PaperBLAST
PaperBLAST Hits for reanno::Koxy:BWI76_RS24235 Branched-chain-amino-acid transaminase (EC 2.6.1.42) (Klebsiella michiganensis M5al) (393 a.a., MHDRRLAARA...)
Show query sequence
>reanno::Koxy:BWI76_RS24235 Branched-chain-amino-acid transaminase (EC 2.6.1.42) (Klebsiella michiganensis M5al)
MHDRRLAARAGELKPSAVRELLKHSKLPGVISLGGGIPAPELFDTEGLNLAVQQVMNGRF
NDAFQYGLTEGYPPLRQAVSELCQARGVACPASHVYITSGSQQSLDIVARTLLDPGDAIV
VERPTYLAALQVFQLAQANILSVDTDDDGMLVEQLADLLETTRVKAVYLVPTFGNPGGKT
LSEARRRRLVELAKKHDFVIIEDDPYGEISFTDEVRRPLYQYAVELGCEDQVVYTSTFSK
ILAPGMRIGWIVMPDWLAQQTVIVKQAADLHTNMLSQVITAEYLSMNRLESQIALIREDY
RKKCVALADALESQLGEHLEFSRPKGGMFLWARFRYPFDTMEWMKKTLENGVVYVPGEAF
YNDNPDTRTLRLSYSTVSADGLMTAVERLAKSL
Running BLASTp...
Found 250 similar proteins in the literature:
BWI76_RS24235 Branched-chain-amino-acid transaminase (EC 2.6.1.42) from Klebsiella michiganensis M5al
100% identity, 100% coverage
- mutant phenotype: Specifically important for utilizing L-Leucine. Automated validation from mutant phenotype: the predicted function (2.6.1.42) was linked to the condition via a SEED subsystem. This annotation was also checked manually.
PAB2227 AMINOTRANSFERASE from Pyrococcus abyssi GE5
41% identity, 95% coverage
O57946 kynurenine-oxoglutarate transaminase (EC 2.6.1.7) from Pyrococcus horikoshii (see paper)
NP_142204 hypothetical protein from Pyrococcus horikoshii OT3
40% identity, 91% coverage
- Characteristic features of kynurenine aminotransferase allosterically regulated by (alpha)-ketoglutarate in cooperation with kynurenine
Okada, PloS one 2012 - “...Mus musculus ), pigs ( Sus scrofa ), and monkeys ( Macaca mulatta ) are NP_142204, NP_057312, NP_058889, NP_035964, XP_001924647, and XP_002804303, respectively. Multiple alignments were performed using ClustalW2. The sequence logo was generated using WebLogo [22] . Discussion The results of this study show that...”
- “...with HuKAT II. The GenBank database (GB) accession numbers for PhKAT and HuKAT II are NP_142204 and NP_057312, respectively. (TIF) Click here for additional data file. Figure S5 Allosteric regulations for PhKAT. (A) The sigmoid dose-response shows the allosteric inhibition by a second allosteric effector. The...”
PH0207, WP_048053058 PLP-dependent aminotransferase family protein from Pyrococcus horikoshii OT3
40% identity, 95% coverage
- Biochemical and genetic examination of two aminotransferases from the hyperthermophilic archaeon Thermococcus kodakarensis
Su, Frontiers in microbiology 2023 - “...ArAT I, also recognized Phe, Tyr, and Trp ( Andreotti et al., 1994 ). The PH0207 protein displays kynurenine aminotransferase activity which is involved in the degradation of Trp ( Okada et al., 2012 ), and the crystal structure has been determined ( Chon et al.,...”
- “...(His) Phenylpyruvate, 2-OG Matsui et al. (2000) PH0771 G2 (Aspartate aminotransferase) PH1322 G3 (Alanine-synthesizing aminotransferase) PH0207 G6 Kynurenine 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...”
- Characteristic features of kynurenine aminotransferase allosterically regulated by (alpha)-ketoglutarate in cooperation with kynurenine.
Okada, PloS one 2012 - GeneRIF: PhKAT (kynurenine aminotransferase) probably is regulated by allosteric control machineries, with alpha-ketoglutaric acid as the allosteric inhibitor. [PhKAT]
- Distinct physiological roles of the three [NiFe]-hydrogenase orthologs in the hyperthermophilic archaeon Thermococcus kodakarensis
Kanai, Journal of bacteriology 2011 - “...the orthologous aminotransferase in P. horikoshii (encoded by PH0207) was shown to exhibit activity toward a broad range of amino acids, including alanine (19)....”
- Overproduction and preliminary crystallographic study of a human kynurenine aminotransferase II homologue from Pyrococcus horikoshii OT3
Chon, Acta crystallographica. Section F, Structural biology and crystallization communications 2005 - “...KAT II as a query sequence indicates that ORF PH0207 shows the highest amino-acid sequence identity of 30% to human KAT II. It shows an amino-acid sequence...”
- Novel archaeal alanine:glyoxylate aminotransferase from Thermococcus litoralis
Sakuraba, Journal of bacteriology 2004 - “...Pyrobaculum aerophilum, a hypothetical protein (PH0207) of Pyrococcus horikoshii, a hypothetical kynulenine/alpha-aminoadipate aminotransferase (ST1411) of...”
- Molecular analysis of the role of two aromatic aminotransferases and a broad-specificity aspartate aminotransferase in the aromatic amino acid metabolism of Pyrococcus furiosus
Ward, Archaea (Vancouver, B.C.) 2002 - “...in both P. abyssi (PAB2227 and PAB0525) and P. horikoshii (PH0207 and PH1371). The structural tyrC gene encoding the AroAT II consists of 1203 bp and encodes a...”
3aovA / O57946 Crystal structure of pyrococcus horikoshii kynurenine aminotransferase in complex with plp
40% identity, 97% coverage
- Ligand: pyridoxal-5'-phosphate (3aovA)
Ac3H11_1015 Aromatic-amino-acid aminotransferase (EC 2.6.1.57) from Acidovorax sp. GW101-3H11
38% identity, 98% coverage
- mutant phenotype: Specifically important for utilizing L-Phenylalanine. Automated validation from mutant phenotype: the predicted function (PHEAMINOTRANS-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
PF0121 putative aspartate aminotransferase from Pyrococcus furiosus DSM 3638
41% identity, 94% coverage
- Biochemical and genetic examination of two aminotransferases from the hyperthermophilic archaeon Thermococcus kodakarensis
Su, Frontiers in microbiology 2023 - “...Tyr, and Trp ( Andreotti et al., 1994 ). In the case of G6, the PF0121 protein from P. furiosus , referred to as ArAT or AroAT I, displayed significant activity toward Phe, Trp, and Tyr ( Andreotti et al., 1995 ). The OCC_04335 protein from...”
- “...al. (2000) PF1702 G4 Aspartate aminotransferase Asp, (Glu) 2-OG, (Pyr, phenylpyruvate) Ward et al. (2002) PF0121 G6 Aromatic aminotransferase Phe, Tyr, Trp 2-OG Andreotti et al. (1995) PF1665 G7 (Histidinol-phosphate aminotransferase) PF0293 G8 (Histidinol-phosphate aminotransferase) II PF1685 (Acetylornithine aminotransferase) PF1421 (4-aminobutyrate aminotransferase) PF1232 (4-Aminobutyrate aminotransferase) PF0513...”
- A mutant ('lab strain') of the hyperthermophilic archaeon Pyrococcus furiosus, lacking flagella, has unusual growth physiology
Lewis, Extremophiles : life under extreme conditions 2015 - “...than the WT(Hale et al. 2008; Hale et al.). Several ORFs associated with aspartate metabolism (PF0121, PF0207, PF1056, PF1472) were down-regulated in the mutantvs. WT. At all three time points, Met biosynthesis (PF1266-1269) was down-regulated in the mutant; note that PF1267 and PF1268 had mutations corresponding...”
- “...mutant growth contrasts Gene ID Fold change Mutant vs. WT 10h 14h 24h Annotation Comment PF0121 9.2 17.1 18.4 aspartate aminotransferase PF0122 mutated (D) PF0207 2.5 2.6 9.8 argininosuccinate synthase PF0209 mutated (S) PF0333 4.0 14.9 2.1 flagella-related protein g Flagella biosynthesis; PF0332, PF0334, PF0337 mutated...”
- Impact of substrate glycoside linkage and elemental sulfur on bioenergetics of and hydrogen production by the hyperthermophilic archaeon Pyrococcus furiosus
Chou, Applied and environmental microbiology 2007 - “...regulator Putative carbohydrate binding protein Aminotransferase PF0121 PF1497 3.1 3.4 2.6 2.2 Aromatic amino acid aminotransferase Alanine aminotransferase...”
- Novel archaeal alanine:glyoxylate aminotransferase from Thermococcus litoralis
Sakuraba, Journal of bacteriology 2004 - “...Sulfolobus solfataricus, a putative aspartate aminotransferase (PF0121) of Pyrococcus furiosus, and the aminotransferase (APE0169) of Aeropyrum pernix,...”
- “...(http://www.genome.ad.jp/kegg/). It has been reported that ORF PF0121 of Pyrococcus furio- Downloaded from http://jb.asm.org/ on February 13, 2017 by University...”
- Whole-genome DNA microarray analysis of a hyperthermophile and an archaeon: Pyrococcus furiosus grown on carbohydrates or peptides
Schut, Journal of bacteriology 2003 - “...(6.1-fold) and two that have been purified, PF0121 (4.5-fold) (3) and PF1497 (2.5-fold) (62). These transamination reactions produce various 2-ketoacids as...”
- Molecular analysis of the role of two aromatic aminotransferases and a broad-specificity aspartate aminotransferase in the aromatic amino acid metabolism of Pyrococcus furiosus
Ward, Archaea (Vancouver, B.C.) 2002 - “...I (tyrB) was identified and contains the gene identifier PF0121. A BLAST search with the pyrococcal AlaAT (Ward et al. 2000) of the P. furiosus genome...”
A0A060PQX5 branched-chain-amino-acid transaminase (EC 2.6.1.42) from Thermococcus sp. (see paper)
41% identity, 94% coverage
ARAT1_THELN / H3ZPL1 Aromatic-amino-acid aminotransferase 1; ARAT-I; AROAT; EC 2.6.1.57 from Thermococcus litoralis (strain ATCC 51850 / DSM 5473 / JCM 8560 / NS-C) (see paper)
OCC_04335 PLP-dependent aminotransferase family protein from Thermococcus litoralis DSM 5473
41% identity, 94% coverage
- function: Catalyzes the transamination of phenylalanine, tyrosine and tryptophan. Shows virtually no activity towards aspartic acid, alanine, valine or isoleucine.
catalytic activity: an aromatic L-alpha-amino acid + 2-oxoglutarate = an aromatic oxo-acid + L-glutamate (RHEA:17533)
cofactor: pyridoxal 5'-phosphate
subunit: Homodimer. - Biochemical and genetic examination of two aminotransferases from the hyperthermophilic archaeon Thermococcus kodakarensis
Su, Frontiers in microbiology 2023 - “...displayed significant activity toward Phe, Trp, and Tyr ( Andreotti et al., 1995 ). The OCC_04335 protein from T. litoralis , referred to as ArAT I, also recognized Phe, Tyr, and Trp ( Andreotti et al., 1994 ). The PH0207 protein displays kynurenine aminotransferase activity which...”
- “...OCC_05516 G4 (Aspartate aminotransferase) OCC_02240 G5 Alanine glyoxylate aminotransferase Ala Glyoxylate Sakuraba et al. (2004) OCC_04335 G6 Aromatic aminotransferase Phe, Tyr, Trp 2-OG Andreotti et al. (1994) OCC_11814 (Histidinol-phosphate aminotransferase) OCC_11984 (Histidinol-phosphate aminotransferase) II OCC_00582 (4-Aminobutyrate aminotransferase) OCC_08410 (4-Aminobutyrate aminotransferase) OCC_10945 Moderate-substrate specificity amino acid racemase...”
TON_1295 multiple substrate aminotransferase from Thermococcus onnurineus NA1
40% identity, 92% coverage
Q8Y2V3 Probable transcriptional regulators containing a dna-binding hth domain and an aminotransferase domain transcription regulator protein from Ralstonia nicotianae (strain ATCC BAA-1114 / GMI1000)
42% identity, 97% coverage
TK0186 multiple substrate aminotransferase from Thermococcus kodakaraensis KOD1
40% identity, 93% coverage
- Removal of phosphoglycolate in hyperthermophilic archaea
Michimori, Proceedings of the National Academy of Sciences of the United States of America 2024 - “...anaerobic or microaerobic conditions, respectively. ( D ) AGAT activity in cell extracts from KU216, TK0186, TK0548, TK2268, and TK1094 strains. Gray or white bars indicate the specific activities in extracts from cells grown under anaerobic or microaerobic conditions, respectively. Activity measurements were carried out as...”
- “...query against the T. kodakarensis proteome resulted in the identification of multiple proteins (encoded by TK0186, TK2268, TK1094, TK0548, TK0260, and TK0250) with varying degrees of homology, suggesting that multiple proteins might exhibit aminotransferase activity with glyoxylate as the amino acceptor. Among the six candidate genes,...”
- Biochemical and genetic examination of two aminotransferases from the hyperthermophilic archaeon Thermococcus kodakarensis
Su, Frontiers in microbiology 2023 - “...(Pyr) This study TK1094 G3 (Alanine aminotransferase) Kanai et al. (2015) TK0260 G4 Aspartate aminotransferase 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....”
- “...of activity still observed in the disruption strains most likely reflects the activity of the TK0186 protein, a member of G6 ( Table 3 ). Interestingly, the TK0548 protein seems to be the predominant His aminotransferase in T. kodakarensis , accounting for approximately 90% of the...”
- Genetic examination of initial amino acid oxidation and glutamate catabolism in the hyperthermophilic archaeon Thermococcus kodakarensis
Yokooji, Journal of bacteriology 2013 - “...levels of TK1094, encoding alanine aminotransferase, and TK0186, encoding multiple-substrate aminotransferase, increase more than 4-fold in cells grown in...”
- Distinct physiological roles of the three [NiFe]-hydrogenase orthologs in the hyperthermophilic archaeon Thermococcus kodakarensis
Kanai, Journal of bacteriology 2011 - “...to alanine formation. An open reading frame (TK0186) annotated as a multiple-substrate aminotransferase gene could be one of the candidates responsible...”
1wstA / Q9V2W5 Crystal structure of multiple substrate aminotransferase (msat) from thermococcus profundus
40% identity, 97% coverage
- Ligand: pyridoxal-5'-phosphate (1wstA)
Ac3H11_1358 L-leucine transaminase; L-isoleucine transaminase (EC 2.6.1.42) from Acidovorax sp. GW101-3H11
40% identity, 94% coverage
- mutant phenotype: # Specifically important in nitrogen source L-Isoleucine; nitrogen source L-Leucine. Similarity to A0A060PQX5 suggests that glutamate is probably the physiological amino group donor (not alanine), see PMID:24687296
Deima_0046 PLP-dependent aminotransferase family protein from Deinococcus maricopensis DSM 21211
38% identity, 96% coverage
- Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...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* Trad_1390* Trad_1389* Trad_1388* Enzyme 1, -aminoadipate aminotransferase. Enzyme 2, Homoisocitrate...”
BTH_II0896 aminotransferase family protein from Burkholderia thailandensis E264
41% identity, 92% coverage
CD2424 putative aminotransferase from Clostridium difficile 630
36% identity, 97% coverage
Mrub_0871 putative GntR family transcriptional regulator from Meiothermus ruber DSM 1279
39% identity, 96% coverage
- Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...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 Ocepr_1387 Ocepr_1797* Ocepr_1798* Ocepr_1796* Ocepr_1788* Ocepr_1784* Ocepr_1781* Ocepr_1780* Ocepr_1779* Marinithermus...”
ST1411 400aa long hypothetical kynurenine/alpha-aminoadipate aminotransferase from Sulfolobus tokodaii str. 7
35% identity, 98% coverage
MMP0096 Aminotransferase (subgroup I) from Methanococcus maripaludis S2
32% identity, 98% coverage
- Complete genome sequence of the genetically tractable hydrogenotrophic methanogen Methanococcus maripaludis
Hendrickson, Journal of bacteriology 2004 - “...type I aminotransferase (77). Five type I aminotransferases (Mmp0096, -1072, -1216, -1396, and -1527; see below) are encoded, and experiments are needed to...”
- “...M. maripaludis has five aminotransferases from subgroup I (Mmp0096, -1072, -1216, -1396, and -1527), which is generally the most common subgroup, comprising...”
LYSN_THET2 / Q72LL6 2-aminoadipate transaminase; 2-aminoadipate aminotransferase; Alpha-aminoadipate aminotransferase; AAA-AT; AadAT; EC 2.6.1.39 from Thermus thermophilus (strain ATCC BAA-163 / DSM 7039 / HB27) (see 3 papers)
Q72LL6 2-aminoadipate transaminase (EC 2.6.1.39) from Thermus thermophilus (see paper)
2zyjA / Q72LL6 Crystal structure of lysn, alpha-aminoadipate aminotransferase (complexed with n-(5'-phosphopyridoxyl)-l-glutamate), from thermus thermophilus hb27 (see paper)
TTC0043 No description from Thermus thermophilus HB27
37% identity, 97% coverage
- function: Catalyzes the transfer of an amino group between 2-oxoadipate (2-OA) and glutamate (Glu) to yield alpha-aminodipate (AAA). It can also transaminate glutamate, leucine, and aromatic amino acids. It also contributes in the biosynthesis of other amino acids such as leucine.
catalytic activity: L-2-aminoadipate + 2-oxoglutarate = 2-oxoadipate + L- glutamate (RHEA:12601)
cofactor: pyridoxal 5'-phosphate
subunit: Homodimer. - Ligand: n-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-l-glutamic acid (2zyjA)
- Transposon mutagenesis of the extremely thermophilic bacterium Thermus thermophilus HB27
Carr, Extremophiles : life under extreme conditions 2015 - “...megaplasmid as annotated in GenBank, unless indicated otherwise. Gene ID Description # of isolates Strain TTC0043 lysN ( Miyazaki et al. 2004 ); -aminoadipate aminotransferase ( Nishida and Nishiyama 2012 ) 1 JC943 TTC0051 hypothetical protein 4 e.g. JC939 TTC0083 livF ; branched chain amino acid...”
- Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...Enzyme 5 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*...”
lysN / Q5SL82 L-2-aminoadipate aminotransferase monomer (EC 2.6.1.39) from Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8) (see paper)
TTHA0411 alpha-aminoadipate aminotransferase from Thermus thermophilus HB8
37% identity, 97% coverage
- Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...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* TSC_c01880* TSC_c01850* Meiothermus ruber Mrub_0871 Mrub_2738 Mrub_0027 Mrub_2721* Mrub_2723* Mrub_2724* Mrub_2727*...”
SSO0104 Aspartate aminotransferase (aspB-1) from Sulfolobus solfataricus P2
35% identity, 98% coverage
CD3664 putative amino acid aminotransferase from Clostridium difficile 630
34% identity, 98% coverage
- A novel regulator controls Clostridium difficile sporulation, motility and toxin production
Edwards, Molecular microbiology 2016 - “...of CD3668 , were slightly decreased in the CD3668 mutant ( Fig. S1C ), while CD3664 expression was unchanged. PCR analysis of cDNA from 630 erm confirmed that CD3668-CD3667-CD3666-CD3665-CD3664 constitute a transcriptional unit ( Fig. S1D, E ); however, our transcriptional data suggest that the full...”
- “...CD3667 is annotated as a selenium metabolism protein, CD3666 and CD3665 as hypothetical proteins and CD3664 as an aminotransferase, and are all uncharacterized, to our knowledge. The CD2123 and CD3668 mutants (MC379 and MC391, respectively) were tested for sporulation frequency after 24 h of growth (H...”
- Semiquantitative analysis of clinical heat stress in Clostridium difficile strain 630 using a GeLC/MS workflow with emPAI quantitation
Ternan, PloS one 2014 - “...mediated transcriptional control could be important for survival and maintenance of metabolism under heat stress. CD3664, a putative aminoacid aminotransferase with a cre CD site upstream that is predicted to be unregulated by ccpA, was upregulated by 2.14 fold in the combined proteome, and by 1.45...”
- Global transcriptional control by glucose and carbon regulator CcpA in Clostridium difficile
Antunes, Nucleic acids research 2012 - “...CD0833 CD1477, CD1536, CD1768, CD1893, CD2241, CD2280, CD2327, CD2347, CD2600, CD2625, CD2702, CD3218, CD3244, CD3377, CD3664). The de novo motif extraction program MEME ( 41 , 42 ) was used for the cre CD motif identification. A positional weight matrices (PWM)-based model of the CcpA binding...”
- “...to +46), CD2357 (+118 to +368), CD3218 (+197 to +405), CD3244 (385 to 197) and CD3664 (162 to +52) were amplified and radioactively labelled by PCR from chromosomal DNA with corresponding primers listed in Supplementary Table S1 . Promoter regions of CD1893 and CD3218 and internal...”
U876_04045 PLP-dependent aminotransferase family protein from Aeromonas hydrophila NJ-35
36% identity, 99% coverage
Ta1193 aspartate aminotransferase related protein from Thermoplasma acidophilum DSM 1728
33% identity, 94% coverage
Dgeo_2084 aminotransferase, class I and II from Deinococcus geothermalis DSM 11300
39% identity, 96% coverage
- Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...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 Deinococcus maricopensis Deima_0046 Deima_1545 Deima_2454 Deima_2593 Deima_1346* Deima_1349* Deima_1350* Deima_1353*...”
- Physiology of resistant Deinococcus geothermalis bacterium aerobically cultivated in low-manganese medium
Liedert, Journal of bacteriology 2012 - “...Extracellular solute-binding protein (Dgeo_1344) Aminotransferase (Dgeo_2084) (0.50) 22 PRC-barrel domain-containing protein (Dgeo_1677) Elongation factor Ts...”
OFBG_01202 PLP-dependent aminotransferase family protein from Oxalobacter formigenes OXCC13
33% identity, 96% coverage
- Proteome Dynamics of the Specialist Oxalate Degrader Oxalobacter formigenes
Ellis, Journal of proteomics & bioinformatics 2016 - “...increased in stationary relative to log (two genes in an operon involved in lysine biosynthesis, OFBG_01202 and OFBG_01207). Lysine is an important component of peptidoglycan and an increase in lysine synthesis may reflect the requirement for structural changes of the periplasm in stationary phase. Biosynthesis of...”
TSC_c05810 2-aminoadipate transaminase from Thermus scotoductus SA-01
36% identity, 97% coverage
- Evolution of lysine biosynthesis in the phylum deinococcus-thermus
Nishida, International journal of evolutionary biology 2012 - “...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 silvanus Mesil_2567 Mesil_1337 Mesil_0348 Mesil_0347 Mesil_0435* Mesil_0436* Mesil_0438* Mesil_0441* Mesil_0442*...”
PAE2315 aminotransferase, class I from Pyrobaculum aerophilum str. IM2
34% identity, 97% coverage
LGG_02639 Helix-turn-helix (HTH) containing DNA-binding domain and MocR-like aminotransferase from Lactobacillus rhamnosus GG
LGG_02639 PLP-dependent aminotransferase family protein from Lacticaseibacillus rhamnosus GG
35% identity, 97% coverage
- Growth phase-associated changes in the proteome and transcriptome of Lactobacillus rhamnosus GG in industrial-type whey medium
Laakso, Microbial biotechnology 2011 - “...0.507 LGG_01201 sufS Cysteine desulfurase 3 1.6 0.281 LGG_01478 pepO Endopeptidase O 4 1.6 1.788 LGG_02639 Aminotransferase 5 1.7 3.741 LGG_02708 selA Pyridoxal phosphatedependent enzyme 6 a 2.5 3.039 Carbohydrate metabolism Galactose metabolism LGG_00341 lacC Tagatose6phosphate kinase 7 3.4 7.214 LGG_00653 galK Galactokinase 8 2.5 2.755...”
- “...Function Proteomic (fold change) Transcriptomic (Log 2 R) 31h/20h Spot No. 28h/20h Amino acid metabolism LGG_02639 Aminotransferase 179 2.1 0.824 Carbohydrate metabolism Galactose metabolism LGG_00341 lacC Tagatose6phosphate kinase 180 2.1 1.548 LGG_00664 lacC Tagatose6phosphate kinase 181 2.3 2.407 LGG_00665 lacD Tagatose 1,6diphosphate aldolase 182 2 2.313...”
AMK58_05505 PLP-dependent aminotransferase family protein from Azospirillum brasilense
35% identity, 96% coverage
AZOBR_RS06555 Branched-chain-amino-acid transaminase (EC 2.6.1.42) from Azospirillum brasilense Sp245
35% identity, 96% coverage
- mutant phenotype: Specifically important for utilizing L-Leucine. Automated validation from mutant phenotype: the predicted function (2.6.1.42) was linked to the condition via a SEED subsystem. This annotation was also checked manually.
SMc04323 PROBABLE AMINOTRANSFERASE PROTEIN from Sinorhizobium meliloti 1021
35% identity, 94% coverage
TEL01S_RS09130 PLP-dependent aminotransferase family protein from Pseudothermotoga elfii DSM 9442 = NBRC 107921
34% identity, 94% coverage
- Adaptation Strategies to High Hydrostatic Pressures in Pseudothermotoga species Revealed by Transcriptional Analyses
Fenouil, Microorganisms 2023 - “...metabolism 0 1 1 TEL01S_RS04500 glnA ko00220:Arginine biosynthesis|ko00250:Alanine, aspartate, and glutamate metabolism 0 1 1 TEL01S_RS09130 ko00220:Arginine biosynthesis|ko00250:Alanine, aspartate, and glutamate metabolism|ko00270:Cysteine and methionine metabolism|ko00330:Arginine and proline metabolism|ko00350:Tyrosine metabolism|ko00360:Phenylalanine metabolism|ko00400:Phenylalanine, tyrosine, and tryptophan biosynthesis 0 1 1 TEL01S_RS03835 glmS ko00250:Alanine, aspartate, and glutamate metabolism 0 1...”
PFL_4362 aminotransferase, class I and II family protein from Pseudomonas fluorescens Pf-5
35% identity, 98% coverage
BMEI0626 TRANSCRIPTIONAL REGULATOR, GNTR FAMILY / MULTIPLE SUBSTRATE AMINOTRANSFERASE from Brucella melitensis 16M
33% identity, 93% coverage
BAB1_1397 Aminotransferase, class I and II from Brucella melitensis biovar Abortus 2308
33% identity, 94% coverage
- Transcriptome analysis of the Brucella abortus BvrR/BvrS two-component regulatory system
Viadas, PloS one 2010 - “...protein 2.4 BAB1_0568 iolE , sugar phosphate isomerase/epimerase 2.1 BAB1_0320 fadD , acyl-CoA synthetase 2.1 BAB1_1397 aspB , aminotransferase 2.0 BAB1_0476 cfa , methyltransferase 1.9 BAB1_1366 fhuD , ABC transporter 1.8 BAB1_0666 dapA , dihydrodipicolinate synthase 1.8 BAB2_0712 lpdA , dihydrolipoamide dehydrogenase 1.7 BAB1_0260 flgJ ,...”
- “...differentially expressed in the bvrR mutant compared to parental strain: BAB1_0237, BAB1_0891 ( exoR ), BAB1_1397, BAB2_0118 ( vjbR ), BAB2_0762 ( ompR ), BAB2_1127 and BAB2_1152. Three of these, namely exoR, ompR and vjbR are down regulated and have been previously implicated in Brucella virulence....”
- Intracellular adaptation of Brucella abortus
Lamontagne, Journal of proteome research 2009 - “...the genes coding for 3 proteins differentially expressed devoted to amino acid metabolism (BAB2_0515, BAB1_1399, BAB1_1397), 2 dedicated to protein synthesis (BAB1_0025, BAB1_0917), one belonging to the RNA polymerase complex (BAB1_1264), and the trigger factor Tig (BAB1_0917), which is the first protein to interact with nascent...”
- “...synthesis SSU S19 31 BAB1_1063 Nucleotide metab NrdA 32 BAB1_0025 Protein synthesis SSU S1 32 BAB1_1397 AA synthesis AspB 33 BAB1_1271/BAB1_1257 Protein synthesis Protein synthesis EF-Tu 33 BAB2_0515 AA synthesis Gcvp 34 BAB1_1246 Protein synthesis SSU S17 34 BAB1_1699 AA synthesis SerC 35 BAB1_1236 Protein synthesis...”
BSUIS_A1429 transcriptional regulator, GntR family from Brucella suis ATCC 23445
BR1378 aminotransferase, class I from Brucella suis 1330
33% identity, 94% coverage
- Evolution and genome specialization of Brucella suis biovar 2 Iberian lineages
Ferreira, BMC genomics 2017 - “...CDS coding for a hypothetical protein (BSUIS_A1430) is annotated among the GntR family transcriptional regulator (BSUIS_A1429), and the ketol-acid reductoisomerase (BSUIS_A1431). Orthologous of the three genes are also present in both CentralEuropean strains, but BSUIS_A1430 ortholog is missing in PT09143, PT0172 and Bs143CITA. Additionally, two intergenic...”
- Global Rsh-dependent transcription profile of Brucella suis during stringent response unravels adaptation to nutrient starvation and cross-talk with other stress responses
Hanna, BMC genomics 2013 - “...29) were down-regulated. Among the genes coding for transcriptional regulators, we identified three genes (BR1187, BR1378 and BR0872) belonging to the MerR, AspB, and ExoR family, respectively, as being down-regulated, the latter being described as repressing exopolysaccharide production. Interestingly, two genes of the flagella clusters, identified...”
PA1654 aminotransferase from Pseudomonas aeruginosa PAO1
37% identity, 98% coverage
- The AhR ligand phthiocol and vitamin K analogs as Pseudomonas aeruginosa quorum sensing inhibitors
Jia, Frontiers in microbiology 2022 - “...IV pilus inner membrane component PilO 0.77 phnA Anthranilate synthase component 1, pyocyanin specific 0.76 PA1654 Probable aminotransferase 0.76 wspC Probable biofilm formation methyltransferase WspC 0.76 roxS Histidine kinase 0.75 PA3677 Probable Resistance-Nodulation-Cell Division (RND) efflux membrane fusion protein 0.72 phzD2 Phenazine biosynthesis protein PhzD2 0.68...”
- An rhs gene linked to the second type VI secretion cluster is a feature of the Pseudomonas aeruginosa strain PA14
Jones, Journal of bacteriology 2014 - “...vgrG gene was found at this location (data not shown). Finally, two genes, identified as PA1654 and PA1655, are found upstream of hsiA2 on the PAO1 genome and encode a putative aminotransferase and glutathione S -transferase, respectively ( Fig. 1 ). In PA14, PA39016, and NCGM2.S1,...”
- Use of in vivo expression technology to identify genes important in growth and survival of Pseudomonas fluorescens Pf0-1 in soil: discovery of expressed sequences with novel genetic organization
Silby, Journal of bacteriology 2004 - “...Hypothetical protein; P. putida KT2440; E 5e19 None None PA1654 (80, 88) PA3918 (75, 86) a This fusion was isolated twice in the IVET screen for soil-induced...”
- Genetic footprinting with mariner-based transposition in Pseudomonas aeruginosa
Wong, Proceedings of the National Academy of Sciences of the United States of America 2000 - “...cassette into the MluI site. pSW1654Gm (688-bp from PA1654 ORF) was created as follows: primers 5-TAGGGATA ACAGGGTA ATGGATCCA AGCT T TAGGGATAACAGGGTAAT and...”
- “...bp for larger fragments. To footprint the PA1655, PA1654, and PA906 regions, PCR was performed with fluorescein-labeled MarOUT primer and chromosomal primers...”
W6QWV0 GntR family transcriptional regulator from Pseudomonas pseudoalcaligenes (strain CECT 5344)
36% identity, 97% coverage
RLV_5449 PLP-dependent aminotransferase family protein from Rhizobium leguminosarum bv. viciae
32% identity, 96% coverage
- Proteome Analysis Reveals a Significant Host-Specific Response in Rhizobium leguminosarum bv. viciae Endosymbiotic Cells
Durán, Molecular & cellular proteomics : MCP 2021 - “...protein UspA 2.16 90 29 RLV_4675 Chr nitrogen regulatory protein P-II 1 2.16 70 12 RLV_5449 Chr GntR family transcriptional regulator 2.66 22 11 RLV_7044 Chr phosphoenolpyruvate carboxykinase [ATP] 2.24 92 49 RLV_7109 Chr NAD-dependent succinate-semialdehyde DH 3.24 130 39 RLV_7281 Chr YciF stress-response, ferritin-like domain...”
- “...GntR-like regulators annotated in the Rlv UPM791 genome ( 35 ), only two (RLV_1934A and RLV_5449) were consistently detected in bacteroids. Interestingly, the comparative analysis of proteomic profile indicated that both GntR-like proteins were overexpressed in pea. In addition, one MerR-like transcriptional regulator (RLV_7111) was overexpressed...”
1vp4A / Q9X0L5 Crystal structure of a putative aminotransferase (tm1131) from thermotoga maritima msb8 at 1.82 a resolution
32% identity, 92% coverage
- Ligand: pyridoxal-5'-phosphate (1vp4A)
Rru_A3004 Aminotransferase, class I and II from Rhodospirillum rubrum ATCC 11170
36% identity, 94% coverage
BAS3600 transcriptional regulator, GntR family/aminotransferase, class I protein from Bacillus anthracis str. Sterne
29% identity, 79% coverage
y2375 PLP-dependent aminotransferase family protein from Yersinia pestis KIM10+
YPO1936 putative aminotransferase from Yersinia pestis CO92
YPTB1934 putative aminotransferase from Yersinia pseudotuberculosis IP 32953
31% identity, 96% coverage
YP1678 putative aminotransferase from Yersinia pestis biovar Medievalis str. 91001
NP_669682 putative aminotransferase from Yersinia pestis KIM
32% identity, 95% coverage
- Obtaining Specific Sequence Tags for Yersinia pestis and Visually Detecting Them Using the CRISPR-Cas12a System
Chen, Pathogens (Basel, Switzerland) 2021 - “...pseudotuberculosis 1682 (Yp1682) strain was isolated from a pig in Japan, the Y. pseudotuberculosis 1678 (Yp1678) strain was isolated from a person in Japan, and the Y. pseudotuberculosis 1688 (Yp1688) strain was isolated from a dog in Japan. They are part of the Beijing Institute of...”
- “...the methods specificity, we concurrently detected Y. pestis ( Y. pestis 201), Y. pseudotuberculosis (Yp1682, Yp1678, and Yp1688), Bacillus anthracis (A16PI2), S. aureus (ATCC49521), and E. coli (DH5). Genomic DNAs (50 ng/L) from each bacterium were extracted as the templates. The fluorescence intensity detected every 12...”
- Extensive antibody cross-reactivity among infectious gram-negative bacteria revealed by proteome microarray analysis
Keasey, Molecular & cellular proteomics : MCP 2009 - “...2187 Hypothetical protein, NP_669497 + + 2225 Putative transposase, NP_669534 + + 2375 Putative aminotransferase, NP_669682 + + 2378 Hypothetical protein, NP_669685 + + 2385 Putative Coenzyme A transferase, NP_669692 + + 2398 AraC-type transcriptional regulator, NP_669705 + 2707 Putative acyl transferase, NP_670009 + 2725 Putative...”
BBMN68_905 PLP-dependent aminotransferase family protein from Bifidobacterium longum subsp. longum BBMN68
30% identity, 66% coverage
- Transcriptomic analysis of Bifidobacterium longum subsp. longum BBMN68 in response to oxidative shock
Zuo, Scientific reports 2018 - “...lysR NS 1.38 BBMN68_843 Putative transcriptional regulator 2.44 2.51 BBMN68_1661 Putative transcriptional regulator 1.29 NS BBMN68_905 Hypothetical protein Hypothetical protein 4.79 4.64 BBMN68_1400 Hypothetical protein 4.63 4.00 BBMN68_582 Hypothetical protein 2.87 3.49 BBMN68_105 Hypothetical protein 1.92 3.02 BBMN68_248 Hypothetical protein 1.70 2.71 BBMN68_519 Hypothetical protein 1.58...”
MSMEG_2493 aminotransferase, class I and II family protein from Mycobacterium smegmatis str. MC2 155
34% identity, 93% coverage
- The PII protein interacts with the Amt ammonium transport and modulates nitrate/nitrite assimilation in mycobacteria
Ensinck, Frontiers in microbiology 2024 - “...protein MSMEG_6266 2.374394323 0.000453635 Thiocyanate hydrolase beta subunit MSMEG_6267 2.353291727 0.000140793 Thiocyanate hydrolase gamma subunit MSMEG_2493 2.219032007 0.00013309 Aminotransferase, class I and II family protein MSMEG_1295 2.075248595 0.01497605 5-hydroxyisourate hydrolase MSMEG_1612 2.132949783 0.004773754 Extracellular solute-binding protein, family protein 3 MSMEG_0965; MSMEG_5483; MSMEG_0520; MSMEG_6057 mspA, mspC; mspB;...”
- Defining the nitrogen regulated transcriptome of Mycobacterium smegmatis using continuous culture
Petridis, BMC genomics 2015 - “...dihydrodipicolinate reductase N-terminal domain-containing protein msmeg_6261 2.73 4.86E-04 glutamine amidotransferase msmeg_6260 2.63 1.54E-04 glutamine synthetase msmeg_2493 2.42 3.78E-03 aminotransferase class I and class II family protein msmeg_6197 d 2.40 1.58E-02 diaminopimelate decarboxylase msmeg_2494 2.20 8.20E-03 Xaa-Pro aminopeptidase msmeg_5374 2.18 4.69E-05 glutamate-ammonia ligase msmeg_6263 2.07 1.21E-02 glutamate...”
2zc0A / Q9C4M4 Crystal structure of an archaeal alanine:glyoxylate aminotransferase (see paper)
32% identity, 96% coverage
- Ligand: 4'-deoxy-4'-aminopyridoxal-5'-phosphate (2zc0A)
OCC_02240 PLP-dependent aminotransferase family protein from Thermococcus litoralis DSM 5473
32% identity, 96% coverage
- Removal of phosphoglycolate in hyperthermophilic archaea
Michimori, Proceedings of the National Academy of Sciences of the United States of America 2024 - “...34 ). An aminotransferase specific toward glyoxylate and alanine from T. litoralis , encoded by OCC_02240, has been reported ( 35 ). A BLAST search using the amino acid sequence of OCC_02240 as the query against the T. kodakarensis proteome resulted in the identification of multiple...”
- “...were examined here in detail. The TK0186 protein was most related (41% identical) to the OCC_02240 protein specific toward glyoxylate and alanine. Glyoxylate Aminotransferase Activity of the TK0186 and TK1094 Proteins. The TK0186 and TK1094 genes were expressed in E. coli BL21-CodonPlus(DE3)-RIL and the recombinant proteins...”
- Biochemical and genetic examination of two aminotransferases from the hyperthermophilic archaeon Thermococcus kodakarensis
Su, Frontiers in microbiology 2023 - “...are not found on any of the other Thermococcales genomes, but homologs of OCC_10965 (3/40), OCC_02240 (10/40, G5), and OCC_11814 (5/40) can be identified in other species. A detailed phylogenetic tree based on sequences of all Class I aminotransferase homologs from Thermococcales species is shown in...”
- “...(Aminotransferase) OCC_03788 G3 (Alanine aminotransferase) OCC_03517 (Hypothetical protein) OCC_10965 Aspartate aminotransferase OCC_05516 G4 (Aspartate aminotransferase) OCC_02240 G5 Alanine glyoxylate aminotransferase Ala Glyoxylate Sakuraba et al. (2004) OCC_04335 G6 Aromatic aminotransferase Phe, Tyr, Trp 2-OG Andreotti et al. (1994) OCC_11814 (Histidinol-phosphate aminotransferase) OCC_11984 (Histidinol-phosphate aminotransferase) II OCC_00582...”
Q929S0 Lin2204 protein from Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)
34% identity, 67% coverage
YdfD/YisV / VIMSS6924547 YdfD/YisV regulator of Metabolite transport (activator/repressor) from Paenibacillus sp. JDR-2
31% identity, 78% coverage
BC3039 Transcriptional regulator, GntR family from Bacillus cereus ATCC 14579
28% identity, 70% coverage
- Comprehensive classification of the PIN domain-like superfamily
Matelska, Nucleic acids research 2017 - “...corresponding gene can be found in the genomic context of GntR-family, MocR-type regulator (ARO8, COG1167; BC3039 in B. cereus ). The MocR-like protein consists of an N-terminal winged HTH DNA-binding domain and a large C-terminal type I aminotransferase domain ( 116 ). The aminotransferase catalyzes the...”
BSU10880 putative PLP-dependent transcriptional regulator from Bacillus subtilis subsp. subtilis str. 168
29% identity, 75% coverage
GBAA2609 transcriptional regulator, GntR family from Bacillus anthracis str. 'Ames Ancestor'
29% identity, 78% coverage
ACSP50_8287 PLP-dependent aminotransferase family protein from Actinoplanes sp. SE50/110
32% identity, 93% coverage
- The expression of the acarbose biosynthesis gene cluster in Actinoplanes sp. SE50/110 is dependent on the growth phase
Droste, BMC genomics 2020 - “...regulators ( ACSP50_1631 , ACSP50_2235, ACSP50_4697 , ACSP50_5005 , ACSP50_6401 , ACSP50_6463, ACSP50_8007, ACSP50_8120 and ACSP50_8287 ), a two-component regulator system ( ACSP50_3744 , ACSP50_3745 ) and 2 sigma factor genes ( ACSP50_0644 , ACSP50_6006 ) were determined to show the same transcription dynamics as the...”
PA2897 probable transcriptional regulator from Pseudomonas aeruginosa PAO1
Q9HZV0 Probable transcriptional regulator from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
PA14_26590 putative transcriptional regulator, GntR family from Pseudomonas aeruginosa UCBPP-PA14
30% identity, 75% coverage
- BatR: A novel regulator of antibiotic tolerance inPseudomonas aeruginosabiofilms
Piazza, 2024 - Tailored Pyridoxal Probes Unravel Novel Cofactor-Dependent Targets and Antibiotic Hits in Critical Bacterial Pathogens
Pfanzelt, Angewandte Chemie (International ed. in English) 2022 - “...Interestingly, PL10 again was able to enrich putative transcriptional regulators (e.g. PA2032 , PA2100 , PA2897 and PA5283 , annotation by InterPro [29] ). It seems that the modification of the C6 position is a preferred motif for the recognition of this enzyme class. Further, PA5313...”
- Trimethylation of Elongation Factor-Tu by the Dual Thermoregulated Methyltransferase EftM Does Not Impact Its Canonical Function in Translation
Prezioso, Scientific reports 2019 - “...changing in response to EftM presence. These eight seemingly unrelated proteins (PA2115, PA1489, PA3984, PA2647, PA2897, PA4588; Fig. 6 . PAHM4_RS15825, PAHM4_RS17805, Supplemental Table 3 ) were determined to be significantly changing with a p -value<0.05. Therefore, these eight proteins are potentially differentially translated in response...”
- High-throughput detection of RNA processing in bacteria
Gill, BMC genomics 2018 - “...1 124 rsmY rsmY None 4 11 720,091720,345 PA0667.1 255 Not identified Not identified PA3505, PA2897, PA0690 3 1 798,865799,255 PA0730.1 391 pant80 PA14sr_122 None 3 44 883,307883,582 PA0805.1 276 pant89 PA14sr_119PA14sr_120 None 5 5 1,045,4141,045,733 PA0958.1 320 pant103 PA14sr_112 None 6 2 1,182,8201,183,057 PA1091.1 238...”
- Inhibition of Pseudomonas aeruginosa swarming motility by 1-naphthol and other bicyclic compounds bearing hydroxyl groups
Oura, Applied and environmental microbiology 2015 - “...no. PA4525 PA4526 PA4663 Other PA0865 PA1546 PA2570 PA2897 PA3225 PA3552 PA4776 PA5100 Hypothetical proteins PA1095 PA1096 PA1404 PA1559 PA1679 PA1874 PA1914...”
- Swarming of Pseudomonas aeruginosa is a complex adaptation leading to increased production of virulence factors and antibiotic resistance
Overhage, Journal of bacteriology 2008 - “...gltR, rhlR, ntrB, ybbL, rnk, glnK, lasR, PA0610, PA2897, FIG. 1. Functional classification of nonhypothetical genes with a change in expression level of greater...”
- Loss of the Two-Component System TctD-TctE in Pseudomonas aeruginosa Affects Biofilm Formation and Aminoglycoside Susceptibility in Response to Citric Acid
Taylor, mSphere 2019 - “...PA14_30830 2.17 PA14_44860 2.15 PA14_71720 2.14 PA14_19870 ldh Leucine dehydrogenase 2.08 PA14_05060 2.06 PA14_24760 2.05 PA14_26590 2.04 PA14_51850 2.01 PA14_27210 efp Translation elongation factor P 2.01 PA14_66140 2.01 PA14_17080 pyrH Uridylate kinase 2.02 PA14_64560 2.02 PA14_65605 parC Topoisomerase IV subunit A 2.03 PA14_54370 lepA GTP-binding protein...”
AADAT / Q8N5Z0 Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial (EC 2.6.1.7; EC 2.6.1.39) from Homo sapiens (see 5 papers)
AADAT_HUMAN / Q8N5Z0 Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial; KAT/AadAT; 2-aminoadipate aminotransferase; 2-aminoadipate transaminase; Alpha-aminoadipate aminotransferase; AadAT; Glycine transaminase AADAT; Kynurenine aminotransferase II; Kynurenine--glyoxylate transaminase AADAT; Kynurenine--oxoglutarate aminotransferase II; Kynurenine--oxoglutarate transaminase 2; Kynurenine--oxoglutarate transaminase II; Methionine--glyoxylate transaminase AADAT; EC 2.6.1.39; EC 2.6.1.4; EC 2.6.1.63; EC 2.6.1.7; EC 2.6.1.73 from Homo sapiens (Human) (see 4 papers)
Q8N5Z0 2-aminoadipate transaminase (EC 2.6.1.39); kynurenine-oxoglutarate transaminase (EC 2.6.1.7) from Homo sapiens (see 16 papers)
NP_057312 kynurenine/alpha-aminoadipate aminotransferase, mitochondrial isoform b from Homo sapiens
30% identity, 91% coverage
- function: Transaminase with broad substrate specificity. Has transaminase activity towards aminoadipate, kynurenine, methionine and glutamate. Shows activity also towards tryptophan, aspartate and hydroxykynurenine. Accepts a variety of oxo-acids as amino-group acceptors, with a preference for 2-oxoglutarate, 2-oxocaproic acid, phenylpyruvate and alpha-oxo-gamma-methiol butyric acid. Can also use glyoxylate as amino-group acceptor (in vitro).
catalytic activity: glycine + 2-oxoglutarate = glyoxylate + L-glutamate (RHEA:14089)
catalytic activity: L-kynurenine + 2-oxoglutarate = kynurenate + L-glutamate + H2O (RHEA:65560)
catalytic activity: L-kynurenine + glyoxylate = kynurenate + glycine + H2O (RHEA:65896)
catalytic activity: 3-hydroxy-L-kynurenine + glyoxylate = xanthurenate + glycine + H2O (RHEA:65900)
catalytic activity: 2-oxohexanoate + L-kynurenine = L-2-aminohexanoate + kynurenate + H2O (RHEA:66060)
catalytic activity: 3-phenylpyruvate + L-kynurenine = kynurenate + L-phenylalanine + H2O (RHEA:66092)
catalytic activity: 4-methylsulfanyl-2-oxobutanoate + L-kynurenine = kynurenate + L-methionine + H2O (RHEA:69096)
catalytic activity: 2-oxo-3-sulfanylpropanoate + L-kynurenine = kynurenate + L- cysteine + H2O (RHEA:69104)
catalytic activity: indole-3-pyruvate + L-kynurenine = kynurenate + L-tryptophan + H2O (RHEA:66052)
catalytic activity: 2-oxopentanoate + L-kynurenine = L-2-aminopentanoate + kynurenate + H2O (RHEA:66076)
catalytic activity: 4-methyl-2-oxopentanoate + L-kynurenine = kynurenate + L- leucine + H2O (RHEA:66068)
catalytic activity: L-2-aminoadipate + 2-oxoglutarate = 2-oxoadipate + L- glutamate (RHEA:12601)
catalytic activity: glyoxylate + L-methionine = 4-methylsulfanyl-2-oxobutanoate + glycine (RHEA:22884)
catalytic activity: L-2-aminoadipate + glyoxylate = 2-oxoadipate + glycine (RHEA:69112)
catalytic activity: L-tyrosine + glyoxylate = 3-(4-hydroxyphenyl)pyruvate + glycine (RHEA:69116)
catalytic activity: glyoxylate + L-phenylalanine = 3-phenylpyruvate + glycine (RHEA:69120)
catalytic activity: L-tryptophan + glyoxylate = indole-3-pyruvate + glycine (RHEA:69124)
catalytic activity: L-leucine + glyoxylate = 4-methyl-2-oxopentanoate + glycine (RHEA:69128)
catalytic activity: 2-oxobutanoate + L-kynurenine = (2S)-2-aminobutanoate + kynurenate + H2O (RHEA:66044)
catalytic activity: 2-oxoadipate + L-kynurenine = L-2-aminoadipate + kynurenate + H2O (RHEA:70047)
cofactor: pyridoxal 5'-phosphate
subunit: Homodimer. - Characteristic features of kynurenine aminotransferase allosterically regulated by (alpha)-ketoglutarate in cooperation with kynurenine
Okada, PloS one 2012 - “...musculus ), pigs ( Sus scrofa ), and monkeys ( Macaca mulatta ) are NP_142204, NP_057312, NP_058889, NP_035964, XP_001924647, and XP_002804303, respectively. Multiple alignments were performed using ClustalW2. The sequence logo was generated using WebLogo [22] . Discussion The results of this study show that the...”
- “...II. The GenBank database (GB) accession numbers for PhKAT and HuKAT II are NP_142204 and NP_057312, respectively. (TIF) Click here for additional data file. Figure S5 Allosteric regulations for PhKAT. (A) The sigmoid dose-response shows the allosteric inhibition by a second allosteric effector. The region of...”
- The Biology and Biochemistry of Kynurenic Acid, a Potential Nutraceutical with Multiple Biological Effects.
Alves, International journal of molecular sciences 2024 - “...the observation does not seem to have been followed up. 4.5. KAT II KATII (Uniprot Q8N5Z0), 425 residues, has a very broad substrate specificity, albeit with a preference for glutamate L-kynurenine, a K m for kynureine of 4.7 mM and a k cat of 585 min...”
- Annotating Macromolecular Complexes in the Protein Data Bank: Improving the FAIRness of Structure Data
Appasamy, 2023 - Dynamic Changes of Urine Proteome in Rat Models Inoculated with Two Different Hepatoma Cell Lines.
Zhang, Journal of oncology 2021 - “...cancer O94760 Dimethylargininase-1 2.48 Tissue Prostate cancer Q96S37 Solute carrier family 22 member 12 2.48 Q8N5Z0 2-Aminoadipate transaminase 2.47 Q13113 PDZK1-interacting protein 1 2.46 O95154 Aflatoxin B1 aldehyde reductase member 3 2.45 O00299 Chloride intracellular channel protein 1 2.44 Tissue Gastric, colon, lung, and glioblastoma cancers...”
- Structure of the PLP-Form of the Human Kynurenine Aminotransferase II in a Novel Spacegroup at 1.83 Å Resolution
Nematollahi, International journal of molecular sciences 2016 - “...YASARA [ 54 ]. The primary sequence of hKAT-II was obtained from the Swiss-Prot database (Q8N5Z0) [ 61 ] which has a total of 425 residues in the monomer. Using PSI-BLAST 209 hits were found, and 25 models were built using the highest score templates. Specifically,...”
XP_006714294 kynurenine/alpha-aminoadipate aminotransferase, mitochondrial isoform X1 from Homo sapiens
30% identity, 84% coverage
- Expression analysis of selected genes involved in tryptophan metabolic pathways in Egyptian children with Autism Spectrum Disorder and learning disabilities.
Higazi, Scientific reports 2021 - GeneRIF: Expression analysis of selected genes involved in tryptophan metabolic pathways in Egyptian children with Autism Spectrum Disorder and learning disabilities.
- N-Acetylcysteine Inhibits Kynurenine Aminotransferase II.
Blanco-Ayala, Neuroscience 2020 - GeneRIF: N-Acetylcysteine Inhibits Kynurenine Aminotransferase II.
- Variation of genes encoding KAT1, AADAT and IDO1 as a potential risk of depression development.
Wigner, European psychiatry : the journal of the Association of European Psychiatrists 2018 (PubMed)- GeneRIF: In this work, we assessed the relationship between single-nucleotide polymorphisms (SNPs) of KAT1, KAT2 and IDO1 gene encoding, and the risk of depression development. Our study was performed on the DNA isolated from peripheral blood of 281 depressed patients and 236 controls. We genotyped, by using TaqMan probes, four polymorphism.
- Genome-wide analyses identify a role for SLC17A4 and AADAT in thyroid hormone regulation.
Teumer, Nature communications 2018 - GeneRIF: The free thyroxine(FT4)-associated variant rs6854291-influences transcript levels of kynurenine/alpha-aminoadipate aminotransferase (AADAT) in thyroid, implicating AADAT as the causal gene underlying the FT4 association at this locus. AADAT-rs6854291 is associated with both the 3,3',5-triiodothyronine (T3) levels and T3/T4 ratio.
- The presence of kynurenine aminotransferases in the human cornea: Evidence from bioinformatics analysis of gene expression and immunohistochemical staining.
Matysik-Woźniak, Molecular vision 2017 - GeneRIF: Immunohistochemical analysis revealed the presence of KAT I, II, and III in all examined corneal sections.
- Expression, purification and crystallization of human kynurenine aminotransferase 2 exploiting a highly optimized codon set.
Sun, Protein expression and purification 2016 (PubMed)- GeneRIF: he optimised method of protein production provides a fast and reliable technique to generate large quantities of active human KAT2 suitable for future small-molecule lead compound screening and structural design work.
- Exercise affects symptom severity but not biological measures in depression and somatization - results on IL-6, neopterin, tryptophan, kynurenine and 5-HIAA.
Hennings, Psychiatry research 2013 (PubMed)- GeneRIF: Participants with major depression had lower levels of kynurenine compared to controls, with intermediate concentrations in somatoform patients.
- Association of kynurenine aminotransferase II gene C401T polymorphism with immune response in patients with meningitis.
de, BMC medical genetics 2011 - GeneRIF: association of SNP AADAT+401C/T with the host immune response to bacterial meningitis, suggesting that this SNP may affect the host ability in recruitment of leukocytes to the infection site
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PFL_1824 transcriptional regulator, GntR family from Pseudomonas fluorescens Pf-5
31% identity, 76% coverage
- Volatile-mediated interactions between phylogenetically different soil bacteria
Garbeva, Frontiers in microbiology 2014 - “...2.1 4.6 Function unknown Pfl_1813 Coproporphyrinogen III oxidase 2.4 6.8 3.1 2.6 3.1 Coenzyme metabolism Pfl_1824 Cytochrome c oxidase cbb3-type, subunit III 2.8 4.6 2.7 3.1 2.3 Energy production and conversion Pfl_1826 Cytochrome C oxidase, mono-heme subunit/FixO 2.9 4.8 2.5 4.2 3.3 Energy production and conversion...”
LMRG_01251 hypothetical protein from Listeria monocytogenes 10403S
Q8Y5G3 Lmo2100 protein from Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)
lmo2100 similar to transcriptional regulator (GntR family) and to aminotransferase (MocR-like) from Listeria monocytogenes EGD-e
31% identity, 60% coverage
- Identification of Listeria monocytogenes determinants required for biofilm formation
Alonso, PloS one 2014 - “...Signal peptidase I lmrg_00721 1000.34 2 1 phoR lmrg_01748 990.02 1 1 GntR family regulator lmrg_01251 900.21 1 1 Putative rRNA methylase lmrg_01305 870.33 1 1 DNA polymerase lmrg_01402 1000.36 2 1 Putative Rrf2 family regulator lmrg_01481 700.28 1 1 ATP synthase beta subunit F1 lmrg_01719...”
- “...; D-alanylation genes lmrg_02073 ( dltA ) and lmrg_02072 ( dltB ) [15] ; and lmrg_01251 GntR family response regulator [23] . Excluding transposon insertions into two genetic loci which resulted in severe general growth defects ( lmrg_00956 ( plsX ) and lmrg_01912 catalase), novel recovered...”
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...Anaerocellum thermophilum DSM6725 Firmicutes A4XIB4 Caldicellulosiruptor saccharolyticus DSM 8903 Firmicutes Q929S0 Listeria innocua Clip11262 Firmicutes Q8Y5G3 Listeria monocytogenes EGD e Firmicutes A0AKK7 Listeria welshimeri serovar 6b str. SLCC5334 Firmicutes C7MF20 Brachybacterium faecium DSM 4810 Actinobacteria Q6AFC0 Leifsonia xyli subsp.xyli str . CTCB07 Actinobacteria B3GXB5 Actinobacillus pleuropneumoniae...”
- Transcriptomic Analysis of the Adaptation of Listeria monocytogenes to Lagoon and Soil Matrices Associated with a Piggery Environment: Comparison of Expression Profiles
Vivant, Frontiers in microbiology 2017 - “...repressor Up Wurtzel et al., 2012 Lmo2099 PTS systems activators Up Wurtzel et al., 2012 Lmo2100 Vitamin B6 activator Up Belitsky, 2014 Lmo2107 Heat shock Down van der Veen et al., 2007 Lmo2138 PTS systems activators Up Wurtzel et al., 2012 Lmo2200 Hydroxyperoxide resistance regulator Down...”
- A prl mutation in SecY suppresses secretion and virulence defects of Listeria monocytogenes secA2 mutants
Durack, Journal of bacteriology 2015 - “...dehydrogenase/cyclohydrolase DNA mismatch repair protein MutS lmo1901 lmo2100 panC 2323057 2447109 G CAAAAAAA A CAAAAAAAA lmo2278 lmo2421 lysA 2468643 CTTTTTTTT...”
- Role of PdxR in the activation of vitamin B6 biosynthesis in Listeria monocytogenes
Belitsky, Molecular microbiology 2014 - “...which PdxR proteins regulate expression of their target genes, I studied a putative PdxR-like protein, Lmo2100, of Listeria monocytogenes, a Gram-positive, facultative intracellular bacterium and an important food-borne bacterial pathogen that can cause severe disease in mammals and birds ( Vazquez-Boland et al. , 2001 )....”
- “...( Belitsky and Sonenshein, 2002 ; Rigali et al., 2002 ) is encoded by the lmo2100 gene that is adjacent to and transcribed divergently from the L. monocytogenes pdxS gene (the two genes are separated by 125 bp) ( Glaser et al., 2001 ). A deletion-insertion...”
4gdyB / Q8N5Z0 Kynurenine aminotransferase ii inhibitors
30% identity, 91% coverage
- Ligand: (5-hydroxy-6-methyl-4-{[(1-oxo-7-phenoxy-1,2-dihydro[1,2,4]triazolo[4,3-a]quinolin-4-yl)amino]methyl}pyridin-3-yl)methyl dihydrogen phosphate (4gdyB)
A0AKK7 Transcriptional regulator, GntR family/aminotransferase family protein from Listeria welshimeri serovar 6b (strain ATCC 35897 / DSM 20650 / CCUG 15529 / CIP 8149 / NCTC 11857 / SLCC 5334 / V8)
32% identity, 60% coverage
PA14_38250 putative transcriptional regulator, GntR from Pseudomonas aeruginosa UCBPP-PA14
30% identity, 82% coverage
X276_04445 PLP-dependent aminotransferase family protein from Clostridium beijerinckii NRRL B-598
27% identity, 76% coverage
PA2032 probable transcriptional regulator from Pseudomonas aeruginosa PAO1
30% identity, 82% coverage
CDR20291_1254 GntR-family transcriptional regulator from Clostridium difficile R20291
CDR20291_1254 transcriptional regulator DdlR from Clostridioides difficile R20291
29% identity, 72% coverage
CD630DERM_RS07915, CD630_14070 transcriptional regulator DdlR from Clostridioides difficile 630
29% identity, 72% coverage
- DdlR, an essential transcriptional regulator of peptidoglycan biosynthesis in Clostridioides difficile
Bouillaut, Molecular microbiology 2019 - “...al. , 2002 ; Tramonti et al. , 2018 ) is encoded by the CD630_14070 (CD630DERM_RS07915) gene that is located downstream of the C. difficile ddl gene and named here as ddlR ( Fig. 1 ). The open reading frames of the ddl and ddlR genes...”
- “...et al. , 2002 ; Tramonti et al. , 2018 ) is encoded by the CD630_14070 (CD630DERM_RS07915) gene that is located downstream of the C. difficile ddl gene and named here as ddlR ( Fig. 1 ). The open reading frames of the ddl and ddlR...”
tdiD / A7XRY8 L-tryptophan:phenylpyruvate aminotransferase (EC 2.6.1.28) from Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) (see 3 papers)
TDID_EMENI / A7XRY8 Aminotransferase tdiD; Terrequinone biosynthesis protein D; EC 2.6.1.28 from Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) (Aspergillus nidulans) (see 5 papers)
A7XRY8 tryptophan-phenylpyruvate transaminase (EC 2.6.1.28) from Aspergillus nidulans (see 2 papers)
28% identity, 88% coverage
- function: Aminotransferase; part of the gene cluster that mediates the biosynthesis of terrequinone A, an antitumor agent (PubMed:16426969, PubMed:17291795, PubMed:17704773, PubMed:22083274). The first step in the biosynthetic pathway for terrequinone A is formation of indole pyruvic acid (IPA) from L-tryptophan by the aminotransferase tdiD (PubMed:17704773). The nonribosomal peptide synthase tdiA then immediately converts unstable IPA to didemethylasterriquinone D (DDAQ D), via condensation of 2 IPA molecules (PubMed:17704773). The symmetric connectivity of the 2 IPA molecules is thought to arise by head-to-tail dual Claisen condensations facilitated by the TE domain (PubMed:17704773). TdiB then catalyzes reverse prenylation by transferring dimethylallyl diphosphate to carbon atom 2' of DDAQ D, to yield asterriquinone C-1 (PubMed:18029206). Finally, tdiC and tdiE enzymes robustly convert asterriquinone C-1 to terrequinone A via a transformation involving regular prenylation at carbon atom 5, which requires elimination of the hydroxy group on C-5 (PubMed:17704773, PubMed:18029206).
catalytic activity: 3-phenylpyruvate + L-tryptophan = indole-3-pyruvate + L- phenylalanine (RHEA:13741)
cofactor: pyridoxal 5'-phosphate
AADAT_MOUSE / Q9WVM8 Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial; KAT/AadAT; 2-aminoadipate aminotransferase; 2-aminoadipate transaminase; Alpha-aminoadipate aminotransferase; AadAT; Glycine transaminase AADAT; Kynurenine aminotransferase II; Kynurenine--glyoxylate transaminase AADAT; Kynurenine--oxoglutarate aminotransferase II; Kynurenine--oxoglutarate transaminase 2; Kynurenine--oxoglutarate transaminase II; Methionine--glyoxylate transaminase AADAT; EC 2.6.1.39; EC 2.6.1.4; EC 2.6.1.63; EC 2.6.1.7; EC 2.6.1.73 from Mus musculus (Mouse) (see paper)
Q9WVM8 2-aminoadipate transaminase (EC 2.6.1.39); kynurenine-oxoglutarate transaminase (EC 2.6.1.7) from Mus musculus (see paper)
NP_035964 kynurenine/alpha-aminoadipate aminotransferase, mitochondrial from Mus musculus
30% identity, 92% coverage
- function: Transaminase with broad substrate specificity. Has transaminase activity towards aminoadipate, kynurenine, methionine and glutamate. Shows activity also towards tryptophan, aspartate and hydroxykynurenine. Accepts a variety of oxo-acids as amino-group acceptors, with a preference for 2-oxoglutarate, 2-oxocaproic acid, phenylpyruvate and alpha-oxo-gamma-methiol butyric acid. Can also use glyoxylate as amino-group acceptor (in vitro) (By similarity).
catalytic activity: L-kynurenine + 2-oxoglutarate = kynurenate + L-glutamate + H2O (RHEA:65560)
catalytic activity: L-2-aminoadipate + 2-oxoglutarate = 2-oxoadipate + L- glutamate (RHEA:12601)
catalytic activity: glycine + 2-oxoglutarate = glyoxylate + L-glutamate (RHEA:14089)
catalytic activity: L-kynurenine + glyoxylate = kynurenate + glycine + H2O (RHEA:65896)
catalytic activity: 3-hydroxy-L-kynurenine + glyoxylate = xanthurenate + glycine + H2O (RHEA:65900)
catalytic activity: 2-oxohexanoate + L-kynurenine = L-2-aminohexanoate + kynurenate + H2O (RHEA:66060)
catalytic activity: 3-phenylpyruvate + L-kynurenine = kynurenate + L-phenylalanine + H2O (RHEA:66092)
catalytic activity: 4-methylsulfanyl-2-oxobutanoate + L-kynurenine = kynurenate + L-methionine + H2O (RHEA:69096)
catalytic activity: 2-oxo-3-sulfanylpropanoate + L-kynurenine = kynurenate + L- cysteine + H2O (RHEA:69104)
catalytic activity: indole-3-pyruvate + L-kynurenine = kynurenate + L-tryptophan + H2O (RHEA:66052)
catalytic activity: 2-oxopentanoate + L-kynurenine = L-2-aminopentanoate + kynurenate + H2O (RHEA:66076)
catalytic activity: 4-methyl-2-oxopentanoate + L-kynurenine = kynurenate + L- leucine + H2O (RHEA:66068)
catalytic activity: glyoxylate + L-methionine = 4-methylsulfanyl-2-oxobutanoate + glycine (RHEA:22884)
catalytic activity: L-2-aminoadipate + glyoxylate = 2-oxoadipate + glycine (RHEA:69112)
catalytic activity: L-tyrosine + glyoxylate = 3-(4-hydroxyphenyl)pyruvate + glycine (RHEA:69116)
catalytic activity: glyoxylate + L-phenylalanine = 3-phenylpyruvate + glycine (RHEA:69120)
catalytic activity: L-tryptophan + glyoxylate = indole-3-pyruvate + glycine (RHEA:69124)
catalytic activity: L-leucine + glyoxylate = 4-methyl-2-oxopentanoate + glycine (RHEA:69128)
catalytic activity: 2-oxobutanoate + L-kynurenine = (2S)-2-aminobutanoate + kynurenate + H2O (RHEA:66044)
catalytic activity: 2-oxoadipate + L-kynurenine = L-2-aminoadipate + kynurenate + H2O (RHEA:70047)
cofactor: pyridoxal 5'-phosphate
subunit: Homodimer. - Characteristic features of kynurenine aminotransferase allosterically regulated by (alpha)-ketoglutarate in cooperation with kynurenine
Okada, PloS one 2012 - “...pigs ( Sus scrofa ), and monkeys ( Macaca mulatta ) are NP_142204, NP_057312, NP_058889, NP_035964, XP_001924647, and XP_002804303, respectively. Multiple alignments were performed using ClustalW2. The sequence logo was generated using WebLogo [22] . Discussion The results of this study show that the mechanisms of...”
- Alport syndrome: Proteomic analysis identifies early molecular pathway alterations in Col4a3 knock out mice.
Nicolaou, Nephrology (Carlton, Vic.) 2020 - “...Collagen alpha1(IV) chain Q60936 ADCK3 1.23E02 2.0 MM NN Chaperone activity of bc1 complexlike, mitochondrial Q9WVM8 AADAT 3.62E04 0.5 NN MM Kynurenine/alphaaminoadipate aminotransferase, mitochondrial Q02248 CTNB1 3.90E02 0.5 NN MM Catenin beta1 P43274 H14 1.82E04 0.5 NN MM Histone H1.4 P05201 AATC 1.20E03 0.5 NN MM...”
- Comparative proteomic study of liver lipid droplets and mitochondria in mice housed at different temperatures
Liu, FEBS letters 2019 - “...Q505D7 Optic atrophy 3 protein homolog Opa3 1.33 0.02 P29758 Ornithine aminotransferase Oat 1.32 0.01 Q9WVM8 Kynurenine/alphaaminoadipate aminotransferase Aadat 1.29 0.03 Q9QZA0 Carbonic anhydrase 5B Ca5b 1.25 0.07 Q504M2 MCG53395 Pdp2 1.25 0.09 D3YYS6 Monoglyceride lipase Mgll 1.25 0.07 Downregulated 59 Q8VCF0 Mitochondrial antiviralsignalling protein Mavs...”
- The impact of the glucagon-like peptide 1 receptor agonist liraglutide on the streptozotocin-induced diabetic mouse kidney proteome.
Liljedahl, Physiological reports 2019 - “...Up Q9R0M4 Podocalyxin PODXL Down Set 4 Within STZ only STZ liraglutide versus STZ vehicle Q9WVM8 Kynurenine/alphaaminoadipate aminotransferase AADAT Up Q8CGC7 Bifunctional glutamate/prolinetRNA ligase SYEP Down Q8CHT0 Delta1pyrroline5carboxylate dehydrogenase ALDH4A1 Up Set 5 Liraglutide reversed to healthy level STZ vehcile versus healthy control and STZ liraglutide...”
- Effects of insulin and the glucagon-like peptide 1 receptor agonist liraglutide on the kidney proteome in db/db mice.
Liljedahl, Physiological reports 2017 - “...Kallikrein1 KLK1 a 2 125 down ns P16045 Galectin1 LGAL1 a 5 511 down ns Q9WVM8 Kynurenine/ aminoadipate aminotransferase AADAT a 4 353 down ns Only vehicle groups differ P05202 Aspartate aminotransferase GOT2 a 5 350 down ns P26350 Prothymosin PTMA a 2 677 up ns...”
- Mitochondrial dysfunction precedes neurodegeneration in mahogunin (Mgrn1) mutant mice
Sun, Neurobiology of aging 2007 - “...0.032 Signal transduction E2 6-month Q9WVM8 Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial (AADAT) 1.35 0.030 Mitochondrial E2 6-month P28843...”
PSPTO_2190 transcriptional regulator, GntR family from Pseudomonas syringae pv. tomato str. DC3000
31% identity, 75% coverage
A0A0D1E3F3 tryptophan transaminase (EC 2.6.1.27) from Ustilago maydis (see paper)
30% identity, 74% coverage
BBIF_0342 PLP-dependent aminotransferase family protein from Bifidobacterium bifidum S17
31% identity, 63% coverage
- Proteomic Profiling of Bifidobacterium bifidum S17 Cultivated Under In Vitro Conditions
Wei, Frontiers in microbiology 2016 - “...a MW [kDa] b BBIF_0278 aspC1 Aminotransferase 401 42.8 BBIF_0311 yhdR Aspartate aminotransferase 396 43.2 BBIF_0342 bbif_0342 Multiple substrate aminotransferase (MsaT) containing domain of GntR family (transcriptional regulator) 509 55.6 BBIF_0469 bbif_0469 Aspartate/tyrosine/aromatic aminotransferase 398 43.7 BBIF_0550 hisC Histidinol-phosphate aminotransferase 391 43.2 BBIF_0701 bbif_0701 Aminotransferase 370...”
Aadat / Q64602 α-aminoadipate aminotransferase subunit (EC 2.6.1.39) from Rattus norvegicus (see paper)
AADAT_RAT / Q64602 Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial; KAT/AadAT; 2-aminoadipate aminotransferase; 2-aminoadipate transaminase; Alpha-aminoadipate aminotransferase; AadAT; Glycine transaminase AADAT; Kynurenine aminotransferase II; Kynurenine--glyoxylate transaminase AADAT; Kynurenine--oxoglutarate aminotransferase II; Kynurenine--oxoglutarate transaminase 2; Kynurenine--oxoglutarate transaminase II; Methionine--glyoxylate transaminase AADAT; EC 2.6.1.39; EC 2.6.1.4; EC 2.6.1.63; EC 2.6.1.7; EC 2.6.1.73 from Rattus norvegicus (Rat) (see paper)
Q64602 2-aminoadipate transaminase (EC 2.6.1.39); kynurenine-oxoglutarate transaminase (EC 2.6.1.7) from Rattus norvegicus (see 2 papers)
NP_058889 kynurenine/alpha-aminoadipate aminotransferase, mitochondrial from Rattus norvegicus
30% identity, 92% coverage
- function: Transaminase with broad substrate specificity. Has transaminase activity towards aminoadipate, kynurenine, methionine and glutamate. Shows activity also towards tryptophan, aspartate and hydroxykynurenine. Accepts a variety of oxo-acids as amino-group acceptors, with a preference for 2-oxoglutarate, 2-oxocaproic acid, phenylpyruvate and alpha-oxo-gamma-methiol butyric acid. Can also use glyoxylate as amino-group acceptor (in vitro).
catalytic activity: L-kynurenine + 2-oxoglutarate = kynurenate + L-glutamate + H2O (RHEA:65560)
catalytic activity: L-2-aminoadipate + 2-oxoglutarate = 2-oxoadipate + L- glutamate (RHEA:12601)
catalytic activity: glycine + 2-oxoglutarate = glyoxylate + L-glutamate (RHEA:14089)
catalytic activity: L-kynurenine + glyoxylate = kynurenate + glycine + H2O (RHEA:65896)
catalytic activity: 3-hydroxy-L-kynurenine + glyoxylate = xanthurenate + glycine + H2O (RHEA:65900)
catalytic activity: 2-oxohexanoate + L-kynurenine = L-2-aminohexanoate + kynurenate + H2O (RHEA:66060)
catalytic activity: 3-phenylpyruvate + L-kynurenine = kynurenate + L-phenylalanine + H2O (RHEA:66092)
catalytic activity: 4-methylsulfanyl-2-oxobutanoate + L-kynurenine = kynurenate + L-methionine + H2O (RHEA:69096)
catalytic activity: 2-oxo-3-sulfanylpropanoate + L-kynurenine = kynurenate + L- cysteine + H2O (RHEA:69104)
catalytic activity: indole-3-pyruvate + L-kynurenine = kynurenate + L-tryptophan + H2O (RHEA:66052)
catalytic activity: 2-oxopentanoate + L-kynurenine = L-2-aminopentanoate + kynurenate + H2O (RHEA:66076)
catalytic activity: 4-methyl-2-oxopentanoate + L-kynurenine = kynurenate + L- leucine + H2O (RHEA:66068)
catalytic activity: glyoxylate + L-methionine = 4-methylsulfanyl-2-oxobutanoate + glycine (RHEA:22884)
catalytic activity: L-2-aminoadipate + glyoxylate = 2-oxoadipate + glycine (RHEA:69112)
catalytic activity: L-tyrosine + glyoxylate = 3-(4-hydroxyphenyl)pyruvate + glycine (RHEA:69116)
catalytic activity: glyoxylate + L-phenylalanine = 3-phenylpyruvate + glycine (RHEA:69120)
catalytic activity: L-tryptophan + glyoxylate = indole-3-pyruvate + glycine (RHEA:69124)
catalytic activity: L-leucine + glyoxylate = 4-methyl-2-oxopentanoate + glycine (RHEA:69128)
catalytic activity: 2-oxobutanoate + L-kynurenine = (2S)-2-aminobutanoate + kynurenate + H2O (RHEA:66044)
catalytic activity: 2-oxoadipate + L-kynurenine = L-2-aminoadipate + kynurenate + H2O (RHEA:70047)
catalytic activity: 2-oxoadipate + L-kynurenine = 4-(2-aminophenyl)-2,4- dioxobutanoate + L-2-aminoadipate (RHEA:70051)
cofactor: pyridoxal 5'-phosphate
subunit: Homodimer - Effect of electroacupuncture on global cerebral ischemia-reperfusion injury in rats: A urine proteome analysis.
Zhang, Brain and behavior 2024 - “....020 1.818 Down P01048 Tkininogen 1 .000 1.795 Up P02764 Alpha1acid glycoprotein .001 1.545 Up Q64602 Kynurenine/alphaaminoadipate aminotransferase, mitochondrial .027 1.450 Down Q9QY16 ATPdependent RNA helicase DDX25 .049 1.396 Down P19468 Glutamatecysteine ligase catalytic subunit .015 1.384 Down Q6Q0N1 Cytosolic nonspecific dipeptidase .012 1.305 Down Q63530...”
- The Specific α1-Adrenergic Receptor Antagonist Prazosin Influences the Urine Proteome
Zhao, PloS one 2016 - “...0.3 0.5 Yes Q06496 Sodium-dependent phosphate transport protein 2A 69 kD 0.5 0.6 0.4 Yes Q64602 Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial 48 kD 0.6 0.5 0.5 Yes P70502 Solute carrier organic anion transporter family member 1A3 74 kD 0.6 0.6 0.5 Yes O35913 Cluster of Solute carrier organic...”
- Peptidomic Analysis of Rat Plasma: Proteolysis in Hemorrhagic Shock.
Aletti, Shock (Augusta, Ga.) 2016 - “...P17475 Serpina1 trypsin-like DSEVTSHSSQDPLVVQEGSR 3.15 Q6P734 Serping1 trypsin-like EDVPAADLSDQVPDTDSETR 1.94 M0RBF1 C3 trypsin-like SFSQVTPAQMDLVFQR 1.91 Q64602 Aadat trypsin-like SETAPAAPAAPAPAEKTPIK 1.51 P15865 Hist1h1c trypsin-like DLEAMRMQTEMELRMFRQNEFMYHK D4A3D2 Smyd1 trypsin-like IISDTETAIAPFLAKIFNPK P09006 Serpina3n trypsin-like LASVSTVLTSKYR P01946 Hba1 trypsin-like LTSVPRYSMWFNQIMK G3V8K8 Proz trypsin-like SDKPDMAEIEKFDKSKLK P62329 Tmsb4x trypsin-like SETAPAAPAAPAPVEKTPVK M0R7B4 LOC684828...”
- Differential permeabilization effects of Ca2+ and valinomycin on the inner and outer mitochondrial membranes as revealed by proteomics analysis of proteins released from mitochondria
Yamada, Molecular & cellular proteomics : MCP 2009 - “...IM M Mt, Cy Cy, N IMS IM M M M Mt P04182 P00507 Q64602 P15650 P70584 P32551 Q63276 P12007 P08503 P17764 O09171 P15651 49 48 48 48 48 48 47 47 47 45 45 45 M M Mt...”
- Characteristic features of kynurenine aminotransferase allosterically regulated by (alpha)-ketoglutarate in cooperation with kynurenine
Okada, PloS one 2012 - “...), pigs ( Sus scrofa ), and monkeys ( Macaca mulatta ) are NP_142204, NP_057312, NP_058889, NP_035964, XP_001924647, and XP_002804303, respectively. Multiple alignments were performed using ClustalW2. The sequence logo was generated using WebLogo [22] . Discussion The results of this study show that the mechanisms...”
XP_006509460 kynurenine/alpha-aminoadipate aminotransferase, mitochondrial isoform X1 from Mus musculus
30% identity, 85% coverage
- Species-specific neuronal localization of kynurenine aminotransferase-2 in the mouse cerebellum.
Balog, Neurochemistry international 2021 (PubMed)- GeneRIF: Species-specific neuronal localization of kynurenine aminotransferase-2 in the mouse cerebellum.
- N-Acetylcysteine Inhibits Kynurenine Aminotransferase II.
Blanco-Ayala, Neuroscience 2020 - GeneRIF: N-Acetylcysteine Inhibits Kynurenine Aminotransferase II.
- Astrocytic and neuronal localization of kynurenine aminotransferase-2 in the adult mouse brain.
Herédi, Brain structure & function 2017 (PubMed)- GeneRIF: This study demonstrates the presence of kynurenine aminotransferase-2 mRNA and protein throughout the adult C57Bl6 mouse brain
- Kynurenine aminotransferase III and glutamine transaminase L are identical enzymes that have cysteine S-conjugate β-lyase activity and can transaminate L-selenomethionine.
Pinto, The Journal of biological chemistry 2014 - GeneRIF: human KAT III/CCBL2 possesses cysteine S-conjugate beta-lyase activity, as does mouse KAT II
- Reduction of endogenous kynurenic acid formation enhances extracellular glutamate, hippocampal plasticity, and cognitive behavior.
Potter, Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology 2010 - GeneRIF: This study showed that KAT II KO mice show the expected decrease in extracellular kynurenic acid levels, and that this reduction is accompanied by a significant increase in extracellular glutamate.
- Thermal stability, pH dependence and inhibition of four murine kynurenine aminotransferases.
Han, BMC biochemistry 2010 - GeneRIF: The activity of mouse KAT II was not significantly inhibited by any proteinogenic amino acids at equimolar concentrations and half-life was 27.4 minutes at 65 degree C.
- Targeted deletion of the kynurenine aminotransferase ii gene reveals a critical role of endogenous kynurenic acid in the regulation of synaptic transmission via alpha7 nicotinic receptors in the hippocampus.
Alkondon, The Journal of neuroscience : the official journal of the Society for Neuroscience 2004 - GeneRIF: Alpha7* nAChR and NMDA receptor functions were studied in kynurenine aminotransferase II null mice(mKat-2-/- mice). At 21 postnatal days, mKat-2-/- mice had lower hippocampal kynurenic acid levels and more spontaneous locomotor activity than control mice
- Biochemical and phenotypic abnormalities in kynurenine aminotransferase II-deficient mice.
Yu, Molecular and cellular biology 2004 - GeneRIF: Results show that gene targeting of kynurenine aminotransferase II (KAT) in mice leads to early and transitory decreases in brain KAT activity and kynurenic acid levels with commensurate behavioral and neuropathological changes.
BCAM2329 GntR family regulatory protein from Burkholderia cenocepacia J2315
29% identity, 79% coverage
EY04_RS13280 GntR family transcriptional regulator MpaR from Pseudomonas chlororaphis
27% identity, 80% coverage
KSF55_06595 PLP-dependent aminotransferase family protein from Lactiplantibacillus pentosus
29% identity, 77% coverage
BSU05370 putative PLP-dependent transcriptional regulator from Bacillus subtilis subsp. subtilis str. 168
30% identity, 77% coverage
DVU2953 transcriptional regulator, GntR family from Desulfovibrio vulgaris Hildenborough
28% identity, 70% coverage
S5N885 Transcriptional regulator GntR family domain protein from Salmonella bongori N268-08
29% identity, 79% coverage
PA14_10530 putative transcriptional regulator, GntR family from Pseudomonas aeruginosa UCBPP-PA14
PAM18_0807 GntR family transcriptional regulator MpaR from Pseudomonas aeruginosa M18
27% identity, 80% coverage
- MpaR-driven expression of an orphan terminal oxidase subunit supports Pseudomonas aeruginosa biofilm respiration and development during cyanogenesis
Smiley, mBio 2024 - “...isoform that combines Cco subunits encoded by different operons. ccoN4 lies adjacent to mpaR ( PA14_10530 ), which codes for a GntR family transcription factor. In this study, we investigated the role of MpaR in ccoN4 and mpaR expressions and its responsiveness to cyanide. Our findings...”
- The secondary metabolite hydrogen cyanide protects Pseudomonas aeruginosa against sodium hypochlorite-induced oxidative stress
da, Frontiers in microbiology 2023 - “...0.115 7.331 0.316 PA14_10540 8.238 0.105 7.278 0.483 PA4132 PA4132 PW8001 8.879 0.457 7.095 1.207 PA14_10530 7.652 0.176 6.651 0.933 PA4133 PA4133 PW8002 9.595 0.243 7.832 0.309 PA14_10500 6.479 0.112 5.895 0.227 PA4134 PA4134 PW8004 9.748 0.522 5.785 3.059* # Gene regulation by endogenously produced HCN...”
- Evolution of biofilm-adapted gene expression profiles in lasR-deficient clinical Pseudomonas aeruginosa isolates
Jeske, NPJ biofilms and microbiomes 2022 - “...PA14_33450 treA PA14_45950 rsaL PA14_10380 PA14_34020 PA14_46510 PA14_10490 PA14_34330 PA14_46520 PA14_10500 ccoN PA14_34810 mxaA PA14_46530 PA14_10530 PA14_34820 PA14_46540 PA14_10540 fixG PA14_34830 PA14_46550 PA14_10550 cysI PA14_34840 PA14_48040 aprI PA14_10560 PA14_34870 chiC PA14_48060 aprA PA14_13360 PA14_36310 hcnC PA14_48090 aprF PA14_13370 PA14_36320 hcnB PA14_48100 aprE PA14_13380 PA14_36330 hcnA PA14_48115...”
- Multidrug Adaptive Resistance of Pseudomonas aeruginosa Swarming Cells
Coleman, Antimicrobial agents and chemotherapy 2020 (secret) - Genomic analysis and temperature-dependent transcriptome profiles of the rhizosphere originating strain Pseudomonas aeruginosa M18
Wu, BMC genomics 2011 - “...Pentose phosphate rbsK, rbsR, rbsA, rbsB 1.6-1.9 Regulatory proteins rhlI, qscR , PAM18_0792, PAM18_0975, PAM18_3016, PAM18_0807, PAM18_3383 2.0-6.1 Down-regulated genes at 28C Type III secretion system exoT , exsD , PAM18_0335, exsC , popD , popB , pcrH , pcrV 2.1-2.8 Type II secretion system xcpP...”
tdiD putative aminotransferase from Emericella nidulans (see paper)
ANIA_08516 L-tryptophan:phenylpyruvate aminotransferase tdiD from Aspergillus nidulans FGSC A4
29% identity, 87% coverage
- CharProtDB Description: Putative aminotransferase; member of the tdi (terrequinone A biosynthesis) gene cluster; transcriptionally regulated by LaeA; Source:AspGD
- Optimized psilocybin production in tryptophan catabolism-repressed fungi
Janevska, Microbial biotechnology 2024 - “...aroI2 Putative aminotransferase ANIA_05041 aroH2 Ketoglutaratedependent aminotransferase ANIA_06338 aroH1 Ketoglutaratedependent aminotransferase ANIA_08172 aroI1 Putative aminotransferase ANIA_08516 tdiD Ketoglutaratedependent aminotransferase Phylogenetic analysis revealed the presence of six clades (Figure 3A ). We identified two groups of proteins similar to AroH from A. fumigatus (Spizzichino etal., 2022 )....”
PA4132 hypothetical protein from Pseudomonas aeruginosa PAO1
27% identity, 80% coverage
- Distinct transcriptome and traits of freshly dispersed <i>Pseudomonas aeruginosa</i> cells
Kalia, mSphere 2024 - “...superfamily (MFS) transporter Downregulated 1.75895 Downregulated 1.958 PA3945 Conserved hypothetical protein Downregulated 0.73707 Downregulated 0.49597 PA4132 MpaR 0.800486 Downregulated 0.02167 PA4168 Second ferric pyoverdine receptor FpvB Downregulated 1.03613 Downregulated 0.6785 PA4227 pchR-transcriptional regulator PchR Downregulated 2.02201 Downregulated 1.43216 PA4404 Downregulated 1.45882 Downregulated 1.56322 PA4470 fumC1-fumarate hydratase...”
- The secondary metabolite hydrogen cyanide protects Pseudomonas aeruginosa against sodium hypochlorite-induced oxidative stress
da, Frontiers in microbiology 2023 - “...0.398 6.176 0.577 PA4131 PA4131 PW7998 9.367 0.115 7.331 0.316 PA14_10540 8.238 0.105 7.278 0.483 PA4132 PA4132 PW8001 8.879 0.457 7.095 1.207 PA14_10530 7.652 0.176 6.651 0.933 PA4133 PA4133 PW8002 9.595 0.243 7.832 0.309 PA14_10500 6.479 0.112 5.895 0.227 PA4134 PA4134 PW8004 9.748 0.522 5.785 3.059*...”
- A VirB4 ATPase of the mobile accessory genome orchestrates core genome-encoded features of physiology, metabolism, and virulence of Pseudomonas aeruginosa TBCF10839
Wiehlmann, Frontiers in cellular and infection microbiology 2023 - “...PA3928 Hypothetical protein 7.5 PA4129 Hypothetical protein 16.6 PA4130 nirA, ferredoxin-dependent nitrite reductase, NirA 24.2 PA4132 mpaR, MvfR-mediated PQS, and anthranilate regulator MpaR 8.1 PA4133 Cytochrome c oxidase subunit (cbb3-type) 40.6 PA4134 Hypothetical protein 35.3 PA4139 Hypothetical protein 138.4 PA4141 Hypothetical protein 61.3 PA4142 Probable secretion...”
- NirA Is an Alternative Nitrite Reductase from Pseudomonas aeruginosa with Potential as an Antivirulence Target
Fenn, mBio 2021 - “...16h. (E) Diagram displaying operon structure and transcriptional start sites of PA4129- PA4130 and PA4131- PA4132 with the PAJD21 Tn 5 insertion site indicated by the red arrow. Data were collated from three independent experiments with at least three replicates each. Values that are significantly different...”
- Coordinated regulation of anthranilate metabolism and bacterial virulence by the GntR family regulator MpaR in Pseudomonas aeruginosa
Wang, Molecular microbiology 2020 (PubMed)- “...processes and bacterial pathogenicity. In this study, we describe a GntR family protein encoded by PA4132 that we named MpaR (MvfR-mediated PQS and anthranilate regulator) for its regulation of Pseudomonas quinolone signal (PQS) production and anthranilate metabolism in Pseudomonas aeruginosa. The deletion of mpaR increased biofilm...”
- Traditional Chinese Medicine Tanreqing Inhibits Quorum Sensing Systems in Pseudomonas aeruginosa
Yang, Frontiers in microbiology 2020 - “...2.5 2 + Probable sulfite or nitrite reductase PA4131 2.3 1.9 + Probable ironsulfur protein PA4132 1.9 1.9 + Conserved hypothetical protein PA4133 4.2 2.5 + Cytochrome c oxidase subunit (cbb3-type) PA4134 4.1 2.3 + Hypothetical protein PA4141 2.5 2.5 + Hypothetical protein PA4205 mexG 1.3...”
- Multidrug Adaptive Resistance of Pseudomonas aeruginosa Swarming Cells
Coleman, Antimicrobial agents and chemotherapy 2020 (secret) - Combining antibiotics with antivirulence compounds can have synergistic effects and reverse selection for antibiotic resistance in Pseudomonas aeruginosa
Rezzoagli, PLoS biology 2020 - “...] pscP Translocation protein in type III secretion system INDEL TG(TTGGCG) 11 TG(TTGGCG) 12 1,844,903 PA4132 Conserved hypothetical protein SNP A C 4,621,443 a Mutations in the ancestor WT background compared with the reference P . aeruginosa PAO1 genome are reported in [ 38 ]. b...”
- More
YdfD/YisV / VIMSS822665 YdfD/YisV regulator of Metabolite transport (activator/repressor) from Bacillus clausii KSM-K16
27% identity, 82% coverage
EY04_RS07920 PLP-dependent aminotransferase family protein from Pseudomonas chlororaphis
27% identity, 79% coverage
LOC724239 kynurenine/alpha-aminoadipate aminotransferase, mitochondrial from Apis mellifera
28% identity, 87% coverage
- Chronic Cadmium Exposure Induces Impaired Olfactory Learning and Altered Brain Gene Expression in Honey Bees (Apis mellifera)
Li, Insects 2022 - “...Starch and sucrose metabolism LOC411257, LOC410484 0.00514 Insect hormone biosynthesis LOC551179, LOC551405 0.00572 Lysine biosynthesis LOC724239 0.0122 Metabolic pathways LOC411257, LOC410484, LOC413678, LOC552425, LOC724239, LOC725026, LOC725204, LOC727237, LOC412355, LOC725284, LOC727510 0.0137 Glycine, serine, and threonine metabolism LOC413678, LOC552425 0.0198 Phenylalanine, tyrosine, and tryptophan biosynthesis LOC725204, 0.0242...”
- Long-Distance Transportation Causes Temperature Stress in the Honey Bee, Apis mellifera (Hymenoptera: Apidae)
Melicher, Environmental entomology 2019 - “...4.428 Hymenoptaecin LOC406142 5.350 Peptidoglycan recognition protein S2 Pgrp-s2 2.020 Biosynthesis of antibiotics Kynurenine/alpha-aminoadipate aminotransferase LOC724239 2.726 Multifunctional protein ADE2 LOC551966 0.794 Probable phosphoserine aminotransferase LOC412670 0.752 Tyrosine aminotransferase LOC725204 0.788 Defense/venom component Hyaluronoglucosaminidase LOC406146 1.477 Secapin LOC406145 2.752 Venom allergen Api m 6 LOC678674 2.081...”
- Unity in defence: honeybee workers exhibit conserved molecular responses to diverse pathogens
Doublet, BMC genomics 2017 - “...hub genes with high connectivity to significantly regulated genes are shown: a kynurenine/alpha-aminoadipate aminotransferase ( LOC724239 ), and a L-lactate dehydrogenase ( LOC411188 ). c Main module from the co-expression network of the immune genes of the honey bee. Coloured nodes represent immune genes from the...”
- “...genes with many inter-gene connections with other differentially expressed genes: a kynurenine/alpha-aminoadipate aminotransferase gene ( LOC724239 ) and an L-lactate dehydrogenase gene ( LOC411188 ), exhibiting 97 and 76 connections, respectively. The expression of both genes were significantly increased in most transcriptome datasets, and connected to...”
- Short reads from honey bee (Apis sp.) sequencing projects reflect microbial associate diversity
Gerth, PeerJ 2017 - “...expressed* LOC410087 Uncharacterized LOC410087 4 LOC408807 Uncharacterized LOC408807 3 LOC406114 Alpha-amylase 2 LOC406142 Hymenoptaecin 2 LOC724239 Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial-like 2 LOC724367 Protein lethal(2)essential for life-like 2 LOC724654 Cytochrome b5 type B-like 2 LOC726418 Flavin-containing monooxygenase FMO GS-OX-like 3-like 2 Vg Vitellogenin 2 Apid1 Apidaecin 1 1...”
- Differential gene expression between hygienic and non-hygienic honeybee (Apis mellifera L.) hives
Boutin, BMC genomics 2015 - “...LOC552229 Chr1 0.483327 2.54394 0.00755 esterase B1-like LOC552598 Unplaced scaffold 1.15471 2.22152 0.0400326 hypothetical LOC552598 LOC724239 Chr1 22.1989 61.5634 0.00755 kynurenine LOC724644 Chr13 19.3289 32.6522 0.00755 hypothetical protein LOC724644 LOC725017 Chr6 12.7717 29.0823 0.00755 UDP-glycosyltransferase LOC725026 Chr9 4.35135 8.17989 0.00755 retinol dehydrogenase 10-A-like LOC725051 Chr11 7.28613...”
LOC100877030 kynurenine/alpha-aminoadipate aminotransferase, mitochondrial-like from Megachile rotundata
29% identity, 87% coverage
- Immediate Transcriptional Response to a Temperature Pulse under a Fluctuating Thermal Regime
Melicher, Integrative and comparative biology 2019 - “...XM_003704386 LOC100879301 Alpha-amylase-like XM_003700707 LOC100875958 Cytochrome P450 4g15-like 2015SeptFTR NovFTR XM_003702880 LOC100878030 Aminomethyltransferase, mitochondrial XM_003706384 LOC100877030 Aminotransferase, mitochondrial-like XM_003700707 LOC100875958 Cytochrome P450 4g15-like XM_003703558 LOC100878819 Fatty acid synthase 2015SeptSTR NovSTR None 2015SeptSTR SeptFTR XM_003702196 LOC100876503 Mitochondrial amidoxime-reducing component 1 XM_003707130 LOC100877705 Beta-galactosidase-like XM_012286145 LOC100882514 Peroxidase-like XM_003702880...”
ECs2043 putative transcriptional regulator from Escherichia coli O157:H7 str. Sakai
28% identity, 80% coverage
Q8ZPC8 GntR family regulatory protein from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
30% identity, 75% coverage
YdcR / b1439 fused putative DNA-binding transcriptional regulator/putative aminotransferase YdcR from Escherichia coli K-12 substr. MG1655 (see 5 papers)
ydcR / MB|P77730 uncharacterized HTH-type transcriptional regulator ydcR from Escherichia coli K12 (see 3 papers)
P77730 Uncharacterized HTH-type transcriptional regulator YdcR from Escherichia coli (strain K12)
b1439 fused predicted DNA-binding transcriptional regulator/predicted amino transferase from Escherichia coli str. K-12 substr. MG1655
28% identity, 80% coverage
- Knowns and Unknowns of Vitamin B6 Metabolism in Escherichia coli
Tramonti, EcoSal Plus 2021 (secret) - Temporal Regulation of a Salmonella Typhimurium Virulence Factor by the Transcriptional Regulator YdcR
Liu, Molecular & cellular proteomics : MCP 2017 - “...number A0A0D7); E. coli (accession number P77730). The protein sequences were aligned by using the CLUSTALW program (http://www.genome.jp/tools/clustalw/)...”
- Unraveling the functions of uncharacterized transcription factors in Escherichia coli using ChIP-exo
Gao, Nucleic acids research 2021 - “...249 DeoR 124% ycjW b1320 332 GalR/LacI 017% ydcN b1434 178 N/A * 240% ydcR b1439 468 GntR 015% ydhB b1659 310 LysR 228% ydiP b1696 303 AraC 7794% yeaM b1790 273 AraC 7294% yebK b1853 289 N/A * 028% yedW b1969 223 CheY 056% yeeY...”
- 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 - “...global orphan R07463 (F) IV dadA (b1189) 2.00E-18 R07613 (R) II ydbL (b0600) 7.00E-26 ydcR (b1439) 6.00E-15 R08553 (R) IV ysaA (b3573) 4.00E-5 The second category of SMILEY solutions to be investigated in detail was all optimal solutions that fixed more false negatives than the number...”
- “...genes with high sequence homology to known genes from other organisms, ydbL (b0600) and ydcR (b1439), were found. The third category to be investigated consisted of the suboptimal solutions that fixed at least one false negative while producing no new false positives. A total of 133...”
- Transcriptomic analysis of Escherichia coli O157:H7 and K-12 cultures exposed to inorganic and organic acids in stationary phase reveals acidulant- and strain-specific acid tolerance responses
King, Applied and environmental microbiology 2010 - “...Signal transduction mechanisms Nucleotide transport and metabolism b1439 ECs4871 ECs3271 ECs2412 ECs4196 ECs4523 ECs3537 ECs0645 ECs0929 ECs3331 b3942 b2392...”
- Depletion of the non-coding regulatory 6S RNA in E. coli causes a surprising reduction in the expression of the translation machinery
Neusser, BMC genomics 2010 - “...system b2808 gcvA 0.64 transcriptional dual regulator b2980 glcC 0.63 DNA-binding transcriptional dual regulator, glycolate-binding b1439 ydcR 0.63 fused predicted DNA-binding transcriptional regulator b3319 rplD 0.63 50S ribosomal protein L4 b1526 yneJ 0.62 predicted transcriptional regulator b3604 lldR 0.62 transcriptional repressor b1320 ycjW 0.61 predicted transcriptional...”
- Sxy induces a CRP-S regulon in Escherichia coli
Sinha, Journal of bacteriology 2009 - “...Induction (fold) 79 80 81 82 83 84 85 86 b2820 b1439 b0443 b1015 b2752 b2778 b4109 b3988 recB ydcR ybaW putP cysD ygcG yjdA rpoC 7.65 12.84 73.00 0.24 0.22 0.21...”
- The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12
Pérez-Rueda, Nucleic acids research 2000 - “...DgoR) of 98 and 177 residues and two much larger ones (b1439 and YjiR) of 468 and 470 residues. Otherwise the remaining 16 proteins have a mean length of 246.0...”
- “...sequence comparison between the biggest proteins in the family (b1439 and YijR) shows an identity of 35%. This result might reflect a genetic duplication inside...”
DVU0030 / VIMSS8508254 DVU0030 regulator of Amino acid transport from Desulfovibrio salexigens DSM 2638
28% identity, 76% coverage
W7E7N5 GntR family transcriptional regulator from Commensalibacter papalotli (ex Servin-Garciduenas et al. 2014)
29% identity, 68% coverage
YdfD/YisV / VIMSS63013 YdfD/YisV regulator of Metabolite transport (activator/repressor) from Bacillus halodurans C-125
BH0432 transcriptional regulator (GntR family) from Bacillus halodurans C-125
28% identity, 68% coverage
BBR47_28440 probable transcriptional regulator from Brevibacillus brevis NBRC 100599
C0ZDG2 Probable transcriptional regulator from Brevibacillus brevis (strain 47 / JCM 6285 / NBRC 100599)
28% identity, 77% coverage
Synpcc7942_1725 regulatory protein GntR, HTH from Synechococcus elongatus PCC 7942
26% identity, 75% coverage
- Glyceroglycolipid Metabolism Regulations under Phosphate Starvation Revealed by Transcriptome Analysis in Synechococcus elongatus PCC 7942
Xu, Marine drugs 2020 - “...of 17) followed the same trend as the RNA-Seq data, except for Synpcc7942_2416, Synpcc7942_1897 and Synpcc7942_1725. According to Celine, E. et al. [ 79 ], because of technical differences, over 80% of the measured genes having concordant expression represents a high concordance between RT-qPCR and RNA-seq....”
- “...0.04603509 Synpcc7942_0110 transcriptional regulator, XRE family 2.13386852 0.02139503 Synpcc7942_1897 putative transcription factor DevT-like 2.12534589 0.00718275 Synpcc7942_1725 transcriptional regulator, GntR family 1.94907168 0.04567919 Synpcc7942_2305 two component transcriptional regulator, winged helix family, nblR 0.72020702 0.04515754 Synpcc7942_1739 transcriptional regulator, MerR family 0.61129814 0.02357565 Synpcc7942_0556 two component transcriptional regulator, winged...”
DVU2086 transcriptional regulator, GntR family from Desulfovibrio vulgaris Hildenborough
30% identity, 79% coverage
S4UF58 tryptophan transaminase (EC 2.6.1.27) from Malassezia furfur (see paper)
27% identity, 79% coverage
PP_5275 transcriptional regulator, GntR family from Pseudomonas putida KT2440
26% identity, 76% coverage
- Colonization efficiency of Pseudomonas putida is influenced by Fis-controlled transcription of nuoA-N operon
Teppo, PloS one 2018 - “...5 insertion in the gene of NADH dehydrogenase I subunit nuoCD (PP_4121), methionine biosynthesis genes PP_5275 and metR-1 (PP_1063) restored the H 2 O 2 -tolerance to wild-type level despite the fis -overexpression ( S3 Table ). The mini-Tn 5 insertions in the alpha-ketoglutarate metabolism genes...”
- “...5 insertions into the methionine biosynthesis genes were selected, the mini-Tn 5 insertion in the PP_5275 and metR-1 (PP_1063) restored the H 2 O 2 -tolerance to the wild-type level despite of fis -overexpression ( S3 Table ). It is known that ROS generate thiol stress...”
8tn3A / Q643B9 Structure of s. Hygroscopicus aminotransferase mppq complexed with pyridoxamine 5'-phosphate (pmp) (see paper)
31% identity, 97% coverage
- Ligand: 4'-deoxy-4'-aminopyridoxal-5'-phosphate (8tn3A)
H16_A0271 transcriptional regulator, MocR family from Ralstonia eutropha H16
H16_A0271, H16_RS01325 PLP-dependent aminotransferase family protein from Cupriavidus necator H16
27% identity, 74% coverage
BCAM1280 putative GntR-family transcriptional regulator/aminotransferase from Burkholderia cenocepacia J2315
27% identity, 70% coverage
Q0B6G3 Transcriptional regulator, GntR family from Burkholderia ambifaria (strain ATCC BAA-244 / DSM 16087 / CCUG 44356 / LMG 19182 / AMMD)
30% identity, 76% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...subtilis str . 168 Firmicutes Q2KX56 Bordetella avium 197N Betaproteobacteria A0A0H3LKN1 Bordetella bronchiseptica RB50 Betaproteobacteria Q0B6G3 Burkholderia cepacia AMMD Betaproteobacteria C5ALU9 Burkholderia glumae BGR1 Betaproteobacteria A0A0H2XDM4 Burkholderia mallei ATCC 23344 Betaproteobacteria B2JSD8 Burkholderia phymatum STM815 Betaproteobacteria B2JR38 Burkholderia phymatum STM815 Betaproteobacteria Q63NL7 Burkholderia pseudomallei K96243 Betaproteobacteria...”
A0A0R2I605 HTH gntR-type domain-containing protein from Carnobacterium divergens DSM 20623
31% identity, 55% coverage
PA0268 probable transcriptional regulator from Pseudomonas aeruginosa PAO1
29% identity, 82% coverage
y1389 putative transcriptional regulator from Yersinia pestis KIM
29% identity, 69% coverage
BMD20_05445 PLP-dependent aminotransferase family protein from Burkholderia multivorans
27% identity, 68% coverage
PSYTB_16410 GntR family transcriptional regulator MpaR from Pseudomonas amygdali pv. tabaci str. ATCC 11528
25% identity, 75% coverage
A4XIB4 Putative transcriptional regulator, GntR family from Caldicellulosiruptor saccharolyticus (strain ATCC 43494 / DSM 8903 / Tp8T 6331)
29% identity, 69% coverage
B9MKZ0 Transcriptional regulator, GntR family with aminotransferase domain from Caldicellulosiruptor bescii (strain ATCC BAA-1888 / DSM 6725 / KCTC 15123 / Z-1320)
30% identity, 69% coverage
EF2426 transcriptional regulator, GntR family from Enterococcus faecalis V583
28% identity, 66% coverage
A1VQK3 Transcriptional regulator, GntR family from Polaromonas naphthalenivorans (strain CJ2)
29% identity, 75% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...subsp. saprophyticus ATCC 15305 Firmicutes C4ZIR5 Thauera sp. MZ1T Betaproteobacteria Q7CJK7 Yersinia pestis KIM Gammaproteobacteria A1VQK3 Polaromonas naphthalenivorans CJ2 Betaproteobacteria Q129G7 Polaromonas sp. JS666 Betaproteobacteria Q221G1 Rhodoferax ferrireducens DSM 15236 Betaproteobacteria C5CM40 Variovorax paradoxus S110 Betaproteobacteria PdxR B9MKZ0 Anaerocellum thermophilum DSM6725 Firmicutes A4XIB4 Caldicellulosiruptor saccharolyticus DSM...”
Q221G1 Transcriptional regulator, GntR family from Albidiferax ferrireducens (strain ATCC BAA-621 / DSM 15236 / T118)
29% identity, 71% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators.
Angelaccio, Data in brief 2016 - “...Q7CJK7 Yersinia pestis KIM Gammaproteobacteria A1VQK3 Polaromonas naphthalenivorans CJ2 Betaproteobacteria Q129G7 Polaromonas sp. JS666 Betaproteobacteria Q221G1 Rhodoferax ferrireducens DSM 15236 Betaproteobacteria C5CM40 Variovorax paradoxus S110 Betaproteobacteria PdxR B9MKZ0 Anaerocellum thermophilum DSM6725 Firmicutes A4XIB4 Caldicellulosiruptor saccharolyticus DSM 8903 Firmicutes Q929S0 Listeria innocua Clip11262 Firmicutes Q8Y5G3 Listeria monocytogenes...”
DVU0030 / VIMSS7454265 DVU0030 regulator of Amino acid transport from Desulfohalobium retbaense DSM 5692
25% identity, 79% coverage
GSU0018 transcriptional regulator, GntR family/aminotransferase class-I from Geobacter sulfurreducens PCA
26% identity, 76% coverage
- Iron Corrosion via Direct Metal-Microbe Electron Transfer
Tang, mBio 2019 - “...4.50 2.06 5.32 GSU2504 c -type cytochrome omcS Energy metabolism Electron transport 4.97 2.80 4.45 GSU0018 Transcriptional regulator, GntR family gntR Regulatory functions DNA interactions 3.77 2.26 4.22 GSU3410 Putative membrane protein Unknown function 8.35 6.83 3.11 GSU3395 l -Proline dehydrogenase putA Energy metabolism Amino acids...”
SAR2593 putative transcriptional regulator from Staphylococcus aureus subsp. aureus MRSA252
23% identity, 77% coverage
PA5283 probable transcriptional regulator from Pseudomonas aeruginosa PAO1
26% identity, 76% coverage
A4JJX2 Transcriptional regulator, GntR family from Burkholderia vietnamiensis (strain G4 / LMG 22486)
29% identity, 78% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...B2JSD8 Burkholderia phymatum STM815 Betaproteobacteria B2JR38 Burkholderia phymatum STM815 Betaproteobacteria Q63NL7 Burkholderia pseudomallei K96243 Betaproteobacteria A4JJX2 Burkholderia vietnamiensis G4 Betaproteobacteria Q13LC0 Burkholderia xenovorans LB400 Betaproteobacteria A9BMY2 Delfia acidovorans SPH-1 Betaproteobacteria D4HXE9 Erwinia amylovora ATCC 49946 Gammaproteobacteria Q6D5I8 Erwinia carotovora subsp.atroseptica SCRI1043 Gammaproteobacteria A6TF79 Klebsiella pneumonia subsp....”
Z5941 putative regulator from Escherichia coli O157:H7 EDL933
26% identity, 79% coverage
BSU03560 putative PLP-dependent transcriptional regulator from Bacillus subtilis subsp. subtilis str. 168
Q08792 Uncharacterized HTH-type transcriptional regulator YcxD from Bacillus subtilis (strain 168)
28% identity, 65% coverage
OG1RF_11857 PLP-dependent aminotransferase family protein from Enterococcus faecalis OG1RF
28% identity, 66% coverage
YjiR / b4340 fused putative DNA-binding transcriptional regulator/putative aminotransferase YjiR from Escherichia coli K-12 substr. MG1655 (see 5 papers)
yjiR / RF|NP_418760 uncharacterized HTH-type transcriptional regulator yjiR from Escherichia coli K12 (see 2 papers)
P39389 Uncharacterized HTH-type transcriptional regulator YjiR from Escherichia coli (strain K12)
25% identity, 80% coverage
6s8wC / Q4X0F7 Aromatic aminotransferase aroh (aro8) form aspergillus fumigatus in complex with plp (internal aldimine)
27% identity, 83% coverage
- Ligand: pyridoxal-5'-phosphate (6s8wC)
BSU05240 putative PLP-dependent transcriptional regulator from Bacillus subtilis subsp. subtilis str. 168
28% identity, 68% coverage
NORG_STAA8 / Q2G1P1 HTH-type transcriptional regulator NorG from Staphylococcus aureus (strain NCTC 8325 / PS 47) (see paper)
25% identity, 74% coverage
- function: Positively regulates the expression of the NorB efflux pump and negatively regulates the expression of the AbcA efflux pump. Binds specifically to the promoters of norA, norB and norC and abcA genes. Overexpression of norG leads to an increase in the level of resistance to quinolones, associated with a threefold increase in norB transcripts. Disruption of norG leads to an increase in the level of resistance to methicillin, cefotaxime, penicillin G, and nafcillin, associated with a threefold increase in abcA transcripts. Could also have an aminotransferase activity.
cofactor: pyridoxal 5'-phosphate
SOCG_01904 aromatic amino acid aminotransferase from Schizosaccharomyces octosporus yFS286
25% identity, 80% coverage
SACOL0091 transcriptional regulator, GntR family/aminotransferase, class I from Staphylococcus aureus subsp. aureus COL
SAUSA300_0110 transcriptional regulator, GntR family/aminotransferase, class I from Staphylococcus aureus subsp. aureus USA300_FPR3757
25% identity, 70% coverage
SA0104 hypothetical protein from Staphylococcus aureus subsp. aureus N315
25% identity, 74% coverage
- Independent evolution of oleate hydratase clades in Bacillales reflects molecular convergence
Neff, Frontiers in molecular biosciences 2024 (no snippet) - Humoral immune consequences of Staphylococcus aureus ST239-associated bacteremia
Ghasemzadeh-Moghaddam, European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2018 (PubMed)- “...0.001), SdrE (P = 0.046), EsxA (P = 0.0001), and SA0104 (P = 0.0001). On the other hand, the antibody levels were significantly higher among controls for SSL3...”
- “...SSL5, SSL9, SSL10, and SSL11); and hypothetical proteins (SA0104 and SA2097). SasG, SdrD, SdrE, ClfB, IsdA, IsdH, FnbpA, and FnbpB were purified as described...”
- Staphylococcal Superantigen-Like Protein 1 and 5 (SSL1 & SSL5) Limit Neutrophil Chemotaxis and Migration through MMP-Inhibition
Koymans, International journal of molecular sciences 2016 - “...063651016), ORF-D (MW0205), MW1225, NWMN_0337, NWMN_0401, NWMN_0402, NWMN_2283, PrsA (SAOUHSC_01972), rplQ (SAOUHSC_02484), rpsM (SAOUHSC_02487), SA0092, SA0104, SA0129, SA0182, SA0357, SA0570, SA0710, SA0719, SA0745, SA0908, SA1633, SA1737, SA1743, SA1774, SA1818, SAOUHSC_00704, SAR0846, SAR1886, SAV0301, SAV0302, SCIN-A (SA1754), SCIN-B (SA1004), SCIN-C (SAR1131), Snase (SA0746), Sortase A (SAOUCHSC_02834), SSL2...”
- Mild Staphylococcus aureus Skin Infection Improves the Course of Subsequent Endogenous S. aureus Bacteremia in Mice
van, PloS one 2015 - “...peptidoglycan hydrolase (LytM); endonuclease (Nuc); peptidoglycan (PG); a parvulin-type peptidyl-prolyl cis/trans isomerase (PrsA); hypothetical protein SA0104; serine-aspartate dipeptide repeat protein D (SdrD); staphylococcal superantigen-like proteins 1, 3, 5, and 10 (SSL1, SSL3, SSL5, and SSL10); and wall teichoic acid (WTA). Genes encoding these S . aureus...”
- “...0.223 PrsA 32 (2833) 405 (194900) 3282 (17284490) 4568 (35925838) 0.011 0.011 0.005 0.0019 * SA0104 5 (46) 6 (419) 6 (434) 6 (59) 0.125 0.106 0.574 0.939 SdrD 0 (00) 0 (010) 0 (022) 0 (05) 0.584 0.584 0.317 0.942 SSL1 0 (00) 0 (050)...”
- Characterization of the humoral immune response during Staphylococcus aureus bacteremia and global gene expression by Staphylococcus aureus in human blood
den, PloS one 2013 - “...5, 9, 10 and 11 (SSL1, SSL3, SSL5, SSL9, SSL10 and SSL11) and hypothetical proteins SA0104, SA0486 and SA0688. The following purified non-staphylococcal proteins were also coupled to xMAP beads as negative controls: Moraxella catarrhalis ubiquitous surface protein 1 (UspA1); Streptococcus pneumoniae pneumococcal surface adhesin A...”
- “...12/12 (100%) 2.92 (1.3234.21) no 0.096 PSMa peptides 14 21/21 (100%) CV>25% CV>25% ND ND SA0104 16/21 (76%) CV>25% CV>25% ND ND SA0486 17/21 (81%) 7/9 (78%) 1.37 (0.463.43) yes 0.020 SA0688 21/21 (100%) 18/19 (95%) 5.17 (0.7456.96) yes <0.0001 SasG 11/21 (52%) 7/10 (70%) 1.17...”
- Transcriptional profiling analysis of the global regulator NorG, a GntR-like protein of Staphylococcus aureus
Truong-Bolduc, Journal of bacteriology 2011 - “...regulator of the GntR family (S. aureus strain N315 SA0104), which is predicted to be related to the FadR and MocR proteins (11, 21, 34), is negatively...”
- The transcriptional regulators NorG and MgrA modulate resistance to both quinolones and beta-lactams in Staphylococcus aureus
Truong-Bolduc, Journal of bacteriology 2007 - “...that encoded by a 1,321-bp open reading frame (ORF) designated SA0104 in the genome of S. aureus N315. This ORF is predicted to encode a protein of the FadR...”
- Global transcriptome analysis of Staphylococcus aureus response to hydrogen peroxide
Chang, Journal of bacteriology 2006 - “...and iron-carrying compounds. In particular, COL-SA0099 (sirA), -SA0104, and -SA0105 aroused our attention because they are involved in iron uptake system...”
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D4HXE9 Putative GntR-family regulatory protein from Erwinia amylovora (strain CFBP1430)
29% identity, 64% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...A4JJX2 Burkholderia vietnamiensis G4 Betaproteobacteria Q13LC0 Burkholderia xenovorans LB400 Betaproteobacteria A9BMY2 Delfia acidovorans SPH-1 Betaproteobacteria D4HXE9 Erwinia amylovora ATCC 49946 Gammaproteobacteria Q6D5I8 Erwinia carotovora subsp.atroseptica SCRI1043 Gammaproteobacteria A6TF79 Klebsiella pneumonia subsp. pneumoniae MGH 78578 Gammaproteobacteria B2U7Y5 Ralstonia pickettii 12J Betaproteobacteria A8GJW1 Serratia proteamaculans 568 Gammaproteobacteria Q4A0R1...”
PP1109 transcriptional regulator, GntR family from Pseudomonas putida KT2440
PP_1109 PLP-dependent aminotransferase family protein from Pseudomonas putida KT2440
27% identity, 78% coverage
- UEG Week 2024 Poster Presentations
, United European gastroenterology journal 2024 - UEG Week 2023 Poster Presentations
, United European gastroenterology journal 2023 - In vivo gene expression of Pseudomonas putida KT2440 in the rhizosphere of different plants
Fernández, Microbial biotechnology 2013 - “...of the asd to the PP4492 promoter; pOR1:fus1109, transcriptional fusion of the asd to the PP1109 promoter. Bacterial densities were determined by plate counting in minimal medium supplemented with kanamycin, DAP and amino acids. Experiments were run in triplicate. Transcriptional fusions to verify were chosen at...”
- Massively Parallel Fitness Profiling Reveals Multiple Novel Enzymes in Pseudomonas putida Lysine Metabolism
Thompson, mBio 2019 - “...enzymes (PP_0384, PP_3592, and PP_3603), while others were not clustered with any obviously related genes (PP_1109, PP_2868, PP_3649, and PP_4482). Two known global regulators were identified in our screen: cbrA (PP_4695), encoding a histidine kinase sensor that showed fitness defects on both lysine isomers, and the...”
LSA1351 Putative transcritional regulator with aminotransferase domain, GntR family from Lactobacillus sakei subsp. sakei 23K
27% identity, 70% coverage
- Global transcriptome response in Lactobacillus sakei during growth on ribose
McLeod, BMC microbiology 2011 - “...GntR family 1.4 D D LSA1322 glnR Glutamine synthetase transcriptional regulator, MerR family -1.4 -1.3 LSA1351 lsa1351 Putative transcritional regulator with aminotransferase domain, GntR family -0.5 -0.6 LSA1434 lsa1434 Putative transcriptional regulator, DUF24 family (related to MarR/PadR families) -0.8 LSA1449 spxA Transcriptional regulator Spx 1.0 0.6...”
BP0412 putative GntR-family transcriptional regulator from Bordetella pertussis Tohama I
28% identity, 78% coverage
6s8wB / Q4X0F7 Aromatic aminotransferase aroh (aro8) form aspergillus fumigatus in complex with plp (internal aldimine)
26% identity, 77% coverage
- Ligand: pyridoxal-5'-phosphate (6s8wB)
AFUA_2G13630, Afu2g13630 aromatic aminotransferase Aro8, putative from Aspergillus fumigatus Af293
25% identity, 74% coverage
- Crystal structure of Aspergillus fumigatus AroH, an aromatic amino acid aminotransferase
Spizzichino, Proteins 2022 - “...upregulated in response to tryptophan feeding in Aspergillus . 5 The aro genes include aroH (Afu2g13630) that encodes for AroH, a pyridoxal 5phosphate (PLP)dependent aromatic aminotransferase, involved in the transamination of Ltryptophan, 3 , 5 that has 50% sequence identity with Aro8 of Saccharomyces cerevisiae and...”
- At the metal-metabolite interface in Aspergillus fumigatus: towards untangling the intersecting roles of zinc and gliotoxin
Traynor, Microbiology (Reading, England) 2021 - “...Glutathione peroxidase 3.72976 0.021992 23 46.4 AFUA_3G12270 Aromatic aminotransferase Aro8, putative 3.72432 0.004333 49 87.6 AFUA_2G13630 l -PSP endoribonuclease family protein (Hmf1), putative 3.5685 0.001461 11 60.1 AFUA_7G02340 12-Alpha,13-alpha-dihydroxyfumitremorgin C prenyltransferase FtmH 2.54403 0.007585 37 74.9 AFUA_8G00250 Isonitrile hydratase-like protein XanA 2.53522 0.010337 11 47.5 AFUA_5G02670...”
- Aspergillus fumigatus tryptophan metabolic route differently affects host immunity
Zelante, Cell reports 2021 - “...and S5 . Although the ido genes regulate the kynurenine pathway, the aro genes, aroH (Afu2g13630) and aroI (Afu5g02990), encode putative PLP-dependent aromatic aminotransferases that transaminate Trp to generate indolepyruvate, a precursor of the indol acetate pathway ( Dindo etal., 2018 ; Choera etal., 2018 )....”
- Modeling Approaches Reveal New Regulatory Networks in Aspergillus fumigatus Metabolism
Acerbi, Journal of fungi (Basel, Switzerland) 2020 - “...Trp and prenylated Trp into small non-ribosomally encoded secondary metabolites. Among the aro genes, aroH (Afu2g13630) encodes the putative pyridoxal 5-phosphate (PLP)-dependent aromatic aminotransferase, which transforms Trp into indolepyruvate [ 4 , 8 ]. Ido genes ( idoA Afu3g14250, idoB Afu4g09830, idoC Afu7g02010) encode putative IDOs,...”
- Biochemical Characterization of Aspergillus fumigatus AroH, a Putative Aromatic Amino Acid Aminotransferase
Dindo, Frontiers in molecular biosciences 2018 - “...dioxygenate L-tryptophan to produce L-kynurenine (Wang et al., 2016 ). Among the aro genes, aroH (Afu2g13630) encodes a putative pyridoxal 5'-phosphate (PLP)-dependent aromatic aminotransferase, which transaminates L-tryptophan to generate indolepyruvate. AroH shows the highest sequence identity (~50%) with Aro8 of S. cerevisiae as well as with...”
- A Multifaceted Role of Tryptophan Metabolism and Indoleamine 2,3-Dioxygenase Activity in Aspergillus fumigatus-Host Interactions
Choera, Frontiers in immunology 2017 - “...Afu5g13130 Chorismate mutase PheA Pha2 Afu5g05690 Prephenate dehydratase TyrA Tyr1 Afu2g10450 Prephenate dehydrogenase AroH Aro8 Afu2g13630 AAA transaminase AroI Aro9 Afu5g02290 Trp degradation IdoA Bna2 Afu3g14250 Indoleamine 2,3-dioxygenases IDO1 IdoB Bna2 Afu4g09830 IDO2 IdoC Bna2 Afu7g02010 TDO FmdS Bna7 Afu1g09960 Kynurenine formamidase AFMID Bna4 Bna4 Afu6g07340...”
- TrpE feedback mutants reveal roadblocks and conduits toward increasing secondary metabolism in Aspergillus fumigatus
Wang, Fungal genetics and biology : FG & B 2016 - “...aroH and idoB were highly up-regulated in all three strains ( Fig. 7 ). aroH (Afu2g13630) encodes a putative aromatic aminotransferase involved in transamination of l -tryptophan to generate indolepyruvate and idoB (Afu4g09830) encodes a putative indoleamine 2,3-dioxygenase which could be involved in dioxygenation of l...”
- “...(Afu5g13130), chorismate mutase (EC:5.4.99.5); 2g10450 (Afu2g10450), prephenate dehydrogenase (EC:1.3.1.13); 5g05690 (Afu5g05690), prephenate dehydratase (EC:4.2.1.51); AroH (Afu2g13630), aromatic aminotransferase (EC:2.6.1.27; 2.6.1.57; 2.6.1.5); IcsA (Afu6g12110), isochorismate synthetase (EC:5.4.4.2); IdoA (Afu3g14250), IdoB (Afu4g09830), IdoC (Afu7g02010), indoleamine 2,3-dioxygenase (EC:1.13.11.52). Abbreviations: EPSP, enolpyruvylshikimate-3-phosphate; ADC, 4-Amino-4-deoxychorismate. Figure 3 Maximum likelihood phylogenetic analysis...”
- The role of melanin pathways in extremotolerance and virulence of Fonsecaea revealed by de novo assembly transcriptomics using illumina paired-end sequencing
Li, Studies in mycology 2016 - “...unigene1837 4.113 0.026* l -tyrosine degradation pathway Tyrosine aminotransferase (Tat) cl1774.contig1 1.910 0.003* HMPREF1120-02164 G647-02757 Afu2g13630 An02g05540 cl1774.contig2 1.837 0.006* G647-07845 4-Hydroxyphenylpyruvate dioxygenase (hppD) cl24.contig4 1.819 0.012* HMPREF1120-05584 G647-06922 Afu2g04200 An11g02200 Homogentisate dioxygenase (hmgA) unigene1219 1.108 0.017* HMPREF1120-03827 G647-06522 Afu2g04220 An11g02180 Fumarylacetoacetate hydrolase (fahA) unigene2130 0.313...”
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CG6321 uncharacterized protein from Drosophila melanogaster
26% identity, 88% coverage
- A cis-regulatory element promoting increased transcription at low temperature in cultured ectothermic Drosophila cells
Bai, BMC genomics 2021 - “...hit ( CG32944 ) was chosen and four genes encoding proteins with predicted functions ( CG6321 and Orct2 as transporters, Lip4 as lipase, CG32944 as protein kinase). Among strong HeatUp genes, we selected the top hit ( Hsp23 ) and two additional genes with known functions...”
- “...indicated temperatures (11, 25 and 30C) before RNA isolation. Representative CoolUp genes ( CG13694 , CG6321 , CG32944, Orct2 , Lip4 ) and CoolDown genes ( Hsp23 , Hsp22 , DNApol-50 ), as well as genes ( Atg1 , Pten ), which were barely temperature regulated,...”
RPA1394 transcriptional regulator, GntR family with aminotransferase domain from Rhodopseudomonas palustris CGA009
29% identity, 64% coverage
B2JSD8 Transcriptional regulator, GntR family with aminotransferase domain from Paraburkholderia phymatum (strain DSM 17167 / CIP 108236 / LMG 21445 / STM815)
29% identity, 63% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators.
Angelaccio, Data in brief 2016 - “...Burkholderia cepacia AMMD Betaproteobacteria C5ALU9 Burkholderia glumae BGR1 Betaproteobacteria A0A0H2XDM4 Burkholderia mallei ATCC 23344 Betaproteobacteria B2JSD8 Burkholderia phymatum STM815 Betaproteobacteria B2JR38 Burkholderia phymatum STM815 Betaproteobacteria Q63NL7 Burkholderia pseudomallei K96243 Betaproteobacteria A4JJX2 Burkholderia vietnamiensis G4 Betaproteobacteria Q13LC0 Burkholderia xenovorans LB400 Betaproteobacteria A9BMY2 Delfia acidovorans SPH-1 Betaproteobacteria D4HXE9...”
DDF84_RS21915 PLP-dependent aminotransferase family protein from Cupriavidus metallidurans
33% identity, 63% coverage
Q2YUS3 HTH-type transcriptional regulator NorG from Staphylococcus aureus (strain bovine RF122 / ET3-1)
25% identity, 74% coverage
DVU0030 / VIMSS7533539 DVU0030 regulator of Amino acid transport from Desulfomicrobium baculatum DSM 4028
26% identity, 79% coverage
A0A1D8PG20 2-aminoadipate transaminase (EC 2.6.1.39); aromatic-amino-acid transaminase (EC 2.6.1.57) from Candida albicans (see 2 papers)
XP_719544 bifunctional 2-aminoadipate transaminase/aromatic-amino-acid:2-oxoglutarate transaminase from Candida albicans SC5314
26% identity, 77% coverage
Q63NL7 GntR-family regulatory protein from Burkholderia pseudomallei (strain K96243)
27% identity, 68% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...Burkholderia mallei ATCC 23344 Betaproteobacteria B2JSD8 Burkholderia phymatum STM815 Betaproteobacteria B2JR38 Burkholderia phymatum STM815 Betaproteobacteria Q63NL7 Burkholderia pseudomallei K96243 Betaproteobacteria A4JJX2 Burkholderia vietnamiensis G4 Betaproteobacteria Q13LC0 Burkholderia xenovorans LB400 Betaproteobacteria A9BMY2 Delfia acidovorans SPH-1 Betaproteobacteria D4HXE9 Erwinia amylovora ATCC 49946 Gammaproteobacteria Q6D5I8 Erwinia carotovora subsp.atroseptica SCRI1043...”
Dd703_3064 putative transcriptional regulator, GntR family from Dickeya dadantii Ech703
29% identity, 73% coverage
- Genome mining reveals the genus Xanthomonas to be a promising reservoir for new bioactive non-ribosomally synthesized peptides
Royer, BMC genomics 2013 - “...accession Dd703_3065 of strain Ech703 of Dickeya dadantii ). TA: transaminase gene (ortholog of accession Dd703_3064 of strain Ech703 of D. dadantii ). DH: lactate dehydrogenase gene. DaT: gene involved in biosynthesis of 2,4-diaminobutyric acid (Dab). Length of arrows is not proportional to the length of...”
- “...group of antibiotic resistance proteins. Orthologs of this hypothetical protein (Dd703_3065) and of the transaminase (Dd703_3064) are present in a NRPS gene cluster in the genome of the phytopathogenic strain Ech703 of Dickeya dadantii , supporting the assumption that both genes are required for biosynthesis of...”
6hndB / A0A1D8PMC5 Crystal structure of the aromatic aminotransferase aro9 from c. Albicans (see paper)
30% identity, 68% coverage
- Ligand: pyridoxal-5'-phosphate (6hndB)
An02g05540 uncharacterized protein from Aspergillus niger
25% identity, 73% coverage
- Characterization of a novel polyextremotolerant fungus, Exophiala viscosa, with insights into its melanin regulation and ecological niche
Carr, G3 (Bethesda, Md.) 2023 - “...e-value Bit score % ID Mycocosm Prot. ID # e-value Bit score % ID Tat An02g05540 606461 1.22E-169 1,477 54.4 34310 1.22E-169 1,477 54.4 HppD An11g02200 623446 0.0E00 1,448 69.7 39306 0.0E00 1,448 69.7 HmgA An11g02180 617354, 102643, 403121 0.0E00, 1.05E-92, 1.12E-104 1,789, 971, 922 73,...”
- The role of melanin pathways in extremotolerance and virulence of Fonsecaea revealed by de novo assembly transcriptomics using illumina paired-end sequencing
Li, Studies in mycology 2016 - “...4.113 0.026* l -tyrosine degradation pathway Tyrosine aminotransferase (Tat) cl1774.contig1 1.910 0.003* HMPREF1120-02164 G647-02757 Afu2g13630 An02g05540 cl1774.contig2 1.837 0.006* G647-07845 4-Hydroxyphenylpyruvate dioxygenase (hppD) cl24.contig4 1.819 0.012* HMPREF1120-05584 G647-06922 Afu2g04200 An11g02200 Homogentisate dioxygenase (hmgA) unigene1219 1.108 0.017* HMPREF1120-03827 G647-06522 Afu2g04220 An11g02180 Fumarylacetoacetate hydrolase (fahA) unigene2130 0.313 0.043*...”
- Comparative genomic and transcriptomic analysis of wangiella dermatitidis, a major cause of phaeohyphomycosis and a model black yeast human pathogen
Chen, G3 (Bethesda, Md.) 2014 - “...4.58e09 An01g00860 (McoN) HMPREF1120_02754 0.07 7.70e01 0.52 3.27e04 An18g02690 (McoI) L-tyrosine degradation pathway Tat Afu2g13630 An02g05540 HMPREF1120_02164 0.22 1.88e01 1.96 5.90e49 Tyrosine aminotransferase hppD Afu2g04200 An11g02200 HMPREF1120_05584 2.08 6.68e40 4.33 1.38e208 4-Hydroxyphenylpyruvate dioxygenase hmgA Afu2g04220 An11g02180 HMPREF1120_03827 0.12 4.99e01 0.16 2.76e01 Homogentisate dioxygenase fahA Afu2g04230 An11g02170...”
SEN3898 putative GntR-family regulatory protein from Salmonella enterica subsp. enterica serovar Enteritidis str. P125109
26% identity, 68% coverage
A9BMY2 Transcriptional regulator, GntR family with aminotransferase domain from Delftia acidovorans (strain DSM 14801 / SPH-1)
30% identity, 65% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators.
Angelaccio, Data in brief 2016 - “...Q63NL7 Burkholderia pseudomallei K96243 Betaproteobacteria A4JJX2 Burkholderia vietnamiensis G4 Betaproteobacteria Q13LC0 Burkholderia xenovorans LB400 Betaproteobacteria A9BMY2 Delfia acidovorans SPH-1 Betaproteobacteria D4HXE9 Erwinia amylovora ATCC 49946 Gammaproteobacteria Q6D5I8 Erwinia carotovora subsp.atroseptica SCRI1043 Gammaproteobacteria A6TF79 Klebsiella pneumonia subsp. pneumoniae MGH 78578 Gammaproteobacteria B2U7Y5 Ralstonia pickettii 12J Betaproteobacteria A8GJW1...”
Q6D5I8 GntR-family transcriptional regulator from Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672)
28% identity, 64% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators.
Angelaccio, Data in brief 2016 - “...Burkholderia xenovorans LB400 Betaproteobacteria A9BMY2 Delfia acidovorans SPH-1 Betaproteobacteria D4HXE9 Erwinia amylovora ATCC 49946 Gammaproteobacteria Q6D5I8 Erwinia carotovora subsp.atroseptica SCRI1043 Gammaproteobacteria A6TF79 Klebsiella pneumonia subsp. pneumoniae MGH 78578 Gammaproteobacteria B2U7Y5 Ralstonia pickettii 12J Betaproteobacteria A8GJW1 Serratia proteamaculans 568 Gammaproteobacteria Q4A0R1 Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305...”
6hnuB / C4YJ02 Crystal structure of the aminotransferase aro8 from c. Albicans with ligands (see paper)
25% identity, 79% coverage
- Ligands: pyridoxal-5'-phosphate; phenylalanine (6hnuB)
DVU0030 / VIMSS8501445 DVU0030 regulator of Amino acid transport from Desulfovibrio vulgaris str. Miyazaki F
26% identity, 73% coverage
Q2KX56 GntR-family transcriptional regulator from Bordetella avium (strain 197N)
29% identity, 69% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...A8F9Y9 Bacillus pumilus SAFR 032 Firmicutes P94426 Bacillus subtilis subsp. subtilis str . 168 Firmicutes Q2KX56 Bordetella avium 197N Betaproteobacteria A0A0H3LKN1 Bordetella bronchiseptica RB50 Betaproteobacteria Q0B6G3 Burkholderia cepacia AMMD Betaproteobacteria C5ALU9 Burkholderia glumae BGR1 Betaproteobacteria A0A0H2XDM4 Burkholderia mallei ATCC 23344 Betaproteobacteria B2JSD8 Burkholderia phymatum STM815 Betaproteobacteria...”
DC74_566 PLP-dependent aminotransferase family protein from Streptomyces noursei
29% identity, 84% coverage
C5CM40 Transcriptional regulator, GntR family with aminotransferase domain from Variovorax paradoxus (strain S110)
28% identity, 75% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...Polaromonas naphthalenivorans CJ2 Betaproteobacteria Q129G7 Polaromonas sp. JS666 Betaproteobacteria Q221G1 Rhodoferax ferrireducens DSM 15236 Betaproteobacteria C5CM40 Variovorax paradoxus S110 Betaproteobacteria PdxR B9MKZ0 Anaerocellum thermophilum DSM6725 Firmicutes A4XIB4 Caldicellulosiruptor saccharolyticus DSM 8903 Firmicutes Q929S0 Listeria innocua Clip11262 Firmicutes Q8Y5G3 Listeria monocytogenes EGD e Firmicutes A0AKK7 Listeria welshimeri...”
AATR3_SCHPO / Q9Y7S6 Aromatic amino acid aminotransferase C569.07; EC 2.6.1.57 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
SPCC569.07 aromatic aminotransferase (predicted) from Schizosaccharomyces pombe
24% identity, 77% coverage
Q129G7 Transcriptional regulator, GntR family from Polaromonas sp. (strain JS666 / ATCC BAA-500)
28% identity, 65% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...C4ZIR5 Thauera sp. MZ1T Betaproteobacteria Q7CJK7 Yersinia pestis KIM Gammaproteobacteria A1VQK3 Polaromonas naphthalenivorans CJ2 Betaproteobacteria Q129G7 Polaromonas sp. JS666 Betaproteobacteria Q221G1 Rhodoferax ferrireducens DSM 15236 Betaproteobacteria C5CM40 Variovorax paradoxus S110 Betaproteobacteria PdxR B9MKZ0 Anaerocellum thermophilum DSM6725 Firmicutes A4XIB4 Caldicellulosiruptor saccharolyticus DSM 8903 Firmicutes Q929S0 Listeria innocua...”
XALc_1062 hypothetical aminotransferase protein from Xanthomonas albilineans
30% identity, 79% coverage
- Genome mining reveals the genus Xanthomonas to be a promising reservoir for new bioactive non-ribosomally synthesized peptides
Royer, BMC genomics 2013 - “...dioxygenase DpgC, which may convert 3,5-dihydroxyphenylacetyl-CoA into 3,5-dihydroxyphenyl-glyoxylate, and subsequently generate Dpg after transamination by XALc_1062 (HpgT, hydroxyphenyl-glycine transaminase). Table 2 Similarities between genes predicted to be required for biosynthesis of Dpg in strain GPE PC73 of Xanthomonas albilineans and genes previously characterized from strain DSM...”
- “...62% DpgC (AAM80546) 48% / 62% Metal- and cofactor-free 3,5-dihydroxyphenylacetyl-CoA 1,2-dioxygenase, converts 3,5-dihydroxyphenylacetyl-CoA into 3,5-dihydroxyphenylglyoxylate* XALc_1062 HpgT (CAC48367) 43% / 58% HpgT (AAM80549) 42% / 58% Transaminase, generates 3,5-dihydroxyphenyl-glycine from 3,5-dihydroxyphenylglyoxylate XALc_1063 DpgD (CAC48381) 62% / 74% DpgD (AAM80545) 61% / 74% Belongs to crotonase/Enoyl-CoA hydratase...”
CNF04620 hypothetical protein from Cryptococcus neoformans var. neoformans JEC21
25% identity, 79% coverage
STY3762 putative GntR-family regulatory protein from Salmonella enterica subsp. enterica serovar Typhi str. CT18
t3512 putative GntR-family regulatory protein from Salmonella enterica subsp. enterica serovar Typhi Ty2
26% identity, 69% coverage
- Single nucleotide polymorphisms that differentiate two subpopulations of Salmonella enteritidis within phage type
Guard, BMC research notes 2011 - “...with 34 mispriming events, or a run length of 34. The 92 bp deletion in STY3762 of PT13a 21046 had a run length of 14 within a 91 bp window. The 10 bp deletion within dsdA , the 12 bp deletion in lrgB , and the...”
- Prevalence, resistance pattern, and molecular characterization of Staphylococcus aureus isolates from healthy animals and sick populations in Henan Province, China
Liu, Gut pathogens 2018 - “...9 ZY6, ZY7, ZY9, ZY10, ZY12 5 (3.50) t3380 r07-r23-r12-r21-r17-r34-r34 7 NJ26, NZ10 2 (1.40) t3512 r07-r16-r23-r02 4 Z12, NC7, 8, 9, 11 5 (3.50) t3527 r04-r20-r17-r02-r17-r25-r34 7 ZY13 1 (0.70) t3626 r07-r23-r12-r21-r17-r34-r34-r34-r33 9 NJ4 1 (0.70) t6367 r07-r23-r12-r21-r17 5 NK8, NZ7 2 (1.40) t6811 r07-r23-r21-r16-r34-r33...”
H16_B0980 transcriptional regulator, MocR family from Ralstonia eutropha H16
28% identity, 63% coverage
B2JR38 Transcriptional regulator, GntR family with aminotransferase domain from Paraburkholderia phymatum (strain DSM 17167 / CIP 108236 / LMG 21445 / STM815)
28% identity, 64% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators.
Angelaccio, Data in brief 2016 - “...Burkholderia glumae BGR1 Betaproteobacteria A0A0H2XDM4 Burkholderia mallei ATCC 23344 Betaproteobacteria B2JSD8 Burkholderia phymatum STM815 Betaproteobacteria B2JR38 Burkholderia phymatum STM815 Betaproteobacteria Q63NL7 Burkholderia pseudomallei K96243 Betaproteobacteria A4JJX2 Burkholderia vietnamiensis G4 Betaproteobacteria Q13LC0 Burkholderia xenovorans LB400 Betaproteobacteria A9BMY2 Delfia acidovorans SPH-1 Betaproteobacteria D4HXE9 Erwinia amylovora ATCC 49946 Gammaproteobacteria...”
C0NBP4 Aromatic amino acid aminotransferase from Ajellomyces capsulatus (strain G186AR / H82 / ATCC MYA-2454 / RMSCC 2432)
24% identity, 73% coverage
YE2670 putative GntR-family regulatory protein from Yersinia enterocolitica subsp. enterocolitica 8081
26% identity, 66% coverage
Q13LC0 Transcriptional regulator, GntR family from Paraburkholderia xenovorans (strain LB400)
29% identity, 66% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators.
Angelaccio, Data in brief 2016 - “...B2JR38 Burkholderia phymatum STM815 Betaproteobacteria Q63NL7 Burkholderia pseudomallei K96243 Betaproteobacteria A4JJX2 Burkholderia vietnamiensis G4 Betaproteobacteria Q13LC0 Burkholderia xenovorans LB400 Betaproteobacteria A9BMY2 Delfia acidovorans SPH-1 Betaproteobacteria D4HXE9 Erwinia amylovora ATCC 49946 Gammaproteobacteria Q6D5I8 Erwinia carotovora subsp.atroseptica SCRI1043 Gammaproteobacteria A6TF79 Klebsiella pneumonia subsp. pneumoniae MGH 78578 Gammaproteobacteria B2U7Y5...”
4je5B / P53090 Crystal structure of the aromatic aminotransferase aro8, a putative alpha-aminoadipate aminotransferase in saccharomyces cerevisiae (see paper)
23% identity, 76% coverage
- Ligands: 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid; 4'-deoxy-4'-aminopyridoxal-5'-phosphate (4je5B)
A0A1D8PMC5 aromatic-amino-acid transaminase (EC 2.6.1.57) from Candida albicans (see paper)
XP_716545 aromatic-amino-acid:2-oxoglutarate transaminase from Candida albicans SC5314
29% identity, 61% coverage
ARO8 / P53090 aromatic amino acid/aminoadipate aminotransferase monomer (EC 2.6.1.39; EC 2.6.1.1; EC 2.6.1.28) from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (see 5 papers)
ARO8_YEAST / P53090 Aromatic/aminoadipate aminotransferase 1; 2-aminoadipate aminotransferase; 2-aminoadipate transaminase; Alpha-aminoadipate aminotransferase; AadAT; Aromatic amino acid aminotransferase 1; Aromatic amino acid aminotransferase I; Aromatic amino acid-requiring protein 8; EC 2.6.1.39; EC 2.6.1.57 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 8 papers)
P53090 2-aminoadipate transaminase (EC 2.6.1.39); aromatic-amino-acid transaminase (EC 2.6.1.57) from Saccharomyces cerevisiae (see 3 papers)
ARO8 / CAA73946.1 aromatic amino acid aminotransferase I from Saccharomyces cerevisiae (see paper)
NP_011313 bifunctional 2-aminoadipate transaminase/aromatic-amino-acid:2-oxoglutarate transaminase from Saccharomyces cerevisiae S288C
NP_011313, YGL202W Aro8p from Saccharomyces cerevisiae
23% identity, 76% coverage
- function: General aromatic amino acid transaminase involved in several otherwise unrelated metabolic pathways. Responsible for phenylalanine and tyrosine biosynthesis. Active with glutamate, phenylalanine, tyrosine and tryptophan as amino donors and with phenylpyruvate, hydroxyphenylpyruvate, 2-oxoglutarate and pyruvate as amino acceptors. Also active with methionine, alpha-aminoadipate and leucine as amino donors when phenylpyruvate is the amino acceptor and in the reverse reactions with the corresponding oxo acids and phenylalanine as amino donor. Catalyzes the formation of methionine from 2-keto-4- methylthiobutyrate (KMTB) in the methionine salvage pathway primarily using aromatic amino acids (tyrosine, phenylalanine and tryptophan) as the amino donors. Catalyzes the formation of alpha-aminoadipate from alpha-ketoadipate in the lysine biosyntheic pathway.
catalytic activity: an aromatic L-alpha-amino acid + 2-oxoglutarate = an aromatic oxo-acid + L-glutamate (RHEA:17533)
catalytic activity: an aromatic L-alpha-amino acid + 4-methylsulfanyl-2- oxobutanoate = an aromatic oxo-acid + L-methionine (RHEA:47800)
catalytic activity: L-2-aminoadipate + 2-oxoglutarate = 2-oxoadipate + L- glutamate (RHEA:12601)
cofactor: pyridoxal 5'-phosphate - Kynurenine aminotransferase activity of Aro8/Aro9 engage tryptophan degradation by producing kynurenic acid in Saccharomyces cerevisiae.
Ohashi, Scientific reports 2017 - GeneRIF: Study confirmed Aro8 and Aro9 as primary kynurenine aminotransferases (KATs) in S. cerevisiae and showed that the aro8Delta aro9Delta mutant cells lack kynurenic acid (KA) and showed that aro8Delta aro9Delta cells were sensitive to high concentrations of tryptophan (Trp). While expression of ARO9 rescued the sensitivity for Trp in the aro8Delta aro9Delta double mutant, addition of KA to the medium did not.
- Deletion of the Saccharomyces cerevisiae ARO8 gene, encoding an aromatic amino acid transaminase, enhances phenylethanol production from glucose.
Romagnoli, Yeast (Chichester, England) 2015 (PubMed)- GeneRIF: Deletion of ARO8 led to de novo production of phenylethanol during growth on a glucose synthetic medium.
- Crystal structure of Saccharomyces cerevisiae Aro8, a putative α-aminoadipate aminotransferase.
Bulfer, Protein science : a publication of the Protein Society 2013 - GeneRIF: The aromatic aminotransferase Aro8 has been identified as an AAA-AT in Saccharomyces cerevisiae. This enzyme displays broad substrate selectivity, utilizing several amino acids and 2-oxo acids as substrates.
- Proteomic Analysis of Saccharomyces cerevisiae Response to Oxidative Stress Mediated by Cocoa Polyphenols Extract
Peláez-Soto, Molecules (Basel, Switzerland) 2020 - “...2002 Bmh2 Protein BMH2 P34730 31099 136 11 36 4.76 5411 Aro8 Aromatic/aminoadipate aminotransferase 1 P53090 56371 181 9 14 4.77 6403 Pgk1 6 Phosphoglycerate kinase P00560 44768 231 20 47 5.98 3605 Gdh1 NADP-specific glutamate dehydrogenase 1 P07262 49881 142 17 38 7.47 8508 Tef4...”
- Metazoan remaining genes for essential amino acid biosynthesis: sequence conservation and evolutionary analyses
Costa, Nutrients 2014 - “...Asp, Glu, Cys, Met, Arg, Pro, Tyr, and Phe metabolism Aromatic/aminoadipate aminotransferase 1 AadAT * P53090 NP_057312.1 2.6.1.39 Lys Fifth reaction of the Lys biosynthesis pathway * AadAT is absent in plants, since they use an alternative pathway to produce Lys. This last enzyme was not...”
- Transcriptional analysis of L-methionine catabolism in the cheese-ripening yeast Yarrowia lipolytica in relation to volatile sulfur compound biosynthesis
Cholet, Applied and environmental microbiology 2008 - “...amino acid aminotransferase (cytosolic) Similar to sp P53090 S. cerevisiae YGL202w ARO8 aromatic amino acid aminotransferase I Weakly similar to sp...”
- Regulation of xylose metabolism in recombinant Saccharomyces cerevisiae
Salusjärvi, Microbial cell factories 2008 - “...-2.8 -1.9 -0.8 0.7 P28777 Aro2p YGL148W chorismate synthase -0.7 0.4 -1.4 -1.4 -0.7 -1.8 P53090 Aro8p YGL202W aromatic-amino-acid transaminase -1.7 1.5 -0.6 -1.0 1.1 -2.5 P38011 Asc1p YMR116C molecular function unknown -0.6 1.8 -2.4 -1.1 -1.8 -3.0 P07251 Atp1p YBL099W hydrogen-transporting ATP synthase 0.1 -0.2...”
- Histoplasma capsulatum Relies on Tryptophan Biosynthesis To Proliferate within the Macrophage Phagosome
Shen, Infection and immunity 2023 (secret) - Differential requirements for Gcn5 and NuA4 HAT activities in the starvation-induced versus basal transcriptomes
Zheng, Nucleic acids research 2023 - “...YER055C YER069W YER175C YFL026W YGL032C YGL117W YGL186C YGL202W YGR161C YHR018C YHR022C YIL015W YIL051C YJR148W YJR154W YLL028W YLR120C YLR452C YMR062C...”
- “...YER055C YER175C YFL014W YFL026W YGL032C YGL117W YGL186C YGL202W YGR088W YHR018C YHR022C YHR162W YIL015W YIL051C YJR148W YKL035W YKL211C YLL028W YLR120C YLR258W...”
- Pathogenesis and defense mechanism while Beauveria bassiana JEF-410 infects poultry red mite, Dermanyssus gallinae
Park, PloS one 2023 - “...tryptophan metabolism (KEGG:00380). Significantly up-regulated genes in the tryptophan metabolism were YBL098W, YIL164C, YGR088W, and YGL202W. Each gene performs the functions of kynurenine 3-monooxygenase, nitrilase, and cytosolic catalase T. The tryptophan metabolism performs energy production by synthesizing kynurenine followed by NAD synthesis or by synthesizing Acetyl-CoA....”
- Simultaneous quantification of mRNA and protein in single cells reveals post-transcriptional effects of genetic variation
Brion, eLife 2020 - “...S. cerevisiae ) TDH3 SGD YGR192C tagged gene Gene ( S. cerevisiae ) ARO8 SGD YGL202W tagged gene Gene ( S. cerevisiae ) BMH2 SGD YDR099W tagged gene Gene ( S. cerevisiae ) GPD1 SGD YDL022W tagged gene Gene ( S. cerevisiae ) MTD1 SGD YKR080W...”
- The Parauncinula polyspora Draft Genome Provides Insights into Patterns of Gene Erosion and Genome Expansion in Powdery Mildew Fungi
Frantzeskakis, mBio 2019 - “...for the different PM sublineages (e.g., for the homologs of YHL016C and YIR023W or for YGL202W [ Fig.3A ]), while others were seemingly lost prior to the diversification of the PMs (e.g., for the homologs involved in glutamate metabolism [ Fig.3A ]). In order to reduce...”
- Growth Regulation in Amphibian Pathogenic Chytrid Fungi by the Quorum Sensing Metabolite Tryptophol
Verbrugghe, Frontiers in microbiology 2018 - “...NCBIs Conserved Domains database, high similarity to ARO8 of Saccharomyces cerevisiae (Bioproject: PRJNA128 , Accession: NP_011313 ) was observed with e-values of 4.17e -97 and 1.39e -85 for Bd and Bsal candidates, respectively (Supplementary Figure 2 ) ( Altschul et al., 1997 ; Marchler-Bauer et al.,...”
- Intimate connections: Inositol pyrophosphates at the interface of metabolic regulation and cell signaling
Shears, Journal of cellular physiology 2018 - “...YLR293C GSP1 Ran GTPase YBR221C PDB1 E1 beta subunit of the pyruvate dehydrogenase (PDH) complex YGL202W ARO8 Aromatic aminotransferase I YER126C NSA2 Constituent of 66S pre-ribosomal particles YJR063W RPA12 RNA polymerase I subunit A12.2 YIL051C MMF1 Mitochondrial protein required for transamination of isoleucine YCR053W THR4 Threonine...”
- Intracellular trafficking of the pyridoxal cofactor. Implications for health and metabolic disease
Whittaker, Archives of biochemistry and biophysics 2016 - “...a 1. Cytoplasm Aspartate aminotransferase AAS 2.6.1.1 Aat2 YLR027C Aromatic aminotransferase I ArAT 2.6.1.57 Aro8 YGL202W Aromatic aminotransferase II ArAT 2.6.1.57 Aro9 YHR137W 7,8-Diamino-pelargonic acid aminotransferase DAPA 2.6.1.62 Bio3 YNR058W Kynurenine aminotransferase KAT 2.6.1.7 Bna3 YJL060W Kynureninase KYNU 3.7.1.3 Bna5 YLR231C L-ornithine transaminase OAT 2.6.1.13 Car2...”
- More
blr2136 blr2136 from Bradyrhizobium japonicum USDA 110
27% identity, 90% coverage
DVU0030 / VIMSS7650531 DVU0030 regulator of Amino acid transport from Desulfovibrio magneticus RS-1
25% identity, 77% coverage
P49309 Probable rhizopine catabolism regulatory protein MocR from Rhizobium meliloti
25% identity, 74% coverage
- Computational classification of MocR transcriptional regulators into subgroups as a support for experimental and functional characterization
Pascarella, Bioinformation 2019 - “...proteobacteria 254 Table 2 Reference MocRs Databank accession number Label a Function b Source organism P49309 MocR Probable rhizopine catabolism regulatory protein Rhizobium meliloti D5AKX9 TauR Transcriptional activator, which is essential for taurine-dependent expression of the tpa-tauR-xsc operon Rhodobacter capsulatus P94426 GabR Activates the transcription of...”
- Expanding the Cyanobacterial Nitrogen Regulatory Network: The GntR-Like Regulator PlmA Interacts with the PII-PipX Complex.
Labella, Frontiers in microbiology 2016 - “...database containing one representative protein sequence of each GntR subfamily: DevA (accession ), MocR (accession P49309 ), PlmA (accession ABB56122 ), AraR (accession P96711 ), FadR (accession P0A8V6 ), HutC (accession P22773 ), and YtrA (accession O34712 ). The neighbor-joining phylogenetic tree for PlmA orthologs (234...”
- GntR family of regulators in Mycobacterium smegmatis: a sequence and structure based characterization
Vindal, BMC genomics 2007 - “...238 P0A8V8 FadR (VanR Group) Rhizobium leguminosarum MatR 222 Q9JP74 MocR Rhizobium meliloti MocR 493 P49309 HutC Pseudomonas putida HutC 248 P22773 YtrA Bacillus halodurans BH0651 123 Q9KF35 Bacillus halodurans BH2647 123 Q9K9J9 Staphylococcus aureus SAV1934 126 Q99SV4 Bacillus subtilis YhcF 121 P54590 Bacillus subtilis YtrA...”
- DevA, a GntR-like transcriptional regulator required for development in Streptomyces coelicolor
Hoskisson, Journal of bacteriology 2006 - “...Probable rhizopine catabolism regulator Rhizobium meliloti 493 P49309 MocR YtrA Acetoine utilization gene cluster repressor Bacillus subtilis 130 O34712 YtrA...”
- PlmA, a new member of the GntR family, has plasmid maintenance functions in Anabaena sp. strain PCC 7120
Lee, Journal of bacteriology 2003 - “...329 323 327 440 328 P09371 P22773 P49309 O34712 P96711 Q8YXY0 P73804 BAC09669 ZP_00112619 ZP_00105573 ZP_00074937 ZP_00114559 ZP_00107916 Downloaded from...”
DVU0030 / VIMSS393253 DVU0030 regulator of Amino acid transport from Desulfovibrio desulfuricans G20
23% identity, 73% coverage
C4ZIR5 Transcriptional regulator, GntR family with aminotransferase domain from Thauera aminoaromatica
29% identity, 66% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...12J Betaproteobacteria A8GJW1 Serratia proteamaculans 568 Gammaproteobacteria Q4A0R1 Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 Firmicutes C4ZIR5 Thauera sp. MZ1T Betaproteobacteria Q7CJK7 Yersinia pestis KIM Gammaproteobacteria A1VQK3 Polaromonas naphthalenivorans CJ2 Betaproteobacteria Q129G7 Polaromonas sp. JS666 Betaproteobacteria Q221G1 Rhodoferax ferrireducens DSM 15236 Betaproteobacteria C5CM40 Variovorax paradoxus S110 Betaproteobacteria...”
AATR2_SCHPO / O94570 Aromatic amino acid aminotransferase C1773.13; EC 2.6.1.57 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
SPBC1773.13 aromatic aminotransferase (predicted) from Schizosaccharomyces pombe
25% identity, 81% coverage
- function: Has aromatic amino acid transaminase activity.
catalytic activity: an aromatic L-alpha-amino acid + 2-oxoglutarate = an aromatic oxo-acid + L-glutamate (RHEA:17533)
cofactor: pyridoxal 5'-phosphate - Lack of 2'-O-methylation in the tRNA anticodon loop of two phylogenetically distant yeast species activates the general amino acid control pathway
Han, PLoS genetics 2018 - “...significantly increased relative mRNA levels of three Gcn2 dependent GAAC-regulated genes ( lys4+ , aro8+ (SPBC1773.13), and aro8+ (SPAC56E4.03)) [ 58 ], compared to WT cells (14.7-fold, 6.9-fold and 22.8-fold increase respectively); whereas Sp trm7 [P nmt1 trm7 + ] strains grown under permissive conditions had...”
- Functional characterization of fission yeast transcription factors by overexpression analysis
Vachon, Genetics 2013 - “..., car1 + , car2 + , dad5 + , SPAC11D3.06 , SPAPB24D3.03 , and SPBC1773.13 ). Among these genes, ectopic expression of dad5 + and SPAC11D3.06 resulted in a nuclear missegregation phenotype with penetrance comparable to the toe3OE strain ( Figure 5C ). These results...”
- “...encoding for agmatinase ( SPAC11D3.09 and SPAPB24D3.03 ), arginase ( Car1 ), ornithine transaminase ( SPBC1773.13 ), and a MatE transporter ( SPAC11D3.06 ), which may be involved in transporting polyamines ( Winter et al. 2011 ). These results indicate a possible role for toe3 +...”
- Functional characterization of Upf1 targets in Schizosaccharomyces pombe
Matia-González, RNA biology 2013 - “...Isocitrate lyase (predicted) Sequence orphan SPBC1773.13 Aromatic aminotransferase (predicted) SPBC1778.05c Sequence orphan SPBC21C3.15c Aldehyde dehydrogenase...”
- Response of Schizosaccharomyces pombe to zinc deficiency
Dainty, Eukaryotic cell 2008 - “...SPBC8E4.02c SPAC22A12.17c SPAC16.05c SPAC1786.02 SPBC1773.13 SPCC1235.01 SPCC569.05c SPAC5H10.04 SPAP27G11.08c SPBC16E9.16c SPCC1223.13 meu26 SPBPB2B2.19c...”
AATR1_SCHPO / O14192 Aromatic amino acid aminotransferase C56E4.03; EC 2.6.1.57 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
SPAC56E4.03 aromatic aminotransferase (predicted) from Schizosaccharomyces pombe
25% identity, 83% coverage
- function: Has aromatic amino acid transaminase activity.
catalytic activity: an aromatic L-alpha-amino acid + 2-oxoglutarate = an aromatic oxo-acid + L-glutamate (RHEA:17533)
cofactor: pyridoxal 5'-phosphate - A systematic quantitative approach comprehensively defines domain-specific functional pathways linked to Schizosaccharomyces pombe heterochromatin regulation
Muhammad, Nucleic acids research 2024 - “...arg11, arg12, arg41 ), or are generally involved in amino acid metabolism ( maa1, pha2, SPAC56E4.03 ) ( Supplementary Figure S9d ). We also noted that three additional mutants associated with these pathways ( met10, cys2, thi2 ) displayed similar phenotypic profiles (Figure 3A ), although...”
- The leucine-NH4+ uptake regulator Any1 limits growth as part of a general amino acid control response to loss of La protein by fission yeast
Cherkasova, PloS one 2021 - “...asn1 + ( ASN1 ), gdh2 + ( GDH2 ), pas1 + ( PCL5 ), SPAC56E4.03 ( ARO8 ) and aca1 + , involved in arginine, asparagine, glutamine, and glutamic acid metabolism ( S2A Table ) . Six of these were upregulated in the sla1 -all...”
- Hypomodified tRNA in evolutionarily distant yeasts can trigger rapid tRNA decay to activate the general amino acid control response, but with different consequences
De, PLoS genetics 2020 - “...activation by measuring mRNA levels of the known GAAC targets lys4 + and aro8 + (SPAC56E4.03) [ 79 ], which we had previously used [ 83 ]. At 38.5C in trm8 mutants, we observed a 7.1-fold increase in lys4 + mRNA levels (relative to the standard...”
- Lack of 2'-O-methylation in the tRNA anticodon loop of two phylogenetically distant yeast species activates the general amino acid control pathway
Han, PLoS genetics 2018 - “...mRNA levels of three Gcn2 dependent GAAC-regulated genes ( lys4+ , aro8+ (SPBC1773.13), and aro8+ (SPAC56E4.03)) [ 58 ], compared to WT cells (14.7-fold, 6.9-fold and 22.8-fold increase respectively); whereas Sp trm7 [P nmt1 trm7 + ] strains grown under permissive conditions had relative mRNA levels...”
- “...activated GAAC response, with 6.5-fold and 6-fold increased relative mRNA levels of lys4+ and aor8+ (SPAC56E4.03) respectively, compared to 9.0-fold and 12.9-fold for Sp trm7 [P nmt1 trm7 + ] strains grown under repressive conditions. By contrast, Sp trm732 mutants have no obvious growth defect at...”
- Comparative Proteome Analysis in Schizosaccharomyces pombe Identifies Metabolic Targets to Improve Protein Production and Secretion
Hung, Molecular & cellular proteomics : MCP 2016 - “...(supplemental Fig. S3C). In addition, the aminotransferase (SPAC56E4.03), which is involved in lysine biosynthesis, aromatic amino acid Molecular & Cellular...”
- “...Fig. S3H). The aromatic aminotransferase (SPAC56E4.03) catalyzing the conversion of phenylpyruvate and 4-hydroxyphenylpuruvate to phenylalanine and...”
- Receptor for activated C-kinase (RACK1) homolog Cpc2 facilitates the general amino acid control response through Gcn2 kinase in fission yeast
Tarumoto, The Journal of biological chemistry 2013 - “...quantitative RT-PCR Gene Forward primer Reverse primer his4 SPAC56E4.03 SPCC364.07 SPAC10F6.13c arg3 dld1 lys3 leu3 SPBC19F5.04 cdk9 18 S rRNA cpc2 snoU24b...”
- “...from those genes as the GAAC genes (his4, SPAC56E4.03, SPCC364.07, SPAC10F6.13c, arg3, dld1, lys3, leu3, SPBC19F5.04) and checked their expression levels by...”
BMEI0169 TRANSCRIPTIONAL REGULATOR, GNTR FAMILY / AMINOTRANSFERASE CLASS-I from Brucella melitensis 16M
27% identity, 71% coverage
PA5431 probable transcriptional regulator from Pseudomonas aeruginosa PAO1
30% identity, 53% coverage
- Network analysis for identifying potential anti-virulence targets from whole transcriptome of Pseudomonas aeruginosa and Staphylococcus aureus exposed to certain anti-pathogenic polyherbal formulations
Ruparel, Drug target insights 2023 - “...2.71 0.01 48 PA2666 6-pyruvoyltetrahydropterin/6-carboxytetrahydropterin synthase 2.7 0.009 49 PA3431 Hypothetical protein 2.7 0.009 50 PA5431 GntR family transcriptional regulator 2.67 1.41E-08 51 PA0941 Hypothetical protein 2.66 0.01 52 PA3757 GntR family transcriptional regulator 2.64 0.01 53 PA2679 Hypothetical protein 2.61 0 54 PA1343 Bacteriophage protein...”
- A dynamic and intricate regulatory network determines Pseudomonas aeruginosa virulence
Balasubramanian, Nucleic acids research 2013 - “...196 ) identified seven predicted transcriptional regulators, PA1235, PA1261, PA1637 (KdpE), PA2881, PA3420, PA3771 and PA5431, and one sensor kinase, EraS (PA1979), whose expression was downregulated in an algB mutant but not in a strain containing a mutation in its cognate TCS sensor, KinB (PA5484) (...”
- The NtrC family regulator AlgB, which controls alginate biosynthesis in mucoid Pseudomonas aeruginosa, binds directly to the algD promoter
Leech, Journal of bacteriology 2008 - “...PA1261, PA1637, PA1979, PA2881, PA3329, PA3420, PA3771, and PA5431 study study study study study study study laboratory study study study study study study...”
- “...PA1235, PA1261, PA1637, PA1979, PA2881, PA3420, PA3771, and PA5431 (Fig. 1). To test whether any of these potentially AlgB-regulated genes were involved in...”
BLJAPNOD_05769 PLP-dependent aminotransferase family protein from Ensifer sp. M14
28% identity, 64% coverage
ANIA_06338 hypothetical protein from Aspergillus nidulans FGSC A4
24% identity, 74% coverage
- Optimized psilocybin production in tryptophan catabolism-repressed fungi
Janevska, Microbial biotechnology 2024 - “...idoA Indoleamine 2,3dioxygenase ANIA_09108 idoC Indoleamine 2,3dioxygenase ANIA_04156 aroI2 Putative aminotransferase ANIA_05041 aroH2 Ketoglutaratedependent aminotransferase ANIA_06338 aroH1 Ketoglutaratedependent aminotransferase ANIA_08172 aroI1 Putative aminotransferase ANIA_08516 tdiD Ketoglutaratedependent aminotransferase Phylogenetic analysis revealed the presence of six clades (Figure 3A ). We identified two groups of proteins similar to...”
PdxR / VIMSS5804477 PdxR regulator of Pyridoxine biosynthesis, effector Pyridoxal-5-phosphate from Streptococcus equi subsp. zooepidemicus MGCS10565
27% identity, 63% coverage
SP_1393 hypothetical protein from Streptococcus pneumoniae TIGR4
29% identity, 58% coverage
SPV_1225 PLP-dependent aminotransferase family protein from Streptococcus pneumoniae
29% identity, 58% coverage
SPD_1225 hypothetical protein from Streptococcus pneumoniae D39
spr1250 Conserved hypothetical protein from Streptococcus pneumoniae R6
29% identity, 58% coverage
- A Transcriptional Activator of Ascorbic Acid Transport in Streptococcus pneumoniae Is Required for Optimal Growth in Endophthalmitis in a Strain-Dependent Manner
Benton, Microorganisms 2019 - “...S. pneumoniae genes required for growth in vitreous humor ( Table 2 ). Spd_0095 and spd_1225 encode conserved hypothetical proteins with unknown function. Spd_0095 is 594 nucleotides in length and appears in 100% of the complete S. pneumoniae genomes available in GenBank. A National Center for...”
- “...Biotechnology Information (NCBI) BLASTx search indicated that the product of spd_0095 is a membrane protein. Spd_1225 is 1272 nucleotides and appears in 95% of complete S. pneumoniae genomes. Kyoto Encyclopedia of Genes and Genomes (KEGG; https://www.genome.jp/dbget-bin/www_bget?spd:SPD_1225 ) and BLASTx searches suggest this gene product belongs to...”
- Deep genome annotation of the opportunistic human pathogen Streptococcus pneumoniae D39
Slager, Nucleic acids research 2018 - “...1171761 1172219 SPD_1137 C>G H431Q (CAC>CAG) 1256813 1257270 SPD_1224 ( budA ) < / > SPD_1225 A Intergenic (-100/-42 nt) 1256937 1257394 c SPD_1225 G>T R28L (CGC>CTC) 1672084 1672541 SPD_1660 ( rdgB ) G>A RdgB T117I (ACA>ATA) 1676516 1676973 SPD_1664 ( treP ) C>T TreP G359D...”
- “...SNPs, leading to an arginine to leucine change in the protein encoded by SPV_1225 (previously SPD_1225), was not found in an alternative D39 stock from our lab ( Supplementary Figure S1 ). The same applies to an insertion of a cytosine causing a frameshift in SPV_0942...”
- The vitamin B₆ biosynthesis pathway in Streptococcus pneumoniae is controlled by pyridoxal 5'-phosphate and the transcription factor PdxR and has an impact on ear infection
El, Journal of bacteriology 2013 - “...S. pneumoniae pdxT ORF; Kanr pET28a() carrying S. pneumoniae SPD_1225 ORF; Kanr pBR322 with E. coli crp promoter; Apr pGB104 carrying S. pneumoniae pdxS ORF;...”
- “...(see Fig. S3A in the supplemental material). However, only SPD_1225 possesses an AAT domain and shares all of the characteristics with C. glutamicum PdxR (see...”
- Regulation of arginine acquisition and virulence gene expression in the human pathogen Streptococcus pneumoniae by transcription regulators ArgR1 and AhrC
Kloosterman, The Journal of biological chemistry 2011 - “...spd_0781 spd_0852 spd_0887 spd_0888 spd_0889 spd_1063 spd_1225 spd_1226 spd_1356 spd_1357 spd_1515 spd_1516 spd_1517 spd_1634 spd_1731 spd_1903 spd_1904...”
- “...arginine metabolism expression, putative Hypothetical protein SPD_1225 Amino acid ABC transporter, amino acid-binding protein ABC transporter, ATP-binding...”
- Multiple mutations and increased RNA expression in tetracycline-resistant Streptococcus pneumoniae as determined by genome-wide DNA and mRNA sequencing
Lupien, The Journal of antimicrobial chemotherapy 2015 - “...Two clones were sequenced. Unique mutations: spr0661 (G896T/A); spr1250 (T999C). k Two clones were sequenced. Unique mutations: spr0232 (G191A). b (Table 3 and...”
- Genomic characterization of ciprofloxacin resistance in a laboratory-derived mutant and a clinical isolate of Streptococcus pneumoniae
Lupien, Antimicrobial agents and chemotherapy 2013 - “...DNA gyrase subunit A spr1248 spr1249 spr1250 spr1251 spr1544 spr1545 spr1885 Conserved hypothetical protein Alpha-acetolactate decarboxylase Conserved...”
TAUR_RHOCB / D5AKX9 HTH-type transcriptional regulator TauR from Rhodobacter capsulatus (strain ATCC BAA-309 / NBRC 16581 / SB1003) (see paper)
29% identity, 73% coverage
BURPS668_1157 transcriptional regulator, GntR family/aminotransferase from Burkholderia pseudomallei 668
27% identity, 63% coverage
Q6F766 Putative transcriptional regulator (GntR family) from Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)
28% identity, 66% coverage
B2U7Y5 Transcriptional regulator, GntR family with aminotransferase domain from Ralstonia pickettii (strain 12J)
27% identity, 71% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...Gammaproteobacteria Q6D5I8 Erwinia carotovora subsp.atroseptica SCRI1043 Gammaproteobacteria A6TF79 Klebsiella pneumonia subsp. pneumoniae MGH 78578 Gammaproteobacteria B2U7Y5 Ralstonia pickettii 12J Betaproteobacteria A8GJW1 Serratia proteamaculans 568 Gammaproteobacteria Q4A0R1 Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 Firmicutes C4ZIR5 Thauera sp. MZ1T Betaproteobacteria Q7CJK7 Yersinia pestis KIM Gammaproteobacteria A1VQK3 Polaromonas naphthalenivorans...”
TK2268 aspartate aminotransferase from Thermococcus kodakaraensis KOD1
24% identity, 99% coverage
- Removal of phosphoglycolate in hyperthermophilic archaea
Michimori, Proceedings of the National Academy of Sciences of the United States of America 2024 - “...microaerobic conditions, respectively. ( D ) AGAT activity in cell extracts from KU216, TK0186, TK0548, TK2268, and TK1094 strains. Gray or white bars indicate the specific activities in extracts from cells grown under anaerobic or microaerobic conditions, respectively. Activity measurements were carried out as described in...”
- “...against the T. kodakarensis proteome resulted in the identification of multiple proteins (encoded by TK0186, TK2268, TK1094, TK0548, TK0260, and TK0250) with varying degrees of homology, suggesting that multiple proteins might exhibit aminotransferase activity with glyoxylate as the amino acceptor. Among the six candidate genes, TK0250...”
- Biochemical and genetic examination of two aminotransferases from the hyperthermophilic archaeon Thermococcus kodakarensis
Su, Frontiers in microbiology 2023 - “...of two Class I aminotransferases. The TK0548 protein was produced in Escherichia coli and the TK2268 protein in T. kodakarensis . Purified TK0548 protein preferred Phe, Trp, Tyr, and His, and to a lower extent, Leu, Met and Glu. The TK2268 protein preferred Glu and Asp,...”
- “...k cat / K m value toward Phe, followed by Trp, Tyr, and His. The TK2268 protein exhibited highest k cat / K m values for Glu and Asp. The TK0548 and TK2268 genes were individually disrupted, and both disruption strains displayed a retardation in growth...”
- An archaeal histone is required for transformation of Thermococcus kodakarensis
Čuboňováa, Journal of bacteriology 2012 - “...TK1431 TK1046 TK1624 TK0560 TK1245 TK2048 TK0136 TK0307 TK2268 TK0352 TK2035 TK1539 TK0878 TK1500 TK0465 TK1534 TK1295 TK0308 TK1469 TK1174 Fold difference...”
CTRG_01079 aromatic amino acid aminotransferase I from Candida tropicalis MYA-3404
28% identity, 61% coverage
BAB1_1894 Bacterial regulatory protein, GntR family:Aminotransferase, class I and II from Brucella melitensis biovar Abortus 2308
27% identity, 70% coverage
PF0522 aspartate transaminase from Pyrococcus furiosus DSM 3638
25% identity, 100% coverage
- Biochemical and genetic examination of two aminotransferases from the hyperthermophilic archaeon Thermococcus kodakarensis
Su, Frontiers in microbiology 2023 - “...Pyrococcus furiosus I PF1253 G1 Aromatic aminotransferase Phe, Tyr, Trp 2-OG Ward et al. (2002) PF0522 G2 (Aspartate aminotransferase) PF1497 G3 Alanine aminotransferase Ala, Glu, (Asp, Ile, Leu) 2-OG, Pyr Ward et al. (2000) PF1702 G4 Aspartate aminotransferase Asp, (Glu) 2-OG, (Pyr, phenylpyruvate) Ward et al....”
CH_124006 amino transferase [Aspergillus fumigatus] from Magnaporthe grisea 70-15 (see paper)
23% identity, 68% coverage
A4EE37 Transcriptional regulator, gntR family, putative from Roseobacter sp. CCS2
25% identity, 72% coverage
CBO0640 GntR-family transcriptional regulator from Clostridium botulinum A str. ATCC 3502
26% identity, 70% coverage
OCC_08839 aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme from Thermococcus litoralis DSM 5473
25% identity, 100% coverage
DMB42_RS42745 PLP-dependent aminotransferase family protein from Nonomuraea sp. WAC 01424
25% identity, 88% coverage
- Genomic-Led Discovery of a Novel Glycopeptide Antibiotic by Nonomuraea coxensis DSM 45129
Yushchuk, ACS chemical biology 2021 - “...hydroxymandelate oxidase (Hmo) noc2 dbv2 (89.3%) DMB42_RS42740 (30) (62%) hydroxymandelate synthase (HmaS) noc3 dbv37 (90.9%) DMB42_RS42745 (29) (83%) hydroxyphenylglycine aminotransferase (HpgT) noc4 dbv35 (90.9%) DMB42_RS42730 (32) (63%) Na + H + antiporter noc5 dbv34 (93.9%) DMB42_RS42710 (36) (87%) enoyl-CoA hydratase (DpgD) noc6 dbv33 (89.2%) DMB42_RS42715 (35)...”
AORI_1491 PLP-dependent aminotransferase family protein from Amycolatopsis keratiniphila
27% identity, 85% coverage
- Complete genome sequence and comparative genomic analyses of the vancomycin-producing Amycolatopsis orientalis
Xu, BMC genomics 2014 - “...family protein lcl|Y16952.3_cdsid_CAC48364.1 93.87 AORI_1489 LmbE family protein lcl|Y16952.3_cdsid_CAC48365.1 75.91 AORI_1490 vmt Methyltransferase lcl|AJ223998.1_cdsid_CAA11779.1 73.21 AORI_1491 hpgT 4-hydroxyphenylglycine aminotransferase lcl|AJ223998.1_cdsid_CAA11790.1 89.7 AORI_1492 vhp Hydrolase lcl|AJ223998.1_cdsid_CAA11784.1 85.87 AORI_1493 vcmD Non-ribosomal peptide synthetase lcl|AJ223998.1_cdsid_CAA11773.1 83.57 AORI_1494 oxyD Cytochrome P450 lcl|Y16952.3_cdsid_CAC48370.1 85.35 AORI_1495 hmaS 4-hydroxymandelate synthase lcl|AJ223998.1_cdsid_CAA11761.1 75.56 AORI_1496...”
- “...three non-protein amino acids were identified in the genome, i.e. , AORI_1492-AORI_1494 for L-Ht, AORI_1476, AORI_1491, AORI_1495-AORI_1496 for L-Hpg, and AORI_1502-AORI_1505 for L-Dpg. Figure 5 Metabolic pathway of vancomycin biosynthesis. Three steps are involved in the biosynthesis of vancomycin, and the related functional genes in and...”
BMD20_10060 PLP-dependent aminotransferase family protein from Burkholderia multivorans
27% identity, 71% coverage
MSMEG_2323 GntR-family protein transcriptional regulator from Mycobacterium smegmatis str. MC2 155
MSMEG_1043 GntR-family protein transcriptional regulator from Mycobacterium smegmatis str. MC2 155
29% identity, 67% coverage
- GntR family of regulators in Mycobacterium smegmatis: a sequence and structure based characterization
Vindal, BMC genomics 2007 - “...1 ) [ 5 ]. Among all putative M. smegmatis GntRs two proteins (MSMEG_1043 and MSMEG_2323) were found to be identical in sequence, hence only one of them MSMEG_1043 was taken for the classification. Each branch of the constructed tree represents a subfamily. Bootstrapping, involving 1000...”
- “...MSMEG_4057 FadR 221 MSMEG_0874 FadR 234 MSMEG_4121 FadR 229 MSMEG_0895 FadR 247 MSMEG_4140 MocR 508 MSMEG_2323 MocR 534 MSMEG_4659 HutC 245 MSMEG_1117 FadR 239 MSMEG_5174 YtrA 121 MSMEG_1227 HutC 274 MSMEG_5201 FadR 254 MSMEG_1317 FadR 229 MSMEG_5375 FadR 230 MSMEG_1572 MocR 470 MSMEG_5630 HutC 245 MSMEG_1995...”
- GntR family of regulators in Mycobacterium smegmatis: a sequence and structure based characterization
Vindal, BMC genomics 2007 - “...subfamilies (Table 1 ) [ 5 ]. Among all putative M. smegmatis GntRs two proteins (MSMEG_1043 and MSMEG_2323) were found to be identical in sequence, hence only one of them MSMEG_1043 was taken for the classification. Each branch of the constructed tree represents a subfamily. Bootstrapping,...”
- “...MSMEG_6371 MocR 488 MSMEG_2173 FadR 230 MSMEG_6639 FadR 222 MSMEG_2209 FadR 222 MSMEG_6700 FadR 245 MSMEG_1043 MocR 534 MSMEG_6738 FadR 227 MSMEG_2453 FadR 244 MSMEG_6745 HutC 247 MSMEG_2480 FadR 246 MSMEG_6789 FadR 246 MSMEG_2489 FadR 240 MSMEG_6881 FadR 209 MSMEG_2531 FadR 253 MSMEG_6908 FadR 221 HutC-like...”
AF_1623 pyridoxal phosphate-dependent aminotransferase from Archaeoglobus fulgidus DSM 4304
26% identity, 98% coverage
- A novel methoxydotrophic metabolism discovered in the hyperthermophilic archaeon Archaeoglobus fulgidus
Welte, Environmental microbiology 2021 - “...& AF_2185/6), 2oxoglutarate/2oxoacid ferredoxin oxidoreductase KorABDG (AF_046871), glutamate synthase GltB13 (AF_09524), aspartate aminotransferase AspBC (AF_0409, AF_1623, AF_2129, AF_2366, AF_1417), isocitrate dehydrogenase Icd (AF_0647), aconitase Acn (AF_1963), citrate synthase CitZ (AF_1340), sulfate adenylyltransferase Sat (AF_1667), adenylylsulfate reductase AprAB (AF_166970), dissimilatory sulfite reductase DsrAB (AF_04234), DsrC (AF_2228), quinonemodifying...”
ARO9 / CAA73950.1 aromatic amino acid aminotransferase II from Saccharomyces cerevisiae (see paper)
25% identity, 71% coverage
ARO9 / P38840 aromatic amino acid aminotransferase II (EC 2.6.1.1; EC 2.6.1.58; EC 2.6.1.28) from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (see 3 papers)
ARO9_YEAST / P38840 Aromatic amino acid aminotransferase 2; Aromatic amino acid aminotransferase II; Aromatic amino acid-requiring protein 9; Kynurenine aminotransferase I; KAT I; EC 2.6.1.57; EC 2.6.1.7 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 7 papers)
P38840 aromatic-amino-acid transaminase (EC 2.6.1.57) from Saccharomyces cerevisiae (see 2 papers)
NP_012005, YHR137W Aro9p from Saccharomyces cerevisiae
NP_012005 aromatic-amino-acid:2-oxoglutarate transaminase from Saccharomyces cerevisiae S288C
25% identity, 71% coverage
- function: General aromatic amino acid transaminase involved in several otherwise unrelated metabolic pathways. Mainly involved in tryptophan degradation. Active with phenylalanine, tyrosine and tryptophan as amino donors and with phenylpyruvate, hydroxyphenylpyruvate and pyruvate as amino acceptors. Does not accept glutamate or 2- oxoglutarate as substrates. Also active with methionine, leucine, glutamine and kynurenine. Catalyzes the formation of methionine from 2- keto-4-methylthiobutyrate (KMTB) in the methionine salvage pathway primarily using aromatic amino acids (tyrosine, phenylalanine and tryptophan) as the amino donors. Catalyzes the irreversible transamination of the L-tryptophan metabolite L-kynurenine to form kynurenic acid (KA) with pyruvate as amino acceptor.
catalytic activity: an aromatic L-alpha-amino acid + 2-oxoglutarate = an aromatic oxo-acid + L-glutamate (RHEA:17533)
catalytic activity: an aromatic L-alpha-amino acid + 4-methylsulfanyl-2- oxobutanoate = an aromatic oxo-acid + L-methionine (RHEA:47800)
catalytic activity: L-kynurenine + 2-oxoglutarate = kynurenate + L-glutamate + H2O (RHEA:65560)
cofactor: pyridoxal 5'-phosphate - Histoplasma capsulatum Relies on Tryptophan Biosynthesis To Proliferate within the Macrophage Phagosome
Shen, Infection and immunity 2023 (secret) - Metabolic flux sampling predicts strain-dependent differences related to aroma production among commercial wine yeasts
Scott, Microbial cell factories 2021 - “...the largest Genes (Short Name) Gene Association Reaction Names GSMM Reaction Number Metabolic Subsystem ARO9 YHR137W Tyrosine transaminase r_2119 Tyrosine metabolism, Biosynthesis of secondary metabolites (Ehrlich pathway) ALT2 YDR111C L-Alanine:2-oxoglutarate aminotransferase r_4226 Alanine metabolism ACO2 YJL200C Citrate hydroxymutase r_4262 Citric Acid Cycle ADH5 ADH1 YBR145W YOL086C...”
- The role of PCNA as a scaffold protein in cellular signaling is functionally conserved between yeast and humans
Olaisen, FEBS open bio 2018 - “...beta 20 YGR124W Asn2 Asparagine synthetase 1 YHR116W Cox23 Cytochrome c oxidaseassembly factor Cox23 2 YHR137W Aro9 Aromatic amino acid aminotransferase 2 1 YJL012C Vtc4 Vacuolar transporter chaperone 4 42 YJL090C Dpb11 DNA replication regulator Dpb11 10 YKL028W Tfa1 Transcription initiation factor IIE subunit alpha 11...”
- Intracellular trafficking of the pyridoxal cofactor. Implications for health and metabolic disease
Whittaker, Archives of biochemistry and biophysics 2016 - “...Aat2 YLR027C Aromatic aminotransferase I ArAT 2.6.1.57 Aro8 YGL202W Aromatic aminotransferase II ArAT 2.6.1.57 Aro9 YHR137W 7,8-Diamino-pelargonic acid aminotransferase DAPA 2.6.1.62 Bio3 YNR058W Kynurenine aminotransferase KAT 2.6.1.7 Bna3 YJL060W Kynureninase KYNU 3.7.1.3 Bna5 YLR231C L-ornithine transaminase OAT 2.6.1.13 Car2 YLR438W Cystathionine -lyase CTH 4.4.1.1 Cys3 YAL012W...”
- A study on promoter characteristics of head-to-head genes in Saccharomyces cerevisiae
Chang, BMC genomics 2012 - “...response to temperature stimulus; CC GO:0005737 - cytoplasm; MF GO:0004860 - protein kinase inhibitor activity YHR137W ARO9 Regulation BP GO:0009058 - biosynthetic process; CC GO:0005634 - nucleus; MF GO:0016769 - transferase activity, transferring nitrogenous groups 4 YIR027C DAL1 Regulation BP GO:0009442 - allantoin assimilation pathway; MF...”
- Comparative proteome analysis of Saccharomyces cerevisiae: a global overview of in vivo targets of the yeast activator protein 1
Jun, BMC genomics 2012 - “...hydroxymethyltransferase YLR058C 486 26 944 176 1.94 0.011 - Aro9p Aromatic amino acid aminotransferase 2 YHR137W 116 19 164 13 1.41 0.022 - Lys9p Saccharopine dehydrogenase YNR050C 147 13 364 123 2.48 0.039 + Protein biosynthesis Eft1p # Elongation factor 2 YOR133W 136 58 456 174...”
- Genome-wide functional profiling reveals genes required for tolerance to benzene metabolites in yeast
North, PloS one 2011 - “...YOR084W LPX1 1.2 1.1 1.1 YPL230W USV1 1.2 1.2 1.1 YHR060W VMA22 1.4 2.05 2.45 YHR137W ARO9 2 2 1.9 YDL182W LYS20 1.7 1.9 1.8 YGL043W DST1 1.6 1.6 1.4 YGL071W AFT1 1.4 2.65 3.8 YKL119C VPH2 2 2.85 2.4 YOR089C VPS21 1.5 2.45 4.7 YCL007C...”
- Transcriptional analysis of L-methionine catabolism in the cheese-ripening yeast Yarrowia lipolytica in relation to volatile sulfur compound biosynthesis
Cholet, Applied and environmental microbiology 2008 - “...I Weakly similar to sp P38840 S. cerevisiae YHR137w ARO9 aromatic amino acid aminotransferase II Similar to sp Q01662 S. cerevisiae YLR244c MAP1 methionine...”
- More
- Kynurenine aminotransferase activity of Aro8/Aro9 engage tryptophan degradation by producing kynurenic acid in Saccharomyces cerevisiae.
Ohashi, Scientific reports 2017 - GeneRIF: Study confirmed Aro8 and Aro9 as primary kynurenine aminotransferases (KATs) in S. cerevisiae and showed that the aro8Delta aro9Delta mutant cells lack kynurenic acid (KA) and showed that aro8Delta aro9Delta cells were sensitive to high concentrations of tryptophan (Trp). While expression of ARO9 rescued the sensitivity for Trp in the aro8Delta aro9Delta double mutant, addition of KA to the medium did not.
- Activation of Aro80 transcription factor by heat-induced aromatic amino acid influx in Saccharomyces cerevisiae.
Lee, Biochemical and biophysical research communications 2013 (PubMed)- GeneRIF: Known aromatic amino acid permeases play an insignificant role in the heat-induced expression of ARO9 and ARO10, suggesting that an increase in plasma membrane fluidity might be responsible for the influx of aromatic amino acids during heat shock stress.
- Crystallization and preliminary X-ray diffraction analysis of ARO9, an aromatic aminotransferase from Saccharomyces cerevisiae.
Chen, Protein and peptide letters 2009 (PubMed)- GeneRIF: Crystals of ARO9 belong to the orthorhombic space group P2(1)2(1)2(1), with unit-cell parameters a = 75.6 A, b = 117.5 A, c = 134.9 A.
- Transcriptional analysis of L-methionine catabolism in the cheese-ripening yeast Yarrowia lipolytica in relation to volatile sulfur compound biosynthesis
Cholet, Applied and environmental microbiology 2008 - “...amino acid aminotransferase I Weakly similar to sp P38840 S. cerevisiae YHR137w ARO9 aromatic amino acid aminotransferase II Similar to sp Q01662 S. cerevisiae...”
DVU0030 / VIMSS408289 DVU0030 regulator of Amino acid transport from Desulfovibrio vulgaris Hildenborough
DVU0030 transcriptional regulator, GntR family from Desulfovibrio vulgaris Hildenborough
24% identity, 72% coverage
- Transcription factor family-based reconstruction of singleton regulons and study of the Crp/Fnr, ArsR, and GntR families in Desulfovibrionales genomes
Kazakov, Journal of bacteriology 2013 - “...were used. For analysis of MocR subfamily members, the DVU0030 and DVU2953 motifs were used. At the third step, the sets of candidate sites were merged and...”
- “...DvMF_1708 Desal_2066 ArsR ArsR ArsR2 SahR SmtB GntR LldR DVU0030 DVU2644 DVU2802 DVU2953 January 2013 Volume 195 Number 1 TABLE 3 Reconstruction of singleton TF...”
- Global transcriptional, physiological, and metabolite analyses of the responses of Desulfovibrio vulgaris hildenborough to salt adaptation
He, Applied and environmental microbiology 2010 - “...was altered under salt adaptation conditions; 12 genes (DVU0030, rrf2, hrcA, DVU1643, DVU1760, flrC, DVU2423, lysX, DVU2819, pspF, flrA, and DVU3313) were...”
XP_002850893 aromatic amino acid aminotransferase from Microsporum canis CBS 113480
24% identity, 79% coverage
- Phylogenetic Comparison of Swainsonine Biosynthetic Gene Clusters among Fungi
Neyaz, Journal of fungi (Basel, Switzerland) 2022 - “...ORY11783 ORY11779 ORY11781 ORY11780 ORY11782 - - Microsporum canis Onygenales XP_002850891 XP_002850892 XP_002850894 XP_002850896 XP_002850890 XP_002850893 XP_002850895 Nannizzia gypsea * Onygenales XP_003176907 XP_003176906 XP_003176904 XP_003176902 XP_003176908 XP_003176905 XP_003176903 Trichophyton benhamiae * Onygenales XP_003014124 XP_003014123 DAA76506 XP_003014119 XP_003016302 XP_003014122 XP_003014120 Trichophyton verrucosum Onygenales XP_003020763 XP_003020762 XP_003020760 XP_003020758...”
A8GJW1 Transcriptional regulator, GntR family with aminotransferase domain from Serratia proteamaculans (strain 568)
27% identity, 67% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...SCRI1043 Gammaproteobacteria A6TF79 Klebsiella pneumonia subsp. pneumoniae MGH 78578 Gammaproteobacteria B2U7Y5 Ralstonia pickettii 12J Betaproteobacteria A8GJW1 Serratia proteamaculans 568 Gammaproteobacteria Q4A0R1 Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 Firmicutes C4ZIR5 Thauera sp. MZ1T Betaproteobacteria Q7CJK7 Yersinia pestis KIM Gammaproteobacteria A1VQK3 Polaromonas naphthalenivorans CJ2 Betaproteobacteria Q129G7 Polaromonas sp....”
RBAM_RS02920 PLP-dependent aminotransferase family protein from Bacillus velezensis FZB42
24% identity, 79% coverage
UV8b_02651 uncharacterized protein from Ustilaginoidea virens
24% identity, 69% coverage
1v2eA / Q75WK2 Crystal structure of t.Th hb8 glutamine aminotransferase complex with a-keto-g-methylthiobutyrate (see paper)
27% identity, 92% coverage
- Ligands: pyridoxal-5'-phosphate; 4-(methylsulfanyl)-2-oxobutanoic acid (1v2eA)
BSU09480 putative PLP-dependent transcriptional regulator from Bacillus subtilis subsp. subtilis str. 168
24% identity, 78% coverage
BAD06364.1 aminotransferase from Thermus thermophilus (see paper)
27% identity, 92% coverage
CNX70_15425 PLP-dependent aminotransferase family protein from Janthinobacterium svalbardensis
25% identity, 69% coverage
HPGT_AMYOR / O52815 (S)-3,5-dihydroxyphenylglycine transaminase; p-hydroxyphenylglycine transaminase; EC 2.6.1.103 from Amycolatopsis orientalis (Nocardia orientalis) (see 2 papers)
27% identity, 83% coverage
- function: Catalyzes the transamination of p-hydroxybenzoylformate to L- p-hydroxyphenylglycine as part of the biosynthesis of the (S)-3,5- dihydroxyphenylglycine constituent of the glycopeptide antibiotic chloroeremomycin, a member of the vancomycin group of antibiotics.
catalytic activity: (S)-3,5-dihydroxyphenylglycine + 2-oxoglutarate = 2-(3,5- dihydroxyphenyl)-2-oxoacetate + L-glutamate (RHEA:38347)
cofactor: pyridoxal 5'-phosphate - Biosynthesis of L-p-hydroxyphenylglycine, a non-proteinogenic amino acid constituent of peptide antibiotics
Hubbard, Chemistry & biology 2000 (PubMed)- “...CAA11761]; ORF22: [PCZA361.2, O52792, CAA11762]; ORF17: [PCZA361.25, O52815, CAA11790]), of the chloroeremomycin biosynthetic gene cluster and we show they have...”
SSU_RS02755 PLP-dependent aminotransferase family protein from Streptococcus suis P1/7
25% identity, 82% coverage
- Transcriptomics in serum and culture medium reveal shared and differential gene regulation in pathogenic and commensal Streptococcus suis
Fredriksen, Microbial genomics 2023 - “...b ) Scatterplot with regression lines comparing the mean expression of cpsABCD with the cpsR (SSU_RS02755) regulator. Only the serotype 2 strains had a negative correlation between cpsR and cps expression, although serotype 2 strains D43 and D49 also appeared to be regulated differently, as cpsABCD...”
- “...the two media. Streptococcal cps expression has been linked to negative regulation by a protein (SSU_RS02755) variably named cpsR / gntR / orf2Y [ 4749 ]. In Streptococcus pneumoniae , cpsR has been shown to interact with the cps promoter, dependent on glucose concentration, negatively controlling...”
PH0771 aspartate aminotransferase from Pyrococcus horikoshii OT3
25% identity, 100% coverage
Francci3_2452 aminotransferase, class I and II from Frankia sp. CcI3
26% identity, 83% coverage
SMb21525 putative transcriptional regulator protein from Sinorhizobium meliloti 1021
28% identity, 64% coverage
- Analysis of a taurine-dependent promoter in Sinorhizobium meliloti that offers tight modulation of gene expression
Mostafavi, BMC microbiology 2014 - “...tau region ( tauR , tauC , and tauY ) on P tauA expression. tauR (SMb21525) encodes a transcriptional regulator of the GntR family, tauC (SMb21528) encodes the permease component of a probable taurine ABC transporter, and tauY (SMb21529) encodes the large subunit of the putative...”
- “...(P tauA - tatAB ) Mate pJC470 into Rm1021, select for Nm R JOE3844 tauR (SMb21525) Allelic replacement using pJC507 JOE3846 tauC (SMb21528) Allelic replacement using pJC508 JOE3848 tauY (SMb21529) Allelic replacement using pJC509 Table 2 Plasmids used in this study Plasmid Relevant genetic markers, features,...”
SMb20039 putative transcriptional regulator protein from Sinorhizobium meliloti 1021
28% identity, 73% coverage
- RhizoBindingSites v2.0 Is a Bioinformatic Database of DNA Motifs Potentially Involved in Transcriptional Regulation Deduced From Their Genomic Sites
Taboada-Castro, Bioinformatics and biology insights 2024 - “...potentially autoregulated (YrdX, NadQ, NrdR, HutC, Mur, ModE, NifA, HrcA, RhiR, CadR-PbrR, SMc04260, AnsR, and SMb20039); this likely limits the detection of all other genes of regulons from Regprecise. Also, these data showed 13.17%, 15.97%, and 15.72% fewer common genes detected in the S-matrices than the...”
ACICU_01470 transcriptional regulator from Acinetobacter baumannii ACICU
22% identity, 80% coverage
Pden_1648 putative transcriptional regulator, GntR family from Paracoccus denitrificans PD1222
29% identity, 62% coverage
patA / P16524 N-acetyl-L,L-diaminopimelate aminotransferase from Bacillus subtilis (strain 168) (see 3 papers)
DAPX_BACSU / P16524 Probable N-acetyl-LL-diaminopimelate aminotransferase; Putative aminotransferase A; EC 2.6.1.- from Bacillus subtilis (strain 168) (see paper)
BSU14000 aminotransferase A from Bacillus subtilis subsp. subtilis str. 168
28% identity, 98% coverage
- function: Essential for murein biosynthesis (PubMed:29280348). Probably catalyzes the conversion of L-2-acetamido-6-oxopimelate to N-acetyl-LL- 2,6-diaminopimelate (Probable).
catalytic activity: N-acetyl-(2S,6S)-2,6-diaminoheptanedioate + 2-oxoglutarate = L-2-acetamido-6-oxoheptanedioate + L-glutamate (RHEA:25315)
cofactor: pyridoxal 5'-phosphate
subunit: Homodimer. - A Survey of Pyridoxal 5'-Phosphate-Dependent Proteins in the Gram-Positive Model Bacterium Bacillus subtilis
Richts, Frontiers in molecular biosciences 2019 - “...AbrB (), CodY(), ScoC () PLP AAT class IV family Nicolas et al., 2012 PatA BSU14000 Yes 2.6.1.- 1GDE ( Pyrococcus sp., 42%) N -Acetyl-L,L-diaminopimelate aminotransferase Biosynthesis of lysine and peptidoglycan Unknown AlaT (41%), AspB (41%)/PLP AAT class I family Nicolas et al., 2012 ; Rueff...”
- The Blueprint of a Minimal Cell: MiniBacillus
Reuß, Microbiology and molecular biology reviews : MMBR 2016 - “...S. pneumoniae B. anthracis Corynebacterium glutamicum B. anthracis BSU14000 BSU14190 BSU32170 Yes Yes Yes 3.5.1.47 5.1.1.7 1GDE 1YSJ 2OTN P. horikoshii B....”
PdxR / VIMSS10395811 PdxR regulator of Pyridoxine biosynthesis, effector Pyridoxal-5-phosphate from Streptococcus gallolyticus UCN34
SGGBAA2069_c10980, SGGB_1101 PLP-dependent aminotransferase family protein from Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069
GALLO_1111 putative transcriptional regulator, GntR family from Streptococcus gallolyticus UCN34
26% identity, 78% coverage
CNB03180 hypothetical protein from Cryptococcus neoformans var. neoformans JEC21
27% identity, 71% coverage
- Comprehensive genome-scale metabolic model of the human pathogen Cryptococcus neoformans: A platform for understanding pathogen metabolism and identifying new drug targets
Tezcan, Frontiers in bioinformatics 2023 - “...MANt2 4 CNJ01880 Ammonium transporter NH4t CNA02250 NH4t 5 CNF04620 Aminotran containing protein AATA3, PHETA1 CNB03180 AATA3, PHETA1 6 CNL06640 Phospho-2-dehydro-3-deoxyheptonate aldolase DDPA, DDPAm CND05120 DDPA 7 CNG00040 Metabolite transporter G3PCT CND01860 G3PCT 8 CNM00800 Amino acid transporter CYSt2r, TYRt2r, GLNt2r, GLUt2r, ORNt2r, ASPt2r, ARGt2r, GLYt2r,...”
MSMEG_5760 GntR-family protein regulator from Mycobacterium smegmatis str. MC2 155
31% identity, 58% coverage
SGPB_0968 PLP-dependent aminotransferase family protein from Streptococcus pasteurianus ATCC 43144
27% identity, 64% coverage
A6TF79 Bacterial regulatory protein, GntR from Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)
KPN_03826 putative bacterial regulatory protein, GntR from Klebsiella pneumoniae subsp. pneumoniae MGH 78578
31% identity, 49% coverage
- Data from computational analysis of the peptide linkers in the MocR bacterial transcriptional regulators
Angelaccio, Data in brief 2016 - “...acidovorans SPH-1 Betaproteobacteria D4HXE9 Erwinia amylovora ATCC 49946 Gammaproteobacteria Q6D5I8 Erwinia carotovora subsp.atroseptica SCRI1043 Gammaproteobacteria A6TF79 Klebsiella pneumonia subsp. pneumoniae MGH 78578 Gammaproteobacteria B2U7Y5 Ralstonia pickettii 12J Betaproteobacteria A8GJW1 Serratia proteamaculans 568 Gammaproteobacteria Q4A0R1 Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 Firmicutes C4ZIR5 Thauera sp. MZ1T Betaproteobacteria...”
- Expanded role for the nitrogen assimilation control protein in the response of Klebsiella pneumoniae to nitrogen stress
Frisch, Journal of bacteriology 2010 - “...(2) KPN_02732 KPN_03071 KPN_03248 KPN_03328/3329 KPN_03826 KPN_03937 KPN_04048 KPN_04411 KPN_04634 KPN_04639 KPN_04732 KPN_pkpn3p05913 wbbO wcaN KPK_4440...”
- “...(rstB, slrR, KPN_00054, KPN_02732, KPN_03248, KPN_03329, and KPN_03826), translation (tuf, rpmI, and ykgO), DNA replication (holE, gyrA), and cell division...”
VK055_1967 PLP-dependent aminotransferase family protein from Klebsiella pneumoniae subsp. pneumoniae
28% identity, 66% coverage
- A Serendipitous Mutation Reveals the Severe Virulence Defect of a Klebsiella pneumoniae fepB Mutant
Palacios, mSphere 2017 - “...Oligopeptide/dipeptide ABC transporter, ATP binding VK055_1969 Amidase. Hydatoinase/carbamoylase family protein VK055_1968 EamA-like transporter family protein VK055_1967 Bacterial transcriptional regulator, GntR family protein VK055_1966 Bacterial transcriptional regulator, GntR family protein VK055_1965 Bacterial extracellular solute-binding VK055_1964 ABC transporter, permease VK055_1963 ABC-type amino acid transport system, permease VK055_1962 ABC...”
Pden_4274 putative transcriptional regulator, GntR family from Paracoccus denitrificans PD1222
26% identity, 62% coverage
PdxR / VIMSS3789276 PdxR regulator of Pyridoxine biosynthesis, effector Pyridoxal-5-phosphate from Streptococcus gordonii str. Challis substr. CH1
26% identity, 54% coverage
SCO1289 gntR-family regulatory protein from Streptomyces coelicolor A3(2)
28% identity, 57% coverage
XP_033604917 L-kynurenine/alpha-aminoadipate aminotransferase from Pseudovirgaria hyperparasitica
25% identity, 65% coverage
- Phylogenetic Comparison of Swainsonine Biosynthetic Gene Clusters among Fungi
Neyaz, Journal of fungi (Basel, Switzerland) 2022 - “...GAP93000 GAP93001 - - GAP93002 - - Pseudovirgaria hyperparasitica Capnodiales XP_033604919 XP_033604918 XP_033604921 - XP_033604920 XP_033604917 XP_033604916 Tothia fuscella Microthyriales KAF2430781 KAF2430780 KAF2430777 KAF2430776 KAF2430778 - - Pseudogymnoascus sp. Leotiomycetes KFY51099 KFY51100 KFY51103 KFY51104 KFY51102 - - Quercus suber Fagales XP_023929147 XP_023929150 XP_023929148 XP_023929149 - -...”
atrD / B7STY2 L-tyrosine:2-oxoglutarate aminotransferase (EC 2.6.1.1) from Tapinella panuoides (see paper)
ATRD_TAPPA / B7STY2 L-tyrosine:2-oxoglutarate aminotransferase atrD; Atromentin biosynthesis protein D; EC 2.6.1.5 from Tapinella panuoides (Oyster rollrim mushroom) (Paxillus panuoides) (see 5 papers)
26% identity, 63% coverage
- function: The L-tyrosine:2-oxoglutarate aminotransferase atrD and the atromentin synthetase atrA catalyze consecutive steps to turn over L- tyrosine into atromentin, which represents the generic precursor molecule for the entire terphenylquinone and pulvinic acid family of pigments, which are widely distributed secondary metabolites in homobasidiomycetes (PubMed:18805498). The first step is catalyzed by atrD which converts L-tyrosine in to 4-hydroxyphenylpyruvate (4-HPP) (PubMed:18805498). Adenylation of two 4-HPP monomers by the atrA adenylation (A) domain, ester bond formation between monomers and atrA, and symmetric C-C-bond formation between two monomers by atrA leads to atromentin (PubMed:18805498).
catalytic activity: L-tyrosine + 2-oxoglutarate = 3-(4-hydroxyphenyl)pyruvate + L- glutamate (RHEA:15093)
cofactor: pyridoxal 5'-phosphate
BSU31400 hypothetical protein from Bacillus subtilis subsp. subtilis str. 168
26% identity, 97% coverage
SWNA_ARTBC / D4AU29 Aminotransferase swnA; Swainsonine biosynthesis gene cluster protein A; EC 2.6.1.- from Arthroderma benhamiae (strain ATCC MYA-4681 / CBS 112371) (Trichophyton mentagrophytes) (see paper)
XP_003014122 aromatic amino acid aminotransferase, putative from Trichophyton benhamiae CBS 112371
25% identity, 67% coverage
- function: Aminotransferase; part of the gene cluster that mediates the biosynthesis of swainsonine (SW), a cytotoxic fungal alkaloid and a potential cancer therapy drug (PubMed:28381497). Swainsonine production occurs via a multibranched pathway and is dispensable for fungal colonization of plants and infection of insect hosts (By similarity). The first step of swainsonine biosynthesis is the production of the precursor pipecolic acid (PA) via conversion of L-lysine (Lys) to 1- piperideine-6-carboxylate (P6C) by the aminotransferase swnA, the latter being further reduced to PA by the reductase swnR (By similarity). The PKS-NRPS hybrid synthetase swnK uptakes and condensates PA and malonyl-CoA with and without skipping of the ketoreductase (KR) domain in order to produce 3 intermediates, 1- oxoindolizidine, (1S)-1-hydroxyindolizin, and (1R)-1-hydroxyindolizine; with the transisomer (1S)-1-hydroxyindolizin being predominant (By similarity). The terminal thioester reductase (TE) domain of swnK is involved in reduction of the thioester bond to release the intermediate aldehydes (By similarity). The oxidoreductase swnN could contribute to the reduction of 1-oxoindolizidine to (1S)-1-hydroxyindolizin and (1R)- 1-hydroxyindolizine, contributing to the major route of SW production (By similarity). The dioxygenase swnH2 would be responsible for the oxidization of (1R)-1-hydroxyindolizine into (1R,2S)-1,2- dihydroxyindolizine and of (1S)-1-hydroxyindolizin to yield both (1R,2S)-1,2-dihydroxyindolizine and (1S,2S)-1,2-dihydroxyindolizine (By similarity). The dioxygenase swnH1 then performs the conversion of the 1,2-dihydroxyindolizine epimers to SW (By similarity).
cofactor: pyridoxal 5'-phosphate - Phylogenetic Comparison of Swainsonine Biosynthetic Gene Clusters among Fungi
Neyaz, Journal of fungi (Basel, Switzerland) 2022 - “...XP_003176906 XP_003176904 XP_003176902 XP_003176908 XP_003176905 XP_003176903 Trichophyton benhamiae * Onygenales XP_003014124 XP_003014123 DAA76506 XP_003014119 XP_003016302 XP_003014122 XP_003014120 Trichophyton verrucosum Onygenales XP_003020763 XP_003020762 XP_003020760 XP_003020758 XP_003022179 XP_003020761 XP_003020759 Trichophyton violaceum Onygenales OAL75151 OAL75150 OAL75148 OAL75146 OAL69278 OAL75149 OAL75147 Trichophyton soudanense Onygenales EZF69148 EZF69147 EZF69143 EZF69142 EZF69504 EZF69146...”
SANR_RS04950 PLP-dependent aminotransferase family protein from Streptococcus anginosus C238
26% identity, 67% coverage
- Diversity of CRISPR-Cas type II-A systems in Streptococcus anginosus
Bauer, Frontiers in microbiology 2023 - “...detected that are encoded in two different genomic locations of GenBank entry NC_022239.1 (CRISPR_A: SANR_RS04955, SANR_RS04950; CRISPR_B: SANR_RS07450, SANR_RS07440). The genes encoding Cas9 proteins in these two different CRISPR loci display nucleotide differences allowing a discrimination of the alleles by specific primers. The absence of a...”
- “...loci was confirmed through a set of primers adjacent to these typical CRISPR regions (SANR_RS04955, SANR_RS04950 and SANR_RS07450, SANR_RS07440). Primer sequences are listed in Supplementary Table S2 , primer binding sites are depicted in Figure 1 . Figure 1 Genetic organization of CRISPR-Cas type II systems....”
AMT1_SERL9 / F8P1W6 L-tyrosine:2-oxoglutarate aminotransferase amt1; Atromentin biosynthesis protein amt1; EC 2.6.1.5 from Serpula lacrymans var. lacrymans (strain S7.9) (Dry rot fungus) (see paper)
25% identity, 57% coverage
- function: An L-tyrosine:2-oxoglutarate aminotransferase (probably amt1) and atromentin synthetase nps3 catalyze consecutive steps to turn over L-tyrosine into atromentin, which represents the generic precursor molecule for the entire terphenylquinone and pulvinic acid family of pigments, which are widely distributed secondary metabolites in homobasidiomycetes (Probable). The first step catalyzed by amt1 converts L-tyrosine in to 4-hydroxyphenylpyruvate (4-HPP). Adenylation of two 4-HPP monomers by the nps3 adenylation (A) domain, covalent tethering of the monomers as a thioester and oxoester onto the nps3 thiolation (T) and thioesterase (TE) domains, respectively, and symmetric C-C-bond formation between two monomers catalyzed by the nps3 TE domain leads to atromentin. Follow-up products of atromentin in S.lacrymans include atromentic acid, xerocomic acid, isoxerocomic acid and variegatic acid (By similarity).
catalytic activity: L-tyrosine + 2-oxoglutarate = 3-(4-hydroxyphenyl)pyruvate + L- glutamate (RHEA:15093)
cofactor: pyridoxal 5'-phosphate
Mkms_1901 putative transcriptional regulator, GntR family from Mycobacterium sp. KMS
27% identity, 67% coverage
HISP_16825 pyridoxal phosphate-dependent aminotransferase from Haloarcula hispanica N601
27% identity, 96% coverage
- Insights into gene regulation of the halovirus His2 infecting Haloarcula hispanica
Lee, MicrobiologyOpen 2020 - “...PROCESSES AND SIGNALING Signal transduction mechanisms Signal transduction histidine kinase 1.366 0.435 0.872 0.929 M HISP_16825 METABOLISM Amino acid transport and metabolism Aspartate/tyrosine/aromatic aminotransferase 1.069 0.725 0.472 1.322 M HISP_17040 METABOLISM Amino acid transport and metabolism phenylacetateCoA oxygenase 1.015 0.559 0.363 1.211 M HISP_17215 METABOLISM Inorganic...”
XP_003020761 aromatic amino acid aminotransferase, putative from Trichophyton verrucosum HKI 0517
25% identity, 67% coverage
- Phylogenetic Comparison of Swainsonine Biosynthetic Gene Clusters among Fungi
Neyaz, Journal of fungi (Basel, Switzerland) 2022 - “...XP_003014124 XP_003014123 DAA76506 XP_003014119 XP_003016302 XP_003014122 XP_003014120 Trichophyton verrucosum Onygenales XP_003020763 XP_003020762 XP_003020760 XP_003020758 XP_003022179 XP_003020761 XP_003020759 Trichophyton violaceum Onygenales OAL75151 OAL75150 OAL75148 OAL75146 OAL69278 OAL75149 OAL75147 Trichophyton soudanense Onygenales EZF69148 EZF69147 EZF69143 EZF69142 EZF69504 EZF69146 EZF69144 Trichophyton rubrum * 118892 Onygenales XP_003238870 XP_003238869 XP_003238867 XP_003238865...”
An15g02460 uncharacterized protein from Aspergillus niger
24% identity, 58% coverage
- Insights into the Underlying Mechanism of Ochratoxin A Production in Aspergillus niger CBS 513.88 Using Different Carbon Sources
Wei, Toxins 2022 - “...Figure 3 B). Among them, genes associated with the OTA precursor phenylalanine (An08g06800, An14g06010, and An15g02460) and OTA biosynthesis ( nrps , P450 , hal , and bzip ) were significantly up-regulated ( Table 1 ), which was confirmed by qRT-PCR analyses ( Figure S1 )....”
- “...to six in the shikimate pathway), An14g06010 (catalyzing step eight of the phenylalanine biosynthesis), and An15g02460 (catalyzing step 10 of the phenylalanine biosynthesis), were all up-regulated in the presence of three OTA-inducing carbon sources. Additionally, the genes involved in tyrosine, tryptophan, histidine, and arginine biosynthesis were...”
SAIN_0897 PLP-dependent aminotransferase family protein from Streptococcus anginosus C1051
26% identity, 67% coverage
XP_003238868 uncharacterized protein from Trichophyton rubrum CBS 118892
24% identity, 79% coverage
- Phylogenetic Comparison of Swainsonine Biosynthetic Gene Clusters among Fungi
Neyaz, Journal of fungi (Basel, Switzerland) 2022 - “...EZF69143 EZF69142 EZF69504 EZF69146 EZF69144 Trichophyton rubrum * 118892 Onygenales XP_003238870 XP_003238869 XP_003238867 XP_003238865 XP_003238559 XP_003238868 XP_003238866 Trichophyton tonsurans Onygenales EGD97139 EGD97140 EGD97142 EGD97144 EGD97826 EGD97141 EGD97143 Trichophyton equinum * Onygenales EGE01982 EGE01983 EGE01985 EGE01987 EGE02341 EGE01984 EGE01986 Trichophyton interdigitale * H6 Onygenales EZF30502 EZF30503 EZF30348...”
Mvan_2084 putative transcriptional regulator, GntR family from Mycobacterium vanbaalenii PYR-1
27% identity, 64% coverage
HMPREF1120_02164 aromatic amino acid aminotransferase I from Exophiala dermatitidis NIH/UT8656
25% identity, 58% coverage
- Phenotypic Characterization and Comparative Genomics of the Melanin-Producing Yeast Exophiala lecanii-corni Reveals a Distinct Stress Tolerance Profile and Reduced Ribosomal Genetic Content
Romsdahl, Journal of fungi (Basel, Switzerland) 2021 - “...MelO Multicopper oxidase EXLC_009732T0, EXLC_009741T0 HMPREF1120_02754, HMPREF1120_04578, HMPREF1120_08564 L-tyrosine degradation pathway Tat Tyrosine aminotransferase EXLC_000526T0 HMPREF1120_02164 HppD 4-Hydroxyphenylpyruvate dioxygenase EXLC_000706T0 HMPREF1120_05584 HmgA Homogentisate dioxygenase EXLC_000997T0, EXLC_002037T0, EXLC_006635T0, EXLC_007332T0, EXLC_008087T0, EXLC_010843T0 HMPREF1120_03827 FahA Fumarylacetoacetate hydrolase EXLC_000996T0, EXLC_002038T0, EXLC_007334T0 HMPREF1120_03825 MaiA Maleylacetoacetate isomerase EXLC_009316T0 HMPREF1120_03438 jof-07-01078-t005_Table 5 Table...”
- Transcriptome Study of an Exophiala dermatitidis PKS1 Mutant on an ex Vivo Skin Model: Is Melanin Important for Infection?
Poyntner, Frontiers in microbiology 2018 - “...HMPREF1120_03345 0.09 0.17 0.06 HMPREF1120_05865 0.29 0.22 0.18 HMPREF1120_04578 0.21 L-tyrosine degradation melanin pathway Tat HMPREF1120_02164 16.80 32.45 29.45 Tyrosine aminotransferase hppD HMPREF1120_05584 4.22 15.67 18.00 4-Hydroxyphenylpyruvate dioxygenase fahA HMPREF1120_03825 6.15 9.13 45.25 Fumarylacetoacetate hydrolase Nitrogen acquisition PTR2/POT transporter HMPREF1120_06103 0.30 0.13 0.10 POT family proton-dependent...”
- Comparative genomic and transcriptomic analysis of wangiella dermatitidis, a major cause of phaeohyphomycosis and a model black yeast human pathogen
Chen, G3 (Bethesda, Md.) 2014 - “...An01g00860 (McoN) HMPREF1120_02754 0.07 7.70e01 0.52 3.27e04 An18g02690 (McoI) L-tyrosine degradation pathway Tat Afu2g13630 An02g05540 HMPREF1120_02164 0.22 1.88e01 1.96 5.90e49 Tyrosine aminotransferase hppD Afu2g04200 An11g02200 HMPREF1120_05584 2.08 6.68e40 4.33 1.38e208 4-Hydroxyphenylpyruvate dioxygenase hmgA Afu2g04220 An11g02180 HMPREF1120_03827 0.12 4.99e01 0.16 2.76e01 Homogentisate dioxygenase fahA Afu2g04230 An11g02170 HMPREF1120_03825...”
CH1034_280070 PLP-dependent aminotransferase family protein from Klebsiella pneumoniae
27% identity, 62% coverage
SPO3562 transcriptional regulator from Silicibacter pomeroyi DSS-3
SPO3562 PLP-dependent aminotransferase family protein from Ruegeria pomeroyi DSS-3
26% identity, 63% coverage
AF_2366 pyridoxal phosphate-dependent aminotransferase from Archaeoglobus fulgidus DSM 4304
25% identity, 97% coverage
- A novel methoxydotrophic metabolism discovered in the hyperthermophilic archaeon Archaeoglobus fulgidus
Welte, Environmental microbiology 2021 - “...2oxoglutarate/2oxoacid ferredoxin oxidoreductase KorABDG (AF_046871), glutamate synthase GltB13 (AF_09524), aspartate aminotransferase AspBC (AF_0409, AF_1623, AF_2129, AF_2366, AF_1417), isocitrate dehydrogenase Icd (AF_0647), aconitase Acn (AF_1963), citrate synthase CitZ (AF_1340), sulfate adenylyltransferase Sat (AF_1667), adenylylsulfate reductase AprAB (AF_166970), dissimilatory sulfite reductase DsrAB (AF_04234), DsrC (AF_2228), quinonemodifying oxidoreductase QmoABC...”
A0A1D8PPA8 aromatic-amino-acid transaminase (EC 2.6.1.57) from Candida albicans (see paper)
27% identity, 53% coverage
LJ1390 aspartate aminotransferase from Lactobacillus johnsonii NCC 533
28% identity, 97% coverage
- L-alanine auxotrophy of Lactobacillus johnsonii as demonstrated by physiological, genomic, and gene complementation approaches
van, Applied and environmental microbiology 2004 - “...to L. johnsonii proteins; however, two proteins, LJ0915 and LJ1390, were found to exhibit 23 and 25% amino acid identity, respectively, with AspC of Lactococcus...”
- “...the two previously identified PLP-dependent ATs, LJ0915 and LJ1390 (Table 2). LJ0915 showed 50% sequence identity to a recently described L. delbrueckii...”
- The genome sequence of the probiotic intestinal bacterium Lactobacillus johnsonii NCC 533
Pridmore, Proceedings of the National Academy of Sciences of the United States of America 2004 - “...oxaloacetate and Glu, using aspartate aminotransferase (aspC, LJ1390). Additionally, the presence of glutamine synthetase (glnA, LJ1614) and a probable...”
Tery_0293 aminotransferase, class I and II from Trichodesmium erythraeum IMS101
26% identity, 95% coverage
- The use of genome-scale metabolic network reconstruction to predict fluxes and equilibrium composition of N-fixing versus C-fixing cells in a diazotrophic cyanobacterium, Trichodesmium erythraeum
Gardner, BMC systems biology 2017 - “...transaminase Leptolyngbya sp. NIES 3755 L-aspartase 4.3.1.1 Tery_1328 Fumarase Nitrosococcus oceani L-arogenate: 2-oxoglutarate aminotransferase 2.6.1.79 Tery_0293 L-aspartate aminotransferase Pleurocapsa sp. PCC 7327 L-threonine ammonium-lyase 4.3.1.19 Tery_4742 Pyridoxal-5-phosphate-dependent enzyme, beta subunit/cysteine synthase A Zymomonas mobilis subsp. NRRL B-12526 Isoprenoid Synthesis Tocopherol phytyltransferase 2.5.1.117 Tery_3881 Homogentisate phytyltransferase Nostoc...”
- “...Tery_4268 2,3-Dimethylmalate lyase/methylisocitrate lyase Candidatus Nitrososphaera gargensis Assumed Promiscuous Amino Acid Metabolism 4-Hydroxyglutamate transaminase 2.6.1.23 Tery_0293 L-aspartate aminotransferase T. erythraeum Cofactor and Energy Carrier Metabolism Dihydroneopterin P i dephosphorylase 3.6.1.1 Tery_1519 Inorganic diphosphatase Dihydroneopterin PPP i dephosphorylase 3.6.1.1 Tery_1519 Inorganic diphosphatase Lipid Metabolism/Secondary Carbon Metabolism Glycoaldehyde...”
KPHS_11630 GntR family transcriptional regulator from Klebsiella pneumoniae subsp. pneumoniae HS11286
23% identity, 69% coverage
- Association between Intestinal Colonization and Extraintestinal Infection with Carbapenem-Resistant Klebsiella pneumoniae in Children
Du, Microbiology spectrum 2023 - “...). Thus, frameshift mutations in KPHS_46730 may convey resistance to meropenem. In addition, mutations in KPHS_11630 , which encodes a GntR family transcriptional regulator, may affect a variety of cellular processes, such as cell motility, glucose metabolism, bacterial resistance, pathogenesis, and virulence ( 31 ). Apart...”
MSMEG_0426 transcriptional regulator, GntR family protein from Mycobacterium smegmatis str. MC2 155
23% identity, 80% coverage
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