. PCC 7120 Alr2310 Alr2398, Alr1080, All0396 Alr0540, Alr3771, All3556, All5022 Nostoc punctiforme PCC 73102 Npun02002114 Npun02005728, Npun02001164, Npun02001509 Npun02003702, Npun02006572, Npun02002895, Npun02002692 Anabaena variabilis ATCC 29413 Ava_0127 Ava_0214, Ava_3730, Ava_2839 Ava_2942, Ava_1554, Ava_3534, Ava_2258 N.d....”
- “...7421 Glr1758 Glr0547, Glr3849, Gll2223 Glr2755, Glr3848, Gll1504, Gll2805 Nostoc sp. PCC 7120 Alr4495 Alr2398, Alr1080, All0396 Alr0540, Alr3771, All3556, All5022 Nostoc punctiforme PCC 73102 Npun02001803 Npun02005728, Npun02001164, Npun02001509 Npun02003702, Npun02006572, Npun02002895, Npun02002692 Anabaena variabilis ATCC 29413 Ava_2273 Ava_0214, Ava_3730, Ava_2839 Ava_2942, Ava_1554, Ava_3534, Ava_2258 N.d....”
BAB1_0331 Acetylornithine and succinylornithine aminotransferase:Aminotransferase class-III from Brucella melitensis biovar Abortus 2308
BMEI1621 aspartate aminotransferase family protein from Brucella melitensis bv. 1 str. 16M
37% identity, 90% coverage
ECA4065 aspartate aminotransferase family protein from Pectobacterium atrosepticum SCRI1043
36% identity, 91% coverage
- Global Gene Expression Analysis of Cross-Protected Phenotype of Pectobacterium atrosepticum
Gorshkov, PloS one 2017 - “...under starvation genes belonging to different pathways were chosen for the verification: up-regulatedECA0999, ECA3238, ECA4082, ECA4065, ECA0049, ECA1065, ECA1216, ECA3920, ECA4477, ECA1059, ECA1166, ECA1540, ECA2013, ECA2873, ECA2226; down-regulatedECA3054, ECA3682, ECA4006, ECA4513, ECA1141, ECA1232, ECA4461, ECA1407, ECA2651, ECA4079, ECA0260, ECA0255, ECA0238, ECA3343, ECA3814. Total RNA was extracted...”
C6AZH0 Acetylornithine aminotransferase from Rhizobium leguminosarum bv. trifolii (strain WSM1325)
36% identity, 93% coverage
CC0584 succinylornithine transaminase, putative from Caulobacter crescentus CB15
37% identity, 94% coverage
STM14_4175 aspartate aminotransferase family protein from Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
34% identity, 92% coverage
SGO_1566 Acetylornithine aminotransferase (ACOAT) from Streptococcus gordonii str. Challis substr. CH1
36% identity, 98% coverage
SEN3295 acetylornithine aminotransferase from Salmonella enterica subsp. enterica serovar Enteritidis str. P125109
34% identity, 92% coverage
SLUN_RS38465 acetylornithine transaminase from Streptomyces lunaelactis
37% identity, 89% coverage
- Lunaemycins, New Cyclic Hexapeptide Antibiotics from the Cave Moonmilk-Dweller Streptomyces lunaelactis MM109T
Martinet, International journal of molecular sciences 2023 - “...StenM, Figure 1 , Table 1 ), and lun12 for the N 2 -acetyl-L-ornithine:2-oxoglutarate aminotransferase (SLUN_RS38465 homologous to StenJ, Figure 1 , Table 1 ). BGC 28a thus contains all genes required for the enzymatic conversion of glutamic acid and glutamine to L-Piz, further supporting the...”
- “...Lun11 342 StenM, N-acetyl-gamma-glutamyl-phosphate reductase (ArgC), stenothricin BGC from Streptomyces roseosporus (EFE73305.1) 81/100 L-ornithine synthesis SLUN_RS38465 WP_108155197.1 Lun12 417 StenJ, N(2)-acetyl-L-ornithine:2-oxoglutarate aminotransferase (ArgD), stenothricin BGC from Streptomyces roseosporus NRRL 15998 (EFE73302.1) 72/94 L-ornithine synthesis SLUN_RS38470 WP_108155198.1 Lun13 300 StenK, N-acetylglutamate kinase (ArgB), stenothricin BGC from Streptomyces...”
ACIAD1284 succinylornithine transaminase (also has acetylornitine transaminase activity, PLP-dependent) (carbon starvation protein C) from Acinetobacter sp. ADP1
36% identity, 89% coverage
- Characterization of a novel β-alanine biosynthetic pathway consisting of promiscuous metabolic enzymes
Perchat, The Journal of biological chemistry 2022 - “...l -glutamate formation with l -glutamate dehydrogenase. We detected activity for three -transaminases: ACIAD3446 (GabT), ACIAD1284 (AstC), and ACIAD1210 (Dat). Specific activities were 94, 3.4, and 5.9nmolmin 1 mg 1 , respectively (see the Experimental procedures section). GabT, AstC, and Dat were purified for further characterization,...”
- iTRAQ-Based Comparative Proteomic Analysis of Acinetobacter baylyi ADP1 Under DNA Damage in Relation to Different Carbon Sources
Jiang, Frontiers in microbiology 2019 - “...0.8 0.74 Gamma-glutamyltranspeptidase precursor ggt ACIAD0929 0.34 0.77 0.5 0.41 Bifunctional succinylornithine transaminase/acetylornithine transaminase argD ACIAD1284 0.4 0.32 0.15 0.26 Arginine N -succinyltransferase astA ACIAD1286 0.48 0.63 0.76 0.63 Succinylglutamate desuccinylase astE ACIAD1289 0.17 0.82 0.69 0.66 Amidase amdA ACIAD1618 0.68 0.06 0.58 0.27 Acetyl-CoA acetyltransferase...”
VpaChn25_2721 aspartate aminotransferase family protein from Vibrio parahaemolyticus
36% identity, 92% coverage
- Genomic and transcriptomic analyses reveal distinct biological functions for cold shock proteins (VpaCspA and VpaCspD) in Vibrio parahaemolyticus CHN25 during low-temperature survival
Zhu, BMC genomics 2017 - “...Hypothetical protein VpaChn25_2581 3.3917 Arginine deiminase VpaChn25_2719 2.8035 Succinylglutamic semialdehyde dehydrogenase VpaChn25_2720 3.9099 Arginine/ornithine succinyltransferase VpaChn25_2721 2.1486 Bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein Valine, leucine and isoleucine degradation VpaChn25A_0480 3.4643 Acetyl-CoA acetyltransferase VpaChn25A_0555 2.023 Acyl-CoA carboxylase alpha chain VpaChn25A_0557 2.0591 Acyl-CoA carboxyltransferase beta chain VpaChn25A_0561 4.081 Aldehyde dehydrogenase...”
- “...cyclodeaminase VpaChn25_1544 0.3291 NAD-glutamate dehydrogenase VpaChn25_2719 0.3969 Succinylglutamic semialdehyde dehydrogenase VpaChn25_2720 0.482 Arginine /ornithine succinyltransferase VpaChn25_2721 0.2687 Bifunctional N-succinyldiaminopimelate-aminotransferase / acetylornithine transaminase protein Alanine, aspartate and glutamate metabolism VpaChn25_0345 0.2743 Glucosamine-fructose-6-phosphate aminotransferase VpaChn25_0438 2.461 Glutamate synthase subunit beta VpaChn25_0439 2.6963 Glutamate synthase, large subunit VpaChn25_1114 0.407...”
HVO_0043 acetylornithine aminotransferase from Haloferax volcanii DS2
35% identity, 96% coverage
- Open Issues for Protein Function Assignment in Haloferax volcanii and Other Halophilic Archaea
Pfeiffer, Genes 2021 - “...46% TK0277 Q5JFW1 [ 125 ] 27566549 only for Arg, not for Lys biosynthesis 2a HVO_0043 argD no 45% TT_C1393 Q93R93 [ 130 ] 11489859 for Arg, not for Lys biosynthesis 2a HVO_0043 (cont.) yes/no 40% Saci_0755 Q4JAP8 [ 126 ] 23434852 only for Arg, not...”
- Generation of comprehensive transposon insertion mutant library for the model archaeon, Haloferax volcanii, and its use for gene discovery
Kiljunen, BMC biology 2014 - “...argC N-acetyl-gamma-glutamyl-phosphate reductase H295/12-27 Arginine 44,905; - HVO_0045, argC N-acetyl-gamma-glutamyl-phosphate reductase H295/10-36 Arginine 43,144; + HVO_0043, argD Acetylornithine aminotransferase H295/17-48 Arginine 2,374,426; - HVO_2508, carA Carbamoyl-phosphate synthase small subunit H295/13-54 Histidine 1,198,248; + HVO_0431 HAD-superfamily hydrolase H295/12-18 Histidine 1,198,248; + HVO_0431 HAD-superfamily hydrolase H295/21-77 Proline 786,914;...”
- Genetic and proteomic analyses of a proteasome-activating nucleotidase A mutant of the haloarchaeon Haloferax volcanii
Kirkland, Journal of bacteriology 2008 - “...protein HVO_0043 .........................................................Aminotransferase (gabT, argD)...”
ARGD_SALTY / P40732 Acetylornithine/succinyldiaminopimelate aminotransferase; ACOAT; DapATase; Succinyldiaminopimelate transferase; EC 2.6.1.11; EC 2.6.1.17 from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see paper)
STM3468 acetylornithine transaminase (NAcOATase and DapATase) from Salmonella typhimurium LT2
34% identity, 92% coverage
- function: Involved in both the arginine and lysine biosynthetic pathways.
catalytic activity: N(2)-acetyl-L-ornithine + 2-oxoglutarate = N-acetyl-L- glutamate 5-semialdehyde + L-glutamate (RHEA:18049)
catalytic activity: N-succinyl-(2S,6S)-2,6-diaminoheptanedioate + 2-oxoglutarate = (S)-2-succinylamino-6-oxoheptanedioate + L-glutamate (RHEA:11960)
cofactor: pyridoxal 5'-phosphate (Binds 1 pyridoxal phosphate per subunit.)
subunit: Homodimer. - Intraspecies variation in the emergence of hyperinfectious bacterial strains in nature
Heithoff, PLoS pathogens 2012 - “...2.71 3.50 N-acetylglutamate synthase [91] . STM4122 argB 0.56 1.64 2.74 Acetylglutamate kinase [91] . STM3468 argD 1.26 2.84 4.31 Bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein [91] . STM3290 argG 0.17 1.54 1.24 Arginosuccinate synthase [91] . STM4123 argH 0.20 1.53 2.10 Arginosuccinate lyase [91] . STM4469 argI...”
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...M4, Q9I693, Q9I700, Q9I6J2, Q9I6R7, Q9HV04, Q9HTP1, Q9HWU0, Q9HT50, P48247, Q9I168, P12677, Q82 MM1, P21267, P40732, Q8ZPV2, Q8ZLX7), Thiamine Diphosphate Decarboxylase family (P96591, P37251, P23970, Q04789, P42415, P07003, P0AEP7, P08142, P00892, P00893, P17109, P0AFI0, Q9HTQ7, Q9I3L0, Q9HVA0, Q9I3S7, Q9HUI8, Q9HUR2, Q9I280, Q9I207, Q9HYA3, Q9HWK1, Q8ZQF0, Q8ZNE8,...”
lysJ / Q4JAP8 [amino group carrier protein]-C-terminal-L-glutamyl-γ-L-lysine aminotransferase (EC 2.6.1.118; EC 2.6.1.124) from Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770) (see 2 papers)
Saci_0755 acetylornithine aminotransferase from Sulfolobus acidocaldarius DSM 639
Q4JAP8 [LysW]-aminoadipate semialdehyde/glutamate semialdehyde transaminase from Sulfolobus acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 / NBRC 15157 / NCIMB 11770)
36% identity, 95% coverage
- Open Issues for Protein Function Assignment in Haloferax volcanii and Other Halophilic Archaea
Pfeiffer, Genes 2021 - “...[ 130 ] 11489859 for Arg, not for Lys biosynthesis 2a HVO_0043 (cont.) yes/no 40% Saci_0755 Q4JAP8 [ 126 ] 23434852 only for Arg, not for Lys biosynthesis 2a HVO_0043 (cont.) yes/no 42% TK0275 Q5JFW3 [ 125 ] 27566549 only for Arg, not for Lys biosynthesis...”
- Early Response of Sulfolobus acidocaldarius to Nutrient Limitation
Bischof, Frontiers in microbiology 2018 - “...genes of the arginine biosynthesis pathway were decreased with the only exception of lysJ ( saci_0755 ) (Figure 6 and Supplementary Table S2 ). Further, transcript levels of argG ( saci_1617 , argininosuccinate synthase), argH (argininosuccinate lyase), speA ( saci_1363 , arginine decarboxylase), speB [ saci_0863...”
- Open Issues for Protein Function Assignment in Haloferax volcanii and Other Halophilic Archaea
Pfeiffer, Genes 2021 - “...130 ] 11489859 for Arg, not for Lys biosynthesis 2a HVO_0043 (cont.) yes/no 40% Saci_0755 Q4JAP8 [ 126 ] 23434852 only for Arg, not for Lys biosynthesis 2a HVO_0043 (cont.) yes/no 42% TK0275 Q5JFW3 [ 125 ] 27566549 only for Arg, not for Lys biosynthesis 2a...”
DDA3937_RS19450 aspartate aminotransferase family protein from Dickeya dadantii 3937
35% identity, 91% coverage
BB341_RS23960, SCLAV_0798 acetylornithine transaminase from Streptomyces clavuligerus
35% identity, 92% coverage
4jevB / P40732 N-acetylornithine aminotransferase from s. Typhimurium complexed with gabaculine
34% identity, 92% coverage
- Ligand: 3-[o-phosphonopyridoxyl]--amino-benzoic acid (4jevB)
KP1_2498 putative succinylornithine transaminase from Klebsiella pneumoniae NTUH-K2044
37% identity, 90% coverage
CA_C2388, CEA_G2403 aspartate aminotransferase family protein from Clostridium acetobutylicum ATCC 824
CAC2388 N-acetylornithine aminotransferase from Clostridium acetobutylicum ATCC 824
36% identity, 95% coverage
- Elucidation of the roles of adhE1 and adhE2 in the primary metabolism of Clostridium acetobutylicum by combining in-frame gene deletion and a quantitative system-scale approach
Yoo, Biotechnology for biofuels 2016 (no snippet) - A Quantitative System-Scale Characterization of the Metabolism of Clostridium acetobutylicum
Yoo, mBio 2015 - “...to 40-fold) of genes involved in serine biosynthesis (CA_C0014-CA_C0015), seryl-tRNA synthesis (CA_C0017), and arginine biosynthesis (CA_C2388) was detected at the mRNA level and confirmed by the proteomic analysis, in agreement with a previous metabolomic study in batch culture ( 67 ), which reported higher intracellular concentrations...”
- “...synthesis and histidyl-tRNA synthesis (CA_C0935-CA_C0943) and 5-fold upregulation of a gene involved in arginine biosynthesis (CA_C2388) were also detected at the mRNA level and confirmed by the proteomic analysis. These genes were also shown to be upregulated under solventogenic conditions (this study) and in response to...”
- Comparative genomic and transcriptomic analysis revealed genetic characteristics related to solvent formation and xylose utilization in Clostridium acetobutylicum EA 2018
Hu, BMC genomics 2011 - “...CA_C2377 -4.81354 -4.50847 -4.89131 -5.25303 -5.6598 -6.94396 oligopeptide ABC-type transporter, periplasmic binding component (frameshift) CEA_G2403 CA_C2388 -3.653 6.58659 9.490741 7.214547 3.839977 1.277684 acetylornithine aminotransferase CEA_G2405 CA_C2390 -4.029 7.044851 9.332151 8.593887 5.225523 1.729156 N-acetyl-gamma-glutamyl-phosphate reductase CEA_G2406 CA_C2391 -3.63924 6.659273 9.430206 8.041522 4.889782 1.658329 bifunctional ornithine acetyltransferase/N-acetylglutamate synthase...”
- “...CEA_G2392 CA_C2377 -4.81354 -4.50847 -4.89131 -5.25303 -5.6598 -6.94396 oligopeptide ABC-type transporter, periplasmic binding component (frameshift) CEA_G2403 CA_C2388 -3.653 6.58659 9.490741 7.214547 3.839977 1.277684 acetylornithine aminotransferase CEA_G2405 CA_C2390 -4.029 7.044851 9.332151 8.593887 5.225523 1.729156 N-acetyl-gamma-glutamyl-phosphate reductase CEA_G2406 CA_C2391 -3.63924 6.659273 9.430206 8.041522 4.889782 1.658329 bifunctional ornithine acetyltransferase/N-acetylglutamate...”
- Capturing the response of Clostridium acetobutylicum to chemical stressors using a regulated genome-scale metabolic model
Dash, Biotechnology for biofuels 2014 - “...CAC3020 Bifunctional ornithine acetyltransferase/N-acetylglutamate synthase (OACT/AGS) Med CAC2391 or CAC3020 Bifunctional ornithine acetyltransferase/N-acetylglutamate synthase High CAC2388 or CAC0368 4-aminobutyrate aminotransferase acetylornithine/N-succinyldiaminopimelate aminotransferase (GABAT/ARGD) If regulatory bounds were imposed exclusively on the reactions in the core set, the flux ranges would match those of the model with...”
- Meta-analysis and functional validation of nutritional requirements of solventogenic Clostridia growing under butanol stress conditions and coutilization of D-glucose and D-xylose
Heluane, Applied and environmental microbiology 2011 - “...I CAC2024 0.009199846 E E E E E CAC2388 CAC2389 CAC2390 CAC2723 CAC2805 2.72258E05 0.000250975 0.003281643 0.002038606 0.000640894 E E E CAC3164 CAC3348 CAC3618...”
- “...I E E E I I P P CAC2235 CAC2388 CAC2389 CAC2390 CAC2634 CAC2708 CAC2711 CAC2712 CAC3164 CAC3170 CAC3348 CAC3462 CAC3596 CAC3680 CAC3681 0.40506 1.51803 1.07553...”
- The role of PerR in O2-affected gene expression of Clostridium acetobutylicum
Hillmann, Journal of bacteriology 2009 - “...CAC3659 Arginine biosynthesis CAC0316 CAC0376 CAC0973 CAC0974 CAC2388 CAC2389 CAC2390 CAC2391 Protein function COG class O2 sufB1 sufB2 Fe-regulated ABC-type...”
- “...CAC3076, CAC3657 to CAC3659, CAC0973 and CAC0974, and CAC2388 to CAC2391 are genes that presumably form a transcriptional unit, respectively. b As identified...”
- Genome-scale model for Clostridium acetobutylicum: Part I. Metabolic network resolution and analysis
Senger, Biotechnology and bioengineering 2008 - “...BLASTP. Bit-scores suggested orthology ( Pearson, 1996 ) of both enzymes (of both organisms) with CAC2388. When further analyzed in the BRENDA enzyme database, multiple researchers have noted that acetylornithine transaminase (EC 2.6.1.11) may exhibit very similar enzymatic activity to ornithine-oxo-acid transferase (EC 2.6.1.13) ( Billheimer...”
- “...and Meyer, 1985 ), we propose the following biochemical reaction catalyzed by the enzyme of CAC2388, which is currently annotated as an acetylornithine transaminase (ArgD, EC 2.6.1.11) in C. acetobutylicum : (3) L ornithine + pyruvate ( ArgD , RocD , EC 2.6.11 , EC 2.6.1.13...”
- Genome-scale model for Clostridium acetobutylicum: Part II. Development of specific proton flux states and numerically determined sub-systems
Senger, Biotechnology and bioengineering 2008 - “...of pyruvate and L-ornithine to L-glutamate and L-alanine by the acetylornithine transaminase (ArgD, EC 2.6.1.11, CAC2388) and (ii) biosynthesis of L-glutamate through the L-arginine biosynthesis pathway in the presence of a large intracellular L-glutamate solute pool. Thus, L-alanine is a product of L-glutamate biosynthesis by ArgD....”
- “...was resolved by varying the ratio of Reaction 1 (through acetylornithine transaminase (ArgD, EC 2.6.1.11, CAC2388)) to Reaction 4 (L-glutamate biosynthesis through L-arginine biosynthesis pathway). Reaction 2 is catalyzed by the alanine racemace (EC 5.1.1.1, CAC0492) and D-alanine transaminase (EC 2.6.2.21, CAC0792) drives Reaction 3. Not...”
Synpcc7942_0943 acetylornithine and succinylornithine aminotransferases from Synechococcus elongatus PCC 7942
36% identity, 88% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...Synechococcus elongatus sp. PCC 6301 n.d. Syc0599_c, Syc1466_c Syc1030_d Synechococcus elongatus sp. PCC 7942 n.d. Synpcc7942_0943, Synpcc7942_0031 Synpcc7942_0489 Synechococcus Yellowstone sp. JA-3-3-AB CYA_0859 CYA_1537, CYA_0689 CYA_0364 Synechococcus Yellowstone sp. JA-2-3Ba (2-13) CYB_1744 CYB_1419, CYB_2128 CYB_0516, CYB_0715, CYB_1893 Thermosynechococcus elongatus BP-1 n.d. Tlr1328, Tlr0408, Tll1935 Tlr0416, Tlr0221...”
- “...Synechococcus elongatus sp. PCC 6301 n.d. Syc0599_c, Syc1466_c Syc1030_d Synechococcus elongatus sp. PCC 7942 n.d. Synpcc7942_0943, Synpcc7942_0031 Synpcc7942_0489 Synechococcus Yellowstone sp. JA-3-3-AB n.d. CYA_1537, CYA_0689 CYA_0364 Synechococcus Yellowstone sp. JA-2-3Ba (2-13) CYB_0250 CYB_1419, CYB_2128 CYB_0516, CYB_0715, CYB_1893 Thermosynechococcus elongatus BP-1 Tll0507 Tlr1328, Tlr0408, Tll1935 Tlr0416, Tlr0221...”
NGO_0646 aspartate aminotransferase family protein from Neisseria gonorrhoeae FA 1090
36% identity, 90% coverage
MSMEG_3773 acetylornithine aminotransferase from Mycobacterium smegmatis str. MC2 155
MSMEG_3773 acetylornithine transaminase from Mycolicibacterium smegmatis MC2 155
35% identity, 95% coverage
- Elucidating the role of c-di-AMP in Mycobacterium smegmatis: Phenotypic characterization and functional analysis
Chaudhary, Heliyon 2023 - “...argF (MSMEG_3772) Ornithine carbamoyltransferase 1.12 0.033 15 argB (MSMEG_3774) Acetylglutamate kinase 1.17 0.025 16 argD (MSMEG_3773) Acetylornithine aminotransferase 1.25 0.049 Table 2 Genes under several main categories are listed which are significantly downregulated in M. smegmatis pde strain compared to M. smegmatis WT along with their...”
- Multiform antimicrobial resistance from a metabolic mutation
Schrader, Science advances 2021 - “...the arginine biosynthesis pathway: one in argA ( MSMEG_2691 ) and eight in argD ( MSMEG_3773 ) ( Fig. 2, A and B , and table S2). In addition to a large increase in survival upon exposure to kanamycin, the mutants had increased survival when exposed...”
- Protein Composition of Mycobacterium smegmatis Differs Significantly Between Active Cells and Dormant Cells With Ovoid Morphology
Trutneva, Frontiers in microbiology 2018 - “...synthesis (MSMEG_0953, MSMEG_0956, and MSMEG_2780), leucine synthesis (MSMEG_6271 and MSMEG_2379) and arginine synthesis (MSMEG_3769, MSMEG_3770, MSMEG_3773, and MSMEG_3774). Dormant cells evidently accumulate storage materials: we found several enzymes responsible for the synthesis and accumulation of glycogen (MSMEG_4918), trehalose (MSMEG_6514 and MSMEG_6515 unique; Supplementary Table S2 )...”
Deide_09040 putative 4-aminobutyrate aminotransferase, aminotransferase class-III from Deinococcus deserti VCD115
36% identity, 78% coverage
- Proteomics-based refinement of Deinococcus deserti genome annotation reveals an unwonted use of non-canonical translation initiation codons
Baudet, Molecular & cellular proteomics : MCP 2010 - “.../ z range of an N-terminally TMPP-labeled peptide, TIAIKPR, corresponding to the N terminus of Deide_09040, which exemplifies the most intense of these reporter ions in most spectra with signals from m / z 573.16, 646.13, and 674.03 ions. We used mainly these three reporter ions...”
- “...during fragmentation of unmodified peptides. The MS/MS spectrum of the TMPP-modified peptide TIAIKPR assigned to Deide_09040 is shown in B . The reporter ion TMPP-CHCO + and the corresponding a1 - and b1 -specific ions are labeled in bold red . Correction of Protein N Termini...”
T303_03440 acetylornithine transaminase from Streptococcus thermophilus ASCC 1275
36% identity, 99% coverage
SCO1577 acetylornithine aminotransferase from Streptomyces coelicolor A3(2)
36% identity, 92% coverage
- Transcriptomic analysis of a classical model of carbon catabolite regulation in Streptomyces coelicolor
Romero-Rodríguez, BMC microbiology 2016 - “...oxidoreductase SCO0556 Hypothetical protein SCO1570 argH, SCL24.06c Argininosuccinate lyase [EC:4.3.2.1] SCO1576 argR, SCL24.12c Arginine repressor SCO1577 argD, SCL24.13c Acetonitrile aminotransferase [EC:2.6.1.11] SCO1578 argB, SCL24.14c Acetylglutamate kinase [EC:2.7.2.8] SCO1579 argJ, SCL24.15c Putative glutamate N-acetyltransferase [EC:2.3.1.1 2.3.1.35] SCO1580 argC N-Acetyl-gamma-glutamyl-phosphate reductase [EC:1.2.1.38] SCO1815 fabG, SCI28.09c Probable 3-oxacyl-(acyl-carrier-protein) reductase...”
DRA0029, DR_A0029 4-aminobutyrate aminotransferase from Deinococcus radiodurans R1
36% identity, 76% coverage
CwatDRAFT_5161 Acetylornithine and succinylornithine aminotransferase from Crocosphaera watsonii WH 8501
34% identity, 88% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...WH5701_15376 WH5701_06196 Synechococcus sp. RS 9917 RS9917_06190 RS9917_02041, RS9917_05240 RS9917_02641 Crocosphaera watsonii WH 8501 n.d. CwatDRAFT_5161 CwatDRAFT_0865, CwatDRAFT_0842, CwatDRAFT_0969 Trichodesmium erythraeum IMS 101 TeryDRAFT_4567 TeryDRAFT_3251 TeryDRAFT_2672 TeryDRAFT_3296, TeryDRAFT_3923 Freshwater species Synechococcus elongatus sp. PCC 6301 n.d. Syc0599_c, Syc1466_c Syc1030_d Synechococcus elongatus sp. PCC 7942 n.d. Synpcc7942_0943,...”
- “...WH5701_15376 WH5701_06196 Synechococcus sp. RS 9917 n.d. RS9917_02041, RS9917_05240 RS9917_02641 Crocosphaera watsonii WH 8501 CwatDRAFT_0830 CwatDRAFT_5161 CwatDRAFT_0865, CwatDRAFT_0842, CwatDRAFT_0969 Trichodesmium erythraeum IMS 101 TeryDRAFT_2282 TeryDRAFT_3251 TeryDRAFT_2672 TeryDRAFT_3296, TeryDRAFT_3923 Freshwater species Synechococcus elongatus sp. PCC 6301 n.d. Syc0599_c, Syc1466_c Syc1030_d Synechococcus elongatus sp. PCC 7942 n.d. Synpcc7942_0943,...”
SSA_0760 Acetylornithine aminotransferase, putative from Streptococcus sanguinis SK36
35% identity, 98% coverage
- Glucose Phosphotransferase System Modulates Pyruvate Metabolism, Bacterial Fitness, and Microbial Ecology in Oral Streptococci
Zeng, Journal of bacteriology 2023 (secret) - Transcriptome, Phenotypic, and Virulence Analysis of Streptococcus sanguinis SK36 Wild Type and Its CcpA-Null Derivative (ΔCcpA)
Bai, Frontiers in cellular and infection microbiology 2019 - “...a 1,238.80 394.95 1.96 0.00000 c184_g210 SSA_0094 1,330.37 327.41 2.23 0.00000 c184_G204 b , c SSA_0760 74.75 6.52 3.50 0.00000 c184_g309 SSA_1052 1,412.90 243.16 2.55 0.00000 c184_G315 b , c , m SSA_0757 44.03 4.06 3.35 0.00000 c184_G202 b , c , m SSA_0758 56.88 5.36...”
- Systematic study of genes influencing cellular chain length in Streptococcus sanguinis
Evans, Microbiology (Reading, England) 2014 - “...shorter chains in their mutants with upregulated gene expressions in Ssx_1972. These genes were SSA_0759, SSA_0760, SSA_1715, SSA_1897, SSA_2117, SSA_2141, SSA_2159 and SSA_2337. All positively and negatively related genes should contribute to the cellular chain length of Ssx_1972. However, there were also downregulated genes showing shorter...”
- “...Y SSA_2077 Hypothetical protein SSA_2077 0.4932 0.0512 Y SSA_0759 argB Acetylglutamate kinase 3.1950 0.6376 Y SSA_0760 Acetylornithine aminotransferase 9.4869 4.9372 Y SSA_1715 serC Phosphoserine aminotransferase 2.0630 1.0319 Y SSA_1897 Hypothetical protein SSA_1897 2.2604 0.6261 Y SSA_2117 rmuC DNA recombination protein RmuC 2.5179 0.7197 Y SSA_2141 argH...”
A7ME32 Acetylornithine/succinyldiaminopimelate aminotransferase from Cronobacter sakazakii (strain ATCC BAA-894)
34% identity, 89% coverage
ARGD_ARATH / Q9M8M7 Acetylornithine aminotransferase, chloroplastic/mitochondrial; ACOAT; Acetylornithine transaminase; AOTA; Protein HOPW1-1-INTERACTING 1; EC 2.6.1.11 from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
NP_178175 HOPW1-1-interacting 1 from Arabidopsis thaliana
AT1G80600 WIN1 (HOPW1-1-INTERACTING 1); N2-acetyl-L-ornithine:2-oxoglutarate 5-aminotransferase/ catalytic/ pyridoxal phosphate binding / transaminase from Arabidopsis thaliana
36% identity, 78% coverage
- function: Involved in the biosynthesis of citrulline (By similarity). Essential gene that modulates defense response to pathogenic bacteria, conferring susceptibility and repressing salicylic acid (SA) accumulation.
catalytic activity: N(2)-acetyl-L-ornithine + 2-oxoglutarate = N-acetyl-L- glutamate 5-semialdehyde + L-glutamate (RHEA:18049)
cofactor: pyridoxal 5'-phosphate
subunit: Interacts with the P.syringae pv. maculicola effector HopW1-1 (via C-terminus). - The Arabidopsis TUMOR PRONE5 gene encodes an acetylornithine aminotransferase required for arginine biosynthesis and root meristem maintenance in blue light.
Frémont, Plant physiology 2013 - GeneRIF: TUMOR PRONE5 (TUP5) gene of Arabidopsis codes for acetylornithine aminotransferase that catalyzes the fourth step of arginine biosynthesis and is required for root meristem maintenance in blue light. [TUP5]
- Overexpression of AtSHN1/WIN1 provokes unique defense responses.
Sela, PloS one 2013 - GeneRIF: Overexpression of AtSHN1/WIN1 provokes unique defense responses.
- Identification of SNPs Associated with Drought Resistance in Hybrid Populations of Picea abies (L.) H. Karst.-P. obovata (Ledeb.).
Vasileva, Genes 2024 - “...ornithine aminotransferase (GenBank accession XM_058003929). This protein is involved in amino acid metabolism (UniProt accession Q9M8M7), which explains its high conservatism. Functionally, ornithine aminotransferase links the stress response and nitrogen metabolism and is potentially an important element in maintaining homeostasis and regulating amino acid interconversions in...”
- Proteome-wide analysis of hydrogen peroxide-induced protein carbonylation in Arabidopsis thaliana
Fangue-Yapseu, Frontiers in plant science 2022 - “...2425.17 2 2 2 2 2 2 2 3 3 8 AT1G80600 Acetylornithine aminotransferase (WIN1) Q9M8M7 48.83 Plastid/ Mitochondrion (R)VFFCNSGTEANEAAIK(F) (K)IAAVFVEPIQGEGGIYSATK(E) (R)SACDAAGSLLVFDEVQCGLGR(T) (R)DSGLLILTAGK(G) (R)IVPPLVISEEEIER(A) (K)EYLDCASGIAVNALGHGDPDWLR(A) (K)VIVGTYAR(A) 1756.81 2049.08 2224.03 1086.63 1621.90 2528.18 877.50 2 2 2 2 2 3 2 18 AT2G37220 RNA-binding protein CP29B Q9ZUU4...”
- Gel-based proteomic map of Arabidopsis thaliana root plastids and mitochondria
Grabsztunowicz, BMC plant biology 2020 - “...small subunit 1 58 Q9FFF4, At5g16290 Acetylglutamate kinase 92 Q9SCL7, At3g57560 Acetylornithine aminotransferase 62, 63 Q9M8M7, At1g80600 Argininosuccinate synthase 51, 52 Q9SZX3, At4g24830 ATP phosphoribosyltransferase 1 62 Q9S762, At1g58080 Bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase 30 Q9SQT8, At3g06350 Bifunctional aspartate aminotransferase and glutamate/aspartate-prephenate aminotransferase 64, 66 Q9SIE1, At2g22250...”
- Changes in annual transcriptome dynamics of a clone of Japanese cedar (Cryptomeria japonica D. Don) planted under different climate conditions
Nose, PloS one 2023 - “...CUST_5816_PI429951308 reCj20419:MSWR:isotig20271 AT5G52920 0.0 PKP-BETA1 plastidic pyruvate kinase beta subunit 1 temp-0h -0.90 CUST_6317_PI429951308 reCj20922:-SWR:isotig20774 AT1G80600 0.0 WIN1 HOPW1-1-interacting 1 temp-min -0.89 CUST_5166_PI429951308 reCj19763:MSWR:isotig19615 AT3G10050 0.0 OMR1 L-O-methylthreonine resistant 1 temp-7d -0.87 CUST_7163_PI429951308 reCj21779:MSWR:isotig21631 AT4G13430 0.0 IIL1 isopropyl malate isomerase large subunit 1 temp-7d -0.86 CUST_11543_PI429951308...”
- Proteome-wide analysis of hydrogen peroxide-induced protein carbonylation in Arabidopsis thaliana
Fangue-Yapseu, Frontiers in plant science 2022 - “...895.520 1699.92 1079.57 2548.24 2425.17 2 2 2 2 2 2 2 3 3 8 AT1G80600 Acetylornithine aminotransferase (WIN1) Q9M8M7 48.83 Plastid/ Mitochondrion (R)VFFCNSGTEANEAAIK(F) (K)IAAVFVEPIQGEGGIYSATK(E) (R)SACDAAGSLLVFDEVQCGLGR(T) (R)DSGLLILTAGK(G) (R)IVPPLVISEEEIER(A) (K)EYLDCASGIAVNALGHGDPDWLR(A) (K)VIVGTYAR(A) 1756.81 2049.08 2224.03 1086.63 1621.90 2528.18 877.50 2 2 2 2 2 3 2 18 AT2G37220...”
- Gel-based proteomic map of Arabidopsis thaliana root plastids and mitochondria
Grabsztunowicz, BMC plant biology 2020 - “...subunit 1 58 Q9FFF4, At5g16290 Acetylglutamate kinase 92 Q9SCL7, At3g57560 Acetylornithine aminotransferase 62, 63 Q9M8M7, At1g80600 Argininosuccinate synthase 51, 52 Q9SZX3, At4g24830 ATP phosphoribosyltransferase 1 62 Q9S762, At1g58080 Bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase 30 Q9SQT8, At3g06350 Bifunctional aspartate aminotransferase and glutamate/aspartate-prephenate aminotransferase 64, 66 Q9SIE1, At2g22250 Branched-chain-amino-acid...”
- “...N-acetylglutamyl-phosphate reductase (AGPR, At2g19940, spots 70 and 71). In the next step, acetylornithine aminotransferase (WIN1, At1g80600), detected in spots 62 and 63, transfers an amino group from a second glutamate to form N 2 -acetylornithine. Subsequently, the produced ornithine is further used by ornithine transcarbamomylase (OTC,...”
- Quantitative Proteomic Analysis of the Response to Zinc, Magnesium, and Calcium Deficiency in Specific Cell Types of Arabidopsis Roots
Fukao, Proteomes 2016 - “...9 0.41 0.58 N.D. N.D. AT1G78800 UDP-Glycosyltransferase superfamily protein 0.82 0.74 0.34 0.58 1.00 0.89 AT1G80600 HOPW1-1-interacting 1 0.36 0.62 0.83 0.72 0.69 0.64 AT2G04305 Magnesium transporter CorA-like family protein N.D. 0.32 0.46 N.D. AT2G17130 isocitrate dehydrogenase subunit 2 0.47 0.41 0.44 0.63 0.63 0.89 AT2G28190...”
- Physiological implications of arginine metabolism in plants
Winter, Frontiers in plant science 2015 - “...demonstrated by complementation studies as well as immunoblot analysis. The TUMOR PRONE5 ( TUP5 , At1g80600) gene of Arabidopsis was demonstrated to encode a NAOAT ( Frmont et al., 2013 ). Characterization of the gene and its mutant lines showed a strongly reduced free arginine content...”
- DYn-2 Based Identification of Arabidopsis Sulfenomes
Akter, Molecular & cellular proteomics : MCP 2015 - “...AT1G22410 AT5G16290 AT3G53580 AT2G29690 AT2G22250 AT1G80600 AT1G58080 AT1G48850 AT2G31810 AT2G45300 SERINE HYDROXYMETHYLTRANSFERASE 3 THREONINE SYNTHASE...”
- Jacks of metal/metalloid chelation trade in plants-an overview
Anjum, Frontiers in plant science 2015 - “...(2 mM) At5g19530 Induction of Spm/Spd synthase family protein Cs tolerance Sharma and Dietz, 2006 At1g80600 Induction of acetylornithine aminotransferase, mitochondrial, putative/acetylornithine transaminase, putative/AOTA At5g46180 Induction of Orn aminotransferase, putative/Orn-oxo-acid aminotransferase Arabidopsis thaliana Pb(NO 3 ) 2 (25, 50 ppm) At5g19530 Induced Spm/Spd synthase family protein...”
BCG_1694 putative Acetylornithine aminotransferase argD from Mycobacterium bovis BCG str. Pasteur 1173P2
NP_216171 acetylornithine aminotransferase from Mycobacterium tuberculosis H37Rv
Rv1655 acetylornithine aminotransferase from Mycobacterium tuberculosis H37Rv
36% identity, 93% coverage
- Comparison of the transcriptome, lipidome, and c-di-GMP production between BCGΔBCG1419c and BCG, with Mincle- and Myd88-dependent induction of proinflammatory cytokines in murine macrophages
Flores-Valdez, Scientific reports 2024 - “...Rv2995c 3-isopropylmalate dehydrogenase leuB 0.636 0.02535765 BCG_1657 BCG_1657 Rv1619 Conserved membrane protein 0.6359 0.029269187 argD BCG_1694 Rv1655 Probable Acetylornithine aminotransferase argD 0.635 0.010948399 ArgR regulon fadD33 BCG_1407 Rv1345 Possible polyketide synthase fadD33 0.6338 0.007716787 BCG_1724c BCG_1724c Rv1686c Probable conserved integral membrane protein ABC transporter 0.6334 0.03708873...”
- InbR, a TetR family regulator, binds with isoniazid and influences multidrug resistance in Mycobacterium bovis BCG
Yang, Scientific reports 2015 - “...15 BCG_1692 2.18 Rv1653 argJ bifunctional ornithine acetyltransferase/N-acetylglutamate synthase BCG_1693 2.34 Rv1654 argB acetylglutamate kinase BCG_1694 2.34 Rv1655 argD acetylornithine aminotransferase NA BCG_1695 1.32 Rv1656 argF ornithine carbamoyltransferase BCG_1696 1.13 Rv1657 argR arginine repressor 16 BCG_2047c 1.94 2.94 Rv2028c hypothetical protein NA BCG_2048c 1.84 2.64 Rv2029c...”
- ArgD of Mycobacterium tuberculosis is a functional N-acetylornithine aminotransferase with moonlighting function as an effective immune modulator.
Nehvi, International journal of medical microbiology : IJMM 2022 (PubMed)- GeneRIF: ArgD of Mycobacterium tuberculosis is a functional N-acetylornithine aminotransferase with moonlighting function as an effective immune modulator.
- Comparison of the transcriptome, lipidome, and c-di-GMP production between BCGΔBCG1419c and BCG, with Mincle- and Myd88-dependent induction of proinflammatory cytokines in murine macrophages
Flores-Valdez, Scientific reports 2024 - “...3-isopropylmalate dehydrogenase leuB 0.636 0.02535765 BCG_1657 BCG_1657 Rv1619 Conserved membrane protein 0.6359 0.029269187 argD BCG_1694 Rv1655 Probable Acetylornithine aminotransferase argD 0.635 0.010948399 ArgR regulon fadD33 BCG_1407 Rv1345 Possible polyketide synthase fadD33 0.6338 0.007716787 BCG_1724c BCG_1724c Rv1686c Probable conserved integral membrane protein ABC transporter 0.6334 0.03708873 BCG_2589...”
- The efflux pumps Rv1877 and Rv0191 play differential roles in the protection of Mycobacterium tuberculosis against chemical stress
Sao, Frontiers in microbiology 2024 - “...only in the rv1878 mutant. These were rv1652 ( argC ), rv1653 ( argJ ), rv1655 ( argD ) which are all involved in the biosynthesis of arginine from glutamate ( Tiwari et al., 2018 ) and rv0858c encoding N-succinyldiaminopimelate aminotransferase (DapC; Weyand et al., 2006...”
- ArgD of Mycobacterium tuberculosis is a functional N-acetylornithine aminotransferase with moonlighting function as an effective immune modulator
Nehvi, International journal of medical microbiology : IJMM 2022 (PubMed)- “...an essential enzyme acetyl ornithine aminotransferase ArgD (Rv1655) of arginine biosynthetic pathway which plays crucial role in M. tuberculosis growth and...”
- “...India: LE Tracking ElsevierWaived http://creativecommons.org/licenses/by/4.0/ Rv1655 Arginine metabolism Drug target Macrophage activation NF B signaling...”
- Transcriptional regulation and drug resistance in Mycobacterium tuberculosis
Miotto, Frontiers in cellular and infection microbiology 2022 - “...( Schrader etal., 2021 ). These mutations mapping in the rv2747 ( argA ) and rv1655 ( argD ) genes were associated with increased survival during RIF exposure, as well as with minimum inhibitory concentration (MIC) increase to clarithromycin, again related to the up-regulation of whiB7...”
- Quantitative proteomics reveals that dormancy-related proteins mediate the attenuation in mycobacterium strains
Wang, Virulence 2021 - “...were significantly upregulated in the BCG strain, namely, ArgC (Rv1652), ArgJ (Rv1653), ArgB (Rv1654), ArgD (Rv1655), ArgF (Rv1656), ArgR (Rv1657), ArgG (Rv1658), and ArgH (Rv1659), which may indicate that the H37Rv and H37Ra strains experience a deficiency in arginine during the stationary phase. The glyoxylate cycle...”
- Multiform antimicrobial resistance from a metabolic mutation
Schrader, Science advances 2021 - “...would confer HS upon exposure to aminoglycosides in Mtb , we constructed an argD ( rv1655 ) Mtb mutant (fig. S6A). We chose to construct the argD mutant since we had obtained a larger diversity of mutations in this gene in Msm compared to argA ,...”
- “...cassette between sequences homologous to the ~500-bp regions upstream and downstream of the argD gene (Rv1655). Mtb H37Rv cells were first transformed with an episomal plasmid containing the phage-derived RecET recombinase (pNit-recET-sacB-kanR) ( 81 ) and grown to mid-log phase in 7H9 supplemented with kanamycin (25...”
- Comprehensive analysis of protein acetyltransferases of human pathogen Mycobacterium tuberculosis
Xie, Bioscience reports 2019 - “...mycobacteria, even Rhodococcus and Streptomyces. For example, the adjacent genes of Rv1653c including Rv1652, Rv1654, Rv1655, and Rv1656 are highly conserved in M. leprae TN, M. smegmatis str. mc 2 155, M. avium 104, Rhodococcus sp.RHA1, and Streptomyces avermitilis MA-4680 (Supplementary Figure S2). However, the adjacent...”
- Trehalose-6-Phosphate-Mediated Toxicity Determines Essentiality of OtsB2 in Mycobacterium tuberculosis In Vitro and in Mice
Korte, PLoS pathogens 2016 - “...Transformed p-value Upregulated Rv1258c Rv1258c 27.12 0.00010 Rv0662c vapB7 23.29 0.00005 Rv1257c Rv1257c 19.22 0.00025 Rv1655 argD 15.99 0.00018 Rv2164c Rv2164c 15.92 0.00041 Rv1652 argC 15.72 0.00006 Rv2165c Rv2165c 15.54 0.00230 Rv1654 argB 14.48 0.00017 Rv1656 argF 13.38 0.00001 Rv1987 Rv1987 12.46 0.00009 Downregulated Rv2628 Rv2628...”
- More
7nn4A / P9WPZ7 Crystal structure of mycobacterium tuberculosis argd with prosthetic group pyridoxal 5'-phosphate and 3-hydroxy-2-naphthoic acid.
36% identity, 95% coverage
- Ligand: 3-hydroxynaphthalene-2-carboxylic acid (7nn4A)
PF1685 acetylornithine aminotransferase from Pyrococcus furiosus DSM 3638
37% identity, 95% coverage
AWY96_RS23480 aspartate aminotransferase family protein from Serratia plymuthica
35% identity, 92% coverage
GBAA4352 acetylornithine aminotransferase from Bacillus anthracis str. 'Ames Ancestor'
36% identity, 96% coverage
Dgeo_0989 aminotransferase class-III from Deinococcus geothermalis DSM 11300
38% identity, 78% coverage
WPa_0783 aspartate aminotransferase family protein from Wolbachia endosymbiont of Culex quinquefasciatus Pel
37% identity, 93% coverage
PAB2440 acetylornithine aminotransferase from Pyrococcus abyssi GE5
38% identity, 95% coverage
PH1716 acetylornithine aminotransferase from Pyrococcus horikoshii OT3
38% identity, 94% coverage
- Biochemical and genetic examination of two aminotransferases from the hyperthermophilic archaeon Thermococcus kodakarensis
Su, Frontiers in microbiology 2023 - “...aminotransferase Kynurenine 2-OG, OAA, 2-oxobutyrate, 2-oxo-4-methylthiobutyrate Okada et al. (2012) PH0377 G8 (Histidinol-phosphate aminotransferase) II PH1716 (Long hypothetical acetylornithine aminotransferase) PH1501 (Long hypothetical aminotransferase) PH1423 Ornithine -aminotransferase l -Orn, l -Lys, d -Orn, d -Lys, (5-aminovalerate, 6-aminohexanoate, GABA) 2-OG, (Pyr) Kawakami et al. (2022) PH0782 Alanine/serine...”
- The primordial metabolism: an ancestral interconnection between leucine, arginine, and lysine biosynthesis
Fondi, BMC evolutionary biology 2007 - “...as well as in the AAA variant of lysine biosynthesis, and that ORF PH1720, PH1718, PH1716, and PH1715 (Figure 3b ) might be involved in the biosynthesis of both lysine (through the AAA one) and arginine. Even though it cannot be ruled a priori out the...”
- Functional and evolutionary relationship between arginine biosynthesis and prokaryotic lysine biosynthesis through alpha-aminoadipate
Miyazaki, Journal of bacteriology 2001 - “...unlike in Pyrococcus horikoshii, which possesses argDE homologs (PH1716 and PH1715) in a tandem manner at a position distal to the putative lysine biosynthetic...”
- “...in amino acid sequence to a putative Pyrococcus homolog, PH1716. It should be noted that LysJ is more closely related to ArgD homologs from archaea than to...”
Q5JFW3 Putative [LysW]-aminoadipate semialdehyde/glutamate semialdehyde transaminase from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
TK0275 N2-acetyl-lysine aminotransferase from Thermococcus kodakaraensis KOD1
37% identity, 95% coverage
- Open Issues for Protein Function Assignment in Haloferax volcanii and Other Halophilic Archaea
Pfeiffer, Genes 2021 - “...] 23434852 only for Arg, not for Lys biosynthesis 2a HVO_0043 (cont.) yes/no 42% TK0275 Q5JFW3 [ 125 ] 27566549 only for Arg, not for Lys biosynthesis 2a HVO_0042 argE no 36% TT_C1396 Q8VUS5 [ 124 ] [ 131 ] 19620981 28720495 for Arg, not for...”
- Biochemical and genetic examination of two aminotransferases from the hyperthermophilic archaeon Thermococcus kodakarensis
Su, Frontiers in microbiology 2023 - “...TK0186 G6 (2-Aminoadipate transaminase) TK0250 G7 (Histidinol-phosphate aminotransferase) TK0864 G8 (Threonine- O -3-phosphate decarboxylase) II TK0275 LysW--L-lysine aminotransferase Yoshida et al. (2016) TK1211 Leu/Met racemase Leu, Met *** Zheng et al. (2021) TK2101 Ornithine -aminotransferase l -Orn, l -Lys, ( d -Orn, d -Lys) 2-OG, 2-oxoadipate,...”
- Open Issues for Protein Function Assignment in Haloferax volcanii and Other Halophilic Archaea
Pfeiffer, Genes 2021 - “...126 ] 23434852 only for Arg, not for Lys biosynthesis 2a HVO_0043 (cont.) yes/no 42% TK0275 Q5JFW3 [ 125 ] 27566549 only for Arg, not for Lys biosynthesis 2a HVO_0042 argE no 36% TT_C1396 Q8VUS5 [ 124 ] [ 131 ] 19620981 28720495 for Arg, not...”
- Lysine Biosynthesis of Thermococcus kodakarensis with the Capacity to Function as an Ornithine Biosynthetic System
Yoshida, The Journal of biological chemistry 2016 - “...lysW lysX TK0278 B lysY lysZ lysJ lysK TK0277 TK0276 TK0275 TK0274 COOH HOOC HOOC NH2 COOH NH2 glutamate -aminoadipate TK0278 LysW, ATP ADP ATP, LysW ADP TK0276...”
- “...ADP TK0277 NADPH NADP+ NADPH NADP+ TK0275 glutamate/AAA 2-oxoglutarate/2-oxoadipate glutamate/AAA 2-oxoglutarate/2-oxoadipate TK0274 LysW H2N COOH H2N NH2...”
ARG8 / P18544 acetylornithine transaminase (EC 2.6.1.11) from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (see 9 papers)
ARGD_YEAST / P18544 Acetylornithine aminotransferase, mitochondrial; ACOAT; EC 2.6.1.11 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 3 papers)
YOL140W Acetylornithine aminotransferase, catalyzes the fourth step in the biosynthesis of the arginine precursor ornithine from Saccharomyces cerevisiae
36% identity, 86% coverage
- function: catalyzes the conversion of N-acetylglutamate-gamma- semialdehyde (NAGSA) to N-acetylornithine in arginine biosynthesis.
catalytic activity: N(2)-acetyl-L-ornithine + 2-oxoglutarate = N-acetyl-L- glutamate 5-semialdehyde + L-glutamate (RHEA:18049)
cofactor: pyridoxal 5'-phosphate - The Formation of Neochromosomes during Experimental Evolution in the Yeast Saccharomyces cerevisiae
Thierry, Genes 2021 - “...with the Y. lipolytica gene ( YALI0F16291g ) replacing KRS1 of S. cerevisiae and with YOL140w marking the left arm of chromosome XV (BYAT581-120/3 not shown). The 770 kb band hybridizes with probes YDL057w marking the left end of chromosome IV (BYAT581-60 is weak but visible)...”
- “...replaced by the band migrating at ca. 585 kb showing brighter hybridizations with probes YDR030c, YOL140W , and YALI0F16291g but no hybridization with the probe YDL057w. The presence of a 4.1 kb amplified fragment using primers AT354 and AT361 for PCR amplification on DNA from strains...”
- Intracellular trafficking of the pyridoxal cofactor. Implications for health and metabolic disease
Whittaker, Archives of biochemistry and biophysics 2016 - “...aminotransferase AGAT 2.6.1.44 Agx1 YFL030W Alanine transaminase ALT 2.6.1.2 Alt1 YLR089C Acetylornithine aminotransferase 2.6.1.11 Arg8 YOL140W Kynurenine aminotransferase KAT 2.6.1.7 Bna3 YJL060W L-serine (L-threonine) deaminase (catabolic) 4.3.1.19 Cha1 YCL064C Glycine decarboxylase complex GCC 2.1.2.10 Gcv2 YMR189W 5-Aminolevulinate synthase ALAS 2.3.1.37 Hem1 YDR232W Threonine deaminase TD 4.3.1.19...”
- Identification of conserved gene clusters in multiple genomes based on synteny and homology
Sarkar, BMC bioinformatics 2011 - “...to correctly distinguish the single orthog gene clusters from the YGR019w UGA1 group. For the YOL140w ARG8 Acetylornithine aminotransferase group, both SONS and SYNS algorithms provide similar conserved gene clusters. However, SONS erroneously mixes some genes of this group with YGR019w UGA1 cluster and YNR058w BIO3...”
- Metabolic pathway relationships revealed by an integrative analysis of the transcriptional and metabolic temperature stress-response dynamics in yeast
Walther, Omics : a journal of integrative biology 2010 - “...2.6.1.41, 1779000_at YJR148W, 2.6.1.42, 1777344_at YOL140W, 2.6.1.11, 1772375_at YPR145W, 6.3.5.4, 1772615_at YJL045W, 1.3.5.1, 1774888_at 3.38E-04 3.49E-04...”
- Full dynamic range proteome analysis of S. cerevisiae by targeted proteomics
Picotti, Cell 2009 - “...YJL026W 40968192 8 5 YKR048C, YER006W, YML086C, YKR001C, YER003C 20484096 9 5 YFL014W, YDR129C, YPL235W, YOL140W, YMR170C YEL031W, YHR107C, YPR118W, YJR051W 10242048 10 10 YDL021W, YML100W, YKL150W, YEL031W, YGL202W, YDL017W, YGR080W, YPL049C, YGL248W, YEL011W YMR170C, YCL017C 5121024 11 10 YHR107C, YGL100W, YBR208C, YPR118W, YJL172W, YBR283C, YCR088W,...”
- Modulation of yeast genome expression in response to defective RNA polymerase III-dependent transcription
Conesa, Molecular and cellular biology 2005 - “...YMR062C YMR094W YMR095C YMR096W YMR097C YMR108W YMR189W YNL104C YOL058W YOL140W PYC2 ILV6 HIS4 ARO3 HOM2 PIC2 ARG5,6 TMT1 ARG4 BAT1 HIS5 ARG3 CPA2 SRY1 ECM40...”
- Novel archaeal alanine:glyoxylate aminotransferase from Thermococcus litoralis
Sakuraba, Journal of bacteriology 2004 - “...NP_418478a P04694 P06986 P07172 P16246 P17736 P17731 P18335 P18544 P04181 P07991 P28269 P22256 P17649 P14010 P19938 P00510 P21549 P23721 P19689 P10658 1708172Aa...”
aruC / O30508 succinylornithine transaminase subunit (EC 2.6.1.13; EC 2.6.1.11; EC 2.6.1.81) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
ARUC_PSEAE / O30508 Succinylornithine transaminase/acetylornithine aminotransferase; ACOAT; SOAT; Succinylornithine aminotransferase; EC 2.6.1.11; EC 2.6.1.81 from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
O30508 succinylornithine transaminase (EC 2.6.1.81) from Pseudomonas aeruginosa (see paper)
PA0895 N-succinylglutamate 5-semialdehyde dehydrogenase from Pseudomonas aeruginosa PAO1
35% identity, 88% coverage
- function: Transaminates both N(2)-acetylornithine and N(2)- succinylornithine
catalytic activity: N(2)-succinyl-L-ornithine + 2-oxoglutarate = N-succinyl-L- glutamate 5-semialdehyde + L-glutamate (RHEA:16953)
catalytic activity: N(2)-acetyl-L-ornithine + 2-oxoglutarate = N-acetyl-L- glutamate 5-semialdehyde + L-glutamate (RHEA:18049)
cofactor: pyridoxal 5'-phosphate (Binds 1 pyridoxal phosphate per subunit.)
subunit: Homodimer. - Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...(P36839, P94427, P53555, P71084, P30949, P33189, O34662, P38021, P22256, P50457, P12995, P23893, P48247, P18335, P77581, O30508, Q9I606, Q9I6 M4, Q9I693, Q9I700, Q9I6J2, Q9I6R7, Q9HV04, Q9HTP1, Q9HWU0, Q9HT50, P48247, Q9I168, P12677, Q82 MM1, P21267, P40732, Q8ZPV2, Q8ZLX7), Thiamine Diphosphate Decarboxylase family (P96591, P37251, P23970, Q04789, P42415, P07003,...”
- Diverse Partners of the Partitioning ParB Protein in Pseudomonas aeruginosa
Kawalek, Microbiology spectrum 2023 - “...CoIP by BACTH, confirmed several enzymes as ParB partners ( Fig.3B ). These included AruC (PA0895), a part of the catabolic arginine succinyltransferase pathway ( 48 ), as well as Pae CTP-synthase PA3637 (PyrG), and others ( Table1 , Fig.3B ). While it is tempting to...”
- “...uncovered numerous novel proteins interacting with ParB ( Table1 ). Those encompass metabolic proteins AruC (PA0895), an N2-succinylornithine 5-aminotransferase ( 48 ), GlyA3 (PA4602), NadE (PA4920), and ArcB (PA5172) ( Fig.3B ). Moreover, interactions were observed with PyrG (PA3637) encoding a CTP synthetase ( 75 )....”
- The Breadth and Molecular Basis of Hcp-Driven Type VI Secretion System Effector Delivery
Howard, mBio 2021 - “...Represses H1-T6SS 25.9 PA5220 5.3 1.32 Hypothetical 30.5 PA4748 TpiA 5.3 2.46 Triosephosphate isomerase 25.6 PA0895 AruC 5 1.73 Succinylornithine transaminase/acetylornithine aminotransferase 43.7 PA3471 MaeA 4.8 2.41 NAD-dependent malic enzyme 62.4 PA1588 SucC 4.8 2.73 Succinate-CoA ligase (ADP-forming) subunit beta 41.5 PA0317 4.8 2.02 d -2-Hydroxyglutarate...”
- Traditional Chinese Medicine Tanreqing Inhibits Quorum Sensing Systems in Pseudomonas aeruginosa
Yang, Frontiers in microbiology 2020 - “...Threonine dehydratase, biosynthetic PA0390 metX 1.7 Homoserine O -acetyltransferase PA0782 putA 1.8 Proline dehydrogenase PutA PA0895 aruC 1.4 N2-succinylornithine 5-aminotransferase (SOAT) PA0896 aruF 1.2 Subunit I of arginine N2-succinyltransferase PA0897 aruG 1.2 Subunit II of arginine N2-succinyltransferase PA1818 cadA 1.2 Lysine decarboxylase PA3082 gbt 1.2 Glycine...”
- Parallel evolutionary paths to produce more than one Pseudomonas aeruginosa biofilm phenotype
Thöming, NPJ biofilms and microbiomes 2020 - “...PA14_47400 PA1300 2.8 PA14_52690 PA0897 aruG 3.0 PA14_33260 PA2426 pvdS 3.0 PA14_49690 PA1137 3.8 PA14_52720 PA0895 argD 2.4 PA14_33270 PA2425 pvdG 4.0 PA14_50050 PA1108 2.6 PA14_56370 PA4336 2.9 PA14_33280 PA2424 pvdL 3.8 PA14_51460 PA0993 cupC2 3.2 PA14_56780 PA4366 sodB 2.6 PA14_33500 PA2413 pvdH 3.0 PA14_52960 PA0874...”
- Pseudomonas aeruginosa mutants defective in glucose uptake have pleiotropic phenotype and altered virulence in non-mammal infection models
Raneri, Scientific reports 2018 - “...rpoD 1.1 0.4 0.5 sigma factor D PA0893 argR 0.6 0.6 0.4 transcriptional regulator ArgR PA0895 aruC 0.5 0.3 0.2 acetylornithine aminotransferase PA2259 ptxS 2.9 0.5 1.4 transcriptional regulator PtxS PA2264 PA2264 3.4 0.5 1.5 conserved hypothetical protein c PA2320 gntR 3.7 0.3 1.1 GntR transcriptional...”
- Inhibition of Pseudomonas aeruginosa swarming motility by 1-naphthol and other bicyclic compounds bearing hydroxyl groups
Oura, Applied and environmental microbiology 2015 - “...Chemotaxis transducer Chemotaxis transducer Chemotaxis transducer Metabolism PA0895 PA1562 PA1984 PA2007 PA2008 PA2009 PA2014 PA2015 PA2016 PA2247 PA2248 PA2249...”
- Pseudomonas aeruginosa ceftolozane-tazobactam resistance development requires multiple mutations leading to overexpression and structural modification of AmpC
Cabot, Antimicrobial agents and chemotherapy 2014 - “...Intergenic PA0747 PA0811 yicE mgtA chpA PA0877 PA0887 PA0895 PA0902 PA3179 PA3187 PA3206 PA3346 PA3516 PA3614 PA3624 7, P1.2, TOL-TAZr 7, PmS.1, TOL-TAZr 7,...”
- Bis-(3'-5')-cyclic dimeric GMP regulates antimicrobial peptide resistance in Pseudomonas aeruginosa
Chua, Antimicrobial agents and chemotherapy 2013 - “...PA3117 PA0764 PA3313 PA3190 PA4624 PA5046 PA5312 PA3330 PA0895 PA4450 PA3327 PA0482 PA3769 PA3977 PA2119 PA0552 PA4687 PA2413 PA4448 PA5172 PA3686 PA3922 PA2385...”
- More
PA14_52720 N-succinylglutamate 5-semialdehyde dehydrogenase from Pseudomonas aeruginosa UCBPP-PA14
35% identity, 88% coverage
OKIT_0630 acetylornithine transaminase from Oenococcus kitaharae DSM 17330
37% identity, 92% coverage
bglu_1g10100 Succinylornithine transaminase from Burkholderia glumae BGR1
35% identity, 88% coverage
- Identification of potential genetic components involved in the deviant quorum-sensing signaling pathways of Burkholderia glumae through a functional genomics approach
Chen, Frontiers in cellular and infection microbiology 2015 - “...production . Name of random mutants Locus of inserted genes Function of disrupted genes LSUPB186 bglu_1g10100 Succinylornithine transaminase LSUPB187 bglu_2g10840 * putative LysM domain-containing protein LSUPB182 bglu_1g02180 Diguanylate cyclase LSUPB183 bglu_1g01780 * Flagellar transcriptional activator FlhD LSUPB184 bglu_2g07160 * Catechol 1,2-dioxygenase LSUPB185 bglu_1g00380 General secretory pathway...”
- RNAseq-based Transcriptome Analysis of Burkholderia glumae Quorum Sensing
Kim, The plant pathology journal 2013 - “...crossover recombination was used for mutagenesis of BGR1. For mutagenesis, the part of the astC (bglu_1g10100) was amplified and inserted into pVIK112. To insert the part of the target gene to pVIK112, EcoR I sequence was added to forward primer and Kpn I sequence was added...”
- “...in QS-dependent pathways such as AST pathway and phosphate transport. We selected each gene, astC (bglu_1g10100) and pstA (bglu_1g11470) corresponding to a key gene in the AST pathway and in phosphate transport, respectively. We did not observe any phenotypic differences between BGR1 and pstA mutant strains....”
Q688Q8 acetylornithine transaminase from Oryza sativa subsp. japonica
36% identity, 77% coverage
ECH_0886 acetylornithine/succinyldiaminopimelate aminotransferase from Ehrlichia chaffeensis str. Arkansas
ECH_RS03645 aspartate aminotransferase family protein from Ehrlichia chaffeensis str. Arkansas
37% identity, 95% coverage
- Proteome Analysis Revealed Changes in Protein Expression Patterns Caused by Mutations in Ehrlichia chaffeensis
Kondethimmanahalli, Frontiers in cellular and infection microbiology 2019 - “...(ECH_0734), malate dehydrogenase (ECH_0175), bifunctional ornithine acetyltransferase/N-acetylglutamate synthase (ECH_0676), ATP synthase subunit (ECH_1088), acetylornithine transaminase (ECH_0886), 5'-nucleotidase SurE (ECH_0791), and leucine-tRNA ligase (ECH_0794) were also upregulated in the ECH_0379 mutant ( Figure 5B ). Four hypothetical proteins (ECH_0697; ECH_0836; ECH_0010; ECH_0531) were also among the highly...”
- “...dehydrogenase 1.48 ECH_0676 ECH_RS02840 Ornithine acetyltransferase/N-acetylglutamate synthase 1.35 ECH_1088 ECH_RS04415 ATP synthase subunit B 1.46 ECH_0886 ECH_RS03645 Acetylornithine transaminase 1.36 ECH_0170 ECH_RS00715 variable length PCR target protein 2.04 ECH_0791 ECH_RS03285 5-nucleotidase SurE 1.29 ECH_0794 ECH_RS03300 LeucinetRNA ligase 1.35 ECH_0697 ECH_RS02910 Hypothetical protein 1.48 ECH_0836 ECH_RS03455 Hypothetical...”
- Penicillin-binding protein of Ehrlichia chaffeensis: cytokine induction through MyD88-dependent pathway
Rahman, The Journal of infectious diseases 2012 - “...aa) and the full-length diaminopimelate aminotransferase (DPA, Ech_0886) were amplified by polymerase chain reaction (PCR) using E. chaffeensis chromosomal DNA...”
- Proteome Analysis Revealed Changes in Protein Expression Patterns Caused by Mutations in Ehrlichia chaffeensis
Kondethimmanahalli, Frontiers in cellular and infection microbiology 2019 - “...1.48 ECH_0676 ECH_RS02840 Ornithine acetyltransferase/N-acetylglutamate synthase 1.35 ECH_1088 ECH_RS04415 ATP synthase subunit B 1.46 ECH_0886 ECH_RS03645 Acetylornithine transaminase 1.36 ECH_0170 ECH_RS00715 variable length PCR target protein 2.04 ECH_0791 ECH_RS03285 5-nucleotidase SurE 1.29 ECH_0794 ECH_RS03300 LeucinetRNA ligase 1.35 ECH_0697 ECH_RS02910 Hypothetical protein 1.48 ECH_0836 ECH_RS03455 Hypothetical protein...”
W6QU95 Acetylornithine aminotransferase from Pseudomonas pseudoalcaligenes (strain CECT 5344)
34% identity, 90% coverage
BPSL2390 succinylornithine transaminase from Burkholderia pseudomallei K96243
36% identity, 87% coverage
B8CGH5 acetylornithine transaminase from Thalassiosira pseudonana
THAPSDRAFT_270136 n-acetylornithine aminotransferase from Thalassiosira pseudonana CCMP1335
35% identity, 77% coverage
PGA1_c24230 aspartate aminotransferase family protein from Phaeobacter inhibens DSM 17395
37% identity, 93% coverage
glr3849 4-aminobutyrate aminotransferase from Gloeobacter violaceus PCC 7421
35% identity, 80% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...sp. PCC 6803 Sll1077, Sll0228 Slr1022 Sll1561, Slr0370, Slr0091 Gloeobacter violaceus PCC 7421 n.d. Glr0547, Glr3849, Gll2223 Glr2755, Glr3848, Gll1504, Gll2805 Nostoc sp. PCC 7120 Alr2310 Alr2398, Alr1080, All0396 Alr0540, Alr3771, All3556, All5022 Nostoc punctiforme PCC 73102 Npun02002114 Npun02005728, Npun02001164, Npun02001509 Npun02003702, Npun02006572, Npun02002895, Npun02002692 Anabaena...”
- “...Synechocystis sp. PCC 6803 Sll1336 Slr1022 Sll1561, Slr0370, Slr0091 Gloeobacter violaceus PCC 7421 Glr1758 Glr0547, Glr3849, Gll2223 Glr2755, Glr3848, Gll1504, Gll2805 Nostoc sp. PCC 7120 Alr4495 Alr2398, Alr1080, All0396 Alr0540, Alr3771, All3556, All5022 Nostoc punctiforme PCC 73102 Npun02001803 Npun02005728, Npun02001164, Npun02001509 Npun02003702, Npun02006572, Npun02002895, Npun02002692 Anabaena...”
AZOBR_RS19025 aspartate aminotransferase family protein from Azospirillum baldaniorum
36% identity, 93% coverage
AZOBR_RS19025 acetylornithine/N-succinyldiaminopimelate aminotransferase [EC:2.6.1.11 2.6.1.17] from Azospirillum brasilense Sp245
36% identity, 93% coverage
- mutant phenotype: Annotated as this by KEGG. Bifunctional argD. SEED has only the acetylornithine activity. (essential)
MAP_RS06930 acetylornithine transaminase from Mycobacterium avium subsp. paratuberculosis K-10
35% identity, 90% coverage
BWI76_RS11670 Succinylornithine transaminase (EC 2.6.1.81) from Klebsiella michiganensis M5al
34% identity, 88% coverage
- mutant phenotype: Specifically important for utilizing L-Arginine. Automated validation from mutant phenotype: the predicted function (SUCCORNTRANSAM-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
Sant_1573 putrescine aminotransferase from Sodalis praecaptivus
35% identity, 77% coverage
PMT9312_1397 acetylornithine and succinylornithine aminotransferases from Prochlorococcus marinus str. MIT 9312
35% identity, 89% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...Pro0374 Prochlorococcus marinus str. MIT 9211 P9211_09067 P9211_02002, P9211_10217 P9211_07012 Prochlorococcus marinus MIT 9312 PMT9312_1779 PMT9312_1397, PMT9312_1565 PMT9312_0337 Prochlorococcus marinus MIT 9313 PMT2214 PMT0331, PMT1493 PMT0191 Prochlorococcus marinus MED 4 PMM1686 PMM1301, PMM1472 PMM0331 Prochlorococcus marinus NATL 2A PMN2A_1287 PMN2A_0867, PMN2A_1003 PMN2A_1709 Synechococcus sp. CC 9605...”
- “...Pro0374 Prochlorococcus marinus str. MIT 9211 n.d. P9211_02002, P9211_10217 P9211_07012 Prochlorococcus marinus MIT 9312 n.d. PMT9312_1397, PMT9312_1565 PMT9312_0337 Prochlorococcus marinus MIT 9313 n.d. PMT0331, PMT1493 PMT0191 Prochlorococcus marinus MED 4 n.d. PMM1301, PMM1472 PMM0331 Prochlorococcus marinus NATL 2A n.d. PMN2A_0867, PMN2A_1003 PMN2A_1709 Synechococcus sp. CC 9605...”
NJ7G_0260 aspartate aminotransferase family protein from Natrinema sp. J7-2
33% identity, 92% coverage
XF1427 succinylornithine aminotransferase from Xylella fastidiosa 9a5c
Q9PDF2 Acetylornithine aminotransferase from Xylella fastidiosa (strain 9a5c)
XF_RS06015 acetylornithine transaminase from Xylella fastidiosa 9a5c
35% identity, 90% coverage
- In vitro Determination of Extracellular Proteins from Xylella fastidiosa
Mendes, Frontiers in microbiology 2016 - “...SecP 4 60kDa chaperonin 57.8 XF0615 XF0494 Q9PFP2 No No 0.077 Acetylornithine aminotransferase (ACOAT) 43.7 XF1427 XF1180 Q9PDF2 No No 0.097 Adenylosuccinate lyase (ASL) 50.6 XF1553 XF1289 P44797 No No 0.076 Amidohydrolase family protein 47.3 XF2472 XF2144 O66851 No No 0.069 Aminopeptidase (peptidase M28 family protein)...”
- Analysis of the biofilm proteome of Xylella fastidiosa
Silva, Proteome science 2011 - “...5.0 211 I.C.8 XF0389 two-component system, regulatory protein [Xylella fastidiosa 9a5c] 25364 5.27 404 I.D XF1427 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein [Xylella fastidiosa 9a5c] 44116 5.47 104 II.A.1 XF0114 2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase [Xylella fastidiosa 9a5c] 32566 6.0 136 II.A.2 XF1822 ketol-acid reductoisomerase [Xylella fastidiosa 9a5c] 40369 6.17 127...”
- Xylella fastidiosa gene expression analysis by DNA microarrays
Travensolo, Genetics and molecular biology 2009 - “...11.04 Gluconolactonase precursor -0.60 Biosynthesis of amino acids and proteins XF2465 metA Homoserine O-acetyltransferase 0.71 XF1427 argM Succinylornithine aminotransferase 0.69 XF1944 dcp Peptidyl-dipeptidase 0.64 XF1189 lon ATP-dependent serine proteinase La 0.62 XF1116 lysA Bifunctional diaminopimelate -2.17 XF0267 pspB Serine protease -1.02 XF2219 hisD Histidinol dehydrogenase -0.81...”
- In vitro Determination of Extracellular Proteins from Xylella fastidiosa
Mendes, Frontiers in microbiology 2016 - “...60kDa chaperonin 57.8 XF0615 XF0494 Q9PFP2 No No 0.077 Acetylornithine aminotransferase (ACOAT) 43.7 XF1427 XF1180 Q9PDF2 No No 0.097 Adenylosuccinate lyase (ASL) 50.6 XF1553 XF1289 P44797 No No 0.076 Amidohydrolase family protein 47.3 XF2472 XF2144 O66851 No No 0.069 Aminopeptidase (peptidase M28 family protein) 57.7 XF0820...”
- Overexpression of mqsR in Xylella fastidiosa Leads to a Priming Effect of Cells to Copper Stress Tolerance
Carvalho, Frontiers in microbiology 2021 - “...three ribosomal subunits (XF_RS00715, XF_RS00285, XF_RS09575), the msrB (XF_RS03590) and yuxK (XF_RS04035), the aminotransferase astC (XF_RS06015, also known as argM or cstC ), and two hypothetical proteins (XF_RS03860, XF_RS05645). Interestingly though, the ribosomal protein (XF_RS12125) was the only one showing an opposite behavior, being induced in...”
WP_034270149 aspartate aminotransferase family protein from Actinospica robiniae DSM 44927
33% identity, 79% coverage
BBIF_1100 acetylornithine transaminase from Bifidobacterium bifidum S17
36% identity, 83% coverage
- Proteomic Profiling of Bifidobacterium bifidum S17 Cultivated Under In Vitro Conditions
Wei, Frontiers in microbiology 2016 - “...262 29.1 BBIF_0863 ilvE2 Branched-chain amino acid aminotransferase 375 41.5 BBIF_0870 bbif_0870 Aminotransferase 522 58.1 BBIF_1100 argD Acetylornithine aminotransferase 429 45.4 BBIF_1175 bbif_1175 Aspartate aminotransferase 394 43.5 BBIF_1428 serC Phosphoserine aminotransferase 380 40.6 BBIF_1519 bbif_1519 N-succinyldiaminopimelate aminotransferase 392 41.5 BBIF_1610 aspC2 Aspartate aminotransferase 409 44.5 a...”
PS417_21710 Succinylornithine transaminase (EC 2.6.1.81) from Pseudomonas simiae WCS417
35% identity, 88% coverage
- mutant phenotype: Specifically important for: L-Arginine. succinylornithine transaminase is involved in L-arginine degradation via N-succinylarginine. Also this gene is cofit with other putative steps in that pathway (N-succinylarginine dihydrolase, succinylglutamate-semialdehyde dehydrogenase, succinylglutamate desuccinylase). In contrast, neither of the functions proposed by KEGG have an obvious relationship to arginine catabolism.
Ava_0214 Aminotransferase class-III from Anabaena variabilis ATCC 29413
33% identity, 84% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...PCC 73102 Npun02002114 Npun02005728, Npun02001164, Npun02001509 Npun02003702, Npun02006572, Npun02002895, Npun02002692 Anabaena variabilis ATCC 29413 Ava_0127 Ava_0214, Ava_3730, Ava_2839 Ava_2942, Ava_1554, Ava_3534, Ava_2258 N.d. = not detected. Table 7 Database entries of genes from 24 cyanobacterial genomes encoding putative L-arginine amidinotransferases (C1), L-ornithine transaminases (C2), and 1...”
- “...PCC 73102 Npun02001803 Npun02005728, Npun02001164, Npun02001509 Npun02003702, Npun02006572, Npun02002895, Npun02002692 Anabaena variabilis ATCC 29413 Ava_2273 Ava_0214, Ava_3730, Ava_2839 Ava_2942, Ava_1554, Ava_3534, Ava_2258 N.d. = not detected. Table 8 Database entries of genes from 24 cyanobacterial genomes encoding putative L-arginine deiminases (D1), L-ornithine transcarbamoylases (D2), carbamate kinases...”
BCAL1059 succinylornithine transaminase from Burkholderia cenocepacia J2315
35% identity, 90% coverage
- DNA Methylation Epigenetically Regulates Gene Expression in Burkholderia cenocepacia and Controls Biofilm Formation, Cell Aggregation, and Motility
Vandenbussche, mSphere 2020 - “...0.014 DnaA chromosomal replication initiation protein BCAL0509 1.129 0.473 1.175 0.199 MetK S -adenosylmethionine synthetase BCAL1059 1.129 0.662 0.767 0.457 ArgD bifunctional N -succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein BCAL1457 1.343 0.309 1.793 0.056 LysR family regulatory protein BCAL1515 1.790 0.032 1.869 0.012 SucA 2-oxoglutarate dehydrogenase E1 component BCAL2465...”
- The Small RNA ncS35 Regulates Growth in Burkholderia cenocepacia J2315
Kiekens, mSphere 2018 - “...2,3-dioxygenase Amino acid transport and metabolism BCAL1055 2.6 2.1 1.7 Histidine transport system permease protein BCAL1059 2.3 Succinylornithine transaminase BCAL1060 2.6 Arginine N -succinyltransferase BCAL1064 2.3 Succinylglutamate desuccinylase BCAL2933 4.0 4.0 2.4 d -Amino acid dehydrogenase Carbohydrate transport and metabolism BCAL1548 2.2 3.3 2.2 Sugar ABC...”
- Genome-wide transcription start site profiling in biofilm-grown Burkholderia cenocepacia J2315
Sass, BMC genomics 2015 - “...999245 ATG ATG shorter 1041114 - BCAL0952 Complement (1040227..1040955) 1041075 ATG ATG longer 1147555 + BCAL1059 1147734..1148927 1147695 ATG ATG longer 1161150 - BCAL1069 Complement (1159161..1160903) 1160996 ATG ATG longer 1207883 - BCAL1102 Complement (1207594..1207914) 1207848 GTG ATG shorter 1390938 - BCAL1277 Complement (1388805..1390997) 1390868 ATG...”
- The AHL- and BDSF-dependent quorum sensing systems control specific and overlapping sets of genes in Burkholderia cenocepacia H111
Schmid, PloS one 2012 - “...protein 4.6 1.4 2.7 0.9 CCE53285 BCAL0831 Phasin family protein 2.9 0.7 3.2 1.4 CCE51557 BCAL1059 Bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein 2.8 1.6 0.5 0.8 CCE50475 BCAL2352 Carbonic anhydrase 4.3 1.0 7.0 1.1 CCE49840 BCAL3041 Protein involved in carbohydrate transport 4.5 2.0 0.5 1.6 CCE51244 BCAL3285 Nitric...”
- Burkholderia cenocepacia differential gene expression during host-pathogen interactions and adaptation to the host environment
O'Grady, Frontiers in cellular and infection microbiology 2011 - “...protein 1.81 BCAL1057 Histidine ABC transporter ATP-binding protein 1.98 BCAL1058 AraC family regulatory protein 2.22 BCAL1059 Succinylornithine transaminase 1.81 BCAL1060 Putative arginine N -succinyltransferase, alpha 1.63 BCAL1061 Putative arginine N -succinyltransferase, beta 1.86 BCAL1062 Succinylglutamic semialdehyde dehydrogenase 1.90 BCAL1063 Succinylarginine dihydrolase 2.58 BCAL1064 Putative succinylglutamate desuccinylase...”
- Use of suppression-subtractive hybridization to identify genes in the Burkholderia cepacia complex that are unique to Burkholderia cenocepacia
Bernier, Journal of bacteriology 2005 - “...BCAM2097 BCAM0648 BCAM0647 BCAL2851 BCAM0276 BCAL1598 BCAL1021 BCAL1059 BCAL1159 BCAL1185 BCAL0060 BCAM2312 BCAL1787 BCAL1783 1 1 1 1 Plasmid Plasmid Plasmid...”
HMPREF0389_01570 aspartate aminotransferase family protein from Filifactor alocis ATCC 35896
34% identity, 92% coverage
- FACIN, a Double-Edged Sword of the Emerging Periodontal Pathogen Filifactor alocis: A Metabolic Enzyme Moonlighting as a Complement Inhibitor
Jusko, Journal of immunology (Baltimore, Md. : 1950) 2016 - “...available in www.ncbi.nlm.nih.gov/gene/ with following NCBI accession numbers HMPREF0389_01649 (encoding NAD-specific glutamate dehydrogenase, GluD) and HMPREF0389_01570 (encoding acetylornithine transaminase, FACIN) were amplified from genomic DNA by PCR. PCR products were purified and cloned into the pET-28a expression vector (Novagen) using NcoI/XhoI (GluD) or XbaI/XhoI (FACIN) restriction...”
- “...HMPREF0389_01649 NAD-specific glutamate dehydrogenase 794/1.94 40(33) 47231 3 HMPREF0389_00745 Acetyl-CoA acetyltransferase 196/0.47 9(5) 41067 4 HMPREF0389_01570 Acetylornithine aminotransferase 849/1.72 36(32) 44653 4 HMPREF0389_01649 NAD-specific glutamate dehydrogenase 145/0.22 4(4) 47231 5 HMPREF0389_00744 Butyryl-CoA dehydrogenase 665/1.15 18(17) 41459 5 HMPREF0389_00567 Glyceraldehyde-3-phosphate dehydrogenase 102/0.18 2(2) 37599 a Accession numbers...”
- Filifactor alocis--a new emerging periodontal pathogen
Aruni, Microbes and infection 2015 - “...in arginine metabolism and citrulline synthesis, such as arginine deiminase (HMPREF 0389_01584), acetyl ornithine transferase (HMPREF0389_01570) [ 20 ], aminotransferases (HMPREF0389_01352 and HMPREF0389_01353), amino-transferase family protein (HMPREF 0389_00349), arginine tRNA ligase (HMPREF0389_00390), and arginine decarboxylase (HMPREF0389_00102) ( http://www.ncbi.nlm.nih.gov/bioproject/46625 ), indicate that the nutritional needs of the...”
- “...have citrullination-induced systemic implications. It is also important to note that the proteins ornithine transaminase (HMPREF0389_01570), acetyl glutamate kinase (HMPREF0389_01569), glutamate racemase (HMPRE F0389_00100) and aminotransferase (HMPREF0389_00478) involved in ornithine biosynthesis were identified in F. alocis . In fact, arginine deiminase (HMPREF0389_01584) involved in ornithine catabolism...”
- Filifactor alocis: The Newly Discovered Kid on the Block with Special Talents
Aruni, Journal of dental research 2014 - “...(HMPREF 0389_01584), acetyl ornithine transferase (HMPREF0389_01570) (Aruni et al., 2012), aminotransferases (HMPREF0389_01352 and HMPREF0389_01353),...”
- “...to note that protein ornithine transaminase (HMPREF0389_01570), acetyl glutamate kinase (HMPREF0389_ 01569), glutamate racemase (HMPREF0389_ 00100), and...”
- Proteome analysis of coinfection of epithelial cells with Filifactor alocis and Porphyromonas gingivalis shows modulation of pathogen and host regulatory pathways
Aruni, Infection and immunity 2014 - “...(HMPREF0389_ 01584), acetyl ornithine transferase (HMPREF0389_01570) (36), aminotransferase (HMPREF0389_01352 and HMPREF0389_ 01353), amidotransferase family...”
- Proteome variation among Filifactor alocis strains
Aruni, Proteomics 2012 - “...proteases and peptidase. It is important to note that protein spots corresponding to ornithine transaminase (HMPREF0389_01570), acetyl glutamate kinase (HMPREF0389_01569), glutamate racemase (HMPREF0389_00100), and amidotransferase (HMPREF0389_00478) involved in ornithine biosynthesis were identified. These proteins were found both in the membrane and the extracellular fraction of the...”
- “...coA acetyl transferase 41/41.3 819/1.74 54 4.235 C 0.110M Thiolase domain 0.89 Nonsecretory protein 23. HMPREF0389_01570 Acetyl ornithine transaminase 43.9/44 550/1.22 52 0.203 C 0.432 CM AAT superfamily domain 0.89 Nonsecretory protein 24. HMPREF0389_00225 Transcriptional regulatory protein 48.3/47.9 64/0.09 5 0.128 CM No conserved domains 0.68...”
dat / B0VCM6 diaminobutyrate—2-oxoglutarate transaminase monomer (EC 2.6.1.76) from Acinetobacter baumannii (strain AYE) (see 2 papers)
AB57_2881 diaminobutyrate--2-oxoglutarate aminotransferase from Acinetobacter baumannii AB0057
35% identity, 79% coverage
PP_4481 aspartate aminotransferase family protein from Pseudomonas putida KT2440
PP4481 acetylornithine aminotransferase from Pseudomonas putida KT2440
34% identity, 88% coverage
H16_B0981 4-aminobutyrate--2-oxoglutarate transaminase from Cupriavidus necator H16
34% identity, 87% coverage
gabT / Q0K2K2 4-aminobutyrate aminotransferase monomer (EC 2.6.1.19) from Cupriavidus necator (strain ATCC 17699 / DSM 428 / KCTC 22496 / NCIMB 10442 / H16 / Stanier 337) (see paper)
Q0K2K2 4-aminobutyrate-2-oxoglutarate transaminase (EC 2.6.1.19) from Cupriavidus necator (see paper)
H16_B0981 4-Aminobutyrate aminotransferase from Ralstonia eutropha H16
34% identity, 86% coverage
alr2398 4-aminobutyrate aminotransferase from Nostoc sp. PCC 7120
34% identity, 82% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...PCC 7421 n.d. Glr0547, Glr3849, Gll2223 Glr2755, Glr3848, Gll1504, Gll2805 Nostoc sp. PCC 7120 Alr2310 Alr2398, Alr1080, All0396 Alr0540, Alr3771, All3556, All5022 Nostoc punctiforme PCC 73102 Npun02002114 Npun02005728, Npun02001164, Npun02001509 Npun02003702, Npun02006572, Npun02002895, Npun02002692 Anabaena variabilis ATCC 29413 Ava_0127 Ava_0214, Ava_3730, Ava_2839 Ava_2942, Ava_1554, Ava_3534, Ava_2258...”
- “...PCC 7421 Glr1758 Glr0547, Glr3849, Gll2223 Glr2755, Glr3848, Gll1504, Gll2805 Nostoc sp. PCC 7120 Alr4495 Alr2398, Alr1080, All0396 Alr0540, Alr3771, All3556, All5022 Nostoc punctiforme PCC 73102 Npun02001803 Npun02005728, Npun02001164, Npun02001509 Npun02003702, Npun02006572, Npun02002895, Npun02002692 Anabaena variabilis ATCC 29413 Ava_2273 Ava_0214, Ava_3730, Ava_2839 Ava_2942, Ava_1554, Ava_3534, Ava_2258...”
AFUA_2G12470, Afu2g12470 acetylornithine aminotransferase from Aspergillus fumigatus Af293
36% identity, 71% coverage
- Arginine Auxotrophy Affects Siderophore Biosynthesis and Attenuates Virulence of Aspergillus fumigatus
Dietl, Genes 2020 - “...synthase/ornithine acetyltransferase; Arg2 (AFUA_2G11490), acetylglutamate synthase; ArgEF (AFUA_6G02910), bifunctional acetylglutamate kinase and N-acetyl-gamma-glutamyl-phosphate reductase; Arg8 (AFUA_2G12470), acetylornithine aminotransferase; ArgB (AFUA_4G07190; in red), ornithine carbamoyltransferase; AmcA (AFUA_8G02760), mitochondrial ornithine exporter; AgaA (AFUA_3G11430), arginase; Cap1 (AFUA_5G06780), carbamoyl-phosphate synthase. Dashed lines indicate metabolic routes involving more than one enzyme....”
- Characterization of the Link between Ornithine, Arginine, Polyamine and Siderophore Metabolism in Aspergillus fumigatus
Beckmann, PloS one 2013 - “...of the three ornithine/arginine biosynthetic genes encoding acetylglutamate synthase (AFUA_2g11490), ArgEF (AFUA_6g02910) and acetylornithine aminotransferase (AFUA_2g12470) in A. fumigatus D141 ( Figure 6 ), as previously shown for strain ATCC 46645 [22] . CpcA-deficiency slightly upregulated the transcript levels of these genes during iron starvation (...”
- HapX-mediated adaption to iron starvation is crucial for virulence of Aspergillus fumigatus
Schrettl, PLoS pathogens 2010 - “...(B): 1, acetylglutamate synthetase (Afu2g11490) 2, acetylglutamate kinase and glutamate-5-semialdehyde dehydrogenase (Afu6g02910); 3, acetylornithine aminotransferase (Afu2g12470); 4, arginine biosynthesis bifunctional enzyme (Afu5g08120); 5, carbamoylphosphate synthase(Afu5g06780); 6, ornithine carbamoyltransferase (Afu4g07190); 7, arginase (Afu3g11430); 8, ornithine aminotransferase (Afu4g09140); 9, ornithine decarboxylase (Afu4g08010); 10, pyrroline carboxylate dehydrogenase (Afu6g08750); 11,...”
- The Aspergillus fumigatus transcriptional regulator AfYap1 represents the major regulator for defense against reactive oxygen intermediates but is dispensable for pathogenicity in an intranasal mouse infection model
Lessing, Eukaryotic cell 2007 - “...MetH/D (AFUA_4G07360)....................2.39 Aminotransferase (AFUA_2G12470) .........................................1.82 Peptidyl cis-trans isomerase...”
Pro1375 Ornithine/acetylornithine aminotransferase from Prochlorococcus marinus str. SS120
34% identity, 93% coverage
YP_001847319 4-aminobutyrate aminotransferase from Acinetobacter baumannii ACICU
35% identity, 79% coverage
- Norspermidine is not a self-produced trigger for biofilm disassembly
Hobley, Cell 2014 - “...BsubRocD, B.subtilis NCIB3610 RocD (YP_007536035); BsubArgD, B.subtilis NCIB3610 ArgD (YP_007533057); AbauDABAAT, A.baumannii ACICU DABA AT (YP_001847319); BmegDABAAT, B.megaterium QM B1551 DABA AT (YP_003564515); VchoDABAAT, V.cholerae O1 str. EM-1676A DABA AT (EMQ52370). Identical amino acid positions conserved only in the Gram-positive ( B.subtilis and B.megaterium ) and...”
A1S_2454 diaminobutyrate--2-oxoglutarate aminotransferase from Acinetobacter baumannii ATCC 17978
35% identity, 83% coverage
- Emergence of high colistin resistance in carbapenem resistant Acinetobacter baumannii in Pakistan and its potential management through immunomodulatory effect of an extract from Saussurea lappa
Ahsan, Frontiers in pharmacology 2022 - “...A1S_1585 DNA helicase GLu170Val A1S_2445 ATP binding protein Phe215Gln A1S_3424 Lipo protein precursor Nlp Leu119Phe A1S_2454 L-24-diaminobutyrate:2 ketoglutarate 4-aminotransferase Gly122Asp The reduced virulence associated with colistin resistance can be independent of mutations in pmrAB, lpxA, lpxB, or lpxD The CR-1 isolate was then tested for LPS...”
- Novel Genes Required for Surface-Associated Motility in Acinetobacter baumannii
Blaschke, Current microbiology 2021 - “...ddc l -2,4-Diaminobutyrate decarboxylase, biosynthesis of 1,3-diaminopropane (DAP) +++ Y N.s. **** N.s. N.s. S*** A1S_2454 dat l -2,4-Diaminobutyrate:2-ketoglutarate 4-aminotransferase, biosynthesis of 1,3-diaminopropane (DAP) +++ Y * **** N.s. N.s. S*** Lipopeptide synthesis/ export A1S_0113 Acyl-CoA dehydrogenase (putative lipoprotein biosynthesis) ++ N N.s. ** R* N.s....”
- “...N.s. S* S** N.s. 1,3-Diaminopropane biosynthesis A1S_2453 ddc ++ Y * ** S** S* N.s. A1S_2454 dat + Y N.s. * S** N.s. R* Lipopeptide synthesis/export A1S_0116 + N N.s. N.s. N.s. N.s. N.s. DNA modification/repair/uptake A1S_0222 aamA + N * N.s. N.s. R** N.s. A1S_2610...”
- genetic determinants of intrinsic colistin tolerance in Acinetobacter baumannii
Hood, Infection and immunity 2013 - “...Intergenic Gene A1S_3185 A1S_1142 A1S_1143 A1S_2793 A1S_2454 A1S_2023 A1S_2024 A1S_3025 Glutamate synthase subunit alpha Aspartate kinase Hypothetical protein...”
ACIAD1210 diaminobutyrate--2-oxoglutarate aminotransferase (L-diaminobutyric acid transaminase) (Diaminobutyrate transaminase) (DABA aminotransferase) (DABA-AT) (L-2,4-diaminobutyrate:2-ketoglutarate 4-aminotransferase) from Acinetobacter sp. ADP1
35% identity, 79% coverage
- Characterization of a novel β-alanine biosynthetic pathway consisting of promiscuous metabolic enzymes
Perchat, The Journal of biological chemistry 2022 - “...with l -glutamate dehydrogenase. We detected activity for three -transaminases: ACIAD3446 (GabT), ACIAD1284 (AstC), and ACIAD1210 (Dat). Specific activities were 94, 3.4, and 5.9nmolmin 1 mg 1 , respectively (see the Experimental procedures section). GabT, AstC, and Dat were purified for further characterization, but the activity...”
- Unique features revealed by the genome sequence of Acinetobacter sp. ADP1, a versatile and naturally transformation competent bacterium
Barbe, Nucleic acids research 2004 - “...two enzymes are present in Acinetobacter ADP1 (ACIAD1210 and ACIAD1211). Also present are agmatine ureohydrolase (ACIAD1299), and putative ornithine 5773 and...”
SAR11_0502 Acetylornithine aminotransferase from Candidatus Pelagibacter ubique HTCC1062
36% identity, 91% coverage
YPTB1959 succinylornithine aminotransferase from Yersinia pseudotuberculosis IP 32953
34% identity, 89% coverage
PD0654 succinylornithine aminotransferase from Xylella fastidiosa Temecula1
35% identity, 90% coverage
An15g02360 uncharacterized protein from Aspergillus niger
35% identity, 76% coverage
A0A140N9B6 succinylornithine transaminase (EC 2.6.1.81) from Escherichia coli (see paper)
35% identity, 87% coverage
ECs2454 acetylornithine delta-aminotransferase from Escherichia coli O157:H7 str. Sakai
Z2780 acetylornithine delta-aminotransferase from Escherichia coli O157:H7 EDL933
35% identity, 87% coverage
YPO1962 succinylornithine aminotransferase from Yersinia pestis CO92
34% identity, 88% coverage
- Differential Gene Expression Patterns of Yersinia pestis and Yersinia pseudotuberculosis during Infection and Biofilm Formation in the Flea Digestive Tract
Chouikha, mSystems 2019 - “...response regulator 3.2 3.9 YPTB1934 YPO1936 Aminotransferase 2.0 7.8 YPTB1937 YPO1939 Glutaminase 4.8 3.3 YPTB1959 YPO1962 argD Succinylornithine/acetylornithine transaminase 2.2 2.2 YPTB3107 YPO0863 YaeF/YiiX family of permuted papain-like enzymes 2.5 2.1 YPTB3361 YPO0700 Fimbrial protein 2.1 2.4 YPTB3534 YPO3699 PliI-like periplasmic lysozyme inhibitor 2.3 9.7 YPTB3582...”
- Studying Salmonellae and Yersiniae host-pathogen interactions using integrated 'omics and modeling
Ansong, Current topics in microbiology and immunology 2013 - “...missing genes. A search for paralogs of YPO0170, the missing gene in lysine biosynthesis, uncovered YPO1962, a potential open reading frame with 59 % nucleotide identity that might have the same catalytic ability; however, there were no apparent paralogs for fabI, the missing gene in fatty...”
- An experimentally-supported genome-scale metabolic network reconstruction for Yersinia pestis CO92
Charusanti, BMC systems biology 2011 - “...step in the nine-step lysine biosynthesis pathway, but argD (YPO0170) is disrupted in YP CO92. YPO1962 has the greatest homology to YPO0170 within the Y. pestis CO92 genome, and we hypothesize here that YPO1962 can replace the function of YPO0170. Note: although each reaction in each...”
- “...genome that have homology to both YPO0170 fragments. The gene with the greatest homology was YPO1962 with 59% nucleotide identity, and we have assumed in the model that YPO1962 can replace YPO0170 in the lysine biosynthetic pathway (Figure 2B ). Phenotype simulations Once all critical gaps...”
- Characterization of Zur-dependent genes and direct Zur targets in Yersinia pestis
Li, BMC microbiology 2009 - “...to +52 YPO1963 astA -44 to -26 AAAGTTACGTCGTAACGTT 8.2 -165 to +124 -165 to +124 YPO1962 astC -478 to -460 AATATTATTACATAACCGT 4.4 -498 to -2 --- YPO2374 rovA --- --- 0 -493 to -87 --- YPO2367 gst --- --- 0 --- -571 to -217 , The...”
AstC / b1748 succinylornithine transaminase (EC 2.6.1.81; EC 2.6.1.11) from Escherichia coli K-12 substr. MG1655 (see 8 papers)
astC / P77581 succinylornithine transaminase (EC 2.6.1.81; EC 2.6.1.11) from Escherichia coli (strain K12) (see 6 papers)
ASTC_ECOLI / P77581 Succinylornithine transaminase; SOAT; Carbon starvation protein C; Succinylornithine aminotransferase; EC 2.6.1.81 from Escherichia coli (strain K12) (see paper)
astC / RF|NP_416262.1 succinylornithine transaminase; EC 2.6.1.81 from Escherichia coli K12 (see 5 papers)
A7ZML6 Succinylornithine transaminase from Escherichia coli O139:H28 (strain E24377A / ETEC)
b1748 succinylornithine transaminase, PLP-dependent from Escherichia coli str. K-12 substr. MG1655
35% identity, 87% coverage
- function: Catalyzes the transamination of N(2)-succinylornithine and alpha-ketoglutarate into N(2)-succinylglutamate semialdehyde and glutamate. Can also act as an acetylornithine aminotransferase. Is involved in the utilization of arginine as a nitrogen source, via the AST pathway, and seems also to play a role in ornithine catabolism (PubMed:9696779).
catalytic activity: N(2)-succinyl-L-ornithine + 2-oxoglutarate = N-succinyl-L- glutamate 5-semialdehyde + L-glutamate (RHEA:16953)
cofactor: pyridoxal 5'-phosphate
disruption phenotype: Cells lacking this gene lose the ability to grow on arginine as the nitrogen source. The disruption of this gene also impairs ornithine catabolism. - Peptidylarginine Deiminase Inhibitors Reduce Bacterial Membrane Vesicle Release and Sensitize Bacteria to Antibiotic Treatment
Kosgodage, Frontiers in cellular and infection microbiology 2019 - “...protein L13 rplM 99365 135.62 P0AA45 Ribosomal small subunit pseudouridine synthase A rsuA 50727 162.27 A7ZML6 Succinylornithine transaminase astC 232079 73.58 B7MPT2 Curved DNA binding protein cbpA 6123.2 90.68 P69911 Glutamate decarboxylase beta gadB 387378 72.46 A7ZY39 Cyclic pyranopterin monophosphate synthase accessory protein moaC 17232 67.03...”
- Toward Single Bacterium Proteomics
Végvári, Journal of the American Society for Mass Spectrometry 2023 - “...PdeC pdeC P32701 [3643] [K].SEVNNQLR.[T] 1189.64 595.33 +2 41.77 4 177.29 25.00% succinylornithine transaminase astC P77581 [353360] [K].QISQEAAK.[A] 1333.77 667.39 +2 45.17 1 189.61 6.25% elongation factor Tu2 tufB P0CE48 [178188] [K].ALEGDAEWEAK.[I] 1676.89 559.64 +3 63.80 10 127.64 50.00% 11 2-iminobutanoate/2-iminopropanoate deaminase ridA P0AF93 [5258] [R].QSLDNVK.[A]...”
- Knowns and Unknowns of Vitamin B6 Metabolism in Escherichia coli
Tramonti, EcoSal Plus 2021 (secret) - Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...family (P36839, P94427, P53555, P71084, P30949, P33189, O34662, P38021, P22256, P50457, P12995, P23893, P48247, P18335, P77581, O30508, Q9I606, Q9I6 M4, Q9I693, Q9I700, Q9I6J2, Q9I6R7, Q9HV04, Q9HTP1, Q9HWU0, Q9HT50, P48247, Q9I168, P12677, Q82 MM1, P21267, P40732, Q8ZPV2, Q8ZLX7), Thiamine Diphosphate Decarboxylase family (P96591, P37251, P23970, Q04789, P42415,...”
- Transcriptional responses of Escherichia coli during recovery from inorganic or organic mercury exposure
LaVoie, BMC genomics 2018 - “...b1684 sufA Scaffold protein for assembly of iron-sulfur clusters 32 39 5 n.s. 3 n.s. b1748 astC Succinylornithine transaminase; carbon starvation protein 30 31 25 34 36 n.s. b4663 azuC Function unknown; membrane-associated 27 25 36 41 49 n.s. b0484 copA Copper-, silver-translocating P-type ATPase efflux...”
- “...n.s. b3686 ibpB Chaperone, heat-inducible protein of HSP20 family 402 124 281 37 211 9 b1748 astC Succinylornithine transaminase; carbon starvation protein 30 31 25 34 36 n.s. b3469 zntA Zn(II), Cd(II), and Pb(II) translocating P-type ATPase 40 19 8 29 22 n.s. b2582 trxC Thioredoxin...”
- Improved Metabolic Models for E. coli and Mycoplasma genitalium from GlobalFit, an Algorithm That Simultaneously Matches Growth and Non-Growth Data Sets
Hartleb, PLoS computational biology 2016 - “...PPS b2383 2x10 -22 2x10 -22 b3176 PGAMT b2048 3x10 -16 1x10 -18 b3359 SDPTA b1748 1x10 -180 1x10 -180 Solving FNp: Removing biomass components Removing metabolites from the biomass reaction can convert FNp to TPp, as all genes involved in the production (or, if the...”
- Genome-Scale Mapping of Escherichia coli σ54 Reveals Widespread, Conserved Intragenic Binding
Bonocora, PLoS genetics 2015 - “...b1488 ddpX 34 10.511 P OS17 1830088 7 C TGGC ACGAACCC TGC A 1830087 - b1748 astC 62 11.294 C OS18 1864820 6 A TGGC ATGAGAG TTGC T 1864820 + b1783 yeaG 93 10.573 P OS19 2060018 24 C TGGC AAGCATC TTGC A 2060021 - b1988...”
- 18th Congress of the European Hematology Association, Stockholm, Sweden, June 13–16, 2013
, Haematologica 2013 - Gap-filling analysis of the iJO1366 Escherichia coli metabolic network reconstruction for discovery of metabolic functions
Orth, BMC systems biology 2012 - “...folP (b3177) none identified yrbG (b3196) none identified kdsC (b3198) none identified argD (b3359) astC (b1748) 1.00E-146 gabT (b2662) 3.00E-64 puuE (b1302) 3.00E-54 patA (b3073) 4.00E-52 hemL (b0154) 3.00E-32 cysG (b3368) none identified ilvE (b3770) pabC (b1096) 8.00E-8 dapF (b3809) none identified argC (b3958) none identified...”
- Promoter and regulon analysis of nitrogen assimilation factor, sigma54, reveal alternative strategy for E. coli MG1655 flagellar biosynthesis
Zhao, Nucleic acids research 2010 - “...b3686 ibpB g small heat shock protein Adaptations, atypical conditions 4.4 2.1 185 168 aaccTGGTAAATGGTTTGCTGTatat b1748 astC g succinylornithine transaminase, also has acetylornitine transaminase activity, PLP-dependent Amino acid biosynthesis: Arginine 3.1 2.1 88 71 tggcTGGCACGAACCCTGCAATctac b3421 rtcB g conserved hypothetical protein Unknown 2.1 2.1 54 37...”
- Reconfiguring the quorum-sensing regulator SdiA of Escherichia coli to control biofilm formation via indole and N-acylhomoserine lactones
Lee, Applied and environmental microbiology 2009 - “...functionc b1469 b1482 b1739 b1628 b1744 b1745 b1746 b1747 b1748 b2000 b2097 b2210 b2465 b2661 b2662 b2663 b2724 b2873 b3012 b3049 b3175 b3230 b3311 b3426 b3447...”
- A semi-supervised method for predicting transcription factor-gene interactions in Escherichia coli
Ernst, PLoS computational biology 2008 - “...CRP b1498, ydeN 1 Yes Also implicated based on conserved motif analysis in [10] IHF b1748, astC 1 DNaseI footprinting evidence [58] Fis b3864, spf 1 ChIP-chip signal peak in promoter region that did not meet stringent threshold [25] FNR b1256, ompW 1 1 Yes LacZ...”
- More
SAUSA300_0187 ornithine--oxo-acid transaminase from Staphylococcus aureus subsp. aureus USA300_FPR3757
33% identity, 93% coverage
- CcpA regulates arginine biosynthesis in Staphylococcus aureus through repression of proline catabolism
Nuxoll, PLoS pathogens 2012 - “...2.3.1.35/2.3.1.1; argB (acetylglutamate kinase), SAUSA300_0184, EC 2.7.2.8; argC (N-acetyl-gamma-glutamyl-phosphate-reductase), SAUSA300_0186, EC 1.2.1.38; argD (acetylornithine transaminase), SAUSA300_0187, EC 2.6.1.11; argF (ornithine carbamoyl transferase), SAUSA300_1062, EC 2.1.3.3; argG (argininosuccinate synthase), SAUSA300_0864, EC 6.3.4.5; and argH (argininosuccinate lyase), SAUSA300_0863, EC 4.3.2.1. However, as previously reported and confirmed in this...”
A8A0U0 Succinylornithine transaminase from Escherichia coli O9:H4 (strain HS)
34% identity, 87% coverage
4adbB / P77581 Structural and functional study of succinyl-ornithine transaminase from e. Coli (see paper)
35% identity, 89% coverage
- Ligand: pyridoxal-5'-phosphate (4adbB)
YPTS_2011 succinylornithine transaminase family protein from Yersinia pseudotuberculosis PB1/+
YPK_2229 succinylornithine transaminase family protein from Yersinia pseudotuberculosis YPIII
34% identity, 82% coverage
- Impact of MgtC on the Fitness of Yersinia pseudotuberculosis
Li, Pathogens (Basel, Switzerland) 2023 - “...transporter substrate-binding protein 6.125791 1.59 10 6 YPTS_3843 Malate synthase A 5.255804 1.16 10 10 YPTS_2011 Aspartate aminotransferase family protein 5.083721 1.85 10 7 YPTS_3842 Isocitrate lyase 5.081315 4.39 10 9 YPTS_2313 Acid shock protein 3.712933 8.92 10 24 YPTS_0225 Glycerol-3-phosphate dehydrogenase subunit GlpB 3.838456 7.86...”
- Genome-Scale Mapping Reveals Complex Regulatory Activities of RpoN in Yersinia pseudotuberculosis
Mahmud, mSystems 2020 - “...3.5 5.2 TTGGAATAGTTGATGCAT 9.94 54,70 YPK_2070 39 IGS14 2473234 4.3 NA 4.5 GTGGCACGAAAGCTGCTG 10 54,24,38,70 YPK_2229 E,S 12, 38, 52 IGS15 2990747 16.9 7.7 8.0 ATGGCATCTTATTTGCTC + 10.51 54,38,70 YPK_2707 6, 31 IGS16 3172389 16.6 14.6 11.7 TTGGCATGGCAATTGCGC 10.63 NA YPK_2873 NA IGS17 3205379 15.4 15.3...”
- “...with orthologs in E. coli , S . Typhimurium, and V. cholerae , for example, YPK_2229, YPK_2908, and YPK_1600, with orthologs in E. coli and S. Typhimurium ( Table3 ). There were also many novel binding sites identified in Y. pseudotuberculosis , where a majority were...”
SA0179 ornithine aminotransferase from Staphylococcus aureus subsp. aureus N315
33% identity, 93% coverage
PSHAa0194 acetylornithine transaminase (NAcOATase and DapATase), PLP-dependent from Pseudoalteromonas haloplanktis TAC125
34% identity, 90% coverage
- Modelling microbial metabolic rewiring during growth in a complex medium
Fondi, BMC genomics 2016 - “...motif found upstream of its genes Cluster name Motif name Genes Weblogo Cluster 2 ArgR PSHAa0194, PSHAa0698,PSHAa2175, PSHAa2287, PSHAa2290, PSHAa2291, PSHAa2292, PSHAb0333, PSHAb0428, PSHAb0543 Cluster 3 CcpA PSHAa0189, PSHAa0609, PSHAa0740, PSHAa1167, PSHAa1648, PSHAa1649, PSHAa1650, PSHAa1651, PSHAa2167, PSHAb0082, PSHAb0345 Cluster 6 GalR PSHAa0603, PSHAa0871, PSHAa1364, PSHAa1767, PSHAa2301,...”
slr1022 / P73133 bifunctional acetylornithine transaminase/4-aminobutyrate—2-oxoglutarate transaminase (EC 2.6.1.19; EC 2.6.1.11) from Synechocystis sp. (strain PCC 6803 / Kazusa) (see 4 papers)
ARGD_SYNY3 / P73133 Acetylornithine aminotransferase; ACOAT; EC 2.6.1.11 from Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa) (see 2 papers)
P73133 acetylornithine transaminase (EC 2.6.1.11); 4-aminobutyrate-2-oxoglutarate transaminase (EC 2.6.1.19) from Synechococcus sp. PCC 6803 (see paper)
slr1022 N-acetylornithine aminotransferase from Synechocystis sp. PCC 6803
34% identity, 84% coverage
- function: Catalyzes the reversible conversion of N-acetylornithine to N-acetylglutamate-5-semialdehyde (PubMed:36982927). In vitro, also shows very low ornithine aminotransferase (OAT) and gamma-aminobutyrate aminotransferase (GABA-AT) activity, catalyzing the conversion of ornithine (Orn) to glutamate-5-semialdehyde and of gamma-aminobutyric acid (GABA) to succinate semialdehyde (PubMed:36982927). It has been shown to function as a GABA-AT and contributes to closing the tricarboxylic acid cycle of Synechocystis sp. PCC6803 via the GABA shunt (PubMed:24989231). However, the catalytic efficiency toward N- acetylornithine is 2500-fold and 10700-fold higher than that toward ornithine and gamma-aminobutyrate, respectively, indicating that the protein mainly functions as an N-acetylornithine aminotransferase (PubMed:36982927).
catalytic activity: N(2)-acetyl-L-ornithine + 2-oxoglutarate = N-acetyl-L- glutamate 5-semialdehyde + L-glutamate (RHEA:18049)
cofactor: pyridoxal 5'-phosphate (Binds 1 pyridoxal phosphate per subunit.)
subunit: Homodimer.
disruption phenotype: Mutant lacking this gene cannot grow in BG11 medium without the addition of citrulline or arginine (PubMed:24989231). The level of succinate in the mutant is reduced to 30-35% of that in the wild-type strain (PubMed:24989231). - Arginine inhibits the arginine biosynthesis rate-limiting enzyme and leads to the accumulation of intracellular aspartate in Synechocystis sp. PCC 6803
Katayama, Plant molecular biology 2024 - “...the GT strain, respectively (Fig. 2 c). The expression levels of the gene encoding argD (slr1022) and aspC (sll0402) were not significantly different among the GT, ArgGOX, and ArgHOX strains (Fig. 2 c). We also measured RNA expression of the argB gene encoding NAGK that is...”
- “...Liu J Li Z Kinetic characterization and catalytic mechanism of N -acetylornithine aminotransferase encoded by slr1022 gene from Synechocystis sp. PCC 6803 Int J Mol Sci 2023 24 5853 10.3390/ijms24065853 36982927 Liu D Yang C The nitrogen-regulated response regulator NrrA controls cyanophycin synthesis and glycogen catabolism...”
- Kinetic Characterization and Catalytic Mechanism of N-Acetylornithine Aminotransferase Encoded by slr1022 Gene from Synechocystis sp. PCC6803
Li, International journal of molecular sciences 2023 - “...36982927 10.3390/ijms24065853 ijms-24-05853 Article Kinetic Characterization and Catalytic Mechanism of N -Acetylornithine Aminotransferase Encoded by slr1022 Gene from Synechocystis sp. PCC6803 Li Zhi-Min 1 Bai Fumei 2 Wang Xiaoqin 2 Xie Congcong 2 Wan Yuting 2 Li Yating 2 Liu Jianping 2 3 * https://orcid.org/0000-0001-7036-9282 Li...”
- “...of the Creative Commons Attribution (CC BY) license ( https://creativecommons.org/licenses/by/4.0/ ). The enzyme encoded by slr1022 gene from Synechocystis sp. PCC6803 was reported to function as N -acetylornithine aminotransferase, -aminobutyric acid aminotransferase, and ornithine aminotransferase, which played important roles in multiple metabolic pathways. Among these functions,...”
- Chlorophyll biosynthesis under the control of arginine metabolism
Kiss, Cell reports 2023 - “...of the Synechocystis model strains The argD and cphB strains were constructed by replacing the slr1022 and slr2001 genes by erythromycin or spectinomycin resistance cassettes, respectively. The primers in the megaprimer PCR method used for mutagenesis are listed in TableS5 . The segregation of argD locus...”
- “...Y. Liu J. Li Z. Kinetic characterization and catalytic mechanism of N-acetylornithine aminotransferase encoded by slr1022 gene from Synechocystis sp. PCC 6803 Int. J. Mol. Sci. 24 2023 5853 10.3390/ijms24065853 36982927 33 Baers L.L. Breckels L.M. Mills L.A. Gatto L. Deery M.J. Stevens T.J. Howe C.J....”
- Phycobilisome breakdown effector NblD is required to maintain the cellular amino acid composition during nitrogen starvation
Krauspe, Journal of bacteriology 2021 (secret) - Improved sugar-free succinate production by Synechocystis sp. PCC 6803 following identification of the limiting steps in glycogen catabolism
Hasunuma, Metabolic engineering communications 2016 - “...2.48 2.52 2.28 NAD(P)H-quinone oxidoreductase subunit H sll0080 argC 2.47 2.48 2.61 N -acetyl-gamma-glutamyl-phosphate reductase slr1022 argD 2.45 2.78 3.44 acetylornithine aminotransferase ssr3383 apcC 2.44 2.45 1.66 phycobilisome LC linker polypeptide sll0920 ppc 2.38 2.87 2.47 phosphoenolpyruvate carboxylase slr0665 acnB 2.33 2.77 2.16 bifunctional aconitate hydratase...”
- Natural and Synthetic Variants of the Tricarboxylic Acid Cycle in Cyanobacteria: Introduction of the GABA Shunt into Synechococcus sp. PCC 7002
Zhang, Frontiers in microbiology 2016 - “...Purification, and Identification Open reading frames sll1641 ( gadA ), encoding the glutamate decarboxylase, and slr1022 ( argD ), encoding the N- acetylornithine aminotransferase of Synechocystis 6803, as well as open reading frame SYNPCC7002_A0326 ( argD ), encoding the N- acetylornithine aminotransferase of Synechococcus 7002, were...”
- The proteome and lipidome of Synechocystis sp. PCC 6803 cells grown under light-activated heterotrophic conditions
Plohnke, Molecular & cellular proteomics : MCP 2015 - “...shunt were detected, and the N-acetylornithine aminotransferase (Slr1022) was significantly increased in LAHG cultures. Increased abundance of proteins involved...”
- The γ-aminobutyric acid shunt contributes to closing the tricarboxylic acid cycle in Synechocystis sp. PCC 6803
Xiong, Molecular microbiology 2014 (PubMed)- “...series of mutant strains, sll1981, slr0370, slr1022 and combinations thereof, deficient in 2-oxoglutarate decarboxylase (Sll1981), succinate semialdehyde...”
- “...(Slr0370), and/or in -aminobutyrate metabolism (Slr1022) were constructed. Like in Pseudomonas aeruginosa, N-acetylornithine aminotransferase, encoded by...”
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NWMN_0129 ornithine aminotransferase from Staphylococcus aureus subsp. aureus str. Newman
33% identity, 93% coverage
KPHS_46340 putrescine aminotransferase from Klebsiella pneumoniae subsp. pneumoniae HS11286
36% identity, 74% coverage
- Use of a combined antibacterial synergy approach and the ANNOgesic tool to identify novel targets within the gene networks of multidrug-resistant Klebsiella pneumoniae
Lee, mSystems 2024 - “...and forms an integrative network with KPHS_02470 (glucose-6-phosphate), KPHS_09830 (hypothetical protein), KPHS_09840 (hypothetical protein), and KPHS_46340 (putrescine). Notably, a lysine riboswitch is associated with KPHS_02470. ( F ) Decreased levels of KPHS_31520 (phosphoenolpyruvate synthase) and KPHS_31750 (6-phosphofructokinase), along with increased levels of KPHS_51710 (triosephosphate isomerase), KPHS_31180...”
- “...KPHS_23680 (enoyl-CoA hydratase), which is involved in phenylalanine metabolism, is linked to KPHS_23740. Downregulation of KPHS_46340 (putrescine aminotransferases) and KPHS_43350 (acetyl-CoA acetyltransferase) results in a connection with the target gene KPHS_28070, which is a novel noncoding sRNA. KPHS_02470 (glucose-6-phosphate isomerase) is a positively expressed lysine riboswitch-associated...”
PMT0331 Acetylornithine and succinylornithine aminotransferases from Prochlorococcus marinus str. MIT 9313
34% identity, 88% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...P9211_10217 P9211_07012 Prochlorococcus marinus MIT 9312 PMT9312_1779 PMT9312_1397, PMT9312_1565 PMT9312_0337 Prochlorococcus marinus MIT 9313 PMT2214 PMT0331, PMT1493 PMT0191 Prochlorococcus marinus MED 4 PMM1686 PMM1301, PMM1472 PMM0331 Prochlorococcus marinus NATL 2A PMN2A_1287 PMN2A_0867, PMN2A_1003 PMN2A_1709 Synechococcus sp. CC 9605 Syncc9605_1082, Syncc9605_2591 Syncc9605_0858, Syncc9605_2052, Syncc9605_0659 Syncc9605_0497 Synechococcus sp....”
- “...P9211_10217 P9211_07012 Prochlorococcus marinus MIT 9312 n.d. PMT9312_1397, PMT9312_1565 PMT9312_0337 Prochlorococcus marinus MIT 9313 n.d. PMT0331, PMT1493 PMT0191 Prochlorococcus marinus MED 4 n.d. PMM1301, PMM1472 PMM0331 Prochlorococcus marinus NATL 2A n.d. PMN2A_0867, PMN2A_1003 PMN2A_1709 Synechococcus sp. CC 9605 n.d. Syncc9605_0858, Syncc9605_2052, Syncc9605_0659 Syncc9605_0497 Synechococcus sp. CC...”
t1182 succinylornithine transaminase from Salmonella enterica subsp. enterica serovar Typhi Ty2
36% identity, 87% coverage
ASTC_SALTY / Q8ZPV2 Succinylornithine transaminase; SOAT; Succinylornithine aminotransferase; EC 2.6.1.81 from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see paper)
STM14_1582 aspartate aminotransferase family protein from Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
STM1303 succinylornithine transaminase, also has acetylornitine transaminase activity from Salmonella typhimurium LT2
36% identity, 87% coverage
- function: Catalyzes the transamination of N(2)-succinylornithine and alpha-ketoglutarate into N(2)-succinylglutamate semialdehyde and glutamate. Can also act as an acetylornithine aminotransferase.
catalytic activity: N(2)-succinyl-L-ornithine + 2-oxoglutarate = N-succinyl-L- glutamate 5-semialdehyde + L-glutamate (RHEA:16953)
cofactor: pyridoxal 5'-phosphate - Probing the ArcA regulon under aerobic/ROS conditions in Salmonella enterica serovar Typhimurium
Morales, BMC genomics 2013 - “...- 125 GTTAACCAGATGTTA 2.00E-06 L-lactate permease + 136 GTTAACTATTTGTTG 5.20E-06 - 173 GTTAATTTAATGAAA 1.90E-05 STM1303 STM14_1582 argD 2.63 1.11 2.95 - 40 GTTATTTATATGTTA 2.80E-05 bifunctional succinylornithine transaminase + 112 GTTTATGCAATGTTA 5.70E-05 A location of the binding sequence is in bp upstream of the translation start site...”
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...Q9I693, Q9I700, Q9I6J2, Q9I6R7, Q9HV04, Q9HTP1, Q9HWU0, Q9HT50, P48247, Q9I168, P12677, Q82 MM1, P21267, P40732, Q8ZPV2, Q8ZLX7), Thiamine Diphosphate Decarboxylase family (P96591, P37251, P23970, Q04789, P42415, P07003, P0AEP7, P08142, P00892, P00893, P17109, P0AFI0, Q9HTQ7, Q9I3L0, Q9HVA0, Q9I3S7, Q9HUI8, Q9HUR2, Q9I280, Q9I207, Q9HYA3, Q9HWK1, Q8ZQF0, Q8ZNE8, Q8ZR85,...”
- Use of a promiscuous, constitutively-active bacterial enhancer-binding protein to define the σ⁵⁴ (RpoN) regulon of Salmonella Typhimurium LT2
Samuels, BMC genomics 2013 - “...glnH 16 + 20.8 897079 897062 TGGCATGATTTTTTCATT STM1285 yeaG 4.1 + 21.5 1363884 1363867 TGGCATGAGAGTTGCTTT STM1303 astC 4.0 + 21.7 1382105 1382122 TGGCACGAATGCTGCAAT STM1690 pspA 23 + 20.3 1782486 1782469 TGGCACGCAAATTGTATT STM2355 argT 3.5 + 16.2 2466359 2466376 TGGCATAAGACCTGCATG STM2360 4.8 + 23.6 2472731 2472714 TGGCATGCCTTTTGCTTT...”
- Probing the ArcA regulon under aerobic/ROS conditions in Salmonella enterica serovar Typhimurium
Morales, BMC genomics 2013 - “...6.83 - 125 GTTAACCAGATGTTA 2.00E-06 L-lactate permease + 136 GTTAACTATTTGTTG 5.20E-06 - 173 GTTAATTTAATGAAA 1.90E-05 STM1303 STM14_1582 argD 2.63 1.11 2.95 - 40 GTTATTTATATGTTA 2.80E-05 bifunctional succinylornithine transaminase + 112 GTTTATGCAATGTTA 5.70E-05 A location of the binding sequence is in bp upstream of the translation start...”
- Global transcriptional analysis of dehydrated Salmonella enterica serovar Typhimurium
Gruzdev, Applied and environmental microbiology 2012 - “...argE (STM4120) argC (STM4121) argB (STM4122) argD (STM1303) argI (STM4469) (Continued on following page) 7868 aem.asm.org Applied and Environmental Microbiology...”
- Mass spectrometry-based quantitative proteomic analysis of Salmonella enterica serovar Enteritidis protein expression upon exposure to hydrogen peroxide
Kim, BMC microbiology 2010 - “...29% STM1296 Putative oxidoreductase ydjA 20.13 6.75 29% STM1302 Exonuclease III xthA 30.79 6.19 23% STM1303 Succinylornithine transaminase astC 43.72 6.13 34% STM1310 NAD synthetase nadE 30.57 5.36 27% STM1378 Pyruvate kinase I pykF 50.66 5.66 31% STM1431 Superoxide dismutase sodB 21.35 5.58 35% STM1544 PhoPQ-regulated...”
- “...dehydrogenase gapA 31 3% STM1296 Putative oxidoreductase ydjA -30 5% STM1302 Exonuclease III xthA 0% STM1303 Succinylornithine transaminase astC 41 7% STM1310 NAD synthetase nadE 9 1% STM1378 Pyruvate kinase I pykF 87 12% STM1431 Superoxide dismutase sodB 110 20% STM1544 PhoPQ-regulated protein pqaA 19 2%...”
A0A0E1X760 Ornithine aminotransferase from Staphylococcus aureus subsp. aureus MN8
34% identity, 90% coverage
ECs3523 4-aminobutyrate aminotransferase activity from Escherichia coli O157:H7 str. Sakai
37% identity, 80% coverage
WP_000069444 4-aminobutyrate--2-oxoglutarate transaminase from Shigella dysenteriae
37% identity, 80% coverage
- The scale-free nature of protein sequence space
Buchholz, PloS one 2018 - “...dehydrogenase subunit Gammaproteo-bacteria WP_044256366 266 oTA putrescine aminotransferase Enterobacter cloacae WP_042715413 381 aspartate aminotransferase Shigella WP_000069444 378 SDR GDP-mannose 4,6-dehydratase Helicobacter pylori WP_058338748 312 Dimensions of protein sequence networks As a further network property, the fractal network dimension D f was evaluated by counting the number...”
SSPN_RS0106580 aspartate aminotransferase family protein from Saccharopolyspora spinosa NRRL 18395
34% identity, 82% coverage
3q8nC / A0QQ04 Crystal structure of 4-aminobutyrate transaminase from mycobacterium smegmatis (see paper)
36% identity, 82% coverage
- Ligand: 4-oxobutanoic acid (3q8nC)
YE2469 succinylornithine aminotransferase from Yersinia enterocolitica subsp. enterocolitica 8081
33% identity, 88% coverage
- Comparison of Yersinia enterocolitica DNA Methylation at Ambient and Host Temperatures
Van, Epigenomes 2023 - “...from TSS R putative cyclic-di-GMP phosphodiesterase. 2435785 55 from TSS 2435803 73 from TSS 2656973 YE2469 369 from TSS MT ArgM, bifunctional succinylornithine transaminase/acetylornithine transaminase 2857854 YE2639 318 from TSS M putative transporter protein 3351041 YE3081 ORF MT WbcD, putative 6-deoxy-D-Gul transferase YE3080 191 from TSS...”
SXYL_00238 ornithine--oxo-acid transaminase from Staphylococcus xylosus
33% identity, 93% coverage
PatA / b3073 putrescine aminotransferase (EC 2.6.1.29) from Escherichia coli K-12 substr. MG1655 (see 3 papers)
patA / P42588 putrescine aminotransferase (EC 2.6.1.82; EC 2.6.1.29) from Escherichia coli (strain K12) (see 15 papers)
PAT_ECOLI / P42588 Putrescine aminotransferase; PAT; PATase; Cadaverine transaminase; Diamine transaminase; Putrescine transaminase; Putrescine--2-oxoglutaric acid transaminase; Putrescine:2-OG aminotransferase; EC 2.6.1.82; EC 2.6.1.29 from Escherichia coli (strain K12) (see 8 papers)
P42588 putrescine-2-oxoglutarate transaminase (EC 2.6.1.82) from Escherichia coli (see 4 papers)
b3073 putrescine:2-oxoglutaric acid aminotransferase, PLP-dependent from Escherichia coli str. K-12 substr. MG1655
NP_417544 putrescine aminotransferase from Escherichia coli str. K-12 substr. MG1655
ETEC_3343 putrescine aminotransferase from Escherichia coli ETEC H10407
34% identity, 76% coverage
- function: Catalyzes the aminotransferase reaction from putrescine to 2- oxoglutarate, leading to glutamate and 4-aminobutanal, which spontaneously cyclizes to form 1-pyrroline (PubMed:12617754, PubMed:3510672). This is the first step in one of two pathways for putrescine degradation, where putrescine is converted into 4- aminobutanoate (gamma-aminobutyrate or GABA) via 4-aminobutanal, which allows E.coli to grow on putrescine as the sole nitrogen source (PubMed:22636776, PubMed:3510672). Also functions as a cadaverine transaminase in a a L-lysine degradation pathway to succinate that proceeds via cadaverine, glutarate and L-2-hydroxyglutarate (PubMed:12617754, PubMed:30498244). Is also able to transaminate spermidine, in lower extent, but not ornithine. Alpha-ketobutyrate and pyruvate can also act as amino acceptors, although much less efficiently (PubMed:12617754).
catalytic activity: an alkane-alpha,omega-diamine + 2-oxoglutarate = an omega- aminoaldehyde + L-glutamate (RHEA:18217)
catalytic activity: putrescine + 2-oxoglutarate = 1-pyrroline + L-glutamate + H2O (RHEA:12268)
catalytic activity: cadaverine + 2-oxoglutarate = 5-aminopentanal + L-glutamate (RHEA:61624)
cofactor: pyridoxal 5'-phosphate
subunit: Homodimer.
disruption phenotype: Cells lacking this gene show a high decrease in putrescine aminotransferase activity, but are still able to grow with putrescine as the sole nitrogen source. However, a mutant lacking both patA and either puuA, puuB or puuC cannot grow with putrescine as the sole nitrogen source. - Polyamine and Ethanolamine Metabolism in Bacteria as an Important Component of Nitrogen Assimilation for Survival and Pathogenicity
Krysenko, Medical sciences (Basel, Switzerland) 2022 - “...permease PuuP (b1296)/PlaP (b2014) PA5510 SCO5057 Lysine/ornithine decarboxylase-like enzyme - - SCO5651 Pyruvate-polyamine aminotransferase PatA (b3073) SpuC (PA0299) SCO5655 Lrp/AsnC family transcriptional regulator - - SCO5656 -aminobutyraldehyde or -glutamyl--amino-butyraldehyde dehydrogenase PatD (b1444)/PuuC (b1300) BetB (PA5373)/PAO219 SCO5657 Polyamine-binding lipoprotein PotF (b0854) SpuD (PA0300) SCO5658 -aminobutyraldehyde dehydrogenase or...”
- Genome-Scale Mapping of Escherichia coli σ54 Reveals Widespread, Conserved Intragenic Binding
Bonocora, PLoS genetics 2015 - “...- b2887 ygfT 36 4.529 OS33 3217457 10 G TGGC GCAATCCC TGC A 3217461 + b3073 patA 36 8.711 C OS34 3416975 29 C TGGC ACTACTT TTGC T 3416975 + b3268 yhdW 70 12.521 P OS35 3556144 17 C TGGC ACGACGG TTGC A 3556148 - b3421...”
- Genome-scale analysis of escherichia coli FNR reveals complex features of transcription factor binding
Myers, PLoS genetics 2013 - “...None [18] 1,030,741 yccA b0970 Putative Transport Protein 1 71.5 o None None 3,217,259 ygjG b3073 Putrescine Aminotransferase 1 96.5 None None 1,014,801 rmf b0953 Ribosome Modulation Factor 1 98.5 + o None None 4,231,491 lysC b4024 Aspartate Kinase III 2 115.5 + o None None...”
- Pathway and enzyme redundancy in putrescine catabolism in Escherichia coli
Schneider, Journal of bacteriology 2012 - “...are indicated in the bottom half, except for patA (b3073). The solid arrows indicate the genes and the direction of transcription, drawn to scale. There are...”
- Gap-filling analysis of the iJO1366 Escherichia coli metabolic network reconstruction for discovery of metabolic functions
Orth, BMC systems biology 2012 - “...(b3198) none identified argD (b3359) astC (b1748) 1.00E-146 gabT (b2662) 3.00E-64 puuE (b1302) 3.00E-54 patA (b3073) 4.00E-52 hemL (b0154) 3.00E-32 cysG (b3368) none identified ilvE (b3770) pabC (b1096) 8.00E-8 dapF (b3809) none identified argC (b3958) none identified argB (b3959) none identified hemE (b3997) none identified ubiC...”
- Promoter and regulon analysis of nitrogen assimilation factor, sigma54, reveal alternative strategy for E. coli MG1655 flagellar biosynthesis
Zhao, Nucleic acids research 2010 - “...for HycE of hydrogenlyase 3 Energy metabolism, carbon: Anaerobic respiration 2.4 1.3 46 29 acacTGGCACAATTATTGCTTGtagc b3073 ygjG putative acetylornithine aminotransferase, PLP-dependent Amino acid biosynthesis: Arginine 7.1 1.2 35 18 ggagTGGCGCAATCCCTGCAATactt a b no. indicates Blattner number. b It is possible that one gene has several different...”
- Genome-wide analysis of the general stress response network in Escherichia coli: sigmaS-dependent genes, promoters, and sigma factor selectivity
Weber, Journal of bacteriology 2005 - “...ycaC yfcF ygjG yhfW yjcS yjgB yncG b0453 b0897 b2301 b3073 b3380 b4083 b4269 b1454 ysgA b3830 Regulation (11) bolA b0435 chaB csiR b1217 b2664 gadW b3515 gadX...”
- Sulfur and nitrogen limitation in Escherichia coli K-12: specific homeostatic responses
Gyaneshwar, Journal of bacteriology 2005 - “...oval in panel B are ompF (b0929), yeaG (b1783), and ygiG (b3073). The gene in the green oval for glutathione is cbl, which is also included in the genes in the...”
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- Two mechanisms for putrescine-dependent transcriptional expression of the putrescine aminotransferase gene, ygjG, in Escherichia coli.
Kim, Archives of microbiology 2014 (PubMed)- GeneRIF: rpoS is required for putrescine-dependent ygjG-lacZ expression, but the effect of putrescine on this expression is not caused by simple modulation of RpoS synthesis
- Crystallization and preliminary X-ray crystallographic analysis of YgjG from Escherichia coli.
Yeo, Acta crystallographica. Section F, Structural biology and crystallization communications 2012 - GeneRIF: crystal belonged to the primitive orthorhombic space group P2(1)2(1)2(1), with unit-cell parameters a = 121.1, b = 129.5, c = 131.3 A, and is estimated to contain four molecules of YgjG per asymmetric unit
- Molecular cloning and characterization of Escherichia coli K12 ygjG gene.
Samsonova, BMC microbiology 2003 - GeneRIF: Expression of E. coli K12 ygjG coding region revealed sigma54-depended ORF which encodes a 459-amino acid protein with putrescine:2-OG aminotransferase activity.
- Halomonas elongata: a microbial source of highly stable enzymes for applied biotechnology
Benítez-Mateos, Applied microbiology and biotechnology 2023 - “...composition of a halotolerant aminotransferase enzyme (Uniprot: E1V913) and its homolgous from E. coli (Uniprot: P42588). Asp and Glu residues are highlighted in red, while Phe, Leu, and Ile are depicted in white Apart from their negatively charged exposed residues, the composition of bulky hydrophobic residues...”
- Knowns and Unknowns of Vitamin B6 Metabolism in Escherichia coli
Tramonti, EcoSal Plus 2021 (secret) - Crystallization and preliminary X-ray crystallographic analysis of YgjG from Escherichia coli
Yeo, Acta crystallographica. Section F, Structural biology and crystallization communications 2012 - “...of YgjG The gene encoding YgjG (UniProt accession No. P42588) was amplified by polymerase chain reaction (PCR) with Pfu DNA polymerase from chromosomal DNA of...”
- Molecular cloning and characterization of Escherichia coli K12 ygjG gene
Samsonova, BMC microbiology 2003 - “...gene of 1290 bp (denoted downstream as ORF1) which codes 429-amino acid polypeptide (SWISS-PROT Database, P42588) is situated 126 nucleotides downstream of the mRNA start. Analysis of the nucleotide sequence revealed the other ORF (denoted as ORF2) encoding 459-amino acid protein with UUG initiation codon (Fig....”
- Integrated Metabolic Modeling, Culturing, and Transcriptomics Explain Enhanced Virulence of Vibrio cholerae during Coinfection with Enterotoxigenic Escherichia coli
Abdel-Haleem, mSystems 2020 - “...Co-culture2993, however, are able to degrade putrescine into glutamate by putrescine transaminase ( patA : ETEC_3343) or into glutamate and succinate through the gamma-glutamyl putrescine synthetase ( puuA : ETEC_1401)/oxidoreductase ( puuB : ETEC_1405) pathway, both being absent in the V. cholerae genome. Similarly, V. cholerae...”
DA471_RS02540 ornithine--oxo-acid transaminase from Staphylococcus aureus
34% identity, 91% coverage
Igni_0944 N2-acetyl-L-lysine aminotransferase from Ignicoccus hospitalis KIN4/I
34% identity, 96% coverage
- Multi-omics analysis provides insight to the Ignicoccus hospitalis-Nanoarchaeum equitans association
Rawle, Biochimica et biophysica acta. General subjects 2017 - “...culture STRING interaction map ( Figure 2 ). I. hospitalis Culture Gene Identifier Annotation Type Igni_0944 N2-acetyl-L-lysine aminotransferase t N2-Acetyl-L-Lysine m Igni_0945 Hypothetical protein t Igni_0445 Succinate dehydrogenase iron-sulfur subunit m Igni_0085 Succinyl-CoA synthetase (ADP-forming) alpha subunit t Igni_0086 Succinyl-CoA synthetase (ADP-forming) beta subunit t Succinate...”
AGT22_ARATH / Q94AL9 Alanine--glyoxylate aminotransferase 2 homolog 2, mitochondrial; Beta-alanine-pyruvate aminotransferase 2; EC 2.6.1.44 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT2G38400 AGT3 (ALANINE:GLYOXYLATE AMINOTRANSFERASE 3); alanine-glyoxylate transaminase/ catalytic/ pyridoxal phosphate binding / transaminase from Arabidopsis thaliana
34% identity, 74% coverage
- catalytic activity: glyoxylate + L-alanine = glycine + pyruvate (RHEA:24248)
cofactor: pyridoxal 5'-phosphate
subunit: Homotetramer (By similarity). Interacts with GRF3. - Synthesis of β-Alanine From Isoleucine and Propionate Catabolism via Aminotransferases
Goldfarb, Plant direct 2024 - “...prokaryotic homologs, we identified two other possible aminotransferases in Arabidopsis : alanine:glyoxylate aminotransferase 3 (AGT3, At2g38400) and the aminobutyrate aminotransferase pollenpistil incompatibility 2 (POP2, At3g22200) (Figure S1A ). AGT3 shares 71% identity with PYD4 and POP2 shows at least 22% identity with AGT3 and PYD4 as...”
- Comparison of the Effects of UV-C Light in the Form of Flash or Continuous Exposure: A Transcriptomic Analysis on Arabidopsis thaliana L
, International journal of molecular sciences 2024 - Photosynthetic and transcriptome responses to fluctuating light in Arabidopsis thylakoid ion transport triple mutant
Gollan, Plant direct 2023 - “...0.005 Photorespiration GOX1 AT3G14420 Glycolate/glyoxylate catabolism 1.0 1.1 0.000 AGT1 AT2G13360 1.1 1.1 0.000 AGT3 AT2G38400 1.6 1.9 0.000 GGT2 AT1G70580 1.2 1.4 0.000 GLPD2 AT2G26080 1.7 1.8 0.000 GLN1;1 AT5G37600 1.4 1.7 0.000 Note : Gene expression >2FC upregulated is colored light blue; >2FC downregulated...”
- The Arabidopsis thaliana gene annotated by the locus tag At3g08860 encodes alanine aminotransferase
Parthasarathy, Plant direct 2019 - “...44 genes are annotated as putative alanine aminotransferases with the following loci tags: At2g13360, At4g39660, At2g38400, At1g23310, At1g70580, At1g17290, At1g72330, and At3g08860 (Liepman & Olsen, 2004 ; Niessen et al., 2012 ). The literature mostly supports the idea that Lalanine accumulates during hypoxia with an increase...”
- “...). At4g39660 is therefore considered a candidate for a alanine:pyruvate aminotransferase and is homologous to At2g38400, At3g08860, and Zm01g05170, a maize gene linked to alanine metabolism (Wu et al., 2016 ). Although genomewide analysis and knockout studies link all four genes into a large gene family...”
- Combined Use of Genome-Wide Association Data and Correlation Networks Unravels Key Regulators of Primary Metabolism in Arabidopsis thaliana
Wu, PLoS genetics 2016 - “...-alanine and AGT2 . In A . thaliana , AGT2 shows sequence homology to AGT3 (AT2G38400) and PYD4 (AT3G08860). Interestingly, PYD4 is predicted to have -alanine aminotransferase activity. Additionally, in maize, -alanine mapped to a genetic locus harboring the homolog gene (ZM01G05170) of AGT2 , which...”
- “...= 0.1 amino-acid substitutions per site. The following gene sequences were used for the analysis: AT2G38400, AT3G08860, AT4G39660 ( A . thaliana ); AL3G08940, AL4G24720, AL7G01820 ( A . lyrata ); BR01G00590, BR03G19080, BR03G31870, BR08G19740 ( Brassica rapa) ; GM18G02440, GM05G31630, GM08G14850 ( Glycine max );...”
- Identification of cleavage sites and substrate proteins for two mitochondrial intermediate peptidases in Arabidopsis thaliana
Carrie, Journal of experimental botany 2015 - “...FTSH protease 4 Q QSSYVGSFAR SSYVGSFAR 36 AT2G31955 Cofactor of nitrate reductase F SSSYAAHQVDQIKDNPVSDMLIDKFGR 37 AT2G38400 Alanine:glyoxylate aminotransferase 3 I SSTSQAATASVKDSDEFQAR 38 AT2G39795 Mitochondrial glycoprotein family protein Y STAIDRISSEQTLIR 39 AT2G43360 Radical SAM superfamily protein Y YSSLSAASAEAER SSLSAASAEAER 40 AT2G47510 Fumarase 1 Y STSFREERDTFGPIQVPSDKLWGAQTQR 41 AT3G02090...”
- Widespread dual targeting of proteins in land plants: when, where, how and why
Carrie, Plant signaling & behavior 2013 - “...Arabidopsis thaliana Arabidopsis thaliana At2g29990 At2g38400 Arabidopsis thaliana At2g14120 Arabidopsis thaliana At1g07180 Arabidopsis thaliana Arabidopsis...”
- Phosphonate analogs of 2-oxoglutarate perturb metabolism and gene expression in illuminated Arabidopsis leaves
Araújo, Frontiers in plant science 2012 - “...AT3G45300, isovaleryl CoA dehydrogenase; AT4G33150, saccharopine dehydrogenase); (iii) genes encoding enzymes associated with nitrogen metabolism (AT2G38400, AGT3; alanine glyoxylate aminotransferase; At5g18170, GDH1, glutamate dehydrogenase; At5g07440, GDH2, glutamate dehydrogenase); (iv) two methyl transferase genes; and (v) genes associated with RNA processing. Among the genes that were up-regulated...”
- “...acid transaminase 252415_at At3g47340 0.50 ASN1; dark inducible 6 248050_at At5g56100 0.50 Glycine-rich protein 267035_at At2g38400 0.51 AGT3; alanine glyoxylate aminotransferase 3 264261_at At1g09240 0.54 TNAS3; nicotianamine synthase 3 261135_at At1g19610 0.55 LCR78/PDF1.4; low-molecular-weight cysteine-rich 78 267138_s_at At2g38230 0.55 ATPDX1.1; pyridoxine biosynthesis 1.1 245349_at At4g16690 0.58...”
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ECs3955 putrescine--2-oxoglutarate aminotransferase from Escherichia coli O157:H7 str. Sakai
34% identity, 75% coverage
- Whole-Transcriptome Analysis of Verocytotoxigenic Escherichia coli O157:H7 (Sakai) Suggests Plant-Species-Specific Metabolic Responses on Exposure to Spinach and Lettuce Extracts
Crozier, Frontiers in microbiology 2016 - “...; 38121-fold induced), heavy-metal resistance (e.g., cusBX ; 5681-fold induced), putrescine metabolism (e.g., ygjG , ECs3955; 5265-fold induced), multidrug eux (e.g., sugE ; 33-fold induced) and osmotic stress ( proVW ; 25-fold). In addition, a cluster of genes (ECs1653-1655; 1428-fold) of unknown function was strongly induced...”
- Global transcriptional response of Escherichia coli O157:H7 to growth transitions in glucose minimal medium
Bergholz, BMC microbiology 2007 - “...ygiS -2.33 1 ECs3278 gltX -2.47 1 ECs3948 rpsU -3.14 1 ECs3286 cysK -3.68 1 ECs3955 ygjG 5.55 2 ECs3293 cysA -2.71 1 ECs3963 ygjL 4.06 2 ECs3302 yfeX -2.24 1 ECs3979 yqjC 2.12 2 ECs3322 - 2.10 2 ECs3980 yqjD 2.28 2 ECs3323 - 2.15...”
KR75_05020 putrescine aminotransferase from Klebsiella variicola
35% identity, 74% coverage
- Molecular mechanism of endophytic bacteria DX120E regulating polyamine metabolism and promoting plant growth in sugarcane
Qin, Frontiers in plant science 2024 - “...4567649-4568509 KR75_20310 spermidine acetyltransferase speG 2908943-2909503 Degradation and transporters KR75_04635 bifunctional glutathionylspermidine amidase/synthase gss 712705-714570 KR75_05020 putrescine aminotransferase ygjG 633588-634967 KR75_09810 Fe 3+ /spermidine/putrescine ABC transporter ATP-binding protein 5129965-5130996 KR75_09825 spermidine/putrescine ABC transporter permease 5127048-5127905 KR75_09940 spermidine/putrescine ABC transporter substrate-binding protein 5101970-5102389 KR75_16570 spermidine/putrescine ABC transporter...”
argD / CAB82482.1 acetylornithine aminotransferase from Streptomyces clavuligerus (see 3 papers)
34% identity, 91% coverage
8r2pD / P38507,P42588 Yzwideal x16 a scaffold for cryo-em of small proteins of interest crystallizing in space group 19 (p 21 21 21)
34% identity, 69% coverage
- Ligand: pyridoxal-5'-phosphate (8r2pD)
GabT / b2662 4-aminobutyrate aminotransferase GabT (EC 2.6.1.19; EC 2.6.1.48; EC 2.6.1.11) from Escherichia coli K-12 substr. MG1655 (see 29 papers)
gabT / P22256 4-aminobutyrate aminotransferase GabT (EC 2.6.1.19; EC 2.6.1.48; EC 2.6.1.11) from Escherichia coli (strain K12) (see 28 papers)
GABT_ECOLI / P22256 4-aminobutyrate aminotransferase GabT; 5-aminovalerate transaminase; GABA aminotransferase; GABA-AT; Gamma-amino-N-butyrate transaminase; GABA transaminase; Glutamate:succinic semialdehyde transaminase; L-AIBAT; EC 2.6.1.19; EC 2.6.1.48 from Escherichia coli (strain K12) (see 6 papers)
NP_417148 4-aminobutyrate aminotransferase GabT from Escherichia coli str. K-12 substr. MG1655
b2662 4-aminobutyrate aminotransferase from Escherichia coli str. K-12 substr. MG1655
37% identity, 80% coverage
- function: Pyridoxal phosphate-dependent enzyme that catalyzes transamination between primary amines and alpha-keto acids. Catalyzes the transfer of the amino group from gamma-aminobutyrate (GABA) to alpha-ketoglutarate (KG) to yield succinic semialdehyde (SSA) and glutamate (PubMed:15723541, PubMed:30498244). Thereby functions in a GABA degradation pathway that allows some E.coli strains to utilize GABA as a nitrogen source for growth (PubMed:12446648). Also catalyzes the conversion of 5-aminovalerate to glutarate semialdehyde, as part of a L-lysine degradation pathway that proceeds via cadaverine, glutarate and L-2-hydroxyglutarate (PubMed:30498244).
catalytic activity: 4-aminobutanoate + 2-oxoglutarate = succinate semialdehyde + L-glutamate (RHEA:23352)
catalytic activity: 5-aminopentanoate + 2-oxoglutarate = 5-oxopentanoate + L- glutamate (RHEA:10212)
cofactor: pyridoxal 5'-phosphate
subunit: Homotetramer.
disruption phenotype: Cells lacking this gene are not able to utilize GABA as a nitrogen source, in contrast to wild-type, but grow normally with arginine, ornithine, putrescine and agmatine (PubMed:12446648). Cells show only 68% of the wild-type GABA aminotransferase activity (PubMed:20639325). - Stereospecific production of the herbicide phosphinothricin (glufosinate) by transamination: isolation and characterization of a phosphinothricin-specific transaminase from Escherichia coli.
Schulz, Applied and environmental microbiology 1990 - GeneRIF: N-terminus verified by Edman degradation on complete protein
- Evolutionary origin and functional diversification of aminotransferases
Koper, The Journal of biological chemistry 2022 - “...enzyme ( Fig.5 B ). Based on the crystal structure of E.coli GABA AT (gabT, P22256) ( 140 ) ( Fig.5 ), an additional S112 residue interacts with the phosphate group, and V241 and Q242 interact with the pyridine ring of PLP ( Fig.5 C )....”
- Knowns and Unknowns of Vitamin B6 Metabolism in Escherichia coli
Tramonti, EcoSal Plus 2021 (secret) - Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...P37759, P0AC88, P27830), Class III Aminotransferase family (P36839, P94427, P53555, P71084, P30949, P33189, O34662, P38021, P22256, P50457, P12995, P23893, P48247, P18335, P77581, O30508, Q9I606, Q9I6 M4, Q9I693, Q9I700, Q9I6J2, Q9I6R7, Q9HV04, Q9HTP1, Q9HWU0, Q9HT50, P48247, Q9I168, P12677, Q82 MM1, P21267, P40732, Q8ZPV2, Q8ZLX7), Thiamine Diphosphate Decarboxylase...”
- Novel archaeal alanine:glyoxylate aminotransferase from Thermococcus litoralis
Sakuraba, Journal of bacteriology 2004 - “...P16246 P17736 P17731 P18335 P18544 P04181 P07991 P28269 P22256 P17649 P14010 P19938 P00510 P21549 P23721 P19689 P10658 1708172Aa P12995 P22805 Accession number...”
- Predicting functional family of novel enzymes irrespective of sequence similarity: a statistical learning approach.
Han, Nucleic acids research 2004 - “...2.7 Intestinalguanylate cyclase (P70106) EC 4.6 2.60E12 E1->F1;E2->F1 Glutamate-1-semialdehyde aminotransferase (Q06774) EC 5.4 4-aminobutyrate aminotransferase (P22256) EC 2.6 5.70E32 E1->F1;E2->F2 + Exodeoxyribonuclease (P37454) EC 3.1 DNA- (apurinic or apyrimidinic site) lyase (P43138) EC 4.2 1.60E96 E1->F1;E2->F2 + E1-> F1 or E2 -> F2 indicates that enzyme...”
- Gap-filling analysis of the iJO1366 Escherichia coli metabolic network reconstruction for discovery of metabolic functions
Orth, BMC systems biology 2012 - “...identified yrbG (b3196) none identified kdsC (b3198) none identified argD (b3359) astC (b1748) 1.00E-146 gabT (b2662) 3.00E-64 puuE (b1302) 3.00E-54 patA (b3073) 4.00E-52 hemL (b0154) 3.00E-32 cysG (b3368) none identified ilvE (b3770) pabC (b1096) 8.00E-8 dapF (b3809) none identified argC (b3958) none identified argB (b3959) none...”
- Homotaurine metabolized to 3-sulfopropanoate in Cupriavidus necator H16: enzymes and genes in a patchwork pathway
Mayer, Journal of bacteriology 2009 - “...2-oxoglutarate aminotransferase; GABA transaminase) (EC 2.6.1.19; b2662), whose structure has been published (33); and the dehydrogenase GabD...”
- Reconfiguring the quorum-sensing regulator SdiA of Escherichia coli to control biofilm formation via indole and N-acylhomoserine lactones
Lee, Applied and environmental microbiology 2009 - “...b1745 b1746 b1747 b1748 b2000 b2097 b2210 b2465 b2661 b2662 b2663 b2724 b2873 b3012 b3049 b3175 b3230 b3311 b3426 b3447 b3453 b1488 b3540 b3541 b3542 b3588...”
- In silico atomic tracing by substrate-product relationships in Escherichia coli intermediary metabolism
Arita, Genome research 2003 - “...(EC 2.6.1.19), coded in the genes goaG (b1302) and gabT (b2662). However, this enzyme uses L-Glu as an amino acceptor, and L-Ala was shown not to be an acceptor...”
1sf2A / P22256 Structure of e. Coli gamma-aminobutyrate aminotransferase (see paper)
37% identity, 80% coverage
- Ligands: sulfate ion; pyridoxal-5'-phosphate (1sf2A)
Z3960 4-aminobutyrate aminotransferase activity from Escherichia coli O157:H7 EDL933
37% identity, 80% coverage
STY3396 putrescine--2-oxoglutarate aminotransferase from Salmonella enterica subsp. enterica serovar Typhi str. CT18
34% identity, 75% coverage
- Molecular cloning and characterization of Escherichia coli K12 ygjG gene
Samsonova, BMC microbiology 2003 - “...and enzyme activity. YgjG showed the greatest identity (94%) with a probable aminotransferase encoded by STY3396 gene from Salmonella enterica serovar Typhi CT18 (NP 457608) suggesting that STY3396 is likely to be PATase. We have purified Ht-YgjG recombinant protein and found that pH optimum and substrate...”
B7GEJ6 acetylornithine transaminase from Phaeodactylum tricornutum (strain CCAP 1055/1)
34% identity, 78% coverage
AM326 acetylornithine aminotransferase from Anaplasma marginale str. St. Maries
35% identity, 94% coverage
ESA_01203 hypothetical protein from Enterobacter sakazakii ATCC BAA-894
34% identity, 78% coverage
FUT48_13600 4-aminobutyrate--2-oxoglutarate transaminase from Pseudomonas sp. JG-B
33% identity, 85% coverage
Q18040 Probable ornithine aminotransferase, mitochondrial from Caenorhabditis elegans
30% identity, 85% coverage
PSHAb0428 putative acetylornithine transaminase from Pseudoalteromonas haloplanktis TAC125
33% identity, 90% coverage
- Modelling microbial metabolic rewiring during growth in a complex medium
Fondi, BMC genomics 2016 - “...name Motif name Genes Weblogo Cluster 2 ArgR PSHAa0194, PSHAa0698,PSHAa2175, PSHAa2287, PSHAa2290, PSHAa2291, PSHAa2292, PSHAb0333, PSHAb0428, PSHAb0543 Cluster 3 CcpA PSHAa0189, PSHAa0609, PSHAa0740, PSHAa1167, PSHAa1648, PSHAa1649, PSHAa1650, PSHAa1651, PSHAa2167, PSHAb0082, PSHAb0345 Cluster 6 GalR PSHAa0603, PSHAa0871, PSHAa1364, PSHAa1767, PSHAa2301, PSHAb0295 Cluster 2. This cluster, as described...”
- Coping with cold: the genome of the versatile marine Antarctica bacterium Pseudoalteromonas haloplanktis TAC125
Médigue, Genome research 2005 - “...Continued Proteins size Locus Against osmotic shock PSHAb0426 PSHAb0427 PSHAb0428 Helicases [DEA(DH)] PSHAa0109 Gene name Chr. 489 2 345 402 2 2 463 dbpA 1...”
SA0818 ornithine--oxo-acid transaminase from Staphylococcus aureus subsp. aureus N315
Q6GAW9 Ornithine aminotransferase 2 from Staphylococcus aureus (strain MSSA476)
SAV0957 ornithine--oxo-acid transaminase from Staphylococcus aureus subsp. aureus Mu50
SAOUHSC_00894 ornithine aminotransferase, putative from Staphylococcus aureus subsp. aureus NCTC 8325
SAUSA300_0860 Ornithine aminotransferase from Staphylococcus aureus subsp. aureus USA300_FPR3757
SACOL0960 ornithine aminotransferase from Staphylococcus aureus subsp. aureus COL
CH51_RS04860 ornithine--oxo-acid transaminase from Staphylococcus aureus
34% identity, 91% coverage
- Exposure of clinical MRSA heterogeneous strains to β-lactams redirects metabolism to optimize energy production through the TCA cycle
Keaton, PloS one 2013 - “...SA2318 8.4 hypothetical protein Similar to L-serine dehydratase (catalyses deamination of serine to form pyruvate). SA0818 rocD 4.2 ornithine-oxo-acid transaminase Involved in urea cycle and metabolism of amino groups. SA2341 rocA 4.8 1-pyrroline-5-carboxylate dehydrogenase Involved in L-proline degradation into L-glutamate SA1585 3 hypothetical protein Similar to...”
- Characterizing the effects of inorganic acid and alkaline shock on the Staphylococcus aureus transcriptome and messenger RNA turnover
Anderson, FEMS immunology and medical microbiology 2010 - “...6.2 2.5 2.5 prfA SA2110 peptide chain release factor 1 sa_c8340s7313_at 3.4 2.5 2.5 prfB SA0818 peptide chain release factor 2 sa_c10084s8804_a_at 5.4 5 5 queA SA1695 S-adenosylmethionine:tRNA ribosyltransferase-isomerase sa_c1398s1173_at 3.4 2.5 2.5 rbfA SA1289 ribosome-binding factor A sa_c1316s1090_a_at * 3.8 2.5 2.5 rbgA SA1260 ribosomal...”
- Transcriptional signature following inhibition of early-stage cell wall biosynthesis in Staphylococcus aureus
O'Neill, Antimicrobial agents and chemotherapy 2009 - “...SA0422 SA0430 SA0431 SA0480 SA0481 SA0482 SA0612 SA0707 SA0818 SA0835 SA0845 SA0846 SA0847 SA0848 SA0849 SA0871 SA0883 SA0886 SA0958 SA1019 SA1163 SA1164 SA1165...”
- Transcriptome and functional analysis of the eukaryotic-type serine/threonine kinase PknB in Staphylococcus aureus
Donat, Journal of bacteriology 2009 - “...molecules SA0008 hutH Histidine ammonia lyase SA0818 rocD Ornithine aminotransferase SA0819 gudB NAD-specific glutamate dehydrogenase SA1348 bfmBAA...”
- “...prsA rocA rocD vraS SA0922 SA0925 SA0909 SA1691 SA0252 SA1659 SA2341 SA0818 SA1701 3.0 1.8 2.3 2.5 2.8 2.9 3.5 2.5 2.5 3.0 2.0 3.5 4.0 3.0 3.4 9.0 3.0 10.0 a...”
- Very low ethanol concentrations affect the viability and growth recovery in post-stationary-phase Staphylococcus aureus populations
Chatterjee, Applied and environmental microbiology 2006 - “...glutamate: ornithine by the ornithine aminotransferase (SA0818) and the 1-pyrroline-5-carboxylate dehydrogenase (SA2341) and proline by the proline...”
- Transcription profiling-based identification of Staphylococcus aureus genes regulated by the agr and/or sarA loci
Dunman, Journal of bacteriology 2001 - “...system IIB components SA2336 SA2425 SA0819 SA0818 SA1585 Conserved hypothetical Conserved hypothetical Conserved hypothetical Conserved hypothetical Conserved...”
- Multi-Omics Analysis Reveals Anti-Staphylococcus aureus Activity of Actinomycin D Originating from Streptomyces parvulus
Lin, International journal of molecular sciences 2021 - “...(Q8NXF3), 4,4-diaponeurosporen-aldehyde dehydrogenase (Q2FWX9), aminomethyltransferase (Q6GGG20), glycine cleavage system H protein (Q6GII3), ornithine aminotransferase 2 (Q6GAW9), 2-oxoglutarate dehydrogenase E1 component (Q6GGZ5), dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex (Q6GGZ6), formimidoylglutamase (Q6GEA1), and urocanate hydratase (Q6GEA4) were down-regulated, and all the proteins related to proline metabolism were...”
- The SAV1322 gene from Staphylococcus aureus: genomic and proteomic approaches to identification and characterization of gene function
Kim, BMC microbiology 2016 - “...A039 gi|15923948 NAD-specific glutamate dehydrogenase 970 gudB SAV0958 Down A046 gi|15923947 Ornithine--oxo-acid transaminase 1027 rocD SAV0957 Down A045 gi|15925103 Serine hydroxymethyltransferase 365 glyA SAV2113 Down A049 gi|15924192 Carbamoyl phosphate synthase small subunit 923 pyrAA SAV1202 Up A051 gi|15924159 Ornithine carbamoyltransferase 556 argF SAV1169 Up A060 gi|15924160...”
- Two novel point mutations in clinical Staphylococcus aureus reduce linezolid susceptibility and switch on the stringent response to promote persistent infection
Gao, PLoS pathogens 2010 - “...valine, leucine and isoleucine biosynthesis enzymes showed increased expression, as did genes such as rocD (SAV0957) and argJ (SAV0183) linked to ornithine and arginine production. Striking too was the up-regulation of the Opp3 oligopeptide transport system (SAV0986SAV0994). Opp3 facilitates the acquisition 48 aa-long peptides from the...”
- Microbial Metabolic Genes Crucial for S. aureus Biofilms: An Insight From Re-analysis of Publicly Available Microarray Datasets
Nassar, Frontiers in microbiology 2020 - “...sao00910 Nitrogen metabolism (KEGG) sao01100 Metabolic pathways (KEGG) sao01120 Microbial metabolism in diverse environments (KEGG) SAOUHSC_00894 rocD Upregulated Upregulated GO:0006561 proline biosynthetic process GO:0055129 L-proline biosynthetic process GO:0008652 cellular amino acid biosynthetic process sao00330 Arginine and proline metabolism (KEGG) sao01100 Metabolic pathways (KEGG) sao01110 Biosynthesis of...”
- Proteomic and Metabolomic Analyses of a Tea-Tree Oil-Selected Staphylococcus aureus Small Colony Variant
Torres, Antibiotics (Basel, Switzerland) 2019 - “...flavodoxin uncharacterized 2.5 SAOUHSC_00833 nitroreductase uncharacterized 1.9 SAOUHSC_00850 SUF system FeS assembly protein uncharacterized 1.6 SAOUHSC_00894 RocD ornithine-oxo-acid transaminase amino acid metabolism 1.8 SAOUHSC_00921 FabF 3-Oxoacyl-synthase lipid metabolism 1.8 SAOUHSC_00942 RelQ GTP pyrophosphokinase nucleotide metabolism 1.4 SAOUHSC_01178 CoaBC bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate-cysteine ligase cofactors and secondary metabolites...”
- The conserved regulatory RNA RsaE down-regulates the arginine degradation pathway in Staphylococcus aureus
Rochat, Nucleic acids research 2018 - “...11.9 SAOUHSC_00875 ndh2 Pyridine nucleotide-disulfide oxidoreductase 11.9 SAOUHSC_01017 purH Phosphoribosylaminoimidazolecarboxamide formyltransferase / IMP cyclohydrolase 10.9 SAOUHSC_00894 rocD Ornithine aminotransferase 10.7 SAOUHSC_00819 cspC Cold shock domain protein 10.4 Full results are available under GEO accession number GSE106327. Figure 3. Combining experiments to uncover RsaE-targets. Venn diagram showing...”
- Increased mutability of Staphylococci in biofilms as a consequence of oxidative stress
Ryder, PloS one 2012 - “...Biofilms/Planktonic SAOUHSC_00502 ctsR Transcriptional regulator CtsR 2.20 up SAOUHSC_00526 Putative ribosomal protein L7Ae-like 2.30 up SAOUHSC_00894 rocD2 Ornithine aminotransferase 2 2.61 up SAOUHSC_00895 Glutamate dehydrogenase, NAD-specific, putative 2.36 up SAOUHSC_01002 qoxA Probable quinol oxidase subunit 2 2.00 up SAOUHSC_01042 Dihydrolipoamide S-acetyltransferase component of pyruvate dehydrogenase complex...”
- Human Urine Alters Methicillin-Resistant Staphylococcus aureus Virulence and Transcriptome
Paudel, Applied and environmental microbiology 2021 (secret) - A Novel Mechanism of Inactivating Antibacterial Nitro Compounds in the Human Pathogen Staphylococcus aureus by Overexpression of a NADH-Dependent Flavin Nitroreductase
El-Hossary, Antimicrobial agents and chemotherapy 2018 - “...SAUSA300_1939 SAUSA300_1930 SAUSA300_1943 SAUSA300_1936 SAUSA300_0860 SAUSA300_01030 SAUSA300_0117 SAUSA300_1715 SAUSA300_1713 SAUSA300_1714 SAUSA300_0504...”
- Heparin Mimics Extracellular DNA in Binding to Cell Surface-Localized Proteins and Promoting Staphylococcus aureus Biofilm Formation
Mishra, mSphere 2017 - “...SAUSA300_1367 Cytidylate kinase 3 3 16 None SAUSA300_1696 d -Alanine aminotransferase 6 5 22 None SAUSA300_0860 Ornithine aminotransferase 6 6 21 None SAUSA300_1880 Glutamyl-tRNA amidotransferase 6 6 15 None SAUSA300_0234 Putative flavohemoprotein 11 7 25 None SAUSA300_0135 Superoxide dismutase 6 9 43 None SAUSA300_2067 Serine hydroxymethyltransferase...”
- In vitro and in vivo models of Staphylococcus aureus endophthalmitis implicate specific nutrients in ocular infection
Sadaka, PloS one 2014 - “...antiterminator, BglGfamily 28.3 (1.4) 28.3 (1.6) ig_SACOL0913 Intergenic region downstream ofSACOL0913 15.2 (1.9) 6.3 (2.4) SACOL0960 rocD2 Ornithine aminotransferase 10.0 (2.0) 3.5 (1.2) SACOL1360 Aspartate kinase 10.6 (5.9) 6.0 (1.3) SACOL1734 gapA2 Glyceraldehyde-3-phosphate dehydrogenase 10.4 (4.9) 6.8 (4.9) SACOL1784 acuA Acetoin utilization protein AcuA 13.7 (3.6)...”
- Staphylococcus aureus PhoU Homologs Regulate Persister Formation and Virulence
Shang, Frontiers in microbiology 2020 - “...2.03 ND CH51_RS12955 Biotin transporter BioY 6.42 ND Proline metabolism CH51_RS00845 Acetylglutamate kinase 2.01 ND CH51_RS04860 Ornithine aminotransferase 2 2.15 ND CH51_RS16020 Hypothetical protein 7.01 ND CH51_RS08555 Pyrroline-5-carboxylate reductase 2.49 ND Lysine biosynthesis CH51_RS07635 4-Hydroxy-tetrahydrodipicolinate reductase 2.12 ND CH51_RS07655 Diaminopimelate decarboxylase 2.37 ND CH51_RS13980 DUF2338 domain-containing...”
PODANS_3_9430 uncharacterized protein from Podospora anserina S mat+
35% identity, 82% coverage
- CLPP-Null Eukaryotes with Excess Heme Biosynthesis Show Reduced L-arginine Levels, Probably via CLPX-Mediated OAT Activation
Key, Biomolecules 2024 - “...PODANS_5_6860 (GSA 2,1-aminomutase), but also PODANS_7_10880 (ornithine delta-aminotransferase or OAT), the aminotransferases PODANS_6_1290, PODANS_7_5560, and PODANS_3_9430, according to the STRING Heidelberg webserver [ 24 ]. In mice, the closest HemL homolog is OAT, but it also has significant homology with PHYKPL (5-phosphohydroxy-L-lysine phospholyase), ETNPPL (ethanolamine-phosphate phospholyase),...”
Q8ZLX7 Putrescine aminotransferase from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
34% identity, 76% coverage
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...Q9I700, Q9I6J2, Q9I6R7, Q9HV04, Q9HTP1, Q9HWU0, Q9HT50, P48247, Q9I168, P12677, Q82 MM1, P21267, P40732, Q8ZPV2, Q8ZLX7), Thiamine Diphosphate Decarboxylase family (P96591, P37251, P23970, Q04789, P42415, P07003, P0AEP7, P08142, P00892, P00893, P17109, P0AFI0, Q9HTQ7, Q9I3L0, Q9HVA0, Q9I3S7, Q9HUI8, Q9HUR2, Q9I280, Q9I207, Q9HYA3, Q9HWK1, Q8ZQF0, Q8ZNE8, Q8ZR85, Q8ZL15,...”
STM3218 putrescine--2-oxoglutarate aminotransferase from Salmonella typhimurium LT2
34% identity, 75% coverage
WP_042715413 putrescine aminotransferase from Enterobacter mori
35% identity, 74% coverage
- The scale-free nature of protein sequence space
Buchholz, PloS one 2018 - “...Proteobacteria WP_001303675 259 DC pyruvate dehydrogenase subunit Gammaproteo-bacteria WP_044256366 266 oTA putrescine aminotransferase Enterobacter cloacae WP_042715413 381 aspartate aminotransferase Shigella WP_000069444 378 SDR GDP-mannose 4,6-dehydratase Helicobacter pylori WP_058338748 312 Dimensions of protein sequence networks As a further network property, the fractal network dimension D f was...”
PMN2A_0867 Aminotransferase class-III pyridoxal-phosphate:Acetylornithin... from Prochlorococcus marinus str. NATL2A
35% identity, 89% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...PMT1493 PMT0191 Prochlorococcus marinus MED 4 PMM1686 PMM1301, PMM1472 PMM0331 Prochlorococcus marinus NATL 2A PMN2A_1287 PMN2A_0867, PMN2A_1003 PMN2A_1709 Synechococcus sp. CC 9605 Syncc9605_1082, Syncc9605_2591 Syncc9605_0858, Syncc9605_2052, Syncc9605_0659 Syncc9605_0497 Synechococcus sp. CC 9902 Syncc9902_2230 Syncc9902_1534, Syncc9902_0620 Syncc9902_1838 Synechococcus sp. WH 8102 SYNW1412, SYNW2422 SYNW1634, SYNW0629 SYNW1956 Synechococcus...”
- “...PMT1493 PMT0191 Prochlorococcus marinus MED 4 n.d. PMM1301, PMM1472 PMM0331 Prochlorococcus marinus NATL 2A n.d. PMN2A_0867, PMN2A_1003 PMN2A_1709 Synechococcus sp. CC 9605 n.d. Syncc9605_0858, Syncc9605_2052, Syncc9605_0659 Syncc9605_0497 Synechococcus sp. CC 9902 n.d. Syncc9902_1534, Syncc9902_0620 Syncc9902_1838 Synechococcus sp. WH 8102 n.d. SYNW1634, SYNW0629 SYNW1956 Synechococcus sp. WH...”
NCU05410 acetylornithine aminotransferase from Neurospora crassa OR74A
38% identity, 76% coverage
- RNAseq and targeted metabolomics implicate RIC8 in regulation of energy homeostasis, amino acid compartmentation, and asexual development in <i>Neurospora crassa</i>
Quinn, mBio 2024 - “...(File S2), suggesting possible post-transcriptional regulation. Although the gna-3 mutant had reduced expression of arg-5 (NCU05410; File S2), arginine levels were normal, and glutamate (124%) and N-acetylglutamate (172%) amounts were actually elevated ( Fig. 3 ; File S3). The relative amounts of several metabolites involved in...”
- “...wild type. arg-14 = NCU07682, acetylglutamate synthase; arg-4 = NCU10468, N-acetylornithine-glutamate acetyl transferase; arg-5 = NCU05410, acetylornithine aminotransferase; arg-6 = NCU00567, acetylglutamate kinase; arg-2 = NCU07732, carbamoyl-phosphate synthase small subunit; arg-3 = NCU02677, carbamoyl-phosphate synthase large subunit; arg-12 = NCU01667, ornithine transcarbamylase; arg-1 = NCU02639, argininosuccinate...”
- Permissiveness and competition within and between Neurospora crassa syncytia
Mela, Genetics 2023 - “...numbers for the loci in this study are as follows: his-3 NCU04393; csr-1 NCU00726; arg-5 NCU05410; arg-12 NCU01667; ro-3 NCU03483; ro-10 NCU10696; tol NCU03378; cwr-1 NCU03180; cwr-2 NCU03182; rcd-1 NCU05712; so NCU02794; and fl NCU08726. Culturing and crossing, using Vogel's media ( Vogel 1964 ) and...”
- Cold Shock as a Screen for Genes Involved in Cold Acclimatization in Neurospora crassa
Watters, G3 (Bethesda, Md.) 2018 - “...or Biogenisis/ Cellular Process/Localization/Metabolic Process NCU07617 11254 dense aconidiate-3 acon-3 Morph/Hyph Biological Regulation/Developmental Process/ Reproduction NCU05410 16183 dense arginine-5 arg-5 E. coli CS Orth Binding Cellular Process/Metabolic Process NCU02114 11571 dense G1/S-specific cyclin Cln1 Morph/Hyph Binding Cellular Process NCU00144 11340 dense hypothetical protein Transc Factors NCU03120...”
- Use of 1H nuclear magnetic resonance to measure intracellular metabolite levels during growth and asexual sporulation in Neurospora crassa
Kim, Eukaryotic cell 2011 - “...pathways NCU01295/NCU10468 NCU00567 2.6.1.11 6.3.5.5 EC no. NCU05410 NCU07732 2.1.3.3 3.5.3.1 2.3.3.14 Broad gene no.a NCU01667 NCU02333 NCU05526 4.2.1.36...”
davT / Q9I6M4 5-aminovalerate aminotransferase (EC 2.6.1.48) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see 2 papers)
DAVT_PSEAE / Q9I6M4 5-aminovalerate aminotransferase DavT; 5-aminovalerate transaminase; Delta-aminovalerate aminotransferase; EC 2.6.1.48 from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
Q9I6M4 5-aminovalerate transaminase (EC 2.6.1.48) from Pseudomonas aeruginosa (see paper)
PA0266 4-aminobutyrate aminotransferase from Pseudomonas aeruginosa PAO1
34% identity, 83% coverage
- function: Catalyzes the conversion of 5-aminovalerate to 5- oxopentanoate.
catalytic activity: 5-aminopentanoate + 2-oxoglutarate = 5-oxopentanoate + L- glutamate (RHEA:10212)
cofactor: pyridoxal 5'-phosphate - Differential transcription profiling of the phage LUZ19 infection process in different growth media
Brandão, RNA biology 2021 (secret) - The development of a new parameter for tracking post-transcriptional regulation allows the detailed map of the Pseudomonas aeruginosa Crc regulon
Corona, Scientific reports 2018 - “...Hypothetical protein 1,39 0,96 1,33 Other siaB PA0171 Hypothetical protein 1,5 1,44 2,6 Catabolism gabT PA0266 Delta-aminovalerate aminotransferase 1,69 0,21 1,1 Catabolism spuA PA0297 Probable glutamine amidotransferase 0,39 0,6 2,11 Catabolism spuB PA0298 Glutamylpolyamine synthetase 0,51 0,53 2,01 Catabolism spuC PA0299 Polyamine:pyruvate transaminase 0,57 0,31 1,46...”
- A systems-level approach for investigating Pseudomonas aeruginosa biofilm formation
Xu, PloS one 2013 - “...PA0228 ( pcaF ) acetate metabolism Rxn#5 : 4-Aminobutanoate + 2-Oxoglutarate L-Glutamate + Succinic semialdehyde PA0266 ( gabT ) glutamate production Rxn#6 : 2 S-Adenosyl-L-methionine + Uroporphyrinogen III 2 S-Adenosyl-L-homocysteine + H+ + Dihydrosirohydrochlorin PA0510 ( nirE ) coenzyme B12 synthesis Rxn#7 : Ferrocytochrome c +...”
- Regulatory and metabolic networks for the adaptation of Pseudomonas aeruginosa biofilms to urinary tract-like conditions
Tielen, PloS one 2013 - “...which do not possess a Fur-binding box, as for example the cyo -operon (PA1317PA1321), gabT (PA0266), or PA4633 encoding a potential chemotaxis transducer. These genes were found up regulated in the experiment performed by Ochsner and coworker but not in our experiments [66] . Moreover, they...”
- Structure and activity of the Pseudomonas aeruginosa hotdog-fold thioesterases PA5202 and PA2801
Gonzalez, The Biochemical journal 2012 - “...deletion on the expression of three groups of P. aeruginosa genes involved in ketone-body metabolism (PA0266, PA0447, PA1999, PA2003, PA2011, and PA5015), pyocyanin biosynthesis (PA4209, PA4210, PA4211, and PA4214), and pyocyanin-induced shock response (PA2274, PA4205, and PA4206) ( Table 3 ). After three hours of growth,...”
- “...encoded or gene name Relative expression 2 PA5202 (LB) wild type (LB--KBA) PA5202 (LB--KBA) I PA0266 4-aminobutyrate aminotransferase 1.6 0.1 0.60 0.01 0.80 0.01 PA0447 Glutaryl-CoA dehydrogenase 0.60 0.01 0.30 0.01 0.20 0.02 PA1999 3-ketoacid-CoA transferase 1.0 0.1 1.0 0.1 0.70 0.01 PA2003 3-Hydroxybutyrate dehydrogenase 1.4...”
- Functional characterization of seven γ-Glutamylpolyamine synthetase genes and the bauRABCD locus for polyamine and β-Alanine utilization in Pseudomonas aeruginosa PAO1
Yao, Journal of bacteriology 2011 - “...transaminase Transcriptional regulator; LysR family PA0265 PA0266 gabD gabT 448 721 6,923 9,244 4,434 6,136 Succinate semialdehyde dehydrogenase...”
- The novel Pseudomonas aeruginosa two-component regulator BfmR controls bacteriophage-mediated lysis and DNA release during biofilm development through PhdA
Petrova, Molecular microbiology 2011 - “...PA5210 - - - probable secretion pathway ATPase PA4938 purA - - - adenylosuccinate synthetase PA0266 gabT - - - 4-aminobutyrate aminotransferase Protein detected on a silver stained 2D-PAGE gel; - Protein not detected on a silver stained 2D-PAGE gel. Table 2 COMSTAT analysis a of...”
- The novel two-component regulatory system BfiSR regulates biofilm development by controlling the small RNA rsmZ through CafA
Petrova, Journal of bacteriology 2010 - “...factor IF-2 Exoribonuclease RNase R Metabolism PA0266 PA1546 gabT hemN gltA sdhB 4-Aminobutyrate aminotransferase Oxygen-independent coproporphyrinogen III...”
- “...PA1905/PA4215 PA1904 PA4498 PA1914 PA2300 PA4217 PA1800 PA2385 PA0266 PA3326 Gene 5280 PETROVA AND SAUER J. BACTERIOL. TABLE 4. Comparison of the bfiS-dependent...”
- More
- Protein Interaction Networks of Catalytically Active and Catalytically Inactive PqsE in Pseudomonas aeruginosa
Taylor, mBio 2022 - “...cysD cysD 1.092340172 Q02H29 murC murC 1.224317298 P27726 gap gapA 1.354759487 Q51363 nadB nadB 1.354759487 Q9I6M4 davT PA14_03450 1.411195433 B7UYA0 ackA ackA 1.486004021 P30718 groL groL 1.708396442 Q02H54 groS groS 1.76611194 P20581 pqsE pqsE 2.005782353 P54291 rhlI rhlI 9.965784285 TABLE2 Log 2 fold change comparison between...”
OAT_BACSU / P38021 Ornithine aminotransferase; OAT; Ornithine--oxo-acid aminotransferase; EC 2.6.1.13 from Bacillus subtilis (strain 168) (see 2 papers)
BSU40340 ornithine--oxo-acid transaminase from Bacillus subtilis subsp. subtilis str. 168
34% identity, 92% coverage
- function: Catalyzes the interconversion of ornithine to glutamate semialdehyde.
catalytic activity: a 2-oxocarboxylate + L-ornithine = L-glutamate 5-semialdehyde + an L-alpha-amino acid (RHEA:13877)
cofactor: pyridoxal 5'-phosphate
disruption phenotype: Cells lacking this gene do not grow in minimal medium containing either arginine or ornithine as sole nitrogen source. - rocF affects the production of tetramethylpyrazine in fermented soybeans with Bacillus subtilis BJ3-2
Liu, BMC biotechnology 2022 - “...Down BSU37760 2661.551 110.143 4.59 4.99E-07 6.28E-05 Down BSU01630 639.373 31.384 4.34 2.85E-06 3.06E-04 Down BSU40340 9319.344 465.809 4.32 2.35E-06 2.60E-04 Down BSU18310 796.701 42.378 4.23 3.91E-06 3.97E-04 Down BSU38560 1224.887 65.094 4.23 4.36E-06 4.23E-04 Down BSU40320 6670.251 373.473 4.16 6.14E-06 5.47E-04 Down BSU18300 795.359 44.677...”
- A Survey of Pyridoxal 5'-Phosphate-Dependent Proteins in the Gram-Positive Model Bacterium Bacillus subtilis
Richts, Frontiers in molecular biosciences 2019 - “...Threonine utilization Unknown BioF (45%)/ PLP AAT class II family Nicolas et al., 2012 RocD BSU40340 No 2.6.1.13 3RUY ( B. anthracis , 76%) Ornithine transaminase Arginine, ornithine and citrulline utilization SigL, Spo0A (), CodY (), AhrC (+), RocR (+) PLP AAT class III family, OAT...”
- Evolution by leaps: gene duplication in bacteria
Serres, Biology direct 2009 - “...P67910, P37759, P0AC88, P27830), Class III Aminotransferase family (P36839, P94427, P53555, P71084, P30949, P33189, O34662, P38021, P22256, P50457, P12995, P23893, P48247, P18335, P77581, O30508, Q9I606, Q9I6 M4, Q9I693, Q9I700, Q9I6J2, Q9I6R7, Q9HV04, Q9HTP1, Q9HWU0, Q9HT50, P48247, Q9I168, P12677, Q82 MM1, P21267, P40732, Q8ZPV2, Q8ZLX7), Thiamine Diphosphate...”
PMM1301 Acetylornithine and succinylornithine aminotransferases from Prochlorococcus marinus sp. MED4
33% identity, 88% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...PMT9312_1565 PMT9312_0337 Prochlorococcus marinus MIT 9313 PMT2214 PMT0331, PMT1493 PMT0191 Prochlorococcus marinus MED 4 PMM1686 PMM1301, PMM1472 PMM0331 Prochlorococcus marinus NATL 2A PMN2A_1287 PMN2A_0867, PMN2A_1003 PMN2A_1709 Synechococcus sp. CC 9605 Syncc9605_1082, Syncc9605_2591 Syncc9605_0858, Syncc9605_2052, Syncc9605_0659 Syncc9605_0497 Synechococcus sp. CC 9902 Syncc9902_2230 Syncc9902_1534, Syncc9902_0620 Syncc9902_1838 Synechococcus sp....”
- “...PMT9312_1565 PMT9312_0337 Prochlorococcus marinus MIT 9313 n.d. PMT0331, PMT1493 PMT0191 Prochlorococcus marinus MED 4 n.d. PMM1301, PMM1472 PMM0331 Prochlorococcus marinus NATL 2A n.d. PMN2A_0867, PMN2A_1003 PMN2A_1709 Synechococcus sp. CC 9605 n.d. Syncc9605_0858, Syncc9605_2052, Syncc9605_0659 Syncc9605_0497 Synechococcus sp. CC 9902 n.d. Syncc9902_1534, Syncc9902_0620 Syncc9902_1838 Synechococcus sp. WH...”
SYNW1634 putative N-acetylornithine aminotransferase from Synechococcus sp. WH 8102
33% identity, 88% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...Syncc9605_0497 Synechococcus sp. CC 9902 Syncc9902_2230 Syncc9902_1534, Syncc9902_0620 Syncc9902_1838 Synechococcus sp. WH 8102 SYNW1412, SYNW2422 SYNW1634, SYNW0629 SYNW1956 Synechococcus sp. WH 7805 WH7805_06086, WH7805_09974 WH7805_05656, WH7805_12388, WH7805_13803 WH7805_06416 Synechococcus sp. WH 5701 WH5701_03684, WH5701_03860 WH5701_07406, WH5701_15376 WH5701_06196 Synechococcus sp. RS 9917 RS9917_06190 RS9917_02041, RS9917_05240 RS9917_02641 Crocosphaera...”
- “...Syncc9605_0659 Syncc9605_0497 Synechococcus sp. CC 9902 n.d. Syncc9902_1534, Syncc9902_0620 Syncc9902_1838 Synechococcus sp. WH 8102 n.d. SYNW1634, SYNW0629 SYNW1956 Synechococcus sp. WH 7805 n.d. WH7805_05656, WH7805_12388, WH7805_13803 WH7805_06416 Synechococcus sp. WH 5701 n.d. WH5701_07406, WH5701_15376 WH5701_06196 Synechococcus sp. RS 9917 n.d. RS9917_02041, RS9917_05240 RS9917_02641 Crocosphaera watsonii WH...”
PA14_03450 4-aminobutyrate aminotransferase from Pseudomonas aeruginosa UCBPP-PA14
34% identity, 83% coverage
LOC100576186 alanine--glyoxylate aminotransferase 2, mitochondrial from Apis mellifera
33% identity, 71% coverage
- The Genomic Basis of Adaptation to High Elevations in Africanized Honey Bees
Everitt, Genome biology and evolution 2023 - “...regulates osteoblast and adipocyte differentiation in mice ( Jeong et al. 2015 ); alanine-glyoxylate aminotransferase-2 (LOC100576186), which regulates nitric oxide (NO) levels and blood pressure in mice ( Caplin et al. 2012 ); and Eleven nineteen Lysine rich Leukemia-associated factor, Eaf (LOC411433), which is involved in...”
VpaChn25_1376 4-aminobutyrate--2-oxoglutarate transaminase from Vibrio parahaemolyticus
32% identity, 87% coverage
- Genomic and transcriptomic analyses reveal distinct biological functions for cold shock proteins (VpaCspA and VpaCspD) in Vibrio parahaemolyticus CHN25 during low-temperature survival
Zhu, BMC genomics 2017 - “...dehydrogenase VpaChn25A_0565 7.3736 3-hydroxyisobutyrate dehydrogenase VpaChn25A_1033 2.7479 Methylmalonate-semialdehyde dehydrogenase VpaChn25A_1036 2.1029 Acyl-CoA dehydrogenase Propanoate metabolism VpaChn25_1376 6.0834 4-aminobutyrate aminotransferase VpaChn25_1635 6.3526 PrpE protein VpaChn25_1638 8.5787 Methylcitrate synthase VpaChn25_1639 6.7065 2-methylisocitrate lyase VpaChn25_2798 3.959 Acetyl-CoA synthetase ABC transporters VpaChn25A_0128 0.4376 ABC transporter substrate-binding protein VpaChn25A_0130 0.428 ABC...”
- “...2.1782 Glutamate synthase subunit beta VpaChn25_0437 2.0222 Glutamate synthase subunit alpha VpaChn25_1375 3.4554 Succinate-semialdehyde dehydrogenase VpaChn25_1376 3.0672 4-aminobutyrate aminotransferase VpaChn25_2552 0.4804 Glutaminase VpaChn25_2583 2.0986 Aspartate carbamoyltransferase VpaChn25_2584 2.7419 Aspartate carbamoyltransferase VpaChn25_2784 0.4744 Aspartate ammonia-lyase Arginine and proline metabolism VpaChn25_1371 2.2205 Aldehyde dehydrogenase VpaChn25_1372 2.779 Oxidoreductase VpaChn25_1373...”
HD73_0366 4-aminobutyrate--2-oxoglutarate transaminase from Bacillus thuringiensis serovar kurstaki str. HD73
35% identity, 77% coverage
- Identification of metabolism pathways directly regulated by sigma(54) factor in Bacillus thuringiensis
Peng, Frontiers in microbiology 2015 - “...Table 3 Genes controlled by 54 in B. thuringiensis HD73 . Genes ID Annotation Fold-change HD73_0366 4-aminobutyrate aminotransferase 9.165 HD73_0367 Sensory box sigma-54 dependent DNA-binding response regulator 2.860 HD73_0368 Succinic semialdehyde dehydrogenase 2.410 HD73_0369 Quaternary ammonium compound-resistance protein 2.377 HD73_0560 Biotin carboxyl carrier protein - HD73_0561...”
- “...work. We previously characterized the expression of the GABA pathway gene cluster in which gabT (HD73_0366) is controlled by 54 and activated by GabR (Zhu et al., 2010 ), which specifically bound to a repeat region 58 bp upstream of the start codon (Peng et al.,...”
SXYL_01965 ornithine--oxo-acid transaminase from Staphylococcus xylosus
33% identity, 91% coverage
STM2792 4-aminobutyrate aminotransferase from Salmonella typhimurium LT2
STM14_3368 4-aminobutyrate--2-oxoglutarate transaminase from Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
35% identity, 81% coverage
- Inorganic Polyphosphate Is Essential for Salmonella Typhimurium Virulence and Survival in Dictyostelium discoideum
Varas, Frontiers in cellular and infection microbiology 2018 - “...STM14_2999 STM2441 cysA Sulfate/thiosulfate transporter subunit STM14_3031 STM2472 maeB Malic enzyme STM14_3058 Hypothetical protein STM14_3368 STM2792 gabT 4-aminobutyrate aminotransferase STM14_3463 STM2866 sprB Transcriptional regulator STM14_3529 STM2926 pcm Protein-L-isoaspartate O-methyltransferase STM14_3594 STM2980 ygdE Putative RNA 2'-O-ribose methyltransferase STM14_3709 STM3069 pgk Phosphoglycerate kinase STM14_3969 STM3286 infB Translation initiation...”
- Inorganic Polyphosphate Is Essential for Salmonella Typhimurium Virulence and Survival in Dictyostelium discoideum
Varas, Frontiers in cellular and infection microbiology 2018 - “...thiolase STM14_2999 STM2441 cysA Sulfate/thiosulfate transporter subunit STM14_3031 STM2472 maeB Malic enzyme STM14_3058 Hypothetical protein STM14_3368 STM2792 gabT 4-aminobutyrate aminotransferase STM14_3463 STM2866 sprB Transcriptional regulator STM14_3529 STM2926 pcm Protein-L-isoaspartate O-methyltransferase STM14_3594 STM2980 ygdE Putative RNA 2'-O-ribose methyltransferase STM14_3709 STM3069 pgk Phosphoglycerate kinase STM14_3969 STM3286 infB Translation...”
Syncc9605_0858 acetylornithine and succinylornithine aminotransferases from Synechococcus sp. CC9605
34% identity, 85% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...PMM0331 Prochlorococcus marinus NATL 2A PMN2A_1287 PMN2A_0867, PMN2A_1003 PMN2A_1709 Synechococcus sp. CC 9605 Syncc9605_1082, Syncc9605_2591 Syncc9605_0858, Syncc9605_2052, Syncc9605_0659 Syncc9605_0497 Synechococcus sp. CC 9902 Syncc9902_2230 Syncc9902_1534, Syncc9902_0620 Syncc9902_1838 Synechococcus sp. WH 8102 SYNW1412, SYNW2422 SYNW1634, SYNW0629 SYNW1956 Synechococcus sp. WH 7805 WH7805_06086, WH7805_09974 WH7805_05656, WH7805_12388, WH7805_13803 WH7805_06416...”
- “...PMM1472 PMM0331 Prochlorococcus marinus NATL 2A n.d. PMN2A_0867, PMN2A_1003 PMN2A_1709 Synechococcus sp. CC 9605 n.d. Syncc9605_0858, Syncc9605_2052, Syncc9605_0659 Syncc9605_0497 Synechococcus sp. CC 9902 n.d. Syncc9902_1534, Syncc9902_0620 Syncc9902_1838 Synechococcus sp. WH 8102 n.d. SYNW1634, SYNW0629 SYNW1956 Synechococcus sp. WH 7805 n.d. WH7805_05656, WH7805_12388, WH7805_13803 WH7805_06416 Synechococcus sp....”
BC0355 4-aminobutyrate aminotransferase from Bacillus cereus ATCC 14579
35% identity, 73% coverage
- Temporal dynamics of stress response in Halomonas elongata to NaCl shock: physiological, metabolomic, and transcriptomic insights
Yu, Microbial cell factories 2024 - “...of POD, CAT, and GST enzyme were measured using commercial kits (BC0025, BC0095, BC0205, and BC0355, Solarbio), following the manufacturers recommendations. RNA extraction and transcriptome sequencing Harvested cells from 5min before shock (1% NaCl condition), 5 and 10min after shock for both 8% and 13% NaCl...”
- Physiological and biochemical characteristics and microbial responses of Medicago sativa (Fabales: Fabaceae) varieties with different resistance to atrazine stress
Li, Frontiers in microbiology 2024 - “...665 Enzyme activity determination and physiological indicator detection According to the kit manuals (BC0090, BC0170, BC0355, BC0200, BC0020; Beijing Solaibao Technology Co., Ltd., China), the activities of peroxidase (POD), superoxide dismutase (SOD), Glutathione S -transferase (GST), catalase (CAT), and malondialdehyde (MDA) were determined. Subsequently, oxidative damage...”
- Bacillus cereus ATCC 14579 RpoN (Sigma 54) Is a Pleiotropic Regulator of Growth, Carbohydrate Metabolism, Motility, Biofilm Formation and Toxin Production
Hayrapetyan, PloS one 2015 - “...by Sigma 54 in B . thuringiensis [ 20 , 21 , 47 ]. GabT (BC0355) and Lysine 2.3-aminomutase (BC2251) were predicted to be in the regulon of Sigma 54 in B . cereus (this study, Table C in S1 File ). Both of these genes...”
t2687 4-aminobutyrate aminotransferase from Salmonella enterica subsp. enterica serovar Typhi Ty2
35% identity, 81% coverage
Smp_000660 ornithine--oxo-acid transaminase from Schistosoma mansoni
31% identity, 83% coverage
- Single-cell transcriptomics of the human parasite Schistosoma mansoni first intra-molluscan stage reveals tentative tegumental and stem-cell regulators
Diaz, Scientific reports 2024 - “...molecules derived from the snail tissues. The enzymes UDP- glucose 4epimerase (Smp_070780) and Ornithine aminotransferase (Smp_000660), the 14kDa fatty acid-binding protein (Smp_095360), and Ferritin (Smp_063530, Smp_311630 and Smp_311640) were all within the top 30 marker gene list in the Parenchyma cluster of sporocysts, but not in...”
- Vitamin B6 Acquisition and Metabolism in Schistosoma mansoni
Da'dara, Frontiers in immunology 2020 - “...PLP have been annotated in the S. mansoni genome including aspartate aminotransferase (Smp_064380), ornithine-oxo-acid transaminase (Smp_000660), 5-aminolevulinic acid synthase (Smp_045260), serine C-palmitoyltransferase (Smp_028080), and glycogen phosphorylase (Smp_143840). This highlights the importance of PLP for widely diverse aspects of schistosome biochemistry. Developmental Expression of SmPK, SmPLP-Ph, and...”
VP1771 4-aminobutyrate aminotransferase from Vibrio parahaemolyticus RIMD 2210633
32% identity, 87% coverage
dat / P56744 L-2,4-diaminobutyrate:2-ketoglutarate 4-aminotransferase monomer (EC 2.6.1.76) from Acinetobacter baumannii (see 2 papers)
P56744 diaminobutyrate decarboxylase (EC 4.1.1.86) from Acinetobacter baumannii (see paper)
dat / GB|BAA21844.1 diaminobutyrate--2-oxoglutarate transaminase; EC 2.6.1.76 from Acinetobacter baumannii (see paper)
34% identity, 81% coverage
WP_038545752 aspartate aminotransferase family protein from Synechococcus sp. KORDI-100
34% identity, 93% coverage
FGSG_01573 acetylornithine aminotransferase from Fusarium graminearum PH-1
36% identity, 79% coverage
SCO6769 probable aminotransferase from Streptomyces coelicolor A3(2)
33% identity, 79% coverage
- Knowns and unknowns of membrane lipid synthesis in streptomycetes
Sandoval-Calderón, Biochimie 2017 - “...[ 53 ], and then ribosylhopane is aminated by a transaminase [ 64 ] (HpnO, SCO6769) to produce the other hopanoid detected in S. coelicolor , ABHT [ 53 ] ( Fig. 4 ). 4. Unresolved questions on membrane composition and synthesis of membrane lipids 4.1....”
- “...from E. coli (45% identical) [ 76 ] SCO6768 1-deoxy-D-xilulose-5-phosphate synthase Experimental [ 50 ] SCO6769 ABHT synthase Experimental [ 53 ] SCO6770 Transcriptional regulator? Hypothetical protein with a probable DNA binding domain [ 49 , 53 ] SCO6771 Unknown Highlights mini-review A comprehensive analysis of...”
- Gamma-Glutamylpolyamine Synthetase GlnA3 Is Involved in the First Step of Polyamine Degradation Pathway in Streptomyces coelicolor M145
Krysenko, Frontiers in microbiology 2017 - “...2012 ). Further genetic analysis of SCO5655 and other potential aminotransferase homologs (SCO1223, SCO1284, and SCO6769) would be required to determine whether a PatA-dependent pathway is functional. The regulation and importance of glutamylation and aminotransferase pathways may dependent on polyamine concentration or another environmental parameter such...”
- Ribosylhopane, a novel bacterial hopanoid, as precursor of C35 bacteriohopanepolyols in Streptomyces coelicolor A3(2)
Liu, Chembiochem : a European journal of chemical biology 2014 - “.../ SCO6767, putative 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; orf17 / SCO6768, putative 1-deoxy-D-xylulose 5-phosphate synthase; orf18 / SCO6769, putative aminotransferase; orf19 / SCO6770, DNA-binding protein; orf20 / SCO677, unknown function. Table 1 Construction of the S. coelicolor mutants: list of primers. Sequence (5-3) orf14L GTGAAGGGCAGCTGATGACCCCGCAGACCGGCCCGTCCCATTCCGGGGATCCGTCGACC ORF14r ACGGAAGGCCGATATTCCACCGCGCACGGTGCCGATCCGTGTAGGCTGGAGCTGCTTC Redi-F-ORF18...”
- Transcriptomic analysis of liquid non-sporulating Streptomyces coelicolor cultures demonstrates the existence of a complex differentiation comparable to that occurring in solid sporulating cultures
Yagüe, PloS one 2014 - “...Lysyl-tRNA synthetase 0.4 1.4 SCO6661 Glucose-6-phosphate dehydrogenase 2.7 0.4 SCO3542 Putative thymidine kinase 1 0.3 SCO6769 Aminotransferase 0.3 1.6 SCO4606 NADH dehydrogenase subunit NuoL2 0.3 1.3 SCO6962 Glutamine synthetase 0.9 3.2 SCO4608 NADH dehydrogenase subunit NuoN2 0.5 2.1 SCO7511 Glyceraldehyde 3-phosphate dehydrogenase, gap2 2.7 0.7 SECONDARY...”
- Transcriptomic analysis of Streptomyces coelicolor differentiation in solid sporulating cultures: first compartmentalized and second multinucleated mycelia have different and distinctive transcriptomes
Yagüe, PloS one 2013 - “...1.1 0.9 SCO6767 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase 1.2 0.6 0.5 SCO6768 Probable transketolase 1.3 0.5 0.2 SCO6769 Aminotransferase 1.3 0.4 0.3 Average log2 abundance values and functions as in Table 2 . Most of the genes identified (95% of the total) had similar expression patterns in all...”
- Conservation of thiol-oxidative stress responses regulated by SigR orthologues in actinomycetes
Kim, Molecular microbiology 2012 - “...Hypothetical protein 12 SCO6767 ispG 4-hydroxy-3-methyl-2-en-1-yl diphosphate synthase 12 SCO6768 1-deoxy- d -xylulose-5-phospate synthase 12 SCO6769 Aminotransferase 12 SCO6770 DNA-binding protein 12 SCO6771 Small hydrophobic protein 6 SCO6775 * Probable transcriptional regulator, TetR family 14 SCO6776 * Unknown 6 SCO7140 * Probable DNA-binding protein 14 SCO7631...”
- Hopanoids are not essential for growth of Streptomyces scabies 87-22
Seipke, Journal of bacteriology 2009 - “...86 91 87 91 86 85 96 95 SCO6768 87, 93 SCO6769 SCO6770 SCO6771 89, 93 83, 90 74, 92 LC/MRM analysis. LC/MRM analysis was performed by the Cornell University...”
YP_003564524 4-aminobutyrate transaminase from Bacillus megaterium QM B1551
32% identity, 79% coverage
- Norspermidine is not a self-produced trigger for biofilm disassembly
Hobley, Cell 2014 - “...from B.subtilis . Proteins: BsubGabT, B.subtilis NCIB3610 [6051-HGW] GabT (YP_007532319); BmegGabT, B.megaterium QM B1551 GabT (YP_003564524); AbauGabT, A.baumannii ACICU GabT (YP_001848133); BsubRocD, B.subtilis NCIB3610 RocD (YP_007536035); BsubArgD, B.subtilis NCIB3610 ArgD (YP_007533057); AbauDABAAT, A.baumannii ACICU DABA AT (YP_001847319); BmegDABAAT, B.megaterium QM B1551 DABA AT (YP_003564515); VchoDABAAT, V.cholerae...”
Tmar_2123 aminotransferase class III-fold pyridoxal phosphate-dependent enzyme from Thermaerobacter marianensis DSM 12885
34% identity, 37% coverage
- Natural transaminase fusions for biocatalysis
Prout, RSC advances 2024 - “...putative TAm-long-chain acyl-[acyl-carrier-protein] reductase fusion PP_2782 ( Pp KTFusion) and three of its thermophilic homologs (Tmar_2123 ( Tm Fusion), ThesuDRAFT_00745 ( Ts Fusion), and Tfer_2018 ( Tf Fusion), from Thermaerobacter marianensis , Thermaerobacter subterraneus , and Thermincola ferriacetica , respectively) is described. The enzymes were cloned,...”
- “...ESI ). Thermophilic homologs Given the desirability for potential applications, three thermophilic TAm fusion homologs Tmar_2123 from Thermaerobacter marianensis DSM 12885 (NCBI GenBank reference: ADU52204.1/WP_013496504.1) ( Tm Fusion), ThesuDRAFT_00745 from Thermaerobacter subterraneus DSM 13965 (NCBI GenBank reference: EKP95021.1/WP_006903020.1) ( Ts Fusion), and Tfer_2018 from Thermincola ferriacetica...”
PODANS_7_10880 uncharacterized protein from Podospora anserina S mat+
30% identity, 79% coverage
- CLPP-Null Eukaryotes with Excess Heme Biosynthesis Show Reduced L-arginine Levels, Probably via CLPX-Mediated OAT Activation
Key, Biomolecules 2024 - “...HemL has significant sequence homology in P. anserina (PODANS) with PODANS_5_6860 (GSA 2,1-aminomutase), but also PODANS_7_10880 (ornithine delta-aminotransferase or OAT), the aminotransferases PODANS_6_1290, PODANS_7_5560, and PODANS_3_9430, according to the STRING Heidelberg webserver [ 24 ]. In mice, the closest HemL homolog is OAT, but it also...”
WH7805_05656 acetylornithine aminotransferase from Synechococcus sp. WH 7805
33% identity, 91% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...Synechococcus sp. WH 8102 SYNW1412, SYNW2422 SYNW1634, SYNW0629 SYNW1956 Synechococcus sp. WH 7805 WH7805_06086, WH7805_09974 WH7805_05656, WH7805_12388, WH7805_13803 WH7805_06416 Synechococcus sp. WH 5701 WH5701_03684, WH5701_03860 WH5701_07406, WH5701_15376 WH5701_06196 Synechococcus sp. RS 9917 RS9917_06190 RS9917_02041, RS9917_05240 RS9917_02641 Crocosphaera watsonii WH 8501 n.d. CwatDRAFT_5161 CwatDRAFT_0865, CwatDRAFT_0842, CwatDRAFT_0969 Trichodesmium...”
- “...Syncc9902_0620 Syncc9902_1838 Synechococcus sp. WH 8102 n.d. SYNW1634, SYNW0629 SYNW1956 Synechococcus sp. WH 7805 n.d. WH7805_05656, WH7805_12388, WH7805_13803 WH7805_06416 Synechococcus sp. WH 5701 n.d. WH5701_07406, WH5701_15376 WH5701_06196 Synechococcus sp. RS 9917 n.d. RS9917_02041, RS9917_05240 RS9917_02641 Crocosphaera watsonii WH 8501 CwatDRAFT_0830 CwatDRAFT_5161 CwatDRAFT_0865, CwatDRAFT_0842, CwatDRAFT_0969 Trichodesmium erythraeum...”
Pf1N1B4_3440 Succinylornithine transaminase (EC 2.6.1.81) from Pseudomonas fluorescens FW300-N1B4
35% identity, 88% coverage
- mutant phenotype: Specifically important for utilizing L-Arginine. Automated validation from mutant phenotype: the predicted function (SUCCORNTRANSAM-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
Rru_A3466 Ornithine aminotransferase from Rhodospirillum rubrum ATCC 11170
32% identity, 88% coverage
TTC0553 No description from Thermus thermophilus HB27
34% identity, 86% coverage
J7QVE2 ornithine aminotransferase from Methylocystis sp. (strain SC2)
31% identity, 82% coverage
CAC0368 4 animobutyrate aminotransferase from Clostridium acetobutylicum ATCC 824
33% identity, 82% coverage
SERP0545 ornithine aminotransferase from Staphylococcus epidermidis RP62A
33% identity, 91% coverage
PAB0086 Pyridoxal phosphate-dependent aminotransferase from Pyrococcus abyssi GE5
32% identity, 77% coverage
XP_010494787 ornithine aminotransferase, mitochondrial from Camelina sativa
34% identity, 78% coverage
T643_RS11485 4-aminobutyrate--2-oxoglutarate transaminase from Klebsiella pneumoniae MRSN 1319
35% identity, 86% coverage
- Multidrug resistant pathogens respond differently to the presence of co-pathogen, commensal, probiotic and host cells
Chan, Scientific reports 2018 - “...total RNA. For K . pneumoniae , 2 downregulated ( acnB , T643_RS19850; gabT _2, T643_RS11485) and 3 upregulated (aminotransferase, T643_RS18930; cimH , T643_RS19470; PTS system fructose IIA component, T643_RS18905) genes were tested. For A . baumannii , 3 downregulated ( papD , T634_RS02055; mmsA _1,...”
XP_006398303 ornithine aminotransferase, mitochondrial from Eutrema salsugineum
34% identity, 72% coverage
blr3010 blr3010 from Bradyrhizobium japonicum USDA 110
34% identity, 76% coverage
- Pleiotropic Effects of PhaR Regulator in Bradyrhizobium diazoefficiens Microaerobic Metabolism
Quelas, International journal of molecular sciences 2024 - “...production from glutamate. Moreover, ornithine concentration may also be increased due to downregulation of rocD (blr3010), which encodes an ornithine aminotransferase (EC 2.6.1.13) that removes ornithine from this pathway towards proline synthesis ( Table S3 ). Increased flux to ornithine might favor citruline synthesis, the next...”
- “...the top ten candidates, either repressed (blr4358, blr4582, blr4687, blr6331) or activated by PhaR (blr2131, blr3010, bll3872), was next verified by DNA electrophoretic mobility shift assays (EMSAs) ( Figure 6 ). The promoter region of the genuine PhaR target phaP1 (bll5155) was also included in the...”
PAAG_06217 acetylornithine aminotransferase from Paracoccidioides lutzii Pb01
35% identity, 73% coverage
- Hemoglobin uptake by Paracoccidioides spp. is receptor-mediated
Bailão, PLoS neglected tropical diseases 2014 - “...Amino acid biosynthesis 2 PAAG_03138 alanine-glyoxylate aminotransferase 381.01 7.33 1.40 2.6.1.44 Amino acid metabolism 2 PAAG_06217 acetylornithine aminotransferase 313.28 11.25 1.72 2.6.1.11 Arginine biosynthesis 1 PAAG_06506 aspartate aminotransferase 253.11 6.50 1.42 2.6.1.1 Aspartate and glutamate metabolism 1 PAAG_06835 cystathionine gamma-lyase 257.79 7.00 *** 4.4.1.1 Cysteine biosynthesis...”
XP_006280404 ornithine aminotransferase, mitochondrial from Capsella rubella
33% identity, 78% coverage
CG8745 uncharacterized protein from Drosophila melanogaster
33% identity, 73% coverage
- <i>Trans</i> regulation of an odorant binding protein by a proto-Y chromosome affects male courtship in house fly
Delclos, eLife 2024 - “...expression. The top five hub genes are (with D. melanogaster orthologs in parentheses): LOC101887703 ( CG8745 ), LOC105262120 ( CG10514 ), LOC101894501 ( Md-Gr35 ), LOC101893264 ( gd ), and LOC101893651 ( CG2120 ) ( Figure 3figure supplement 1 ). Figure 3. Network visualization of the...”
- “...module ( LOC101887703 ) may be regulated by Obp56h. LOC101887703 is orthologous to D. melanogaster CG8745 , which is predicted to encode an ethanolamine-phosphate phospho-lyase and is broadly expressed in many D. melanogaster tissues ( Chintapalli et al., 2007 ) . LOC101887703 is upregulated in III...”
- CLOCKWORK ORANGE promotes CLOCK-CYCLE activation via the putative Drosophila ortholog of CLOCK INTERACTING PROTEIN CIRCADIAN
Rivas, Current biology : CB 2021 - “...neurons ( Table 1 ). Of these 24 genes, eight are CWO targets: cwo , CG8745, CG1628, Misexpression suppressor of ras 3 (MESR3), CG13868, PDGF- and VEGF-receptor related (Pvr), CG8026 and CG31324 ( Table 1 ). Remarkably, all eight of these genes contain strong CWO-only binding...”
- “...whether these genes play a role in regulating transcription and have mammalian orthologs 17 . CG8745, CG1628, CG8026 and Pvr are conserved in mammals, but their predicted roles as an ethanolamine-phosphate phospho-lyase (CG8745), L-ornithine transferase (CG1628), SLC25-family mitochondrial transporter (CG8026) and membrane-bound growth factor receptor tyrosine...”
- Reduced Function of the Glutathione S-Transferase S1 Suppresses Behavioral Hyperexcitability in Drosophila Expressing Mutant Voltage-Gated Sodium Channels
Chen, G3 (Bethesda, Md.) 2020 - “...Cyp28d1 * 0.66 1.58 8.28E-06 Cyp28d1 FBgn0015037 Cyp4p1 * 0.59 1.51 2.79E-04 Cytochrome P450-4p1 FBgn0036381 CG8745 0.37 0.78 4.09E-02 uncharacterized protein FBgn0003965 v 0.38 0.77 4.06E-02 vermilion FBgn0035906 GstO2 0.41 0.75 1.59E-02 Glutathione S transferase O2 FBgn0036927 Gabat 0.49 0.71 1.13E-04 gamma-aminobutyric acid transaminase FBgn0000566 Eip55E...”
- Detecting New Allies: Modifier Screen Identifies a Genetic Interaction Between Imaginal disc growth factor 3 and combover, a Rho-kinase Substrate, During Dorsal Appendage Tube Formation in Drosophila
Espinoza, G3 (Bethesda, Md.) 2020 - “...CG14105 CG10713 CG10154 CG10725 CG10140 CG14109 JMJD7 CG10738 CG10116 CG10089 CG43184 CG8757 CG8750 Tsp68C Hml CG8745 dysc CG13737 Rgl a Indicates deficiencies tested in the original screen and reported also in Table 1 Modifier-screen crosses Six-to-ten virgin females from the Idgf3 -overexpression stock were crossed to...”
- RNAseq Analysis of the Drosophila Response to the Entomopathogenic Nematode Steinernema
Yadav, G3 (Bethesda, Md.) 2017 - “...contrast, 37 genes were upregulated and 10 genes (such as CG3292 , CG2736 , and CG8745 ) were downregulated upon axenic nematode infections. Among the commonly regulated genes at 24 hr, both types of nematodes upregulated 53 genes, four genes ( CG2559 , CG4181 , CG10513...”
- A Quantitative Genomic Approach for Analysis of Fitness and Stress Related Traits in a Drosophila melanogaster Model Population
Duun, International journal of genomics 2016 - “...processes, regulation of gene expression, and immune response Fife Regulation of neurotransmitter secretion Heat resistance CG8745 Arginine catabolic processes to glutamate CG8888 Metabolic processes Syt1 Synaptotagmin 1 Calcium ion binding and neurotransmitter secretion Snap25 Synaptosomal-associated protein 25kDa SNAP receptor activity and SNARE complex Hsp70 expression fz...”
- A rapid one-generation genetic screen in a Drosophila model to capture rhabdomyosarcoma effectors and therapeutic targets
Galindo, G3 (Bethesda, Md.) 2014 - “...Candidate enhancers (70C2-70D4): bru-3 , CG43184 , CG8757 , CG8750 , Tsp68C , Hml , CG8745 , dysc , CG13737 , Rgl , CG8833 , Glued , Cg32137 , Meics , Nxf3 , ssp2 , CG13738 , Hsc70-1 , CG17634 , CG17632 , CG9040 , 26-29-p...”
- A functional insulator screen identifies NURF and dREAM components to be required for enhancer-blocking
Bohla, PloS one 2014 - “...a weak binding site for dCTCF: cg17681 and two negative control sites: Fab-8 ctrl and cg8745 ctrl. Values are expressed as % input. Error bars indicate the standard deviation of three independent experiments. (TIF) Click here for additional data file. Figure S7 Genome browser view of...”
- More
ThesuDRAFT_00745 aminotransferase class III-fold pyridoxal phosphate-dependent enzyme from Thermaerobacter subterraneus DSM 13965
33% identity, 41% coverage
- Natural transaminase fusions for biocatalysis
Prout, RSC advances 2024 - “...fusion PP_2782 ( Pp KTFusion) and three of its thermophilic homologs (Tmar_2123 ( Tm Fusion), ThesuDRAFT_00745 ( Ts Fusion), and Tfer_2018 ( Tf Fusion), from Thermaerobacter marianensis , Thermaerobacter subterraneus , and Thermincola ferriacetica , respectively) is described. The enzymes were cloned, truncated to their TAm...”
- “...fusion homologs Tmar_2123 from Thermaerobacter marianensis DSM 12885 (NCBI GenBank reference: ADU52204.1/WP_013496504.1) ( Tm Fusion), ThesuDRAFT_00745 from Thermaerobacter subterraneus DSM 13965 (NCBI GenBank reference: EKP95021.1/WP_006903020.1) ( Ts Fusion), and Tfer_2018 from Thermincola ferriacetica Z-0001 (NCBI GenBank reference: KNZ69380.1/WP_052218203.1) ( Tf Fusion) were selected for further study....”
A8J933 acetylornithine transaminase (EC 2.6.1.11) from Chlamydomonas reinhardtii (see paper)
XP_001698091 uncharacterized protein from Chlamydomonas reinhardtii
32% identity, 78% coverage
Cj0227 acetylornithine aminotransferase from Campylobacter jejuni subsp. jejuni NCTC 11168
35% identity, 93% coverage
- In vivo and in silico determination of essential genes of Campylobacter jejuni
Metris, BMC genomics 2011 - “...genes FBA only cj0024, cj0026c, cj0066c, cj0075c, cj0127c, cj0146c, cj0172c, cj0187c, cj0194, cj0196c, cj0197c, cj0205, cj0227, cj0237, cj0240c, cj0273, cj0274, cj0286c, cj0288c, cj0296c, cj0297c, cj0298c, cj0306c, cj0307, cj0321, cj0326, cj0332c, cj0360, cj0384c, cj0405, cj0432c, cj0433c, cj0434, cj0435, cj0437, cj0443, cj0453, cj0490, cj0541, cj0542, cj0559, cj0576, cj0580c,...”
- Identification of Campylobacter jejuni genes involved in its interaction with epithelial cells
Novik, Infection and immunity 2010 - “...(cj0342c [uvrA]), amino acid metabolism and transport (cj0227 [argD] and cj1097, a putative transmembrane transport protein), purine biosynthesis (cj1208, a...”
- Key role of Mfd in the development of fluoroquinolone resistance in Campylobacter jejuni
Han, PLoS pathogens 2008 - “...(NADPH) small subunit 0.0007 0.067622 1.74 NT Cj0123c putative tRNA-dihydrouridine synthase 0.0020 0.076881 1.87 2.1 Cj0227 argD, acetylornithine aminotransferase 0.0208 0.151677 1.69 NT Cj0283c cheW , chemotaxis protein 0.0125 0.130143 1.52 NT Cj0415 putative GMC oxidoreductase subunit 0.0191 0.148174 1.53 NT Cj0490- ald , putative aldehyde...”
- Identification of DNA sequence variation in Campylobacter jejuni strains associated with the Guillain-Barré syndrome by high-throughput AFLP analysis
Godschalk, BMC microbiology 2006 - “...153984 154075 Cj0150c, probable aminotransferase 5 - - + + + + 86 212438 212383 Cj0227, argD, probable acetylornithine aminotransferase 6 + + + + + - 420 573124 572971 Cj0612c, cft, probable ferritin; Cj0613, pstS, possible periplasmic phosphate binding protein 7 - - + +...”
ArtHe_01125 aspartate aminotransferase family protein from Arthrobacter sp. Helios
33% identity, 80% coverage
MSMEG_6685 4-aminobutyrate transaminase from Mycobacterium smegmatis str. MC2 155
A0R6V5 4-aminobutyrate transaminase from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
MSMEG_6685, MSMEI_6505 4-aminobutyrate--2-oxoglutarate transaminase from Mycolicibacterium smegmatis MC2 155
35% identity, 74% coverage
- Interactome Analysis Identifies MSMEI_3879 as a Substrate of Mycolicibacterium smegmatis ClpC1
Ogbonna, Microbiology spectrum 2023 - “...A0QUY2 serA , MSMEG_2378, MSMEI_2318 d -3-Phosphoglycerate dehydrogenase (EC 1.1.1.95) 0.48 0.64 A0R6V5 gabT , MSMEG_6685, MSMEI_6505 4-Aminobutyrate transaminase (EC 2.6.1.19) 0.09 0.1 0.23 0.23 A0QZX1 hisG , MSMEG_4180, MSMEI_4082 ATP phosphoribosyltransferase (ATP-PRT) (ATP-PRTase) 0.04 0.03 A0QWS5 carB , MSMEG_3047, MSMEI_2973 Carbamoyl-phosphate synthase large chain (EC...”
- Interactome Analysis Identifies MSMEI_3879 as a Substrate of Mycolicibacterium smegmatis ClpC1
Ogbonna, Microbiology spectrum 2023 - “...(GSA) 0.09 0.02 A0QUY2 serA , MSMEG_2378, MSMEI_2318 d -3-Phosphoglycerate dehydrogenase (EC 1.1.1.95) 0.48 0.64 A0R6V5 gabT , MSMEG_6685, MSMEI_6505 4-Aminobutyrate transaminase (EC 2.6.1.19) 0.09 0.1 0.23 0.23 A0QZX1 hisG , MSMEG_4180, MSMEI_4082 ATP phosphoribosyltransferase (ATP-PRT) (ATP-PRTase) 0.04 0.03 A0QWS5 carB , MSMEG_3047, MSMEI_2973 Carbamoyl-phosphate synthase...”
- Interactome Analysis Identifies MSMEI_3879 as a Substrate of Mycolicibacterium smegmatis ClpC1
Ogbonna, Microbiology spectrum 2023 - “...serA , MSMEG_2378, MSMEI_2318 d -3-Phosphoglycerate dehydrogenase (EC 1.1.1.95) 0.48 0.64 A0R6V5 gabT , MSMEG_6685, MSMEI_6505 4-Aminobutyrate transaminase (EC 2.6.1.19) 0.09 0.1 0.23 0.23 A0QZX1 hisG , MSMEG_4180, MSMEI_4082 ATP phosphoribosyltransferase (ATP-PRT) (ATP-PRTase) 0.04 0.03 A0QWS5 carB , MSMEG_3047, MSMEI_2973 Carbamoyl-phosphate synthase large chain (EC 6.3.5.5)...”
VK055_1960 aspartate aminotransferase family protein from Klebsiella pneumoniae subsp. pneumoniae
31% identity, 81% coverage
- A Serendipitous Mutation Reveals the Severe Virulence Defect of a Klebsiella pneumoniae fepB Mutant
Palacios, mSphere 2017 - “...VK055_1963 ABC-type amino acid transport system, permease VK055_1962 ABC transporter family protein VK055_1961 Serine 3-dehydrogenase VK055_1960 Aminotransferase class III family protein smr_B mutant VK055_1959 ABC transporter family protein VK055_1958 ABC transporter family protein VK055_1957 Oligopeptide transport permease family protein VK055_1956 Binding protein-dependent transport system inner membrane...”
SPISAL_02400 aspartate aminotransferase family protein from Spiribacter salinus M19-40
32% identity, 84% coverage
- Compatible Solute Synthesis and Import by the Moderate Halophile Spiribacter salinus: Physiology and Genomics
León, Frontiers in microbiology 2018 - “...search of the S. salinus M19-40 genome. In this way, we found three EctB-related proteins: SPISAL_02400, SPISAL_06590, and SPISAL_07805 ( Len et al., 2013 ; Lopez-Perez et al., 2013 ). To distinguish the potential EctB enzyme from the two other transaminases, we used the orthology IDs...”
- “...ornithine-carbamoyl-transferase (ArgF; SPISAL_06595). Bona fide EctB enzymes belong to the orthology group K00836-ectB but the SPISAL_02400 protein was not listed under this identification number in KEGG database. Instead, it was affiliated with two orthology groups: K00823-puuE (comprising 4-aminobutyrate aminotransferases) and K00821-argD. Since EctB is a L-2,4-diaminobutyrate-2-oxoglutarate...”
LOC101890114 alanine--glyoxylate aminotransferase 2-like from Musca domestica
33% identity, 73% coverage
- <i>Trans</i> regulation of an odorant binding protein by a proto-Y chromosome affects male courtship in house fly
Delclos, eLife 2024 - “...in the co-expression module, LOC101887703 , has a paralog in the house fly genome ( LOC101890114 ) that is predicted to be on chromosome III. These two genes are homologous to D. melanogaster CG8745 , which we hypothesize is negatively regulated by Obp56h based on conserved...”
- “...melanogaster and house fly ( Figure 6 ). The two transcripts encoded by LOC101887703 and LOC101890114 are <1% diverged in their nucleotide sequences, suggesting a recent duplication event. CG8745 is broadly expressed in many D. melanogaster tissues ( Chintapalli et al., 2007 ), and broadly expressed...”
3nx3A / Q9PIR7 Crystal structure of acetylornithine aminotransferase (argd) from campylobacter jejuni
35% identity, 95% coverage
- Ligand: magnesium ion (3nx3A)
BCAL2701 aminotransferase class-III from Burkholderia cenocepacia J2315
34% identity, 92% coverage
PflSS101_0208 4-aminobutyrate--2-oxoglutarate transaminase from Pseudomonas lactis
35% identity, 81% coverage
Pf6N2E2_4013 5-aminovalerate transaminase (EC 2.6.1.48) from Pseudomonas fluorescens FW300-N2E2
34% identity, 81% coverage
- mutant phenotype: Specifically important for utilizing L-Lysine. Automated validation from mutant phenotype: the predicted function (2.6.1.48) was linked to the condition via a SEED subsystem. This annotation was also checked manually.
ELJP6_14505 diaminobutyrate--2-oxoglutarate transaminase from Enterobacter ludwigii
32% identity, 79% coverage
- Identification and combinatorial engineering of indole-3-acetic acid synthetic pathways in Paenibacillus polymyxa
Sun, Biotechnology for biofuels and bioproducts 2022 - “...IAA synthesis were selected to improve the IAA yield of strain SC2-M1 . The genes ELJP6_14505 , ipdC, and ELJP6_00725 of the entire IPyA pathway from Enterobacter ludwigii JP6 were expressed well by promoter P 04420 in strain SC2-M1 and increased IAA yield in the engineered...”
- “..., respectively. M1-P 04420 -IPyA JP6 represents the transformant of strain SC2-M1 expressing heterologous genes ELJP6_14505 , ipdC , and ELJP6_00725 by promoter P 04420 . IAA yields were tested by the colorimetric method and adding 3mM L-tryptophan in Landy medium for 72h at 25C. Compared...”
TW652 4-aminobutyrate aminotransferase from Tropheryma whipplei TW08/27
34% identity, 83% coverage
TWT633 4-aminobutyrate aminotransferase from Tropheryma whipplei str. Twist
34% identity, 83% coverage
AO353_11510 5-aminovalerate transaminase (EC 2.6.1.48) from Pseudomonas fluorescens FW300-N2E3
34% identity, 81% coverage
- mutant phenotype: Specifically important for utilizing L-Lysine. This confirms that it is involved in L-lysine catabolism via 5-aminovalerate. A milder phenotype on putrescine suggests that it is also likely to be a 4-aminobutyrate transaminase.
bll2855 ornithine aminotransferase from Bradyrhizobium japonicum USDA 110
31% identity, 91% coverage
Q9SR86 beta-alanine-pyruvate transaminase (EC 2.6.1.18); alanine-glyoxylate transaminase (EC 2.6.1.44) from Arabidopsis thaliana (see paper)
AT3G08860 alanine--glyoxylate aminotransferase, putative / beta-alanine-pyruvate aminotransferase, putative / AGT, putative from Arabidopsis thaliana
33% identity, 73% coverage
- Transcriptome and Proteome Association Analysis to Screen Candidate Genes Related to Salt Tolerance in Reaumuria soongorica Leaves under Salt Stress
Liu, Plants (Basel, Switzerland) 2023 - “...CHS2 1.20 up 1.53 up Chalcone synthase 2 Q9SF29 SYP71 1.03 up 1.56 up Syntaxin-71 Q9SR86 At3g08860 2.16 up 1.60 up Alanine--glyoxylate aminotransferase 2 homolog 3, mitochondrial Q8L856 CYB561A 1.01 up 1.63 up Transmembrane ascorbate ferrireductase 1 Q08507 ACO3 1.09 up 1.64 up 1-aminocyclopropane-1-carboxylate oxidase 3...”
- Identification and biochemical characterisation of tyrosine aminotransferase from Anthoceros agrestis unveils the conceivable entry point into rosmarinic acid biosynthesis in hornworts
Busch, Planta 2021 - “...A. thaliana IPAAT (AAP68293), A. thaliana PrephenAT (Q9SIE1), Oryza sativa AlaAT (BAA77261), A. thaliana AlaAT (Q9SR86), A. thaliana Ala/GluAT (AAN62333), Glycine max AspAT (AAC50015), A. thaliana (mitochondrial) AspAT1 (P46643), A. thaliana (cytoplasmic) AspAT2 (P46645), A. thaliana (plastidic) AspAT5 (P46248), Nicotiana tabacum HistidinolAT (CAA70403), Atropa belladonna PheAT...”
- Virulence factors encoded by Legionella longbeachae identified on the basis of the genome sequence analysis of clinical isolate D-4968
Kozak, Journal of bacteriology 2010 - “...Macaca mulatta XP_001601458.1, Nasonia vitripennis Q9SR86, Arabidopsis thaliana Q949X0, Arabidopsis thaliana NP_001054330.1, Oryza sativa subsp. japonica...”
- Synthesis of β-Alanine From Isoleucine and Propionate Catabolism via Aminotransferases
Goldfarb, Plant direct 2024 - “...He, and Lu 2011 ). Recent work in Arabidopsis showed that a putative enzyme (PYD4, At3g08860) could serve as a alanine aminotransferase (Parthasarathy etal. 2019 ). Based on sequence homology to both eukaryotic and prokaryotic homologs, we identified two other possible aminotransferases in Arabidopsis : alanine:glyoxylate...”
- “...A. O. Hudson . 2019 . The Arabidopsis Thaliana Gene Annotated by the Locus Tag At3g08860 Encodes Alanine Aminotransferase . Plant Direct 3 , no. 9 : e00171 . 10.1002/pld3.171 . 31549019 Parthasarathy , A. , M. A. Savka , and A. O. Hudson . 2019...”
- Metabolomic and transcriptomic basis of photoperiodic response regulation in broomcorn millet (Panicum miliaceum L.)
Wang, Scientific reports 2024 - “...cytochrome psbE gene was upregulated in M51. The expression levels of the amino acid transferase At3g08860 , acetaldehyde dehydrogenase ALDH2B4 , psbA , psaI , and psaC were significantly upregulated on D32, while the expression levels of IBR3 and ALDH6B2 dehydrogenase were significantly downregulated. Fig. 3...”
- “...as in the D32 Panicum miliaceum L. genotype, the expression levels of amino acid transferase At3g08860 , acetaldehyde dehydrogenase ALDH2B4 , psbA , psaI, and psaC genes were significantly up-regulated, whereas the expression levels of IBR3 and ALDH6B2 dehydrogenase were significantly down-regulated. To screen the differentially...”
- Overexpression of SLIM1 transcription factor accelerates vegetative development in Arabidopsis thaliana
Apodiakou, Frontiers in plant science 2024 - “...Y AT1G55260 LTPG6 Y N Y Y Y AT2G34660 ABCC2 Y Y Y Y Y AT3G08860 PYD4 Y Y Y Y Y AT3G52840 BGAL2 Y Y Y Y Y AT3G53310 REM16 Y N Y Y Y AT3G58600 NECAP-1 Y N Y N Y AT3G60140 BGLU30 Y...”
- “...to be involved in abiotic and biotic stress responses were also identified. These include PYD4 (AT3G08860), LTPG6 (AT1G55260), and CHIA (AT5G24090). PYD4 encodes a beta-alanine aminotransferase that performs the final enzymatic step in the synthesis of beta-alanine from propanoate ( Parthasarathy etal., 2019 ). Beta-alanine accumulates...”
- Transcriptome and Proteome Association Analysis to Screen Candidate Genes Related to Salt Tolerance in Reaumuria soongorica Leaves under Salt Stress
Liu, Plants (Basel, Switzerland) 2023 - “...1.20 up 1.53 up Chalcone synthase 2 Q9SF29 SYP71 1.03 up 1.56 up Syntaxin-71 Q9SR86 At3g08860 2.16 up 1.60 up Alanine--glyoxylate aminotransferase 2 homolog 3, mitochondrial Q8L856 CYB561A 1.01 up 1.63 up Transmembrane ascorbate ferrireductase 1 Q08507 ACO3 1.09 up 1.64 up 1-aminocyclopropane-1-carboxylate oxidase 3 Q6Z1G7...”
- “...and pyridine alkaloid biosynthesis ko00960 10 SYP71 Syntaxin-71 SNARE interactions in vesicular transport ko04130 11 At3g08860 Alanine--glyoxylate aminotransferase 2 homolog 3, mitochondrial Alanine, aspartate and glutamate metabolism ko00250 12 At3g08860 Alanine--glyoxylate aminotransferase 2 homolog 3, mitochondrial Glycine, serine and threonine metabolism ko00260 13 At3g08860 Alanine--glyoxylate aminotransferase...”
- Plant Growth Promotion and Stress Tolerance Enhancement through Inoculation with Bacillus proteolyticus OSUB18
Yang, Biology 2023 - “...AT4G27410 ); hva22 homolog D ( HVA22D , AT4G24960 ); pyrimidine 4 ( PYD4 , AT3G08860 ); and branched-chain amino acid transaminase 1 ( BCAT1 , AT1G10060 ). Figure 5 OSUB18 induces the systemic immunity of Arabidopsis plants after local leaf infiltration. ( A , B...”
- New insights into the regulation of plant metabolism by O-acetylserine: sulfate and beyond
Apodiakou, Journal of experimental botany 2023 - “...Pyridoxal phosphate (PLP) protein AT1G77670 3 Carbon metabolism, transaminase activity Depuydt and Vandepoele (2021) PYD4 AT3G08860 3 Response to nitrogen, transaminase activity Zrenner et al. (2009) SIP1;2 AT5G18290 3 Transporter activity Ishikawa et al. (2005) Transmembrane amino acid protein AT3G56200 3 Amino acid transporter activity Gaudet...”
- “...( Hirai et al. , 2003 ; Hubberten et al. , 2012b ). PYD4 PYD4 (AT3G08860) belongs to the aminotransferase gene family, and it functions as an alanine:glyoxylate aminotransferase/-alanine:pyruvate aminotransferase ( Parthasarathy et al. , 2019 ). PYD4 is up-regulated in response to osmotic stress and...”
- New Insight into Aspartate Metabolic Pathways in Populus: Linking the Root Responsive Isoenzymes with Amino Acid Biosynthesis during Incompatible Interactions of Fusarium solani
Han, International journal of molecular sciences 2022 - “...AlaATs exist in Arabidopsis , divided into AtAlaATs and AtGGTs . A novel enzyme gene (At3g08860) was recently endowed with AlaAT activity [ 72 ]. Arabidopsis AlaAT1 knockout mutant accumulated higher levels of Ala upon hypoxia, and less efficiency in utilization of exogenous Ala, indicating the...”
- Analysis of Alternative Splicing During the Combinatorial Response to Simultaneous Copper and Iron Deficiency in Arabidopsis Reveals Differential Events in Genes Involved in Amino Acid Metabolism
Mancini, Frontiers in plant science 2022 - “...acid metabolism.degradation Aspartate family.asparagine. L -asparaginase AT5G08100 L -Asparaginase/ L -asparagine amidohydrolase (ASPGA1) Branched-chain group.shared AT3G08860 Alanine-glyoxylate aminotransferase, putative (PYD4) Branched-chain group.leucine AT4G34030 3-METHYLCROTONYL-COA CARBOXYLASE (MCCB) Branched chain group.isoleucine AT5G48880 PEROXISOMAL 3-KETO-ACYL-COA THIOLASE 2 (KAT5) Aromatic aa.tryptophan AT5G65940 BETA-HYDROXYISOBUTYRYL-COA HYDROLASE 1 (CHY1) Specific differentially expressed genes...”
- More
RS9917_02041 Acetylornithine and succinylornithine aminotransferase from Synechococcus sp. RS9917
32% identity, 92% coverage
- Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803
Schriek, BMC genomics 2007 - “...WH7805_06416 Synechococcus sp. WH 5701 WH5701_03684, WH5701_03860 WH5701_07406, WH5701_15376 WH5701_06196 Synechococcus sp. RS 9917 RS9917_06190 RS9917_02041, RS9917_05240 RS9917_02641 Crocosphaera watsonii WH 8501 n.d. CwatDRAFT_5161 CwatDRAFT_0865, CwatDRAFT_0842, CwatDRAFT_0969 Trichodesmium erythraeum IMS 101 TeryDRAFT_4567 TeryDRAFT_3251 TeryDRAFT_2672 TeryDRAFT_3296, TeryDRAFT_3923 Freshwater species Synechococcus elongatus sp. PCC 6301 n.d. Syc0599_c, Syc1466_c...”
- “...WH7805_13803 WH7805_06416 Synechococcus sp. WH 5701 n.d. WH5701_07406, WH5701_15376 WH5701_06196 Synechococcus sp. RS 9917 n.d. RS9917_02041, RS9917_05240 RS9917_02641 Crocosphaera watsonii WH 8501 CwatDRAFT_0830 CwatDRAFT_5161 CwatDRAFT_0865, CwatDRAFT_0842, CwatDRAFT_0969 Trichodesmium erythraeum IMS 101 TeryDRAFT_2282 TeryDRAFT_3251 TeryDRAFT_2672 TeryDRAFT_3296, TeryDRAFT_3923 Freshwater species Synechococcus elongatus sp. PCC 6301 n.d. Syc0599_c, Syc1466_c...”
Cabys_3334 ornithine--oxo-acid transaminase from Caldithrix abyssi DSM 13497
32% identity, 92% coverage
An04g04130 uncharacterized protein from Aspergillus niger
30% identity, 80% coverage
- The International Space Station Environment Triggers Molecular Responses in Aspergillus niger
Blachowicz, Frontiers in microbiology 2022 - “...1.11 5.81E-03 An16g07920 Hypothetical protein 1.08 2.87E-02 An04g01230 EcmA Cell wall organization protein 1.02 8.38E-04 An04g04130 Ornithine transaminase 1.03 1.31E-02 An16g07110 Ach1 Acetyl-CoA hydrolase 1.06 2.25E-02 An04g04870 Superoxide dismutase 1.08 4.71E-03 An01g03740 XyrA D-xylose reductase 1.08 2.59E-02 An07g08990 PkiA Pyruvate kinase 1.12 2.92E-03 An08g00970 Rps28 Ribosomal...”
- “...-value An01g14960 Asparaginase 2.21 6.46E-04 An12g00160 Malate dehydrogenase 1.27 2.72E-03 An14g06010 Chorismate mutase 1.01 1.50E-02 An04g04130 Ornithine transaminase 1.03 1.31E-02 An16g02970 Glycine / Serine hydroxymethyltransferase 1.05 2.74E-04 An11g09510 Aspartate semialdehyde dehydrogenase 1.06 2.35E-03 An01g06530 Branched-chain-amino acid transaminase activity 1.18 2.49E-02 An15g05770 Hydrogen sulfide / sulfur amino...”
OAT_KLULA / Q6CWC1 Ornithine aminotransferase; Ornithine--oxo-acid aminotransferase; EC 2.6.1.13 from Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast) (Candida sphaerica) (see paper)
32% identity, 79% coverage
- catalytic activity: a 2-oxocarboxylate + L-ornithine = L-glutamate 5-semialdehyde + an L-alpha-amino acid (RHEA:13877)
cofactor: pyridoxal 5'-phosphate
gabT / Q4KKA1 4-aminobutyrate transaminase subunit (EC 2.6.1.19) from Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5) (see paper)
34% identity, 81% coverage
LOC21404820 alanine--glyoxylate aminotransferase 2 homolog 2, mitochondrial from Morus notabilis
34% identity, 73% coverage
- Genome-Wide Identification of Candidate Genes Associated with Heat Stress in Mulberry (Morus alba L.)
Jin, Current issues in molecular biology 2023 - “...12 genes participated in the valine, leucine and isoleucine degradation pathway. They included alanine--glyoxylate aminotransferase (LOC21404820), 2-oxoisovalerate dehydrogenase subunit alpha (LOC21403577), methylcrotonoyl-CoA carboxylase beta chain (LOC21410135), 2-oxoisovalerate dehydrogenase subunit beta 1 (LOC21388555), aldehyde dehydrogenase family 3 (LOC21398387), probable 3-hydroxybutyrate dehydrogenase (LOC21408668), branched-chain amino acid aminotransferase 1...”
- “...alpha (LOC21385626), probable enoyl-CoA hydratase 1 (LOC21392597), aldehyde dehydrogenase family 3 (LOC21396538) and alanine--glyoxylate aminotransferase (LOC21404820). In plants, the catabolism of amino acids is extremely important in metabolic stress (e.g., when there are limited carbohydrates during prolonged darkness or any other stress). In these circumstances, amino...”
Amir_1996 aminotransferase class-III from Actinosynnema mirum DSM 43827
31% identity, 85% coverage
EAM_2305 4-aminobutyrate aminotransferase from Erwinia amylovora ATCC 49946
37% identity, 83% coverage
arg1 / RF|NP_588255.1 acetylornithine aminotransferase; EC 2.6.1.11 from Schizosaccharomyces pombe (see paper)
O74548 Probable acetylornithine aminotransferase, mitochondrial from Schizosaccharomyces pombe (strain 972 / ATCC 24843)
SPCC777.09c acetylornithine aminotransferase from Schizosaccharomyces pombe
33% identity, 83% coverage
- CharProtDB Source (per GeneDB): GeneDB_Spombe
- Proteasome regulation of petite-negativity in fission yeast.
Amberg, bioRxiv : the preprint server for biology 2024 - “...Q01475 sar1 0.33 0.047 ADP-ribosylation factor Sar1 O59816 lat1 0.33 0.014 dihydrolipoamide S-acetyltransferase E2, Lat1 O74548 arg1 0.32 0.020 acetylornithine aminotransferase O13844 SPAC19G12.05 0.32 0.041 mitochondrial carrier, citrate Q9UU76 puf6 0.31 0.024 pumilio family RNA-binding protein Puf6 Q09794 ura1 0.31 0.011 carbamoyl-phosphate synthase (glutamine hydrolyzing), aspartate...”
- Thiol-independent action of mitochondrial thioredoxin to support the urea cycle of arginine biosynthesis in Schizosaccharomyces pombe
Song, Eukaryotic cell 2008 - “...parentheses (arg6, SPBC725.14; arg11, SPAC4G9.09c; arg1, SPCC777.09c; arg3, and SPAC4G9.10; arg12, SPBC428.05c; arg7, SPBC1773.14; car1, SPBP26C9.02c). (B)...”
- mtRF1a is a human mitochondrial translation release factor decoding the major termination codons UAA and UAG
Soleimanpour-Lichaei, Molecular cell 2007 - “...and analyzed by Southern blotting with either the 1.3 kb arg1Sp nuclear gene ORF (accession SPCC777.09c) or the pDG3 plasmid containing the full S.pombe mitochondrial DNA cloned on pBR322 as described in Chiron etal. (2005) . De Novo Mitochondrial Protein Synthesis Protein translation in human cells...”
- NOVEL AUXOTROPHIC FISSION YEAST
KUNO, 2006
APL_1974 Diaminobutyrate--2-oxoglutarate aminotransferase from Actinobacillus pleuropneumoniae L20
33% identity, 83% coverage
CJJ81176_0252 acetylornithine aminotransferase from Campylobacter jejuni subsp. jejuni 81-176
34% identity, 94% coverage
LLKF_1589 putrescine/ornithine aminotransferase from Lactococcus lactis subsp. lactis KF147
35% identity, 76% coverage
- Strain-Dependent Transcriptome Signatures for Robustness in Lactococcus lactis
Dijkstra, PloS one 2016 - “...protein A positive 4.6 LLKF_2245 hypothetical protein negative 2.2 LLKF_1546 deoC deoxyribose-phosphate aldolase positive 3.2 LLKF_1589 putrescine/ornithine aminotransferase negative 0.1 LLKF_0270 nrdD anaerobic ribonucleoside-triphosphate reductase negative 11.7 LLKF_0313 hypothetical protein negative 0.1 LLKF_1486 pp220 phage protein positive 0.5 LLKF_0104 hypothetical protein negative 0.2 LLKF_2239 hypothetical protein...”
δ-OAT / Q9FNK4 ornithine-δ-aminotransferase (EC 2.6.1.13) from Arabidopsis thaliana (see 2 papers)
OAT_ARATH / Q9FNK4 Ornithine aminotransferase, mitochondrial; Ornithine delta-aminotransferase; Ornithine--oxo-acid aminotransferase; EC 2.6.1.13 from Arabidopsis thaliana (Mouse-ear cress) (see 4 papers)
Q9FNK4 ornithine aminotransferase (EC 2.6.1.13) from Arabidopsis thaliana (see paper)
NP_199430 ornithine-delta-aminotransferase from Arabidopsis thaliana
AT5G46180 delta-OAT; ornithine-oxo-acid transaminase from Arabidopsis thaliana
34% identity, 73% coverage
- function: Mediates degradation of arginine for nitrogen recycling. Plays a role in non-host disease resistance by regulating pyrroline-5- carboxylate metabolism-induced hypersensitive response.
catalytic activity: a 2-oxocarboxylate + L-ornithine = L-glutamate 5-semialdehyde + an L-alpha-amino acid (RHEA:13877)
cofactor: pyridoxal 5'-phosphate
subunit: Homotetramer.
disruption phenotype: Unable to use arginine or ornithine as nitrogen source. Displays sensitivity against type II non-host pathogen infection. - Transcriptome Profiling and Weighted Gene Correlation Network Analysis Reveal Hub Genes and Pathways Involved in the Response to Polyethylene-Glycol-Induced Drought Stress of Two Citrus Rootstocks
Scialò, Biology 2024 - “...ID: XM_006486357) 0 1.371 625.33171 Ornithine aminotransferase (-OAT), mitochondrial OS = Arabidopsis thaliana (Swiss-Prot ID: Q9FNK4) 6.10 10 87 1.229 625.18915 Choline monooxygenase (CMO), chloroplastic OS = Arabidopsis thaliana (Swiss-Prot ID: Q9SZR0) 3.00 10 79 1.533 625.16432 Probable polyamine oxidase 5 (PAO5) OS = Arabidopsis thaliana...”
- [Analysis of transcriptional activity of the ornithine-delta-aminotransferase gene promoter in Arabidopsis thaliana].
Gerasimova, Genetika 2011 (PubMed)- GeneRIF: Cloning of the Arabidopsis thaliana genomic DNA fragment presumably corresponding to the promoter region of the ornithine-delta-aminotransferase (OAT) gene is reported.
- Ornithine-delta-aminotransferase is essential for arginine catabolism but not for proline biosynthesis.
Funck, BMC plant biology 2008 - GeneRIF: Ornithine-delta-aminotransferase (deltaOAT, At5g46180), the enzyme converting Orn to pyrroline-5-carboxylate (P5C), is localised in mitochondria and is essential for Arg catabolism.
- AtMYB72 aggravates photosynthetic inhibition and oxidative damage in Arabidopsis thaliana leaves caused by salt stress
Zhang, Plant signaling & behavior 2024 - “...CK conditions ( p < .05). After NaCl treatment, the expressions of anabolic genes OAT (AT5G46180), P5CR (AT5G14800, AT4G28340), and P5CS (AT3G55610, AT2G39800) in Col-0 and OE-10 plants were significantly increased. Compared with Col-0, overexpression of MYB72 gene significantly reduced the expression of P5CR (AT4G28340) in...”
- “...change significantly. In addition, the expression levels of the other two Pro synthesis genes OAT (AT5G46180) and P5CS (AT3G55610) were up regulated. Therefore, the mechanism of MYB72 transcription factor regulating Pro metabolism is relatively complex and needs further study. In addition to the adaptation of plants...”
- Developmental and hormonal regulation of Arabidopsis thaliana ornithine-delta-aminotransferase
Egorova, Vavilovskii zhurnal genetiki i selektsii 2022 - “...AtOAT promoter construct. The 1844 bp region upstream of the OAT gene translation start (TAIR, AT5G46180) was cloned in the promoterless vector pBI101 with the formation of the P1844 construct (Gerasimova et al., 2011a). The resulting vector contains the expression cassette harboring the -glucuronidase (gus) reporter...”
- Molecular mechanisms of resistance to Myzus persicae conferred by the peach Rm2 gene: A multi-omics view
Le, Frontiers in plant science 2022 - “...intrinsic protein Prupe_2G097000 AT4G35100 36 No 2.9 1.90E-03 PIP2; Aquaporin Plasma membrane intrinsic protein Prupe_4G083300 AT5G46180 75 Yes 1.4 2.70E-02 DELTA-OAT; Ornithine aminotransferase, mitochondrial Prupe_7G045400 AT5G14800 59 No 4.0 9.70E-17 PROC1; Pyrroline-5-carboxylate reductase Prupe_3G243500 AT5G38710 60 Yes 2.1 1.10E-05 POX2; Proline dehydrogenase 2 Prupe_6G262300 AT3G55610 75...”
- Identification and expression profiling of proline metabolizing genes in Arabidopsis thaliana and Oryza sativa to reveal their stress-specific transcript alteration
Arabia, Physiology and molecular biology of plants : an international journal of functional plant biology 2021 - “...51.44 7.54 Chl1, Mt2, ER1 AT5G46180, Bradi1g13830, GRMZM2G08082, GSVIVG00021525001, LOC_Os03g44150, POPTR_0011s02390, Sb01g013600 OsP5CS1 5 LOC_Os05g38150.1...”
- Network Topological Analysis for the Identification of Novel Hubs in Plant Nutrition
Di, Frontiers in plant science 2021 - “...A0A0A0LS81 Csa_1G096620 ASP1 (AT2G30970) 88% 768 22 1 11 0 Aspartate transaminase A0A0A0LQ27 Csa_1G025890 OAT (AT5G46180) 79% 738 21 7 3 Ornithine delta aminotransferase A0A0A0L404 Csa_4G646110 FTSH4 (AT2G26140) 81% 1128 19 2 1 1 ATP-dependent zinc metalloprotease (B) A0A0A0KIM0 Csa_6G497010 NFS1 (AT5G65720) 78% 756 33 2...”
- Cloning and molecular characterization of Triticum aestivum ornithine amino transferase (TaOAT) encoding genes
Anwar, BMC plant biology 2020 - “...wheat Sequence retrieval from the International Wheat Genome Sequencing Consortium (IWGSC) database using AtOAT accession At5g46180 as query resulted in a total of three scaffolds that matched our query, namely, TGACv1_scaffold_374190, TGACv1_scaffold_404925, and TGACv1_scaffold_435304, which were located on the long arm of chromosome group 5 with...”
- “...transformation was constructed by our laboratory previously [ 37 ]. Sequence retrieval Arabidopsis AtOAT (accession# At5g46180) was used as a query sequence to perform BLASTn using the IWGSC database ( https://urgi.versailles.inra.fr/ ) against the IWGSC Ref Seq v1.0 for all chromosome scaffolds using default parameters. Gene...”
- Low CO2 induces urea cycle intermediate accumulation in Arabidopsis thaliana
Blume, PloS one 2019 - “...GGAAAAGGAAATGACCAGGTTCGG TCAATAGCATCTTCTCGGCCTTGG CARA AT3G27740 TGCACGAAGACACTTGCTGA CTGTGCTCAACACCCCGATA CLPD AT5G51070 CCGTCCAGAGTTGTTGAACCG CCACGAGCCTCGACTTCAAGTC DIN4 AT3G13450 GACACTCCTTTCCCTCTAGTGTTCG ATTCACAGTGGATCTGATTGCATCC dOAT AT5G46180 TGTCCCCGGTTTCAGCTTAC AGCCTCAGATCCATCTCGGA IMD AT5G14200/AT1G31180 CGATGCTTCTCAAGTATGGACTTGG CCATTTCCTTGCATCCCACCAG NAGS2 AT4G37670 GAAGGAACCCGTGATGCCAGAG GCTCGCAGTAACTCCTCATCAGTTC OTC AT1G75330 CAAAGGCAAAGCAAGCTGGA CGGCTTCATCCTTTTGACCC P5CDH AT5G62530 GATAGGGACACCAGAGGCTATA GTAGATGGAGGAAGTTCCCAAC P5CS1 AT2G39800 GGTTGAGACTTGAGGAGAGACAC CCACTACATAAGCGAGGGTTTCAA PII AT4G01900 CCATCTTGCCTCGATTTGGTCAC CAGTAAAGCCGATGAAACTTGCTGG PP2A AT1G13320 CTGCAAACAATCTGAAGCGTCTTG CTGGAGCGAGAAGCGATACTG...”
- Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars
Lee, Journal of ginseng research 2017 - “...Argininosuccinate synthase AT4G24830.1 a 1 EC 3.5.3.1 Arginase AT4G08870.1 a 1 EC 2.6.1.13 Ornithine aminotransferase AT5G46180 a 4 EC 1.5.1.2 Pyrroline-5-carboxylate reductase AT5G14800.1 a 1 a Enzymes derived from Arabidopsis thaliana . b Enzymes derived from Glycine max . c Enzymes derived from Ricinus communis ....”
- More
XP_017641965 ornithine aminotransferase, mitochondrial isoform X1 from Gossypium arboreum
34% identity, 73% coverage
OAT / P04181 Ornithine aminotransferase (EC 2.6.1.13) from Homo sapiens (see 3 papers)
OAT_HUMAN / P04181 Ornithine aminotransferase, mitochondrial; Ornithine delta-aminotransferase; Ornithine--oxo-acid aminotransferase; EC 2.6.1.13 from Homo sapiens (Human) (see 8 papers)
NP_000265 ornithine aminotransferase, mitochondrial isoform 1 precursor from Homo sapiens
NP_001309894 ornithine aminotransferase, mitochondrial isoform 1 precursor from Homo sapiens
31% identity, 82% coverage
- function: Catalyzes the reversible interconversion of L-ornithine and 2-oxoglutarate to L-glutamate semialdehyde and L-glutamate.
catalytic activity: L-ornithine + 2-oxoglutarate = L-glutamate 5-semialdehyde + L- glutamate (RHEA:25160)
cofactor: pyridoxal 5'-phosphate
subunit: Homohexamer. - Molecular identification of hydroxylysine kinase and of ammoniophospholyases acting on 5-phosphohydroxy-L-lysine and phosphoethanolamine
Veiga-da-Cunha, The Journal of biological chemistry 2012 - “...(XP_001376874); ornithine aminotransferase (OAT) from H. sapiens (NP_000265), M. musculus ( BAE26718), and M. domestica (XP_001363028); bacterial proteins from...”
- Role of lung ornithine aminotransferase in idiopathic pulmonary fibrosis: regulation of mitochondrial ROS generation and TGF-β1 activity.
Lee, Experimental & molecular medicine 2024 - GeneRIF: Role of lung ornithine aminotransferase in idiopathic pulmonary fibrosis: regulation of mitochondrial ROS generation and TGF-beta1 activity.
- Biochemical and Bioinformatic Studies of Mutations of Residues at the Monomer-Monomer Interface of Human Ornithine Aminotransferase Leading to Gyrate Atrophy of Choroid and Retina.
Floriani, International journal of molecular sciences 2023 - GeneRIF: Biochemical and Bioinformatic Studies of Mutations of Residues at the Monomer-Monomer Interface of Human Ornithine Aminotransferase Leading to Gyrate Atrophy of Choroid and Retina.
- Ornithine aminotransferase supports polyamine synthesis in pancreatic cancer.
Lee, Nature 2023 - GeneRIF: Ornithine aminotransferase supports polyamine synthesis in pancreatic cancer.
- Determination of the pH dependence, substrate specificity, and turnovers of alternative substrates for human ornithine aminotransferase.
Butrin, The Journal of biological chemistry 2022 - GeneRIF: Determination of the pH dependence, substrate specificity, and turnovers of alternative substrates for human ornithine aminotransferase.
- Ornithine aminotransferase and carbamoyl phosphate synthetase 1 involved in ammonia metabolism serve as novel targets for early stages of gastric cancer.
Jiang, Journal of clinical laboratory analysis 2022 - GeneRIF: Ornithine aminotransferase and carbamoyl phosphate synthetase 1 involved in ammonia metabolism serve as novel targets for early stages of gastric cancer.
- Deficit of human ornithine aminotransferase in gyrate atrophy: Molecular, cellular, and clinical aspects.
Montioli, Biochimica et biophysica acta. Proteins and proteomics 2021 (PubMed)- GeneRIF: Deficit of human ornithine aminotransferase in gyrate atrophy: Molecular, cellular, and clinical aspects.
- A novel c.980C>G variant in OAT results in identifiable gyrate atrophy phenotype associated with retinal detachment in a young female.
Magliyah, Ophthalmic genetics 2021 (PubMed)- GeneRIF: A novel c.980C>G variant in OAT results in identifiable gyrate atrophy phenotype associated with retinal detachment in a young female.
- Variable phenotypes of gyrate atrophy in siblings with a nonsense mutation in OAT gene.
Sen, Ophthalmic genetics 2021 (PubMed)- GeneRIF: Variable phenotypes of gyrate atrophy in siblings with a nonsense mutation in OAT gene.
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- Multiomic analysis in fibroblasts of patients with inborn errors of cobalamin metabolism reveals concordance with clinical and metabolic variability
Wiedemann, EBioMedicine 2024 - “...presents in IEMB12 (frequency in IEMB12 a ) Biochemical synopsis cblC and cblG Propionaldehyde addition P04181 OAT Ornithine aminotransferase 613349 cblC: 1.699 0.048 Gyrate atrophy of choroid and retina; GACR 258870AR Maculopathy (8.1%) Peripheral neuropathy (7.8%) Increase or decrease Ornithine level cblG: 1.363 0.022 cblC Propionaldehyde...”
- The SARS-CoV-2 spike S1 protein induces global proteomic changes in ATII-like rat L2 cells that are attenuated by hyaluronan.
Mobley, American journal of physiology. Lung cellular and molecular physiology 2023 - Quantitative proteomic analyses uncover regulatory roles of Nrf2 in human endothelial cells.
Amin, Cell stress & chaperones 2023 - Mitochondria-derived vesicles and their potential roles in kidney stone disease.
Chaiyarit, Journal of translational medicine 2023 - “...REXO2 Q9Y3B8 Oligoribonuclease, mitochondrial (EC 3.1.-.-) (RNA exonuclease 2 homolog) (Small fragment nuclease) 162 OAT P04181 Ornithine aminotransferase, mitochondrial (EC 2.6.1.13) (Ornithine delta-aminotransferase) (Ornithineoxo-acid aminotransferase) [Cleaved into: Ornithine aminotransferase, hepatic form; Ornithine aminotransferase, renal form] 163 PAX9 P55771 Paired box protein Pax-9 164 PDF Q9HBH1 Peptide...”
- Characterization of proteins from the 3N5M family reveals an operationally stable amine transaminase
Kollipara, Applied microbiology and biotechnology 2022 - “...anthracis Q81SL2; KT861634 M W Y R G G N 100 31.9 TA-2OAT Homo sapiens P04181 Y S F S E K T 26.6 25.1 TA-3HMU Silicibacter pomeroyi Q5LMU1; F W Y M A R V 34.1 36.1 TA-3FCR Silicibacter sp. TM1040 Q1GD43 S Y Y...”
- Proteomic analysis of the umbilical cord in fetal growth restriction and preeclampsia.
Conrad, PloS one 2022 - “...E -1.84 Q9Y446 Plakophilin-3 -1.82 Q13361 Microfibrillar-associated protein 5 -1.77 P30711 Glutathione S-transferase theta-1 -1.58 P04181 Ornithine aminotransferase, mitochondrial -1.49 P01721 Immunoglobulin lambda variable 657 -1.45 P09110 3-ketoacyl-CoA thiolase, peroxisomal -1.37 P06276 Cholinesterase -1.36 P13693 Translationally-controlled tumor protein -1.34 P55001 Microfibrillar-associated protein 2 -1.26 Q9Y3Z3 Deoxynucleoside...”
- Acquisition of Letrozole Resistance Through Activation of the p38/MAPK Signaling Cascade
Walker, Anticancer research 2021 - “...<0.01 Q86UP2 Kinectin OS=Homo sapiens GN=KTN1 PE=1 SV=1 - [KTN1_HUMAN] 1,357 156.179 1.3392072 p <0.001 P04181 Ornithine aminotransferase, mitochondrial OS=Homo sapiens GN=OAT PE=1 SV=1 - [OAT_HUMAN] 439 48.5042 1.3330075 p <0.001 O15270 Serine palmitoyltransferase 2 OS=Homo sapiens GN=SPTLC2 PE=1 SV=1 - [SPTC2_HUMAN] 562 62.8839 1.3326487 p...”
- Remarkable and Unexpected Mechanism for (S)-3-Amino-4-(difluoromethylenyl)cyclohex-1-ene-1-carboxylic Acid as a Selective Inactivator of Human Ornithine Aminotransferase.
Zhu, Journal of the American Chemical Society 2021 - “...adduct mass. Amino acid residues are numbered according to the full-length protein sequence (Uniprot accession: P04181) used in crystallography studies and not to the recombinantly expressed version of h OAT. For clarity, amino acid cleavage sites generating y199 , y140, and y101 are shown in panel...”
- More
For advice on how to use these tools together, see
Interactive tools for functional annotation of bacterial genomes.
The PaperBLAST database links 789,361 different protein sequences to 1,256,019 scientific articles. Searches against EuropePMC were last performed on January 10 2025.
PaperBLAST builds a database of protein sequences that are linked
to scientific articles. These links come from automated text searches
against the articles in EuropePMC
and from manually-curated information from GeneRIF, UniProtKB/Swiss-Prot,
BRENDA,
CAZy (as made available by dbCAN),
BioLiP,
CharProtDB,
MetaCyc,
EcoCyc,
TCDB,
REBASE,
the Fitness Browser,
and a subset of the European Nucleotide Archive with the /experiment tag.
Given this database and a protein sequence query,
PaperBLAST uses protein-protein BLAST
to find similar sequences with E < 0.001.
To build the database, we query EuropePMC with locus tags, with RefSeq protein
identifiers, and with UniProt
accessions. We obtain the locus tags from RefSeq or from MicrobesOnline. We use
queries of the form "locus_tag AND genus_name" to try to ensure that
the paper is actually discussing that gene. Because EuropePMC indexes
most recent biomedical papers, even if they are not open access, some
of the links may be to papers that you cannot read or that our
computers cannot read. We query each of these identifiers that
appears in the open access part of EuropePMC, as well as every locus
tag that appears in the 500 most-referenced genomes, so that a gene
may appear in the PaperBLAST results even though none of the papers
that mention it are open access. We also incorporate text-mined links
from EuropePMC that link open access articles to UniProt or RefSeq
identifiers. (This yields some additional links because EuropePMC
uses different heuristics for their text mining than we do.)
For every article that mentions a locus tag, a RefSeq protein
identifier, or a UniProt accession, we try to select one or two
snippets of text that refer to the protein. If we cannot get access to
the full text, we try to select a snippet from the abstract, but
unfortunately, unique identifiers such as locus tags are rarely
provided in abstracts.
PaperBLAST also incorporates manually-curated protein functions:
- Proteins from NCBI's RefSeq are included if a
GeneRIF
entry links the gene to an article in
PubMed®.
GeneRIF also provides a short summary of the article's claim about the
protein, which is shown instead of a snippet.
- Proteins from Swiss-Prot (the curated part of UniProt)
are included if the curators
identified experimental evidence for the protein's function (evidence
code ECO:0000269). For these proteins, the fields of the Swiss-Prot entry that
describe the protein's function are shown (with bold headings).
- Proteins from BRENDA,
a curated database of enzymes, are included if they are linked to a paper in PubMed
and their full sequence is known.
- Every protein from the non-redundant subset of
BioLiP,
a database
of ligand-binding sites and catalytic residues in protein structures, is included. Since BioLiP itself
does not include descriptions of the proteins, those are taken from the
Protein Data Bank.
Descriptions from PDB rely on the original submitter of the
structure and cannot be updated by others, so they may be less reliable.
(For SitesBLAST and Sites on a Tree, we use a larger subset of BioLiP so that every
ligand is represented among a group of structures with similar sequences, but for
PaperBLAST, we use the non-redundant set provided by BioLiP.)
- Every protein from EcoCyc, a curated
database of the proteins in Escherichia coli K-12, is included, regardless
of whether they are characterized or not.
- Proteins from the MetaCyc metabolic pathway database
are included if they are linked to a paper in PubMed and their full sequence is known.
- Proteins from the Transport Classification Database (TCDB)
are included if they have known substrate(s), have reference(s),
and are not described as uncharacterized or putative.
(Some of the references are not visible on the PaperBLAST web site.)
- Every protein from CharProtDB,
a database of experimentally characterized protein annotations, is included.
- Proteins from the CAZy database of carbohydrate-active enzymes
are included if they are associated with an Enzyme Classification number.
Even though CAZy does not provide links from individual protein sequences to papers,
these should all be experimentally-characterized proteins.
- Proteins from the REBASE database
of restriction enzymes are included if they have known specificity.
- Every protein with an evidence-based reannotation (based on mutant phenotypes)
in the Fitness Browser is included.
- Sequence-specific transcription factors (including sigma factors and DNA-binding response regulators)
with experimentally-determined DNA binding sites from the
PRODORIC database of gene regulation in prokaryotes.
- Putative transcription factors from RegPrecise
that have manually-curated predictions for their binding sites. These predictions are based on
conserved putative regulatory sites across genomes that contain similar transcription factors,
so PaperBLAST clusters the TFs at 70% identity and retains just one member of each cluster.
- Coding sequence (CDS) features from the
European Nucleotide Archive (ENA)
are included if the /experiment tag is set (implying that there is experimental evidence for the annotation),
the nucleotide entry links to paper(s) in PubMed,
and the nucleotide entry is from the STD data class
(implying that these are targeted annotated sequences, not from shotgun sequencing).
Also, to filter out genes whose transcription or translation was detected, but whose function
was not studied, nucleotide entries or papers with more than 25 such proteins are excluded.
Descriptions from ENA rely on the original submitter of the
sequence and cannot be updated by others, so they may be less reliable.
Except for GeneRIF and ENA,
the curated entries include a short curated
description of the protein's function.
For entries from BioLiP, the protein's function may not be known beyond binding to the ligand.
Many of these entries also link to articles in PubMed.
For more information see the
PaperBLAST paper (mSystems 2017)
or the code.
You can download PaperBLAST's database here.
Changes to PaperBLAST since the paper was written:
- November 2023: incorporated PRODORIC and RegPrecise. Many PRODORIC entries were not linked to a protein sequence (no UniProt identifier), so we added this information.
- February 2023: BioLiP changed their download format. PaperBLAST now includes their non-redundant subset. SitesBLAST and Sites on a Tree use a larger non-redundant subset that ensures that every ligand is represented within each cluster. This should ensure that every binding site is represented.
- June 2022: incorporated some coding sequences from ENA with the /experiment tag.
- March 2022: incorporated BioLiP.
- April 2020: incorporated TCDB.
- April 2019: EuropePMC now returns table entries in their search results. This has expanded PaperBLAST's database, but most of the new entries are of low relevance, and the resulting snippets are often just lists of locus tags with annotations.
- February 2018: the alignment page reports the conservation of the hit's functional sites (if available from from Swiss-Prot or UniProt)
- January 2018: incorporated BRENDA.
- December 2017: incorporated MetaCyc, CharProtDB, CAZy, REBASE, and the reannotations from the Fitness Browser.
- September 2017: EuropePMC no longer returns some table entries in their search results. This has shrunk PaperBLAST's database, but has also reduced the number of low-relevance hits.
Many of these changes are described in Interactive tools for functional annotation of bacterial genomes.
PaperBLAST cannot provide snippets for many of the papers that are
published in non-open-access journals. This limitation applies even if
the paper is marked as "free" on the publisher's web site and is
available in PubmedCentral or EuropePMC. If a journal that you publish
in is marked as "secret," please consider publishing elsewhere.
Many important articles are missing from PaperBLAST, either because
the article's full text is not in EuropePMC (as for many older
articles), or because the paper does not mention a protein identifier such as a locus tag, or because of PaperBLAST's heuristics. If you notice an
article that characterizes a protein's function but is missing from
PaperBLAST, please notify the curators at UniProt
or add an entry to GeneRIF.
Entries in either of these databases will eventually be incorporated
into PaperBLAST. Note that to add an entry to UniProt, you will need
to find the UniProt identifier for the protein. If the protein is not
already in UniProt, you can ask them to create an entry. To add an
entry to GeneRIF, you will need an NCBI Gene identifier, but
unfortunately many prokaryotic proteins in RefSeq do not have
corresponding Gene identifers.
References
PaperBLAST: Text-mining papers for information about homologs.
M. N. Price and A. P. Arkin (2017). mSystems, 10.1128/mSystems.00039-17.
Europe PMC in 2017.
M. Levchenko et al (2017). Nucleic Acids Research, 10.1093/nar/gkx1005.
Gene indexing: characterization and analysis of NLM's GeneRIFs.
J. A. Mitchell et al (2003). AMIA Annu Symp Proc 2003:460-464.
UniProt: the universal protein knowledgebase.
The UniProt Consortium (2016). Nucleic Acids Research, 10.1093/nar/gkw1099.
BRENDA in 2017: new perspectives and new tools in BRENDA.
S. Placzek et al (2017). Nucleic Acids Research, 10.1093/nar/gkw952.
The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.
I. M. Keeseler et al (2016). Nucleic Acids Research, 10.1093/nar/gkw1003.
The MetaCyc database of metabolic pathways and enzymes.
R. Caspi et al (2018). Nucleic Acids Research, 10.1093/nar/gkx935.
CharProtDB: a database of experimentally characterized protein annotations.
R. Madupu et al (2012). Nucleic Acids Research, 10.1093/nar/gkr1133.
The carbohydrate-active enzymes database (CAZy) in 2013.
V. Lombard et al (2014). Nucleic Acids Research, 10.1093/nar/gkt1178.
The Transporter Classification Database (TCDB): recent advances
M. H. Saier, Jr. et al (2016). Nucleic Acids Research, 10.1093/nar/gkv1103.
REBASE - a database for DNA restriction and modification: enzymes, genes and genomes.
R. J. Roberts et al (2015). Nucleic Acids Research, 10.1093/nar/gku1046.
Deep annotation of protein function across diverse bacteria from mutant phenotypes.
M. N. Price et al (2016). bioRxiv, 10.1101/072470.
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory