PaperBLAST
PaperBLAST Hits for sp|Q51342|PUR1_PSEAE Amidophosphoribosyltransferase OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=purF PE=3 SV=3 (501 a.a., MCGIVGIVGK...)
Show query sequence
>sp|Q51342|PUR1_PSEAE Amidophosphoribosyltransferase OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=purF PE=3 SV=3
MCGIVGIVGKSNVNQALYDALTVLQHRGQDAAGIVTCHDDKLYLRKDNGLVRDVFQQRHM
QRLIGSVGIGHVRYPTAGSSSSAEAQPFYVNSPYGITLAHNGNLTNVEQLAKEIYESDLR
HVNTNSDSEVLLNVFAHELAVRNKLQPTEEDIFAAVSCVHDRCVGGYAVVAMITGHGIVG
FRDPNAIRPIVFGQRHTENGVEYMIASESVALDVLGFTLIRDLAPGEAVYITEEGKLYTR
QCAKAPKYAPCIFEHVYLARPDSIMDGISVYKARLRMGEKLADKILRERPDHDIDVVIPI
PDTSRTAALELANRLGVKFREGFVKNRYIGRTFIMPGQAARKKSVRQKLNAIELEFRGKN
VMLVDDSIVRGTTCKQIIQMAREAGAKNVYFCSAAPAVRYPNVYGIDMPSAHELIAHNRS
TEDVSKLIGADWLVYQDLPDLIDAVGGGKIKIDHFDCAVFDGEYVTGDVNEAYLNRIEQA
RNDATKAKSQAVSAIIDLYND
Running BLASTp...
Found 250 similar proteins in the literature:
PA14_23920 amidophosphoribosyltransferase from Pseudomonas aeruginosa UCBPP-PA14
PA3108 amidophosphoribosyltransferase from Pseudomonas aeruginosa PAO1
100% identity, 100% coverage
- Pseudomonas aeruginosa core metabolism exerts a widespread growth-independent control on virulence
Panayidou, Scientific reports 2020 - “...metabolism (pau00230) PA14_51240 ( purC ) + NT 9* PA14_64220 ( purD ) + 10 PA14_23920 ( purF ) + NT 11* PA14_64200 ( purH ) + NT 12 PA14_15740 ( purL ) + NT 13* Pyrimidine metabolism (pau00240) PA14_05260 ( pyrB ) + Group (C)...”
- Metabolic pathways of Pseudomonas aeruginosa involved in competition with respiratory bacterial pathogens
Beaume, Frontiers in microbiology 2015 - “...in the presence of competitors had the transposon inserted at position 264 of the purF (PA14_23920) gene, encoding an amidophosphoribosyl transferase. This protein is a key enzyme of purine metabolism, supplying nucleotides for DNA and RNA synthesis ( Sampei and Mizobuchi, 1988 ). The purF ::Tn...”
- Massively parallel mutant selection identifies genetic determinants of <i>Pseudomonas aeruginosa</i> colonization of <i>Drosophila melanogaster</i>
Miles, mSystems 2024 - “...repair [L] Biosynthetic Pathways PA0944 purN Nucleotide metabolism [F] + PA0945 purM Nucleotide metabolism [F] PA3108 purF Nucleotide metabolism [F] PA4854 purH Nucleotide metabolism [F] PA4855 purD Nucleotide metabolism [F] PA5425 purK Nucleotide metabolism [F] PA4756 carB Nucleotide metabolism [F] PA4758 carA Nucleotide metabolism [F] PA3527...”
- Genome-wide screen in human plasma identifies multifaceted complement evasion of Pseudomonas aeruginosa
Janet-Maitre, PLoS pathogens 2023 - “...ID ** gene/prediction Log 2 (FC) # P adj ## Purine biosynthetic pathway $ IHMA87_01837 PA3108 purF 17.26 3.64E-68 IHMA87_05343 PA4855 purD 14.06 3.85E-27 IHMA87_04291 PA0945 purM 14.04 2.51E-47 IHMA87_04292 PA0944 purN 12.99 3.14E-42 IHMA87_01191 PA3763 purL 12.75 3.02E-38 IHMA87_04214 PA1013 purC 7.67 1.23E-5 IHMA87_02487 PA2629...”
- Bacterial fitness in chronic wounds appears to be mediated by the capacity for high-density growth, not virulence or biofilm functions
Morgan, PLoS pathogens 2019 - “...0.6 0.002 nt PA5567 - 227 0.5 0.002 nt PA2644 nuoI 829 1.7 0.002 nt PA3108 purF 1400 3.0 0.002 <0.01 PA3005 nagZ 743 1.6 0.002 172 PA4855 purD 752 1.8 0.002 nt PA5198 - 4342 10.5 0.002 nt PA1766 - 130 0.3 0.002 nt PA4553...”
- A systems-level approach for investigating Pseudomonas aeruginosa biofilm formation
Xu, PloS one 2013 - “...tmk ),PA2964( pabC ), PA2967( fabG ),PA2977( murB ),PA2979( kdsB ),PA2981( lpxK ), PA3088( yfjB ),PA3108( purF ),PA3111( folC ),PA3112( accD ), PA3163( cmk ),PA3337( rfaD ),PA3636( kdsA ),PA3637( pyrG ), PA3643( lpxB ),PA3644( lpxA ),PA3651( cdsA ),PA3666( dapD ), PA3673( plsB ),PA4006( nadD ),PA4050( pgpA...”
- A systems biology approach to drug targets in Pseudomonas aeruginosa biofilm
Sigurdsson, PloS one 2012 - “...tryptophan biosynthesis TrpF (PA3113) Purine and pyrimidine biosynthesis PyrF (PA2876) PurH (PA4854), PurB (PA2629), PurF (PA3108), PurM (PA0945), PurC (PA1013) Pyridoxine metabolism ThrC (PA3735) Riboflavin metabolism RibD (PA4056) RibA (PA4047) RibB (PA4054) Tetrapyrrole biosynthesis CobA (PA1778) Thiamine metabolism ThiL (PA4051) Threonine and lysine metabolism LysC (PA0904)...”
IHMA87_01837 amidophosphoribosyltransferase from Pseudomonas aeruginosa
99% identity, 100% coverage
PP2000 amidophosphoribosyltransferase from Pseudomonas putida KT2440
91% identity, 100% coverage
PFLU4183 amidophosphoribosyltransferase from Pseudomonas fluorescens SBW25
91% identity, 100% coverage
Psyr_1668 Amidophosphoribosyl transferase from Pseudomonas syringae pv. syringae B728a
91% identity, 100% coverage
Achr_14230 amidophosphoribosyltransferase from Azotobacter chroococcum NCIMB 8003
89% identity, 100% coverage
- Holistic view of biological nitrogen fixation and phosphorus mobilization in Azotobacter chroococcum NCIMB 8003
Biełło, Frontiers in microbiology 2023 - “...of pyrimidines (orotidine 5-phosphate decarboxylase, A0A0C4WNN0, Achr_27610; aspartate carbamoyltransferase, A0A0C4WRA0, Achr_38390) and purines (amidophosphoribosyltransferase, A0A0C4WRC5, Achr_14230; phosphoribosylamine-glycine ligase, A0A0C4WVR5, Achr_34370), as well as L -methionine ( O -succinylhomoserine sulfhydrylase, A0A0C4WHE2, Achr_14240; aspartate-semialdehyde dehydrogenase, A0A0C4WRB7, Achr_14130), was strongly induced in the FP condition. In addition, in the...”
ACIAD1323 amidophosphoribosyltransferase from Acinetobacter sp. ADP1
72% identity, 95% coverage
A1S_2251 amidophosphoribosyltransferase from Acinetobacter baumannii ATCC 17978
71% identity, 93% coverage
- Novel Genes Required for Surface-Associated Motility in Acinetobacter baumannii
Blaschke, Current microbiology 2021 - “...Purine/pyrimidine/folate biosynthesis A1S_2187 purH Phosphoribosylaminoimidazolecarboxamide formyltransferase (purine synthesis) + Y N.s. ** N.s. N.s. N.s. A1S_2251 purF Amidophosphoribosyltransferase (purine synthesis) ++ Y N.s. N.s. R*** N.s. R* A1S_2605 purM Phosphoribosylaminoimidazole synthetase (purine synthesis) +++ Y * * R*** N.s. S* A1S_2964 purE Phosphoribosylaminoimidazole carboxylase mutase subunit...”
- “...e Ampicillin Imipenem Tetracycline Purine/pyrimidine/folate biosynthesis A1S_2187 purH ++ Y * * S* N.s. N.s. A1S_2251 purF ++ Y N.s. N.s. S** S* N.s. A1S_2605 purM + Y N.s. N.s. S* N.s. N.s. A1S_2964 purE + Y N.s. N.s. S** N.s. N.s. A1S_1566 + Y ***...”
- Genome-wide identification of Acinetobacter baumannii genes necessary for persistence in the lung
Wang, mBio 2014 - “...the persistence of A.baumannii in the pulmonary environment. Ten genes involved in purine metabolism (A1S_2189, A1S_2251, A1S_2606, A1S_2585, A1S_2605, A1S_2963, A1S_2964, A1S_3425, A1S_2187, and A1S_2188) were identified as important for the persistence of A.baumannii in the murine pneumonia model. These genes were purF , - D...”
NJ56_RS11550 amidophosphoribosyltransferase from Yersinia ruckeri
65% identity, 99% coverage
SO3064 amidophosphoribosyltransferase from Shewanella oneidensis MR-1
63% identity, 99% coverage
U876_13390 amidophosphoribosyltransferase from Aeromonas hydrophila NJ-35
63% identity, 99% coverage
y1605 amidophosphoribosyltransferase; PRPP amidotransferase from Yersinia pestis KIM
YP_RS12405 amidophosphoribosyltransferase from Yersinia pestis biovar Microtus str. 91001
65% identity, 99% coverage
- Genome-wide mutant fitness profiling identifies nutritional requirements for optimal growth of Yersinia pestis in deep tissue
Palace, mBio 2014 - “...1.00E05 purC (y1421) Purine biosynthesis 0 1.00E03 y1483 Putative histidine kinase sensor 0.661 1.00E05 purF (y1605) Purine biosynthesis 0.496 1.00E05 ptsG (y1767) Glucose importer 0.693 1.00E05 ndh (y1777) NADH dehydrogenase 0.589 1.00E05 y1920 LPS modification ( arnD homologue) 0.317 4.00E04 y1940 Contains putative l , d...”
- Regulatory Functions of PurR in Yersinia pestis: Orchestrating Diverse Biological Activities
Xiao, Microorganisms 2023 - “...10 46 purH bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase YP_RS14005 2.29 1.70 10 55 purM phosphoribosylformylglycinamidine cyclo-ligase YP_RS12405 1.98 2.79 10 52 purF amidophosphoribosyltransferase YP_RS16130 1.97 1.56 10 34 purD phosphoribosylamine--glycine ligase YP_RS14010 1.97 1.16 10 26 purN phosphoribosylglycinamide formyltransferase YP_RS13160 1.90 1.40 10 21 purL phosphoribosylformylglycinamidine synthase...”
- “...2.47 3.44 10 23 guaB IMP dehydrogenase YP_RS14010 2.36 1.28 10 22 purN phosphoribosylglycinamide formyltransferase YP_RS12405 2.24 4.64 10 27 purF amidophosphoribosyltransferase YP_RS13925 1.95 8.44 10 11 - phosphoribosylaminoimidazolesuccinocarboxamide synthase YP_RS14215 1.75 1.04 10 14 guaA glutamine-hydrolyzing GMP synthase YP_RS09185 1.26 1.20 10 7 purB adenylosuccinate...”
Dda3937_02099 amidophosphoribosyltransferase from Dickeya dadantii 3937
64% identity, 99% coverage
Ade / b2312 amidophosphoribosyltransferase (EC 2.4.2.14) from Escherichia coli K-12 substr. MG1655 (see 2 papers)
purF / P0AG16 amidophosphoribosyltransferase (EC 2.4.2.14) from Escherichia coli (strain K12) (see 42 papers)
PUR1_ECOLI / P0AG16 Amidophosphoribosyltransferase; ATase; Glutamine phosphoribosylpyrophosphate amidotransferase; GPATase; EC 2.4.2.14 from Escherichia coli (strain K12) (see 2 papers)
NP_416815 amidophosphoribosyltransferase from Escherichia coli str. K-12 substr. MG1655
b2312 amidophosphoribosyltransferase from Escherichia coli str. K-12 substr. MG1655
65% identity, 96% coverage
- function: Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine. Can also use NH(3) in place of glutamine.
catalytic activity: 5-phospho-beta-D-ribosylamine + L-glutamate + diphosphate = 5- phospho-alpha-D-ribose 1-diphosphate + L-glutamine + H2O (RHEA:14905)
cofactor: Mg(2+) (Binds 1 Mg(2+) ion per subunit.)
subunit: Homotetramer. - Identification of YigL as a PLP/PNP phosphatase in <i>Escherichia coli</i>
Matsuo, Applied and environmental microbiology 2024 (secret) - Affinity-based capture and identification of protein effectors of the growth regulator ppGpp
Wang, Nature chemical biology 2019 - “...energy-dependent translational throttle protein 2.04 P0AFL6 Ppx exopolyphosphatase 2.01 P27859 TatD 3'-5' ssDNA/RNA exonuclease 1.93 P0AG16 PurF glutamine amidophosphoribosyltransferase 1.92 P0ADG7 GuaB inosine-5'-monophosphate dehydrogenase 1.90 P0A6I0 Cmk cytidylate kinase 1.87 P0AB89 PurB adenylosuccinate lyase 1.86 P0AD61 PykF pyruvate kinase 1.83 P00393 Ndh NADH:quinone oxidoreductase II 1.82...”
- Computational studies of ammonia channel function in glutamine 5'-phosphoribosylpyrophosphate amidotransferase.
Wang, Biochemistry 2009 (PubMed)- GeneRIF: The ammonia channel in 5'-phosphoribosylpyrophosphate amidotransferase is regarded as a "pipe" through which ammonia travels in the absence of an external "driving" potential.
- A study in molecular contingency: glutamine phosphoribosylpyrophosphate amidotransferase is a promiscuous and evolvable phosphoribosylanthranilate isomerase.
Patrick, Journal of molecular biology 2008 - GeneRIF: phosphoribosylanthranilate isomerase
- Glutamine phosphoribosylpyrophosphate amidotransferase from cloned Escherichia coli purF. NH2-terminal amino acid sequence, identification of the glutamine site, and trace metal analysis.
Tso, The Journal of biological chemistry 1982 (PubMed)- GeneRIF: N-terminus verified by Edman degradation on mature peptide
- Overexpression of cloned RhsA sequences perturbs the cellular translational machinery in Escherichia coli
Aggarwal, Journal of bacteriology 2011 - “...purF purL purT purK purE purR purC purN purH cmk b2499 b2312 b2557 b1849 b0522 b0523 b1658 b2476 b2500 b4006 b0910 3.1 (0.5) 4.1 (0.4) 3.1 (0.7) 3.0 (1.5) 2.2...”
- In vitro transcription profiling of the σS subunit of bacterial RNA polymerase: re-definition of the σS regulon and identification of σS-specific promoter sequence elements
Maciag, Nucleic acids research 2011 - “...of OH157:H7 EDL 933 ( 19 ) purF Amidophosphoribosyl transferase (ribonucleotide metabolism); in cvpA-purF-ubiX operon b2312 2.12 as cvpA ubiX 3-octaprenyl-4-hydroxybenzoate decarboxylase (ubiquinone biosynthesis); in cvpA-purF-ubiX operon b2311 1.90 as cvpA c2854 Unknown, annotated in CFT073 as part of the cvpA-purF-ubiX operon N.A. 2.00 yjeF Putative...”
- Genome-scale analysis to the impact of gene deletion on the metabolism of E. coli: constraint-based simulation approach
Xu, BMC bioinformatics 2009 - “...b0386 b2585 b1092 b0945, b1062 b2942 b2818 b3018 b1094 b1131, b1281 b3939 b3172 b4041 b2316 b2312, b2476 b4013 b3957 b4160 b2323 b2499, b2507 s0001 b3958 b3255 b2557, b2780 b3959 b3256 b3642, b4005 b3960 b4006, b4177 s0001 b4244, b4245 SS NSP CAC GSM TTPM TIM genes b0639...”
- Experimental and computational assessment of conditionally essential genes in Escherichia coli
Joyce, Journal of bacteriology 2006 - “...purA (b4177) purC (b2476) purD (b4005) purE (b0523) purF (b2312) purH (b4006) purK (b0522) purL (b2557) purM (b2499) pyrB (b4245) pyrC (b1062) pyrD (b0945) pyrE...”
- Lessons from Escherichia coli genes similarly regulated in response to nitrogen and sulfur limitation
Gyaneshwar, Proceedings of the National Academy of Sciences of the United States of America 2005 - “...and metabolism [e.g., ndk (b2518) in cluster 1 and purF (b2312), which codes for the first enzyme of purine biosynthesis, in cluster 2]; a gene whose product is...”
- Divergence of function in sequence-related groups of Escherichia coli proteins
Nahum, Genome research 2001 - “...glmS purF b0674 b3729 b2312 P22106 P17169 P00496 asparagine-synthase-(glutamine-hydrolysing) L-glutamine:D-fructose-6-phosphate aminotransferase...”
ECs3196 amidophosphoribosyltransferase from Escherichia coli O157:H7 str. Sakai
65% identity, 96% coverage
1ecfB / P0AG16 Escherichia coli glutamine phosphoribosylpyrophosphate (prpp) amidotransferase (see paper)
65% identity, 97% coverage
- Ligand: piperazine-n,n'-bis(2-ethanesulfonic acid) (1ecfB)
plu3167 amidophosphoribosyltransferase (Glutamine phosphoribosylpyrophosphate amidotransferase) (ATASE) (GPATASE) from Photorhabdus luminescens subsp. laumondii TTO1
63% identity, 99% coverage
KPK_1442 amidophosphoribosyltransferase from Klebsiella pneumoniae 342
64% identity, 96% coverage
SeKA_A1948 amidophosphoribosyltransferase from Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188
64% identity, 96% coverage
- Genomic and Evolutionary Analysis of Two Salmonella enterica Serovar Kentucky Sequence Types Isolated from Bovine and Poultry Sources in North America
Haley, PloS one 2016 - “...in protein coding genes resulting in three synonymous mutations and one non-synonymous mutation (SeKA_A1002, SeKA_A1027, SeKA_A1948, SeKA_A4700) ( Table 2 ). 10.1371/journal.pone.0161225.t002 Table 2 Identified SNPs defining the Lineage 1.0/2.0 divergence (Top) and the Bovine-associated/Poultry-associated divergence (Bottom). S = synonymous mutation. NS = non-synonymous mutation. Lineage...”
- “...C T S Pro Pro 288 1, 2, 3 intergenic 1032798 A G 2, 3 SeKA_A1948 amidophosphoribosyltransferase 1876321 G A S Ala Ala 288 1, 2, 3 intergenic 2432705 T G 1, 2, 3 intergenic 3169966 T G 1, 2, 3 SeKA_A4700 propionateCoA ligase 4587482 A...”
t0502 amidophosphoribosyltransferase from Salmonella enterica subsp. enterica serovar Typhi Ty2
64% identity, 96% coverage
- Genome-wide Analysis of Salmonella enterica serovar Typhi in Humanized Mice Reveals Key Virulence Features
Karlinsey, Cell host & microbe 2019 - “...myltransferase 5.53 purM t0358 phosphoribosylformylglycinamidine cyclo-ligase 5.57 cvpA t0501 colicin V production protein 6.39 purF t0502 amidophosphoribosyltransferase 5.54 pabB t1053 para-aminobenzoate synthase component l 3.47 gpmA t2115 phosphoglycerate mutase 1 3.78 purE t2327 phosphoribosylaminoimidazole carboxylase catalytic subunit 5.45 purH t3455 phosphoribosylaminoimidazolecarboxamide formyltransferase 3.45 purD t3456 phosphoribosylglycineamide...”
STM2362 amidophosphoribosyltransferase (PRPP amidotransferase) from Salmonella typhimurium LT2
NP_461304 amidophosphoribosyltransferase from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
64% identity, 96% coverage
VC1004 amidophosphoribosyltransferase from Vibrio cholerae O1 biovar eltor str. N16961
62% identity, 99% coverage
- Cholera outbreaks in Nigeria are associated with multidrug resistant atypical El Tor and non-O1/non-O139 Vibrio cholerae
Marin, PLoS neglected tropical diseases 2013 - “...O1 Bauchi 2010 + 7 ET CIRS ET - - + Ser83Ile Ser85Leu 0.380 6.0 VC1004 O1 Bauchi 2010 + 7 ET CIRS ET - - + Ser83Ile Ser85Leu 0.500 6.0 VC1006 Non-O1 Bauchi 2010 - - - - - Ser83 Ser85 0.012 0.5 VC1009 Non-O1...”
- “...from the beginning of the 7 th pandemic (VC869, VC111, VC79) and the recent strains (VC1004, VC832 and VC835) are genetically related and shared a profile with El Tor VC121. The non-O1 strains (VC1006 and VC998) shared a unique profile distinct from the O1 strains. 10.1371/journal.pntd.0002049.g001...”
- Regulation of rugosity and biofilm formation in Vibrio cholerae: comparison of VpsT and VpsR regulons and epistasis analysis of vpsT, vpsR, and hapR
Beyhan, Journal of bacteriology 2007 - “...VC0869 (purL, phosphoribosylformylglycinamidine synthase), VC1004 (purF, amidophosphoribosyltransferase), VC1126 (purB, adenylosuccinate lyase), VC1228 (purT,...”
- Differences in gene expression between the classical and El Tor biotypes of Vibrio cholerae O1
Beyhan, Infection and immunity 2006 - “...in C-wt. These include VC1004 (purF) amidophosphoribosyltransferase, VC0276 (purH) phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase,...”
PD0851 amidophosphoribosyltransferase from Xylella fastidiosa Temecula1
63% identity, 97% coverage
XHV734_3851 amidophosphoribosyltransferase from Xanthomonas hortorum pv. vitians
62% identity, 98% coverage
APL_0425 amidophosphoribosyltransferase from Actinobacillus pleuropneumoniae L20
61% identity, 99% coverage
BCAM0998 amidophosphoribosyltransferase from Burkholderia cenocepacia J2315
60% identity, 94% coverage
- The Essential Genome of Burkholderia cenocepacia H111
Higgins, Journal of bacteriology 2017 - “...BCAM0918 BCAM0967 BCAM0972 BCAM0986 BCAM0994 BCAM0995 BCAM0998 BCAM1362 BCAM1931 BCAM2650 BCAM2688 H111 RefSeq identifier Function Essentialb I35_RS19210...”
- “...aspartate-semialdehyde dehydrogenase (BCAM0986), amidophosphoribosyltransferase (BCAM0998), N-acylglucosamine 2-epimerase (BCAM2688), and a porin (BCAM1931). To...”
- Comparative metabolic systems analysis of pathogenic Burkholderia
Bartell, Journal of bacteriology 2014 - “...BCAL3464 BCAL3465 BCAL3466 BCAL3467 BCAM0683 BCAM0986 BCAM0998 BCAM1337 BCAM2044 Gene abbreviation(s) prs tktA nrdB Bmul_0198 Bmul_3079 Bmul_3078 Bmul_2976...”
BTH_II0686 amidophosphoribosyltransferase from Burkholderia thailandensis E264
60% identity, 94% coverage
HI1207 amidophosphoribosyltransferase (purF) from Haemophilus influenzae Rd KW20
59% identity, 99% coverage
TWT723 amidophosphoribosyltransferase from Tropheryma whipplei str. Twist
57% identity, 96% coverage
FTN_1700 amidophosphoribosyltransferase from Francisella tularensis subsp. novicida U112
53% identity, 96% coverage
- Glutamate utilization couples oxidative stress defense and the tricarboxylic acid cycle in Francisella phagosomal escape
Ramond, PLoS pathogens 2014 - “...was used to amplify the mRNA corresponding to the transcript of FTN_0570 (p13/p14), FTN_0571 (p15/p16), FTN_1700 (p27/9p28), FTN_1701 (p29/p30), FTN_1702 (p31/p32), FTN_1532 (p33/p34), FTN_0127 (p35/p36), FTN_0277 (p37/p38), FTN_0804 (p39/p40), FTN_0593 (p41/p42), FTN_1434 (p43/p44) and FTN_1635 (p45/p46) ( Supplemental Table 1 ). Quantitative real-time RT-PCR Wild-type F....”
- Macrophage replication screen identifies a novel Francisella hydroperoxide resistance protein involved in virulence
Llewellyn, PloS one 2011 - “...decarboxylase siderophore protein [50] FTN_1699 FTT1720c purL phosphoribosylformylglycinamidine synthase [50] , [106] , [112] [91] FTN_1700 FTT1721c purF amidophosphoribosyltransferase [50] , [106] , [113] [91] , [113] FTN_1715 FTT1736c kdpD two component sensor protein kdpD [50] , [118] FTN_1743 FTT1769c clpB ClpB protein [50] , [51]...”
- Working toward the future: insights into Francisella tularensis pathogenesis and vaccine development
Pechous, Microbiology and molecular biology reviews : MMBR 2009 - “...nuoH figA (fslA) FTN_1683 lysA figE FTN_1699 FTN_1700 FTN_1715 FTN_1726 FTN_1731 FTN_1743 FTN_1744 FTN_1745 FTN_1753 FTN_1756 FTN_1760 FTN_1778 Cells/animals in...”
- “...route (dose, CFU) None (wild type) FTN_1645 FTN_0178 FTN_1700 6 F. tularensis subsp. holarctica Challenge strain VOL. 73, 2009 VACCINES FOR FRANCISELLA KatG...”
FTL_1861 Amidophosphoribosyltransferase from Francisella tularensis subsp. holarctica
53% identity, 96% coverage
- Identification of trkH, encoding a potassium uptake protein required for Francisella tularensis systemic dissemination in mice
Alkhuder, PloS one 2010 - “...FTL_1860 (or purL, encoding a phosphoribosyl formylglycinamidine synthase); and the other, in the adjacent gene FTL_1861 (or purF, encoding an amidophosphoribosyl transferase). One mutant ( FTL_0028 ) had an insertion upstream of a pyrimidine biosynthetic gene (132 bp upstream of pyrB , encoding an aspartate carbamoyltransferase)....”
- “...aroE Shikimate 5-dehydrogenase Metabolism; Amino Acid Metabolism FTL_1860 1,791,836 purL Phosphoribosylformylglycinamidine synthase Metabolism; Nucleotide Metabolism FTL_1861 1,792,631 purF Amidophosphoribosyltransferase Metabolism; Nucleotide Metabolism FTL_1962 1,889,732 Hypothetical protein Unknown FTL_0699 b 687,717 rluD Ribosomal large subunit pseudouridine synthase D Genetic Information Processing; Translation FTL_0028 b 27,424 pyrB Aspartate...”
CPAR2_208260 uncharacterized protein from Candida parapsilosis
55% identity, 91% coverage
ADE4 / P04046 phosphoribosylpyrophosphate amidotransferase (EC 2.4.2.14) from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (see 3 papers)
PUR1_YEAST / P04046 Amidophosphoribosyltransferase; ATase; Glutamine phosphoribosylpyrophosphate amidotransferase; EC 2.4.2.14 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see paper)
YMR300C Ade4p from Saccharomyces cerevisiae
53% identity, 98% coverage
- catalytic activity: 5-phospho-beta-D-ribosylamine + L-glutamate + diphosphate = 5- phospho-alpha-D-ribose 1-diphosphate + L-glutamine + H2O (RHEA:14905)
cofactor: Mg(2+) Note=Binds 1 Mg(2+) ion per subunit - Selection markers for transformation of the sequenced reference monokaryon Okayama 7/#130 and homokaryon AmutBmut of Coprinopsis cinerea
Dörnte, Fungal biology and biotechnology 2020 - “...classic name Chromosomal location in OK130* PRPP to PRA Glutamine amidophosphoribosyltransferase (GPAT) PurF, CAA30971 Ade4, P04046 CC1G_01222T0, likely Ade2 Chr_2:1,228,1391,230,457 PRA to GAR Glycinamide ribonucleotide synthase (GARS) PurD, CAA36213 N-terminal domain of bifunctional Ade5,7, NP_011280 CC1G_01782T0, N-terminal domain of bifunctional Ade8 Chr_1:2,548,1092,550,858 GAR to FGAR Phosphoribosylglycinamide...”
- Response mechanism of Saccharomyces cerevisiae under benzoic acid stress in ethanol fermentation
Xiu-Feng, Scientific reports 2024 - “...1.04 Catalyze the synthesis of adenosine monophosphate from inosine 5 monophosphate during purine nucleotide biosynthesis YMR300C ADE4 3.29 Aminophosphoribose transferase YLR359W ADE13 2.08 Catalyze de novo purine nucleotide biosynthesis YDR408C ADE8 1.72 Phosphoribose cinnamamide transformylase YGR061C ADE6 1.84 formylglycine-nucleotide-synthase YAR015W ADE1 2.83 N-succinyl-5-aminoimidazole-4-carboxyamide nucleotide synthetase YDR399W...”
- Improved production of Taxol<sup>®</sup> precursors in S. cerevisiae using combinatorial in silico design and metabolic engineering
Malcı, Microbial cell factories 2023 - “...Glucose Knock-out ILV2 (YMR108W) OptForce Acetyl-CoA Galactose Overexpression TRR1 (YDR353W) OptForce Acetyl-CoA Galactose Overexpression ADE4 (YMR300C) OptForce Acetyl-CoA Glucose & galactose Overexpression ADE5,7 (YGL234W) OptForce Acetyl-CoA Glucose & galactose Overexpression ADE13 (YLR359W) OptForce Acetyl-CoA Glucose & galactose Overexpression ECM31 (YBR176W) OptForce Acetyl-CoA Glucose & galactose Overexpression...”
- Low Toxicological Impact of Commercial Pristine Multi-Walled Carbon Nanotubes on the Yeast Saccharomyces cerevisiae
Martel, Nanomaterials (Basel, Switzerland) 2021 - “...nitrogen: ICR7 (YFR055W), and sulfur sources: SAM3 (YPL274W); purine biosynthesis and accumulation: ADE4 and FCY2 (YMR300C and YER056C); and ER-associated protein degradation: MNS1 (YJR131W). FRE1 produces a cell-surface iron reductase whose overexpression is induced during iron and copper depletion and causes copper sensitivity. Interestingly, the overexpression...”
- “...is overexpressed upon DNA replication stress [ 52 ], and the phosphoribosylpyrophosphate amidotransferase coding gene (YMR300C; ADE4), which is overexpressed in situations of oxidative stress [ 53 ], were upregulated in the 800 mg L 1 exposure condition. Amongst the downregulated genes (123), the GO analysis...”
- Yeast to Study Human Purine Metabolism Diseases
Daignan-Fornier, Cells 2019 - “...and IMP cyclohydrolase Ade17 YMR120C AICAR transformylase and IMP cyclohydrolase Ade2 YOR128C Phosphoribosylaminoimidazole carboxylase Ade4 YMR300C Phosphoribosylpyrophosphate amidotransferase Ade5,7 YGL234W Aminoimidazole ribonucleotide synthetase and glycinamide ribotide synthetase Ade6 YGR061C Formylglycinamidine-ribonucleotide synthetase Ade8 YDR408C Phosphoribosyl-glycinamide transformylase Adk1 YDR226W Adenylate kinase Adk2 YER170W Adenylate kinase Ado1 YJR105W Adenosine...”
- Yeast screen for modifiers of C9orf72 poly(glycine-arginine) dipeptide repeat toxicity
Chai, FEMS yeast research 2018 - “...(7/133, P = 3.488e-5) ade1 YAR015W ade2 YOR128C ade4 YMR300C ade5, 7 YGL234W ade6 S000003293 ade8 YDR408C bas1 YKR099W Human ortholog(s) Function part of a...”
- Transcriptional profiling reveals molecular basis and novel genetic targets for improved resistance to multiple fermentation inhibitors in Saccharomyces cerevisiae
Chen, Biotechnology for biofuels 2016 - “...YJL101C, YJR010W, YJR137C, YJR139C, YKL001C, YKR080W, YLR058C, YLR142W , YLR180W, YLR231C, YLR303W, YMR169C , YMR189W, YMR300C, YNL135C, YNL160W, YOL058W, YOL086C, YOR184W, YOR375C YCL030C, YDR007W, YDR502C , YER091C , YGL245W, YGL256W , YJL200C, YJR016C, YLR142W , YMR169C , YMR250W YCL030C, YCR005C, YDL168W, YDL182W, YDR007W, YDR135C, YDR502C ,...”
- “...YDR011W, YDR050C, YDR135C, YDR214W, YDR502C, YER043C, YER070W, YFL045C, YGR209C, YGR281W, YKR080W, YLR043C, YLR180W, YLR231C, YMR120C, YMR300C, YNL112W, YNL220W, YOL086C, YOR128C, YOR153W, YOR184W, YOR328W, YPL036W, YPL058C YCR021C , YDR502C, YGR043C, YGR256W, YKL151C, YLR249W, YMR105C, YOR128C, YPL036W YBL022C, YCR021C , YDL055C, YDR011W, YDR135C, YDR214W, YDR502C, YEL039C, YER043C, YFL037W,...”
- Regulation of amino acid, nucleotide, and phosphate metabolism in Saccharomyces cerevisiae
Ljungdahl, Genetics 2012 - “...ORF ADE4 ADE5,-7 ADE8 ADE6 ADE5,-7 ADE2 ADE1 YMR300C YGL234W YDR408C YGR061C YGL234W YOR128C YAR015W ADE13 ADE16 YLR359W YLR028C ADE17 YMR120C Activity in IMP...”
- Comparative transcriptomic and proteomic profiling of industrial wine yeast strains
Rossouw, Applied and environmental microbiology 2010 - “...CYS4 DAK1 DPM1 ECM17 EGD1 EGD2 YOR128C YGR204W YMR300C YGL234W YOL086C YMR083W YDR226W YPL061W YJR105W YKL157W YOL058W YHR018C YDR127W YGL148W YDR035W YBR249C...”
- More
CNAG_02853 amidophosphoribosyltransferase from Cryptococcus neoformans var. grubii H99
54% identity, 88% coverage
- Capsule growth in Cryptococcus neoformans is coordinated with cell cycle progression
García-Rodas, mBio 2014 - “...Aldoketoreductase 1.94 CNAG_01257 974 Chaperone 1.92 CNAG_01750 1222 Ornithine carbamyltransferase 1.8 CNAG_02813 1062 Aminotransferase 1.79 CNAG_02853 860 Malate synthase 1.7 CNAG_05653 1149 Adenylsuccinate synthase 1.68 CNAG_02858 2227 Phosphogluconate dehydrogenase 1.67 CNAG_07561 598 Heat shock protein 1.59 CNAG_05199 915 UTP-glucose-1-phosphate uridyltransferase 1.51 CNAG_02748 1133 Methione adenosyltransferase 1.52...”
ade4 / RF|NP_594961.1 amidophosphoribosyltransferase Ade4; EC 2.4.2.14 from Schizosaccharomyces pombe (see paper)
SPAC4D7.08c amidophosphoribosyltransferase (PMID 8082193) from Schizosaccharomyces pombe
51% identity, 92% coverage
- CharProtDB Source (per GeneDB): GeneDB_Spombe
- S. pombe genome deletion project: an update
Spirek, Cell cycle (Georgetown, Tex.) 2010 - “...SPAC23C4.04c * viable SPCC1682.05c * essential SPAC27E2.12 * viable SPBC119.10 * viable SPAC56F8.07 * essential SPAC4D7.08c * viable SPAPB1A10.16 * viable SPAC1786.02 viable SPCC1393.14 * viable SPAC1F3.04c * viable SPAC30D11.09 viable SPAC23D3.14c * viable SPAC3A11.05c viable SPAC2F7.16c * viable SPBC543.04 essential SPAC9.09 * viable SPCC191.02c viable...”
AFUA_6G03750 amidophosphoribosyltransferase from Aspergillus fumigatus Af293
51% identity, 84% coverage
- RNAseq analysis of Aspergillus fumigatus in blood reveals a just wait and see resting stage behavior
Irmer, BMC genomics 2015 - “...AFUA_2G02500 hypothetical protein 2.26 1.60 AFUA_5G04010 tRNA-splicing endonuclease subunit Sen2 2.32 AFUA_2G02970 hypothetical protein 2.34 AFUA_6G03750 amidophosphoribosyltransferase 2.38 AFUA_8G01850 phosphate-repressible phosphate permease 2.43 AFUA_8G05720 DUF567 domain protein 2.44 AFUA_4G14190 hypothetical protein 2.46 AFUA_7G06030 alpha-ketoglutarate-dependent taurine 2.49 AFUA_4G12940 hypothetical protein 2.78 1.42 AFUA_5G08680 mitochondrial GTPase (YlqF) 2.93...”
CHLREDRAFT_122298 uncharacterized protein from Chlamydomonas reinhardtii
50% identity, 83% coverage
NCU04216 amidophosphoribosyltransferase from Neurospora crassa OR74A
50% identity, 89% coverage
- Experimental Evolution of Multidrug Resistance in Neurospora crassa under Antifungal Azole Stress
Zhou, Journal of fungi (Basel, Switzerland) 2022 - “...above, and three hypothetical protein encoding genes without available mutants ( NCU16667 , NCU02014 and NCU04216 ) ( Tables S5 and S6 ). The drug susceptibilities were tested for the available knockout mutants of eight mutated genes ( NCU08055 , NCU01997 , NCU09308 , NCU02036 ,...”
- “...( NCU02036 , NCU02548 , NCU03491 , NCU16667 , NCU03641 , NCU02014 , NCU02243, and NCU04216 ). In addition, NCU02051 and NCU02024 had mutations in all three evolved strains. Four genes, including NCU16302 , NCU01967 , NCU02867, and NCU05591 presented mutations only in 26thV1. NCU16302 encodes...”
- Neurospora Heterokaryons with Complementary Duplications and Deficiencies in Their Constituent Nuclei Provide an Approach to Identify Nucleus-Limited Genes
Giri, G3 (Bethesda, Md.) 2015 - “...GL891302, nucleotides 1022253 to 1024228); Nc ( N. crassa OR74A FungiDB database ( fungidb.org ) NCU04216, nucleotides 5238499 to 5240480); and the RIP-induced mutant alleles RIP1 (KP006653), RIP2 (KP006654), RIP3C (KR349720), and RIP3T (KR349721). The RIP3C sequence corresponds to nucleotides 5238499 to 5240184 of the Nc...”
- Use of 1H nuclear magnetic resonance to measure intracellular metabolite levels during growth and asexual sporulation in Neurospora crassa
Kim, Eukaryotic cell 2011 - “...of California, Berkeley NCU00461 NCU06724 NCU04856 NCU04216 NCU04303 NCU04118 NCU03935 NCU04277 NCU03425 NCU07982 NCU01666 NCU03608 NCU04579 NCU04754 2.3.1.1...”
UV8b_00289 uncharacterized protein from Ustilaginoidea virens
47% identity, 89% coverage
- Transcriptomic and Metabolomic Analyses Provide Insights into the Pathogenic Mechanism of the Rice False Smut Pathogen Ustilaginoidea virens
Fu, International journal of molecular sciences 2023 - “...the genes UV8b_06120 , UV8b_01796 , UV8b_07879 , UV8b_04621 , UV8b_02433 , UV8b_02378 , and UV8b_00289 , and positively regulated glutamic acid. In starch and sugar metabolism, four metabolites were involved: glucose-6-phosphate, trehalose, sucrose, and d-fructose ( Figure 8 D and Supplementary Table S7 ). The...”
F2XMV3 amidophosphoribosyltransferase (EC 2.4.2.14) from Paraphaeosphaeria minitans (see paper)
49% identity, 82% coverage
SGRA_p0017 amidophosphoribosyltransferase from Saprospira grandis str. Lewin
46% identity, 96% coverage
Bd3009 amidophosphoribosyltransferase from Bdellovibrio bacteriovorus HD100
38% identity, 95% coverage
CD630_02200, CDIF630erm_00342 amidophosphoribosyltransferase from Clostridioides difficile 630
39% identity, 95% coverage
- Iron Regulation in Clostridioides difficile
Berges, Frontiers in microbiology 2018 - “...mutase 0.09 -0.24 2.12 0.80 CD630_02190 CDIF630erm_00341 purC Phosphoribosylaminoimidazolesuccino carboxamide synthase -0.22 -0.21 2.59 0.41 CD630_02200 CDIF630erm_00342 purF Amidophosphoribosyltransferase 1.65 -0.69 2.96 0.09 CD630_02210 CDIF630erm_00343 purG Phosphoribosylformylglycinamidinecyclo-ligase 0.60 -0.76 2.94 -0.69 CD630_02220 CDIF630erm_00344 purN Phosphoribosylglycinamideformyl transferase 2.66 -0.41 3.49 -0.04 CD630_02230 CDIF630erm_00345 purH Bifunctional phosphoribosylaminoimidazole carboxamideformyltransferase/IMP...”
- “...0.09 -0.24 2.12 0.80 CD630_02190 CDIF630erm_00341 purC Phosphoribosylaminoimidazolesuccino carboxamide synthase -0.22 -0.21 2.59 0.41 CD630_02200 CDIF630erm_00342 purF Amidophosphoribosyltransferase 1.65 -0.69 2.96 0.09 CD630_02210 CDIF630erm_00343 purG Phosphoribosylformylglycinamidinecyclo-ligase 0.60 -0.76 2.94 -0.69 CD630_02220 CDIF630erm_00344 purN Phosphoribosylglycinamideformyl transferase 2.66 -0.41 3.49 -0.04 CD630_02230 CDIF630erm_00345 purH Bifunctional phosphoribosylaminoimidazole carboxamideformyltransferase/IMP cyclohydrolase...”
DR0220 amidophosphoribosyltransferase from Deinococcus radiodurans R1
42% identity, 93% coverage
BA0295 amidophosphoribosyltransferase from Bacillus anthracis str. Ames
GBAA0295 amidophosphoribosyltransferase from Bacillus anthracis str. 'Ames Ancestor'
40% identity, 93% coverage
- Gene expression control by Bacillus anthracis purine riboswitches
Kirchner, RNA (New York, N.Y.) 2017 - “...(phosphoribosylformylglycinamidine synthase; BA0292); purQ (phosphoribosylformylglycinamidine synthase; BA0293); purL (phosphoribosylformylglycinamidine synthase; BA0294): purF (glutamine phosphoribosyldiphosphate amidotransferase; BA0295); purM (phosphoribosylaminoimidazole synthase; BA0296); purN (phosphoribosylglycinamide formyltransferase; BA0297); purH (phosphoribosylaminoimidazole carboxamide formyltransferase; BA0298); purD (phosphoribosylglycinamide synthetase; BA0299) ( Ebbole and Zalkin 1987 ; Johansen et al. 2003 ). In general,...”
- Transcriptional profiling of Bacillus anthracis during infection of host macrophages
Bergman, Infection and immunity 2007 - “...change (quantitative RT-PCR) pXO1_166 pXO1_172 GBAA0226 GBAA0295 GBAA0797 GBAA1159 GBAA2368 GBAA4660 GBAA4788 GBAA5490 pagR (transcriptional repressor) lef...”
BC0330 Amidophosphoribosyltransferase from Bacillus cereus ATCC 14579
40% identity, 93% coverage
Synpcc7942_0004 amidophosphoribosyltransferase from Synechococcus elongatus PCC 7942
38% identity, 92% coverage
- Sequence determinants of circadian gene expression phase in cyanobacteria
Vijayan, Journal of bacteriology 2013 - “...phase? Previous studies of the class II purF (synpcc7942_0004) promoter identified an 89-nucleotide fragment that specifies class II phasing (9), and analysis...”
- “...and synpcc7942_2046); P1 and P4 are class II genes (synpcc7942_0004 and synpcc7942_0466). The promoter fragment from a control class II strain (AMC 408 [9, 19])...”
Mlab_0202 hypothetical protein from Methanocorpusculum labreanum Z
43% identity, 89% coverage
- Purine biosynthesis in archaea: variations on a theme
Brown, Biology direct 2011 - “.... Out of the Euryarchaeota studied, only Methanocorpusculum labreanum 's genome includes two candidate sequences, Mlab_0202 and Mlab_0150. As Mlab_0150's predicted protein has a serine in place of the active site cysteine, we suspect that Mlab_0150 does not encode a glutamine phosphoribosylpyrophosphate amidotransferase, and that Mlab_0202...”
- “...appears to be a relatively recent duplication of Mlab_0202, as it is most similar to Mlab_0202 and the putative purF s in closely related species. The most promising PurF candidates in Methanosaeta thermophila, Desulfurococcus kamchatkensis , and Cenarchaeum symbiosum initially appeared to be lacking the active...”
CAC1392 Glutamine phosphoribosylpyrophosphate amidotransferase from Clostridium acetobutylicum ATCC 824
39% identity, 95% coverage
Cthe_1249 amidophosphoribosyltransferase from Clostridium thermocellum ATCC 27405
39% identity, 92% coverage
Mthe_0230 amidophosphoribosyltransferase from Methanosaeta thermophila PT
42% identity, 90% coverage
- Purine biosynthesis in archaea: variations on a theme
Brown, Biology direct 2011 - “...IMG are underlined, with protein sequences for our proposed earlier start sites shown for DKAM_0523, Mthe_0230, and CENSYa_1910. The cysteine nucleophile is in bold. Alignment and phylogenetic tree generation for the two PurF-like proteins in each of the Crenarchaeota revealed that two distinct clusters (Additional Files...”
- “...added or missing domains and conserved residues. The DNA sequences flanking the purF -like genes Mthe_0230 and CENSYa_1910 were retrieved from the UCSC Archaeal Genome Browser [ 72 ] and translated after problems with the predicted protein sequence available through both this source and IMG were...”
sll0757 amidophosphoribosyltransferase from Synechocystis sp. PCC 6803
39% identity, 92% coverage
SPy0026 putative phosphoribosylpyrophosphate amidotransferase from Streptococcus pyogenes M1 GAS
40% identity, 95% coverage
- Adaptation of group A Streptococcus to human amniotic fluid
Sitkiewicz, PloS one 2010 - “...SF370 Locus ML LL S Descriptions M28_Spy0022 SPy0024 - 36.60 10.73 35.84 Phosphoribosylaminoimidazole-succinocarboxamide synthase M28_Spy0024 SPy0026 purF 24.03 10.89 13.45 Amidophosphoribosyltransferase M28_Spy0026 SPy0028 purN 37.86 18.63 17.69 Phosphoribosylglycinamide formyltransferase M28_Spy0027 purH 17.83 3.68 3.85 Phosphoribosylaminoimidazolecarboxamide formyltransferase M28_Spy0029 SPy0032 purD 15.56 9.89 11.31 Phosphoribosylamine-glycine ligase M28_Spy0030 SPy0033...”
NJ7G_1314 amidophosphoribosyltransferase from Natrinema sp. J7-2
41% identity, 90% coverage
- Effects of salinity on the cellular physiological responses of Natrinema sp. J7-2
Mei, PloS one 2017 - “...1915, 1916 nat: NJ7G_0116, 1899, 3496 Ala, Asp and Glu nat: NJ7G_1599, 2460, 2607 nat: NJ7G_1314, 1503, 2663, 2851, 3123, 3447, 3448, 4042 The above results showed that a marked difference in cellular transcript levels occurs when Natrinema sp. J7-2 cells were cultured in different salinities....”
gbs0025 Unknown from Streptococcus agalactiae NEM316
40% identity, 95% coverage
- Transcriptomic and genomic evidence for Streptococcus agalactiae adaptation to the bovine environment
Richards, BMC genomics 2013 - “...NEM316 B gbs1154 guaC Guanosine 5-monophosphate oxidoreductase FSL S3-586 B FSLS3586_09702 purF Amidophosphoribosyltransferase NEM316 B gbs0025 purF Amidophosphoribosyltransferase FSL S3-586 B FSLS3586_09687 GNAT family acetyltransferase NEM316 B gbs0028 GNAT family acetyltransferase FSL S3-586 B FSLS3586_09712 purC Phosphoribosylaminoimidazole-succinocarboxamide synthase NEM316 B gbs0023 purC Phosphoribosylaminoimidazole-succinocarboxamide synthase FSL S3-586...”
- Transcriptome adaptation of group B Streptococcus to growth in human amniotic fluid
Sitkiewicz, PloS one 2009 - “...2.8 Ribose-phosphate pyrophosphokinase gbs0023 - 32.8 28.0 Phosphoribosylaminoimidazole-succinocarboxamide synthase gbs0024 - 38.9 56.1 Phosphoribosylformylglycinamidine synthase gbs0025 purF 25.1 30.7 Amidophosphoribosyltransferase gbs0026 purM 25.6 31.8 5.4 Phosphoribosylformylglycinamidine cyclo-ligase gbs0027 purN 32.0 41.8 Phosphoribosylglycinamide formyltransferase gbs0028 - 21.0 26.8 9.1 Zwittermicin A resistance protein zmaR gbs0029 purH 27.6...”
M28_Spy0024 amidophosphoribosyltransferase from Streptococcus pyogenes MGAS6180
39% identity, 95% coverage
- Adaptation of group A Streptococcus to human amniotic fluid
Sitkiewicz, PloS one 2010 - “...6180 SF370 Locus ML LL S Descriptions M28_Spy0022 SPy0024 - 36.60 10.73 35.84 Phosphoribosylaminoimidazole-succinocarboxamide synthase M28_Spy0024 SPy0026 purF 24.03 10.89 13.45 Amidophosphoribosyltransferase M28_Spy0026 SPy0028 purN 37.86 18.63 17.69 Phosphoribosylglycinamide formyltransferase M28_Spy0027 purH 17.83 3.68 3.85 Phosphoribosylaminoimidazolecarboxamide formyltransferase M28_Spy0029 SPy0032 purD 15.56 9.89 11.31 Phosphoribosylamine-glycine ligase M28_Spy0030...”
SSUSC84_0027 putative amidophosphoribosyltransferase precursor from Streptococcus suis SC84
37% identity, 95% coverage
- Screening of Virulence-Related Transcriptional Regulators in Streptococcus suis
Liu, Genes 2020 - “..., and SSUSC84_1726 ) were chosen for qRT-PCR to confirm RNA-Seq data. For sitR , SSUSC84_0027 , SSUSC84_0029 , SSUSC84_0875 , SSUSC84_0031 , SSUSC84_1526 , SSUSC84_1572 , SSUSC84_1876 , and SSUSC84_1927 and for sxvR , SSUSC84_0029 , SSUSC84_0275 , SSUSC84_0648 , SSUSC84_0900 , SSUSC84_1526 , SSUSC84_1572...”
LBA_RS07615 amidophosphoribosyltransferase from Lactobacillus acidophilus NCFM
39% identity, 93% coverage
- Metabolomic Analysis of Lactobacillus acidophilus, L. gasseri, L. crispatus, and Lacticaseibacillus rhamnosus Strains in the Presence of Pomegranate Extract
Chamberlain, Frontiers in microbiology 2022 - “...subunit purS (LBA_RS07630), pur synthase subunit purQ (LBA_RS07625), pur synthase subunit purL (LBA_RS07620), amidophosphoribosyltransferase (purF; LBA_RS07615), pur cyclo-ligase (purM; LBA_RS07610), phosphoribosylglycinamide formyltransferase (purN; LBA_RS07605), bifunctional AICAR transformylase/IMP cyclohydrolase (purH; LBA_RS07600), and phosphoribosylamine-glycine ligase (purD; LBA_RS07595). The third locus includes adenylosuccinate synthase (purA; LBA_RS09205) and adenylosuccinate lyase...”
CPE0683 phosphoribosylpyrophosphate amidotransferase from Clostridium perfringens str. 13
38% identity, 96% coverage
- The NEAT Domain-Containing Proteins of Clostridium perfringens Bind Heme
Choo, PloS one 2016 - “...Two component sensor histidine kinase YesM (CPE0574) C A C A 850962 A102D Amino phosphoribosyltransferase (CPE0683) C A 1051900 F205L NADH-dependent butanol dehydrogenase or iron-containing alcohol dehydrogenase (CPE0858) G T 1169378 E602D Hypothetical protein (CPE0969) G T 1339585 E134D Triphosphoribosyl-dephospho-CoA synthase, CitG (CPE1145) G T 1381825...”
LLNZ_05020 amidophosphoribosyltransferase from Lactococcus cremoris subsp. cremoris NZ9000
39% identity, 92% coverage
- Genomics and transcriptomics analysis reveals the mechanism of isobutanol tolerance of a laboratory evolved Lactococcus lactis strain
Gupta, Scientific reports 2020 - “...14 LLNZ_01920 Dipeptide transport ATP-binding protein dppD ABC transporters 15 LLNZ_11520 Galactokinase Galactose metabolism 16 LLNZ_05020 Amidophosphoribosyltransferase Purine metabolism 17 LLNZ_01800 Putative cobalt ABC transporter ATP-binding protein ABC transporters 18 LLNZ_03855 Neopullulanase Starch and sucrose metabolism 19 LLNZ_09415 Menaquinone biosynthesis related protein Ubiquinone and other terpenoid-quinone...”
- “...component 5.12 Peptide uptake 3 LLNZ_05325 Anthranilate phosphoribosyltransferase 4.98 Phenylalanine, tyrosine and tryptophan biosynthesis 4 LLNZ_05020 Amidophosphoribosyltransferase 4.77 Alanine, aspartate and glutamate metabolism 5 LLNZ_05715 Dihydroorotate dehydrogenase electron transfer subunit 4.29 Pyrimidine metabolism 6 LLNZ_05720 Dihydroorotate dehydrogenase 1B 4.19 Pyrimidine metabolism 7 LLNZ_09690 Aminopeptidase P 4.12...”
MMP1146 Amidophosphoribosyltransferase from Methanococcus maripaludis S2
40% identity, 89% coverage
D820_RS09345 amidophosphoribosyltransferase from Streptococcus mutans ATCC 25175
38% identity, 95% coverage
- Transcriptomic Stress Response in Streptococcus mutans following Treatment with a Sublethal Concentration of Chlorhexidine Digluconate
Muehler, Microorganisms 2022 - “...D820_RS08275, D820_RS08270, D820_RS04975, D820_RS04980, D820_RS08965 5.00 10 5 5-Aminoimidazole ribonucleotide biosynthesis D820_RS09340, D820_RS09355, D820_RS09335, D820_RS09300, D820_RS09345 2.00 10 3 Glycan pathway D820_RS07040, D820_RS02810, D820_RS02685, D820_RS02800, D820_RS02795, D820_RS02790, D820_RS02805 3.00 10 3 L-ascorbate degradation D820_RS08215, D820_RS08265, D820_RS08275, D820_RS08270 6.00 10 3 L-histidine biosynthesis D820_RS03965, D820_RS03970, D820_RS03955, D820_RS03950,...”
- “...Purine nucleotide biosynthesis D820_RS04105, D820_RS04110, D820_RS04100, D820_RS09285, D820_RS09290, D820_RS09325, D820_RS09250, D820_RS08295, D820_RS09340, D820_RS09355, D820_RS09335, D820_RS09300, D820_RS09345 1.00 10 2 Inosine-5-phosphate biosynthesis D820_RS09285, D820_RS09290, D820_RS09325, D820_RS09250 2.00 10 2 Downregulated Lactose degradation D820_RS02995, D820_RS02980, D820_RS02985, D820_RS03025, D820_RS02990 4.00 10 6 Galactose degradation D820_RS02995, D820_RS02980, D820_RS02985, D820_RS03025, D820_RS02990...”
BL1121 amidophosphoribosyltransferase precursor from Bifidobacterium longum NCC2705
40% identity, 92% coverage
HVO_2721 amidophosphoribosyltransferase from Haloferax volcanii DS2
43% identity, 87% coverage
- The archaeal Lsm protein binds to small RNAs
Fischer, The Journal of biological chemistry 2010 - “...for an amidophosphoribosyltransThe Lsm Reading Frame Overlaps ferase (HVO_2721). The genomic region is given below in nucleotides. B, the reading frames for the...”
BaGK_03970 amidophosphoribosyltransferase from Bacillus atrophaeus
39% identity, 96% coverage
DTX73_12820 amidophosphoribosyltransferase from Enterococcus faecium
40% identity, 95% coverage
- High-quality genome sequence assembly of R.A73 Enterococcus faecium isolated from freshwater fish mucus
El, BMC microbiology 2020 - “...A/cerein 7B family (DTX73_09720). Other genes possess different roles implicated in amidophosphoribosyl transferase (EC 2.4.2.14) (DTX73_12820), acetyl-coenzyme A chain carboxyl beta transferase (EC 6.4.1.2) (DTX73_04140), a synthase dihydrofolate (EC 6.3.2.12) (DTX73_05510), an rRNA pseudouridine synthase a (EC 4.2.1.70) (DTX73_10445) and the bifunctional folylpolyglutamate synthase/dihydrofolate synthase (EC...”
EQB38_RS06285 amidophosphoribosyltransferase from Enterococcus faecium
40% identity, 95% coverage
- Colonization of vancomycin-resistant Enterococcus faecium in human-derived colonic epithelium: unraveling the transcriptional dynamics of host-enterococcal interactions
Stege, FEMS microbes 2024 - “...EQB38_RS06245, purB ; EQB38_RS06265, purC ; EQB38_RS06270, purS ; EQB38_RS06275, purQ ; EQB38_RS06280, purl ; EQB38_RS06285, purF ; EQB38_RS06290, purM ; EQB38_RS06295, purN ; EQB38_RS06300, purH ; EQB38_RS06305, purD EQB38_RS06310), while cluster 94 represents genes that are involved in pyrimidine metabolism ( pyrR , EQB38_RS07020, pyrB,...”
HSISS4_00024 amidophosphoribosyltransferase from Streptococcus salivarius
38% identity, 95% coverage
PUR1_BACSU / P00497 Amidophosphoribosyltransferase; ATase; Glutamine phosphoribosylpyrophosphate amidotransferase; GPATase; EC 2.4.2.14 from Bacillus subtilis (strain 168) (see 3 papers)
BSU06490 amidophosphoribosyltransferase from Bacillus subtilis subsp. subtilis str. 168
38% identity, 96% coverage
- function: Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine.
catalytic activity: 5-phospho-beta-D-ribosylamine + L-glutamate + diphosphate = 5- phospho-alpha-D-ribose 1-diphosphate + L-glutamine + H2O (RHEA:14905)
cofactor: Mg(2+) (Binds 1 Mg(2+) ion per subunit.)
cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster per subunit. The [4Fe-4S] cluster requires a potential lower than -600 mV for reduction.)
subunit: Homotetramer. - The Blueprint of a Minimal Cell: MiniBacillus
Reuß, Microbiology and molecular biology reviews : MMBR 2016 - “...(NH3, glutamine) dUTPase Thymidylate synthase B Thymidylate kinase BSU06490 No 2.4.2.14 1GPH B. subtilis purD purN BSU06530 BSU06510 No No 6.3.4.13 2.1.2.2 2XD4...”
- Fine-scale differentiation between Bacillus anthracis and Bacillus cereus group signatures in metagenome shotgun data
Petit, PeerJ 2018 - “...Afshinnekoo et al., 2015a ), two samples ( P00134 ( SRR1748707 , SRR1748708 ), and P00497 ( SRR1749083 )) were reported to contain reads that mapped to Bacillus anthracis based on results obtained using the Metaphlan software ( Segata et al., 2012 ). We found that...”
- “...( Brown et al., 2016 ). However, a similar number of reads from P00134 and P00497 (765,466 reads and 265,776 reads, respectively) mapped to the B.cereus 10987 chromosome. We also found that P00134 and P00497 reads mapped to the both the pXO1 and pXO2 plasmids in...”
- Genomic Insights into Nematicidal Activity of a Bacterial Endophyte, Raoultella ornithinolytica MG against Pine Wilt Nematode.
Shanmugam, The plant pathology journal 2018 - “...< 0.001) Known nematicidal factor (Uniprot ID) Homolog in R. ornithinolytica MG E -Value Amidophosphoribosyltransferase (P00497) WP_015583773.1 2e-104 WP_015585459.1 8e-16 Calcium-transporting ATPase (Q5KCV6) WP_004863810.1 2e-159 WP_004859205.1 2e-140 WP_015585300.1 4e-43 WP_015585008.1 8e-17 WP_015584876.1 5e-13 Chitinase (Q5MNU2, A9LI60, A6Y9S8, B5L0W0, A9Q0I9 and Q8TF88) WP_004860814.1 3e-27 Serrawettin W2 (Fragment)...”
- Comprehensive benchmarking and ensemble approaches for metagenomic classifiers
McIntyre, Genome biology 2017 - “...deeply sequenced, complex environmental sample from the New York City subway system (100M readsfrom sample P00497), we subsampled the full dataset to identify the depth (5, 10, 15, 20, 30, 40, 50, and 75M reads) at which each tool recovered its maximum number of predicted species...”
- “...survey of the NYC subway metagenome, Afshinnekoo et al. noted that two samples (P00134 and P00497) showed reads that mapped to Bacillus anthracis using MetaPhlAn2, SURPI, and MegaBLAST-MEGAN, but it has been since shown by the authors and others that this species identification was incorrect. We...”
UC7_RS13055 amidophosphoribosyltransferase from Enterococcus caccae ATCC BAA-1240
40% identity, 93% coverage
1gph1 / P00497 Structure of the allosteric regulatory enzyme of purine biosynthesis (see paper)
38% identity, 96% coverage
- Ligands: iron/sulfur cluster; adenosine monophosphate (1gph1)
Q6T7F3 amidophosphoribosyltransferase from Nicotiana tabacum
40% identity, 81% coverage
- New In Vivo Approach to Broaden the Thioredoxin Family Interactome in Chloroplasts
Ancín, Antioxidants (Basel, Switzerland) 2022 - “...regulation A0A1S4DL03 50S ribosomal protein L18 Q9SX68 50S ribosomal protein L18 83.8 x 1 stroma Q6T7F3 Amidophosphoribosyltransferase Q9STG9 Amidophosphoribosyltransferase 2 (ATase2) 77.6 x x 9 stroma A0A140G1V5 Ribosomal protein S3 P56798 30S ribosomal protein S3 87.6 x x 3 stroma A0A1S4CR05 Uridine kinase Q9FKS0 Uridine kinase-like...”
T303_01340 amidophosphoribosyltransferase from Streptococcus thermophilus ASCC 1275
38% identity, 95% coverage
A8AU98 Amidophosphoribosyltransferase from Streptococcus gordonii (strain Challis / ATCC 35105 / BCRC 15272 / CH1 / DL1 / V288)
39% identity, 93% coverage
lmo1768 glutamine phosphoribosylpyrophosphate amidotransferase from Listeria monocytogenes EGD-e
38% identity, 96% coverage
P52418 Amidophosphoribosyltransferase, chloroplastic from Glycine max
39% identity, 81% coverage
LMOf2365_1793 amidophosphoribosyltransferase from Listeria monocytogenes str. 4b F2365
LMRG_02503 amidophosphoribosyltransferase from Listeria monocytogenes 10403S
38% identity, 96% coverage
- Responses of Escherichia coli and Listeria monocytogenes to ozone treatment on non-host tomato: Efficacy of intervention and evidence of induced acclimation
Shu, PloS one 2021 - “.... monocytogenes , genes associated with stress response were under high dose, including an amidophosphoribosyltransferase (LMOf2365_1793), 2-oxoisovalerate dehydrogenase E1 subunit beta (LMOf2365_1390), transketolase (LMOf2365_2640), and ABC transporter ATP-binding protein/permease (LMOf2365_2732). Other types of stress-related genes such as ribose-5-phosphate isomerase B (LMOf2365_2654), heat shock protein GrpE (LMOf2365_1493),...”
- Characterization of the biofilm phenotype of a Listeria monocytogenes mutant deficient in agr peptide sensing
Zetzmann, MicrobiologyOpen 2019 - “...( dltB ; lmrg_02072 ), lmo0974 ( dltA ; lmrg_02073 ), lmo1768 ( purF ; lmrg_02503 ), and lmo2785 ( kat ; lmrg_01912 ). With respect to the biofilm phenotype of the agrD mutant, especially the identification of genes of the dlt operon and the flagellar...”
- Identification of Listeria monocytogenes determinants required for biofilm formation
Alonso, PloS one 2014 - “...lmrg_01771 910.43 9 4 purD lmrg_02507 870.14 1 1 purE lmrg_02497 900.28 1 1 purF lmrg_02503 900.11 2 2 purH lmrg_02506 900.28 2 1 purL lmrg_02502 1000.21 1 1 purN lmrg_02505 1000.57 1 1 Isocitrate dehydrogenase lmrg_01401 1000.38 1 1 2-oxovalerate dehydrogenase component E1 lmrg_00823 980.35...”
G7JL07 amidophosphoribosyltransferase from Medicago truncatula
40% identity, 81% coverage
SP_0046 amidophosphoribosyltransferase from Streptococcus pneumoniae TIGR4
38% identity, 95% coverage
SPD_0053 amidophosphoribosyltransferase from Streptococcus pneumoniae D39
spr0047 Amidophosphoribosyl transferase from Streptococcus pneumoniae R6
38% identity, 95% coverage
- Dynamic Pneumococcal Genetic Adaptations Support Bacterial Growth and Inflammation during Coinfection with Influenza
Smith, Infection and immunity 2021 - “...(h pbi) 12 24 SPD_0002 dnaN DNA polymerase III subunit beta SPD_0052 Phosphoribosylformylglycinamidine synthase, putative SPD_0053 purF Amidophosphoribosyltransferase SPD_0054 purM Phosphoribosylformylglycinamidine cyclo-ligase SPD_0055 purN Phosphoribosylglycinamide formyltransferase SPD_0057 purH Bifunctional purine biosynthesis protein PurH SPD_0058 purD Phosphoribosylamine-glycine ligase SPD_0059 purE Phosphoribosylaminoimidazole carboxylase, catalytic subunit SPD_0182 Conserved hypothetical...”
- Deletion of the Zinc Transporter Lipoprotein AdcAII Causes Hyperencapsulation of Streptococcus pneumoniae Associated with Distinct Alleles of the Type I Restriction-Modification System
Durmort, mBio 2020 - “...adc operon repressor AdcR 1.55 1.65 1.06 Downregulated SPD_0052 purL Phosphoribosylformylglycinamidine synthase 2.45 2.36 1.24 SPD_0053 purF Amidophosphoribosyltransferase 2.27 2.34 1.25 SPD_0055 purN Phosphoribosylglycinamide formyltransferase 2.13 2.18 1.36 SPD_0090 ABC transporter lipoprotein 2.02 2.19 2.04 SPD_0166 ribH Riboflavin synthase, beta subunit 2.76 3.44 1.56 SPD_0167 ribB...”
- 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 - “...Arg argR1 ahrC ahrC Locus tag Annotation spd_0053 spd_0054 spd_0055 spd_0056 spd_0057 spd_0109 spd_0110 spd_0111 spd_0114 spd_0115 spd_0116 spd_0117 spd_0118...”
- Regulation of the pspA virulence factor and essential pcsB murein biosynthetic genes by the phosphorylated VicR (YycF) response regulator in Streptococcus pneumoniae
Ng, Journal of bacteriology 2005 - “...by perfect matches in either DNA strand, five (spr0047, spr0564, spr1102, spr1651, and spr2015) were not regulated in any microarray experiment (see Results)...”
- Transcriptional regulation and signature patterns revealed by microarray analyses of Streptococcus pneumoniae R6 challenged with sublethal concentrations of translation inhibitors
Ng, Journal of bacteriology 2003 - “...of California, Berkeley Purine gene cluster spr0045 spr0046 spr0047 spr0048 spr0049 spr0050 spr0051 spr0052 spr0053 spr0054 spr0055 spr0056 368 NG ET AL. J....”
F9URJ9 Amidophosphoribosyltransferase from Lactiplantibacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
lp_2723 amidophosphoribosyltransferase precursor from Lactobacillus plantarum WCFS1
38% identity, 98% coverage
LGG_01808 glutamine amidophosphoribosyltransferase precursor (Glutamine phosphoribosylpyrophosphate amidotransferase) (ATase) (GPATase) from Lactobacillus rhamnosus GG
LGG_01808 amidophosphoribosyltransferase from Lacticaseibacillus rhamnosus GG
39% identity, 93% coverage
- Growth phase-associated changes in the proteome and transcriptome of Lactobacillus rhamnosus GG in industrial-type whey medium
Laakso, Microbial biotechnology 2011 - “...purine biosynthesis protein purH 68,69 2.3 1.698 LGG_01807 purM Phosphoribosylformylglycinamidine cycloligase 70 a 2 1.574 LGG_01808 purF Amidophosphoribosyltransferase 71,72 2.8 1.625 LGG_01809 purL Phosphoribosylformylglycinamidine synthase II 73 3.8 1.653 LGG_01812 purC Phosphoribosylaminoimidazolesuccinocarboxamide synthase 74 2.5 1.466 LGG_01813 purK Phosphoribosylaminoimidazole carboxylase, ATPase subunit 6 a ,75,76 2.8...”
- “...phosphoribosyltransferase 162,163 3.3 1.623 Nucleotide metabolism Purine metabolism LGG_00249 guaB Inosine5monophosphate dehydrogenase 164 1.6 0.419 LGG_01808 purF Amidophosphoribosyltransferase 165 1.7 2.035 Peptidoglycan biosynthesis LGG_00662 Betalactamase class Crelated penicillinbinding protein 166 5.2 6.994 Stress LGG_01823 clpE ATPdependent Clp protease ATPbinding subunit 167 1.8 0.722 LGG_02151 usp Universal...”
CJJ81176_0227 amidophosphoribosyltransferase from Campylobacter jejuni subsp. jejuni 81-176
Cj0196c amidophosphoribosyltransferase from Campylobacter jejuni subsp. jejuni NCTC 11168
36% identity, 93% coverage
- Morphology heterogeneity within a Campylobacter jejuni helical population: the use of calcofluor white to generate rod-shaped C. jejuni 81-176 clones and the genetic determinants responsible for differences in morphology within 11168 strains
Frirdich, Molecular microbiology 2017 - “...C. jejuni 81176 population. Three SNPs were present at variant frequencies under 20%. SNPs in cjj81176_0227 ( purF ), cjj81176_1105 , and cjj81176_1354 occurred at frequencies of 94.9%, 100% and 100%, respectively and were present in all other strains sequenced, indicating that they were present in...”
- Genomic insights from whole genome sequencing of four clonal outbreak Campylobacter jejuni assessed within the global C. jejuni population
Clark, BMC genomics 2016 - “...2425 002426 002538 002544 Protein Locus in NCTC11168 192795 G A A A G amidophosphoribosyltransferase Cj0196c 226072 C A A A C intergenic 231489 G A A A G MFS transport protein Cj0250c 492104 T T T T C periplasmic protein Cj0530 524447 C C T...”
- In vivo and in silico determination of essential genes of Campylobacter jejuni
Metris, BMC genomics 2011 - “...techniques Technique Essential genes FBA only cj0024, cj0026c, cj0066c, cj0075c, cj0127c, cj0146c, cj0172c, cj0187c, cj0194, cj0196c, cj0197c, cj0205, cj0227, cj0237, cj0240c, cj0273, cj0274, cj0286c, cj0288c, cj0296c, cj0297c, cj0298c, cj0306c, cj0307, cj0321, cj0326, cj0332c, cj0360, cj0384c, cj0405, cj0432c, cj0433c, cj0434, cj0435, cj0437, cj0443, cj0453, cj0490, cj0541, cj0542,...”
PF0154 amidophosphoribosyltransferase from Pyrococcus furiosus DSM 3638
43% identity, 89% coverage
6lbpA / Q9STG9 Structure of the glutamine phosphoribosylpyrophosphate amidotransferase from arabidopsis thaliana (see paper)
40% identity, 92% coverage
- Ligand: iron/sulfur cluster (6lbpA)
ASE2_ARATH / Q9STG9 Amidophosphoribosyltransferase 2, chloroplastic; AtATase2; AtPURF2; PRPP2; Glutamine phosphoribosylpyrophosphate amidotransferase 2; AtGPRAT2; Protein CHLOROPLAST IMPORT APPARATUS 1; Protein DIFFERENTIAL DEVELOPMENT OF VASCULAR ASSOCIATED CELLS; EC 2.4.2.14 from Arabidopsis thaliana (Mouse-ear cress) (see 5 papers)
Q9STG9 amidophosphoribosyltransferase (EC 2.4.2.14) from Arabidopsis thaliana (see 2 papers)
AT4G34740 ATASE2 (GLN PHOSPHORIBOSYL PYROPHOSPHATE AMIDOTRANSFERASE 2); amidophosphoribosyltransferase from Arabidopsis thaliana
NP_195200 GLN phosphoribosyl pyrophosphate amidotransferase 2 from Arabidopsis thaliana
40% identity, 83% coverage
- function: Catalyzes the first committed step of 'de novo purine biosynthesis from glutamine. Required for chloroplast biogenesis and cell division. Confers sensitivity to the phenyltriazole acetic acid compound [5-(4-chlorophenyl)-1-isopropyl-1H-[1,2,4]triazol-3-yl]-acetic acid (DAS734), a bleaching herbicide.
catalytic activity: 5-phospho-beta-D-ribosylamine + L-glutamate + diphosphate = 5- phospho-alpha-D-ribose 1-diphosphate + L-glutamine + H2O (RHEA:14905)
cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster per subunit.)
cofactor: Mg(2+) (Binds 1 Mg(2+) ion per subunit.)
disruption phenotype: Strong growth retardation and severe chlorosis in leaves; white leaves, but green cotyledons. Leaves missing the palisade mesophyll layer, due to reduced cell number and size. Abnormal thylakoid membrane in chloroplasts, probably due to photo-oxidative damage. Defective in protein import into chloroplasts. - Nucleotide Imbalance, Provoked by Downregulation of Aspartate Transcarbamoylase Impairs Cold Acclimation in Arabidopsis
Bellin, Molecules (Basel, Switzerland) 2023 - “...AT5G35170 AMK5 0.72 1.14 1.16 0.50 de novo AT3G01820 AMK7 2.97 3.16 0.80 de novo AT4G34740 ATase2 2.34 2.34 0.63 0.58 de novo AT5G23300 DHODH 1.62 1.09 de novo AT1G30820 CTPS1 1.84 2.29 2.82 2.31 de novo AT3G12670 CTPS2 1.95 2.03 0.99 0.82 de novo AT2G16370...”
- Crystal Structure of the Chloroplastic Glutamine Phosphoribosylpyrophosphate Amidotransferase GPRAT2 From Arabidopsis thaliana
Cao, Frontiers in plant science 2020 - “...( Boldt and Zrenner, 2003 ). Previous biochemical and genetic studies have confirmed that AtGPRAT2 (At4g34740) is the major isoform expressing in leaves ( Hung et al., 2004 ). AtGPRAT2 was localized in the stroma of chloroplasts in Arabidopsis leaf cells ( Hung et al., 2004...”
- A Global Proteomic Approach Sheds New Light on Potential Iron-Sulfur Client Proteins of the Chloroplastic Maturation Factor NFU3
Berger, International journal of molecular sciences 2020 - “...assimilation Adenosine 5-phosphosulfate reductase 3 At2g16570 ASE1 n.d. n.q. 4Fe4S Purine nucleotide biosynthesis Amidophosphoribosyltransferase 1 At4g34740 ASE2 0.25 * n.v. 4Fe4S Purine nucleotide biosynthesis Amidophosphoribosyltransferase 2 At4g38880 ASE3 n.d. n.q. 4Fe4S Purine nucleotide biosynthesis Amidophosphoribosyltransferase 3 At1g44446 CAO n.q. n.q. rieske 2Fe/2S Chlorophyll biosynthesis Chloropyll a...”
- Proteomic Analysis of the Function of a Novel Cold-Regulated Multispanning Transmembrane Protein COR413-PM1 in Arabidopsis
Su, International journal of molecular sciences 2018 - “...fatty acid biosynthesis 1 (FAB1)/beta-ketoacyl-ACP synthetase 2 (KAS2) (AT1G74960), GLN phosphoribosyl pyrophosphate amidotransferase 2 (ASE2) (AT4G34740), and SM-like protein 4 (LSM4) (AT5G27720) were associated with the freezing treatment. The other five proteins are vitamin C defective 1 (VTC1)/cytokinesis defective 1 (CYT1)/GDP-mannose pyrophosphorylase (GMP1) (AT2G39770), trehalose-6-phosphatase synthase...”
- Roles and maturation of iron-sulfur proteins in plastids
Przybyla-Toscano, Journal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry 2018 - “...[Fe 4 S 4 ] Knock-out No phenotype Hung et al. [ 144 ] ATase2 At4g34740 [Fe 4 S 4 ] X-ray mutagenesis Small and albino/pale reticulated leaves, cell division affected Kinsman and Pyke [ 171 ], Hung et al. [ 144 ], van den Graaf...”
- Pistil Transcriptome Analysis to Disclose Genes and Gene Products Related to Aposporous Apomixis in Hypericum perforatum L
Galla, Frontiers in plant science 2017 - “...METHYLESTERASE 1 cell wall modification; pectin catabolic process HHKO36P01BR1EE - - Unknown product n.a. HHKO36P01C9NWL AT4G34740 ASE2 DIFFERENTIAL DEVELOPMENT OF VASCULAR ASSOCIATED CELLS de novo IMP biosynthetic process; chloroplast organization HHKO36P02G1N94 AT3G52300 ATPQ ATP SYNTHASE D CHAIN, MITOCHONDRIAL ATP synthesis coupled proton transport; response to salt...”
- Proteomic Insight into the Response of Arabidopsis Chloroplasts to Darkness
Wang, PloS one 2016 - “...S 1.380.02 33 Ferredoxinnitrite reductase ((NiR) Q39161 AT2G15620 S 1.320.01 34 Amidophosphoribosyltransferase 2(ATase 2) Q9STG9 AT4G34740 Chl 1.470.06 Transcription (1) 35 CCR-like (CCL) Q96500 AT3G26740 Chl 1.630.06 Protein synthesis, folding, and degradation (7) 36 Ribosome-recycling factor (RRF) Q9M1X0 AT3G63190 S 1.420.05 37 Peptidyl-prolylcis-trans isomerase (FKBP16-1) Q944B0...”
- Genome-scale cold stress response regulatory networks in ten Arabidopsis thaliana ecotypes
Barah, BMC genomics 2013 - “...( STH 3), At5g54190 ( PORA ), At3g59400 ( GUN4 ), At3g56940 ( CRD1 ), At4g34740 ( CIA1 ), At1g78600 ( STH3 ), At1g71030 ( MYBL2 ), and At5g67030 ( ZEP ). Havaux et al. [ 56 ] reported that A. thaliana was able to survive...”
- More
- Purine biosynthetic enzyme ATase2 is involved in the regulation of early chloroplast development and chloroplast gene expression in Arabidopsis.
Yang, Photosynthesis research 2015 (PubMed)- GeneRIF: ATase2 plays an essential role in early chloroplast development through maintaining PEP function.
- The leaf reticulate mutant dov1 is impaired in the first step of purine metabolism.
Rosar, Molecular plant 2012 (PubMed)- GeneRIF: mutant dov1 is impaired in the first step of purine metabolism
- Chemical genetic identification of glutamine phosphoribosylpyrophosphate amidotransferase as the target for a novel bleaching herbicide in Arabidopsis.
Walsh, Plant physiology 2007 - GeneRIF: DAS734 is a potent, slow-binding inhibitor.
- New In Vivo Approach to Broaden the Thioredoxin Family Interactome in Chloroplasts
Ancín, Antioxidants (Basel, Switzerland) 2022 - “...50S ribosomal protein L18 Q9SX68 50S ribosomal protein L18 83.8 x 1 stroma Q6T7F3 Amidophosphoribosyltransferase Q9STG9 Amidophosphoribosyltransferase 2 (ATase2) 77.6 x x 9 stroma A0A140G1V5 Ribosomal protein S3 P56798 30S ribosomal protein S3 87.6 x x 3 stroma A0A1S4CR05 Uridine kinase Q9FKS0 Uridine kinase-like protein 1...”
- Arabidopsis Iron Superoxide Dismutase FSD1 Protects Against Methyl Viologen-Induced Oxidative Stress in a Copper-Dependent Manner
Melicher, Frontiers in plant science 2022 - “...O23344 Ferredoxin C 1, chloroplastic 0.557 0.493 0.483 P92981 5-adenylylsulfate reductase 2, chloroplastic 0.482 0.01 Q9STG9 Amidophosphoribosyltransferase 2, chloroplastic 0.392 0.423 0.478 Q39161 Ferredoxinnitrite reductase, chloroplastic 0.542 0.541 P16972 Ferredoxin-2, chloroplastic 0.309 0.344 Q84JT6 Peptide methionine sulfoxide reductase B9 0.348 P92980 5-adenylylsulfate reductase 3, chloroplastic 0.01...”
- Proteomic Insight into the Response of Arabidopsis Chloroplasts to Darkness
Wang, PloS one 2016 - “...AT5G60600 S 1.380.02 33 Ferredoxinnitrite reductase ((NiR) Q39161 AT2G15620 S 1.320.01 34 Amidophosphoribosyltransferase 2(ATase 2) Q9STG9 AT4G34740 Chl 1.470.06 Transcription (1) 35 CCR-like (CCL) Q96500 AT3G26740 Chl 1.630.06 Protein synthesis, folding, and degradation (7) 36 Ribosome-recycling factor (RRF) Q9M1X0 AT3G63190 S 1.420.05 37 Peptidyl-prolylcis-trans isomerase (FKBP16-1)...”
ASE1_ARATH / Q9SI61 Amidophosphoribosyltransferase 1, chloroplastic; AtATase1; PRPP1; Glutamine phosphoribosylpyrophosphate amidotransferase 1; AtGPRAT1; EC 2.4.2.14 from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
Q9SI61 amidophosphoribosyltransferase (EC 2.4.2.14) from Arabidopsis thaliana (see paper)
AT2G16570 ATASE1 (GLN PHOSPHORIBOSYL PYROPHOSPHATE AMIDOTRANSFERASE 1); amidophosphoribosyltransferase from Arabidopsis thaliana
40% identity, 82% coverage
- function: Catalyzes the first committed step of 'de novo' purine biosynthesis from glutamine. Involved in plastid biogenesis and cell division.
catalytic activity: 5-phospho-beta-D-ribosylamine + L-glutamate + diphosphate = 5- phospho-alpha-D-ribose 1-diphosphate + L-glutamine + H2O (RHEA:14905)
cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster per subunit.)
cofactor: Mg(2+) (Binds 1 Mg(2+) ion per subunit.) - A Global Proteomic Approach Sheds New Light on Potential Iron-Sulfur Client Proteins of the Chloroplastic Maturation Factor NFU3
Berger, International journal of molecular sciences 2020 - “...Adenosine 5-phosphosulfate reductase 2 At4g21990 APR3 n.d. n.q. 4Fe4S Sulfate assimilation Adenosine 5-phosphosulfate reductase 3 At2g16570 ASE1 n.d. n.q. 4Fe4S Purine nucleotide biosynthesis Amidophosphoribosyltransferase 1 At4g34740 ASE2 0.25 * n.v. 4Fe4S Purine nucleotide biosynthesis Amidophosphoribosyltransferase 2 At4g38880 ASE3 n.d. n.q. 4Fe4S Purine nucleotide biosynthesis Amidophosphoribosyltransferase 3...”
- SNPeffect: identifying functional roles of SNPs using metabolic networks
Sarkar, The Plant journal : for cell and molecular biology 2020 - “...(Cookson et al. , 2007 ). Interestingly, inactivating SNPs were found in genes AT4G38880 and AT2G16570 (Figure 3 ) that encode for amidophosphoribosyltransferase, indicating that plant growth is associated with decreased flux through purine metabolism. This enzyme catalyzes the first dedicated step of de novo purine...”
- Time-resolved interaction proteomics of the GIGANTEA protein under diurnal cycles in Arabidopsis
Krahmer, FEBS letters 2019 - “...TUF 1 0.0013 0.0081 8.8 n 5/10 AT1G75950 ASK1 1 7.2E05 0.0011 8.6 n 13/0 AT2G16570 ASE1 1 0.0082 0.030 8.1 n n.d. AT2G33040 ATP3 1 0.0094 0.031 7.8 n n.d. AT1G24510 TCP1/cpn60 chaperonin 1 7.9E04 0.0057 7.3 n n.d. AT3G18190 TCP1/cpn60 chaperonin 1 1.4E04 1.7E03...”
- Proteomic Analysis of the Function of a Novel Cold-Regulated Multispanning Transmembrane Protein COR413-PM1 in Arabidopsis
Su, International journal of molecular sciences 2018 - “...for plant growth [ 56 ]. The isozymes are encoded by the three genes ASE1 (AT2G16570), ASE2 , and ASE3 (AT4G38880). Both ASE1 and ASE2 were localized to chloroplasts [ 57 ]. ASE2 , one of the three ATase isozymes responsible for the first committed step...”
- Roles and maturation of iron-sulfur proteins in plastids
Przybyla-Toscano, Journal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry 2018 - “...S 2 ] Knock-out Seedling lethal (post-germination arrest) Saha et al. [ 126 ] ATase1 At2g16570 [Fe 4 S 4 ] Knock-out No phenotype Hung et al. [ 144 ] ATase2 At4g34740 [Fe 4 S 4 ] X-ray mutagenesis Small and albino/pale reticulated leaves, cell division...”
- Long-term balancing selection contributes to adaptation in Arabidopsis and its relatives
Wu, Genome biology 2017 - “...with shared coding-region polymorphisms, we find evidence for long-term balancing selection in five genes: AT1G35220, AT2G16570, AT4G29360, AT5G38460, and AT5G44000. These genes are involved in the response to biotic and abiotic stress and other fundamental biochemical processes. More intriguingly, for these genes, we detected significant ecological...”
- “...trees, if they exist, with high resolution. Finally, we identified windows from five genes, AT1G35220, AT2G16570, AT4G29360, AT5G38460, and AT5G44000, involving ten sites, as candidate TSPs under long-term balancing selection (Additional file 3 : Figure S1). None of the five orthologous genes we found here are...”
SCO4086 amidophosphoribosyltransferase from Streptomyces coelicolor A3(2)
38% identity, 87% coverage
- DNA mapping and kinetic modeling of the HrdB regulon in Streptomyces coelicolor
Šmídová, Nucleic acids research 2019 - “...(SCO1461), purE (SCO3059), purK (SCO3060), prsA2 (SCO3123), purA (SCO3629), SCO3677, purQ (SCO4078), purl (SCO4079), purF (SCO4086), purM (SCO4087), adk (SCO723), guaB (SCO4770), SCO4771, purN (SCO4813), purH (SCO4814). In the pyrimidine biosynthesis subgroup we found six genes (67%)pyrB (SCO1487), carB (SCO1483), pyrAA (SCO1484), pyrC (SCO1486), pyrF (SCO1481),...”
LSEI_1750 Glutamine phosphoribosylpyrophosphate amidotransferase from Lactobacillus casei ATCC 334
38% identity, 92% coverage
DVU0161 amidophosphoribosyltransferase from Desulfovibrio vulgaris Hildenborough
38% identity, 92% coverage
SAR11_0699 amidophosphoribosyltransferase from Candidatus Pelagibacter ubique HTCC1062
38% identity, 95% coverage
FRAAL0128 Amidophosphoribosyltransferase precursor (Glutamine phosphoribosylpyrophosphate amidotransferase) (ATASE) (GPATase) from Frankia alni ACN14a
39% identity, 73% coverage
- The Proteogenome of Symbiotic Frankia alni in Alnus glutinosa Nodules
Pujic, Microorganisms 2022 - “...WP_050997128.1 FRAAL3342 ssuA Sulfonate transport system substrate-binding SsuA 10.50 P C1, C2, C4 0.000 WP_041938619.1 FRAAL0128 purF Amidophosphoribosyltransferase PurF 9.86 F A 0.000 WP_009742300.1 FRAAL5827 DNA-binding protein HU-beta, NS1 (HU-1) 9.76 L A 0.016 WP_041939818.1 FRAAL6056 ATP-binding protein 9.60 - A 0.004 WP_041939008.1 FRAAL1862 rpiB Ribose...”
WP_133362570 amidophosphoribosyltransferase from Periweissella cryptocerci
39% identity, 92% coverage
SPO2677 amidophosphoribosyltransferase from Ruegeria pomeroyi DSS-3
39% identity, 92% coverage
- A mutant fitness assay identifies bacterial interactions in a model ocean hot spot
Schreier, Proceedings of the National Academy of Sciences of the United States of America 2023 - “...phosphoribosylformylglycinamidine synthase II ( purL ) Purine 3.1 SPO2168 phosphoribosylglycinamide formyltransferase ( purN) Purine 1.6 SPO2677 amidophosphoribosyltransferase ( purF ) Purine 1.2 Empty cells represent fitness changes that were not significantly different based on randomization tests. This hypothesis of crossfeeding was tested by inoculating R. pomeroyi...”
Fisuc_0051 amidophosphoribosyltransferase from Fibrobacter succinogenes subsp. succinogenes S85
37% identity, 92% coverage
- Generation and Characterization of Acid Tolerant Fibrobacter succinogenes S85
Wu, Scientific reports 2017 - “...(with TIGR or COG descriptions) Fisuc_0029 1.3 2.94E-09 lipoprotein (TIGR02167 bacterial surface protein 26-residue repeat) Fisuc_0051 2.1 7.37E-13 amidophosphoribosyltransferase (Glutamine phosphoribosylpyrophosphate amidotransferase) Fisuc_0060 1.4 2.34E-05 chaperonin Cpn10 Fisuc_0159 3.2 2.93E-28 Biotin synthase Fisuc_0160 3.3 8.63E-13 hypothetical protein (Putative threonine efflux protein) Fisuc_0163 2.4 3.21E-07 SirA family...”
MAP0638 PurF from Mycobacterium avium subsp. paratuberculosis str. k10
37% identity, 84% coverage
DR75_777 amidophosphoribosyltransferase from Enterococcus faecalis ATCC 29212
40% identity, 94% coverage
OG1RF_11493 amidophosphoribosyltransferase from Enterococcus faecalis OG1RF
40% identity, 93% coverage
- Purine and carbohydrate availability drive Enterococcus faecalis fitness during wound and urinary tract infections
Tan, mBio 2024 - “...5.62E-36 OG1RF_11491 purN Phosphoribosylglycinamide formyltransferase 1.16 1.63E-02 3.03E-02 OG1RF_11492 purM Phosphoribosylformylglycinamidine cyclo-ligase 2.06 1.87E-15 1.30E-14 OG1RF_11493 purF Amidophosphoribosyltransferase 3.19 3.23E-27 1.82E-26 OG1RF_11494 purL Phosphoribosylformylglycinamidine synthase II 1.79 1.38E-11 3.68E-11 OG1RF_11495 purL2 Phosphoribosylformylglycinamidine synthase subunit PurQ 3.03 2.91E-37 2.59E-36 OG1RF_11496 purS Phosphoribosylformylglycinamidine synthase 2.68 7.75E-15 5.12E-14 OG1RF_11498...”
- “...1.50E-180 OG1RF_11491 purN Phosphoribosylglycinamide formyltransferase 6.27 1.91E-115 3.48E-114 OG1RF_11492 purM Phosphoribosylformylglycinamidine cyclo-ligase 7.02 7.40E-132 1.73E-130 OG1RF_11493 purF Amidophosphoribosyltransferase 7.40 1.57E-141 4.15E-140 OG1RF_11494 purL Phosphoribosylformylglycinamidine synthase II 6.58 9.95E-152 3.10E-150 OG1RF_11495 purL2 Phosphoribosylformylglycinamidine synthase subunit PurQ 6.12 1.16E-82 1.35E-81 OG1RF_11496 purS Phosphoribosylformylglycinamidine synthase 6.35 7.15E-22 2.25E-21 OG1RF_11497...”
SERP0655 amidophosphoribosyltransferase from Staphylococcus epidermidis RP62A
SE0768 phosphoribosylpyrophosphate amidotransferase PurF from Staphylococcus epidermidis ATCC 12228
38% identity, 93% coverage
- Skin-to-blood pH shift triggers metabolome and proteome global remodelling in Staphylococcus epidermidis
Gonçalves, Frontiers in microbiology 2022 - “...SERP0656 purM Phosphoribosylaminoimidazole-succinocarboxamide synthase SERP0651 purC Phosphoribosylamine-glycine ligase SERP0659 purD Phosphoribosylformylglycinamidine synthase SERP0653 purQ Amidophosphoribosyltransferase SERP0655 purF Glycolysis/Pyruvate metabolism Glyceraldehyde-3-phosphate dehydrogenase SERP1250 gapA-2 Fructose-bisphosphate aldolase SERP1732 fbaA Pyruvate, phosphate dikinase SERP1129 ppdK Pyruvate, water dikinase SERP2169 Phosphoenolpyruvate carboxykinase SERP1353 pckA Alcohol dehydrogenase SERP0257 adh Acetate kinase...”
- Toxin Mediates Sepsis Caused by Methicillin-Resistant Staphylococcus epidermidis
Qin, PLoS pathogens 2017 - “...synthase subunit alpha 16.04 ribBA SERP1326 3,4-dihydroxy-2-butanone-4-phosphate synthase 15.16 purM SERP0656 phosphoribosylaminoimidazole synthetase 14.94 purF SERP0655 amidophosphoribosyltransferase 14.77 purN SERP0657 phosphoribosylglycinamide formyltransferase 14.72 serS SERP2545 seryl-tRNA synthetase 13.55 purH SERP0658 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase 13.45 purD SERP0659 phosphoribosylamineglycine ligase 11.92 arcB-2 SERP2351 ornithine carbamoyltransferase 11.33 ribD...”
- “...acid ABC transporter permease 2.39 2.17 1.10 - SERP1529 hypothetical protein 2.34 -1.90 4.46 purF SERP0655 amidophosphoribosyltransferase 2.32 2.85 -1.23 - SERP0473 hypothetical protein -6.11 -1.43 -4.28 - SERP0473 hypothetical protein -5.46 -1.31 -4.17 - SERP1474 hypothetical protein -5.27 -11.93 2.26 - SERP1478 GntR family transcriptional...”
- Impact of the Staphylococcus epidermidis LytSR two-component regulatory system on murein hydrolase activity, pyruvate utilization and global transcriptional profile
Zhu, BMC microbiology 2010 - “...GMP synthase/glutamine amidotransferase protein 2.546 SERP0651 purC phosphoribosylaminoimidazole-succinocarboxamide synthase 2.036 SERP0654 purL phosphoribosylformylglycinamidine synthetase 2.341 SERP0655 purF phosphoribosylpyrophosphate amidotransferase 2.164 SERP0656 purM phosphoribosylformylglycinamidine cyclo-ligase 2.369 SERP0657 purN IMP cyclohydrolase 2.111 SERP1003 thyA-1 thymidylate synthase 2.014 SERP1810 adk adenylate kinase 0.444 Energy metabolism SE0102-12228 carbamate kinase, putative...”
- AI-2-dependent gene regulation in Staphylococcus epidermidis
Li, BMC microbiology 2008 - “...protein 3.65 0.45 SERP0653 Phosphoribosylformylglycinamidine synthase I 3.84 0.37 SERP0654 Phosphoribosylformylglycinamidine synthase II 3.17 0.4 SERP0655 Amidophosphoribosyltransferase 3.68 0.26 SERP0656 Phosphoribosylaminoimidazole synthetase 2.62 0.33 SERP0657 Phosphoribosylglycinamide formyltransferase 2.52 0.35 SERP0658 Phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase 2.45 0.34 SERP0659 Phosphoribosylamine glycine ligase 2.21 0.42 Amino acid metabolism SERP2128 Delta-1-pyrroline-5-carboxylate...”
- Identification of antigenic components of Staphylococcus epidermidis expressed during human infection
Pourmand, Infection and immunity 2006 - “...protein Cobalamin synthesis-related protein 20 756962-759182 SE0768 (1-494) SE0769 (1-207) PurF PurM Designation, putative function, and/or homology Continued...”
NCgl2495 amidophosphoribosyltransferase from Corynebacterium glutamicum ATCC 13032
cg2857 amidophosphoribosyltransferase from Corynebacterium glutamicum ATCC 13032
38% identity, 93% coverage
Rv0808 amidophosphoribosyltransferase from Mycobacterium tuberculosis H37Rv
37% identity, 88% coverage
- Tissue specific diversification, virulence and immune response to Mycobacterium bovis BCG in a patient with an IFN-γ R1 deficiency
Korol, Virulence 2020 - “...BIS44_1917 Wild type BIT18_3428 Wild type BIT17_4084 BIT17_4085 (284T>A) Leu95* Point mutation (amber) Amidophosphoribosyltransferase purF Rv0808 De novo purine biosynthesis Amidophosphoribosyltransferase FCU26_RS04420 904,098 BIS44_0866 Wild type BIT18_0945 Wild type BIT17_1246 1235G>A Arg412His Hypothetical protein Rv0877 Unknown DUF3027 domain-containing protein FCU26_RS04830 977,277 BIS44_2274 Wild type BIT18_0488 BIT18_0489...”
- Investigating the metabolic capabilities of Mycobacterium tuberculosis H37Rv using the in silico strain iNJ661 and proposing alternative drug targets
Jamshidi, BMC systems biology 2007 - “...OptGro Reaction Other loci in iNJ661 Rv0337c ASPTA Rv2565 Rv0462 PDHc, PDH, PDHa Rv0843, Rv2497c+Rv2496c Rv0808 GLUPRT Rv1602 Rv0824c DESAT18 Rv1094 Rv1122 GND Rv1844c Rv1600 HSTPT Rv3772, Rv2231c Rv1602 GLUPRT Rv0808 Rv1609 ANS Rv2859c Rv2182c AGPAT160190, AGPAT160, AGPAT190 Rv2483c Rv2215 PDH, AKGDb Rv2241, Rv0462, Rv0843 Rv2231c...”
purF / CAB96578.1 phosphoribosyl pyrophosphate amidotransferease from Mycolicibacterium smegmatis (see paper)
36% identity, 91% coverage
ATU_RS05325 amidophosphoribosyltransferase from Agrobacterium fabrum str. C58
37% identity, 97% coverage
RSP_2454 Amidophosphoribosyltransferase from Rhodobacter sphaeroides 2.4.1
38% identity, 92% coverage
- Convergence of the transcriptional responses to heat shock and singlet oxygen stresses
Dufour, PLoS genetics 2012 - “...RSP_2696, RSP_2897 DNA metabolism DNA replication, recombination, and repair RSP_1074, RSP_2815, RSP_4199 Purine ribonucleotide biosynthesis RSP_2454 Cellular processes Adaptations to atypical conditions RSP_4198 Detoxification RSP_0890, RSP_1058 Central intermediary metabolism Other RSP_1196, RSP_1949 Sulfur metabolism RSP_2738 Signal transduction Two-component systems RSP_2130, RSP_3105 Mobile and extra-chromosomal element functions...”
ML2206 amidophosphoribosyltransferase from Mycobacterium leprae TN
36% identity, 87% coverage
SACE_7125 amidophosphoribosyltransferase from Saccharopolyspora erythraea NRRL 2338
37% identity, 86% coverage
- Comparative genomics and transcriptional profiles of Saccharopolyspora erythraea NRRL 2338 and a classically improved erythromycin over-producing strain
Peano, Microbial cell factories 2012 - “...Missense (A90V) Dihydroorotase SACE_6664 521 purH Missense (P54S) Bifunctional phosphoribosylaminoimidazolecarboxa mide formyltransferase/IMP cyclohydrolase No paralogue. SACE_7125 538 purF Missense (P497S) Glutamine phosphoribosylpyrophosphate amidotransferase No paralogue SACE_2398 165 prsA Missense (T123P) Phosphoribosylpyrophosphate synthetase SACE_5196 506 codA Missense (Y322S) Cytosine deaminase Vitamin and cofactor metabolism SACE_0506 376 thiO...”
- “...synthesis of the common precursor for biosynthesis of histidine and purine and pyrimidine nucleotides), purF (SACE_7125) and purH (SACE_6664) whose products code for glutamine PRPP amidotransferase and bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cylohydrolase (which catalyzes, respectively, the first and the second steps in the de novo biosynthesis of...”
USA300HOU_1015 amidophosphoribosyltransferase from Staphylococcus aureus subsp. aureus USA300_TCH1516
SAOUHSC_01014 amidophosphoribosyltransferase from Staphylococcus aureus subsp. aureus NCTC 8325
SAUSA300_0972 amidophosphoribosyltransferase from Staphylococcus aureus subsp. aureus USA300_FPR3757
MW0953 phosphoribosylpyrophosphate amidotransferase PurF from Staphylococcus aureus subsp. aureus MW2
SACOL1079 amidophosphoribosyltransferase from Staphylococcus aureus subsp. aureus COL
CH51_RS05450 amidophosphoribosyltransferase from Staphylococcus aureus
38% identity, 89% coverage
- Global transcriptome responses including small RNAs during mixed-species interactions with methicillin-resistant Staphylococcus aureus and Pseudomonas aeruginosa
Miller, MicrobiologyOpen 2017 - “...synthase 2.66 USA300HOU_0841 Hypothetical protein 2.70 USA300HOU_1016 Phosphoribosylaminoimidazole synthetase 2.73 USA300HOU_1014 Phosphoribosylformylglycinamidine synthase II 2.78 USA300HOU_1015 Amidophosphoribosyltransferase 2.90 USA300HOU_1013 Phosphoribosylformylglycinamidine synthase I 3.08 USA300HOU_0190 Formate dehydrogenase 3.35 USA300HOU_0309 Hypothetical protein 3.53 John Wiley & Sons, Ltd Staphylococcus aureus had 79 up and 63 downregulated ORFs when...”
- Insights Into the Impact of Small RNA SprC on the Metabolism and Virulence of Staphylococcus aureus
Zhou, Frontiers in cellular and infection microbiology 2022 - “...SAOUHSC_01013 purL 1.55 Biosynthesis of secondary metabolites, biosynthesis of antibiotics, purine metabolism Phosphoribosylformylglycinamidine synthase II SAOUHSC_01014 purF 1.25 Biosynthesis of secondary metabolites, biosynthesis of antibiotics, purine metabolism, Alanine, aspartate and glutamate metabolism Amidophosphoribosyltransferase SAOUHSC_01015 purM 1.49 Biosynthesis of secondary metabolites, biosynthesis of antibiotics, purine metabolism Phosphoribosylaminoimidazole...”
- “...SAOUHSC_02811 SA2297 -73.8 SAOUHSC_01807 pfk -85.6 SAOUHSC_02882 SA2352 -72.1 SAOUHSC_02403 mtlD -85.3 SAOUHSC_01191 rpmB -69.9 SAOUHSC_01014 purF -85.3 SAOUHSC_02300 rsbV -67.3 SAOUHSC_02881 SA2351 -85.3 SAOUHSC_00871 dltc -66.1 SAOUHSC_01452 ald -84.9 SAOUHSC_03045 cspB -65.7 SAOUHSC_00788 SA0721 -84.4 SAOUHSC_03055 rpmH -61 SAOUHSC_01955 lukE -83.7 SAOUHSC_02853 SA2331 -59.8 SAOUHSC_01424...”
- Regulation of neutrophil myeloperoxidase inhibitor SPIN by the small RNA Teg49 in Staphylococcus aureus
Cengher, Molecular microbiology 2022 - “...Membrane protein (A lot of genomes have a small product in that region, see SAUPAN003335000) SAOUHSC_01014 2.72 7.62E-18 4.24E-16 purF Amidophosphoribosyltransferase SAOUHSC_01016 2.61 4.78E-18 2.79E-16 purN Phosphoribosylglycinamide formyltransferase SAOUHSC_01017 2.55 1.72E-16 8.94E-15 purH Bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase SAOUHSC_01889 2.5 4.33E-20 2.72E-18 ribD Riboflavin biosynthesis protein RibD...”
- Copper ions inhibit pentose phosphate pathway function in Staphylococcus aureus
Norambuena, PLoS pathogens 2023 - “...Amidophosphoribosyltransferase PRPP + H 2 O + glutamine = 5-phospho--D-ribosylamine + diphosphate + glutamate PurF SAUSA300_0972 Xanthine phosphoribosyltransferase XMP + diphosphate = 5-phospho-alpha-D-ribose 1-diphosphate + xanthine Xpt SAUSA300_0386 We tested the hypothesis that providing metabolites that require PRPP for synthesis will improve growth in the presence...”
- Cigarette Smoke Extract-Exposed Methicillin-Resistant Staphylococcus aureus Regulates Leukocyte Function for Pulmonary Persistence
Kulkarni, American journal of respiratory cell and molecular biology 2016 - “...SAUSA300_1950 SAUSA300_1932 SAUSA300_0795 SAUSA300_0183 SAUSA300_0972 SAUSA300_1934 SAUSA300_1767 SAUSA300_1935 SAUSA300_1936 SAUSA300_1395 SAUSA300_2415...”
- The SaeR/S gene regulatory system is essential for innate immune evasion by Staphylococcus aureus
Voyich, The Journal of infectious diseases 2009 - “...2.69 ME & ES MW0952 purL phosphoribosylformylglycinamidine synthetase PurL 1.63 & 2.83 ME & ES MW0953 purF phosphoribosylpyrophosphate amidotransferase PurF 2.63 ES MW0954 purM phosphoribosylaminoimidazole synthetase 1.51 & 2.45 ME & ES MW0955 purN phosphoribosylglycinamide formyltransferase 2.28 ES MW0956 purH bifunctional purine biosynthesis protein PurH 2.44...”
- Sequencing Independent Molecular Typing of Staphylococcus aureus Isolates: Approach for Infection Control and Clonal Characterization
Dufkova, Microbiology spectrum 2022 - “...might contribute to better discrimination among the observed clusters. Gene purF ( S. aureus Accessory, SACOL1079) encoding amidophosphoribosyl transferase showed the ability to discriminate between cluster A (allele 1), cluster B (allele 398), and adjoining singleton C (allele 1141). Despite our HRM-based method being proved to...”
- Apt (Adenine Phosphoribosyltransferase) Mutation in Laboratory-Selected Vancomycin-Intermediate Staphylococcus aureus
Lamichhane-Khadka, Antibiotics (Basel, Switzerland) 2021 - “...2.3 SACOL0856 clfA Clumping factor A 2.1 ND SACOL1078 purL Phosphoribosylformylglycinamidine synthase II 2.2 2.2 SACOL1079 purF Amidophosphoribosyltransferase 4.2 3.7 SACOL1080 purM Phosphoribosylaminoimidazole synthetase 4.5 (4.5) 4.0 (3.3) SACOL1081 purN Phosphoribosylglycinamide formyltransferase 3.9 3.8 SACOL1082 purH Phosphoribosylaminoimidazolecarboxamide 2.1 2.1 SACOL1083 purD Phosphoribosylamine-glycine ligase 2.9 2.8 SACOL1215...”
- Inactivation of thyA in Staphylococcus aureus attenuates virulence and has a strong impact on metabolism and virulence gene expression
Kriegeskorte, mBio 2014 - “...Late exponential phase Stationary phase Downregulated SACOL1078 purL Phosphoribosylformylglycinamidine synthase II 23.95 Purine ribonucleotide biosynthesis SACOL1079 purF Amidophosphoribosyltransferase 20.85 SACOL1080 purM Phosphoribosylformylglycinamidine cyclo-ligase 20.73 SACOL1082 purH Phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase 11.94 SACOL1083 purD Phosphoribosylamineglycine ligase 10.95 SACOL1081 purN Phosphoribosylglycinamide formyltransferase 17.54 Upregulated SACOL0461 guaA GMP synthase 2.57...”
- Tea tree oil-induced transcriptional alterations in Staphylococcus aureus
Cuaron, Phytotherapy research : PTR 2013 - “...10.8 purL phosphoribosylformylglycinamidine synthetase SACOL1078 10.5 dltA D-alanine-D-alanyl carrier protein ligase SACOL0935 10.1 purF amidophosphoribosyltransferase SACOL1079 9.8 purK phosphoribosylaminoimidazole carboxylase CO 2 -fixation SACOL1074 8.9 rplD 50S ribosomal protein L4 SACOL2238 8.6 purE phosphoribosylaminoimidazole carboxylase, catalytic subunit SACOL1073 8.3 purN phosphoribosylaminoimidazole carboxylase, catalytic subunit SACOL1072 8.0...”
- “...7.6 ndk nucleoside diphosphate kinase SACOL1509 7.6 purS phosphoribosylformylglycinamidine synthase SACOL1076 7.2 purF phosphoribosylpyrophosphate amidotransferase SACOL1079 7.2 similar to xanthine/uracil permease family protein SACOL2242 7.1 betB betaine aldehyde dehydrogenase SACOL2628 7.0 1.5 1.6 hypothetical protein (191 aa) SACOL1086 7.0 rpmI ribosomal protein L35 SACOL1726 5.9 2.0...”
- The Staphylococcus aureus LytSR two-component regulatory system affects biofilm formation
Sharma-Kuinkel, Journal of bacteriology 2009 - “...SACOL1080 SACOL1081 SACOL1077 SACOL1076 SACOL1075 SACOL1083 SACOL1073 SACOL1079 SACOL2130 SA0925 SACOL2130 purL purM purN purQ purS purC purD purE purF deoD2...”
- Genetic changes that correlate with the pine-oil disinfectant-reduced susceptibility mechanism of Staphylococcus aureus
Lamichhane-Khadka, Journal of applied microbiology 2008 - “...kinase 1.53 rplT SACOL1725 ribosomal protein L20 1.52 manA SACOL2135 mannose-6-phosphate isomerase, class I 1.52 SACOL1079 amidophosphoribosyltransferase 1.52 SACOL2385 heat shock protein, HSP20 family 1.51 * Based on the published genome of S. aureus strain COL using NCBI and TIGR databases. Genes with mutations detected by...”
- Complete and SOS-mediated response of Staphylococcus aureus to the antibiotic ciprofloxacin
Cirz, Journal of bacteriology 2007 - “...Berkeley SACOL1075 SACOL1076 SACOL1077 SACOL1078 SACOL1079 SACOL1080 SACOL1081 SACOL1082 SACOL1083 SACOL1210 SACOL1212 SACOL1214 SACOL1215 SACOL1216 SACOL1371...”
- Staphylococcus aureus PhoU Homologs Regulate Persister Formation and Virulence
Shang, Frontiers in microbiology 2020 - “...family hydrolase 2.01 ND Purine metabolism CH51_RS06550 GTPase 2.52 ND CH51_RS05100 GTP pyrophosphokinase 2.13 ND CH51_RS05450 Amidophosphoribosyl transferase 0.46 ND CH51_RS06795 DNA polymerase III subunit alpha 2.34 ND purE Phosphoribosylaminoimidazole synthase 0.45 ND purS Phosphoribosylformylglycinamidine synthase subunit 0.33 ND purQ Phosphoribosylformyl glycinamidine synthase subunit 0.43 ND...”
SA0922 phosphoribosylpyrophosphate amidotransferase PurF from Staphylococcus aureus subsp. aureus N315
SAV1070 phosphoribosylpyrophosphate amidotransferase from Staphylococcus aureus subsp. aureus Mu50
B4602_RS05210, SAV_RS05770 amidophosphoribosyltransferase from Staphylococcus aureus subsp. aureus Mu50
38% identity, 89% coverage
- Studies of the in vitro antibacterial activities of several polyphenols against clinical isolates of methicillin-resistant Staphylococcus aureus
Su, Molecules (Basel, Switzerland) 2014 - “...resveratrol scutellarin apigenin chlorogenic acid 1 MRSA ATCC43300 125 125 1000 >2000 >4000 >4000 2 SA0922 31.2 62.5 1000 >2000 >4000 >4000 3 SA0925 62.5 125 1000 >2000 >4000 >4000 4 SA0927 125 125 500 >2000 >4000 >4000 5 SA0928 125 125 500 >2000 >4000 >4000...”
- “...Bacteria MIC (g/mL) of luteolin-quercetin FIC Index Interpretation 1 MRSA ATCC43300 62.5/31.2 0.75 ad 2 SA0922 15.6/31.2 1 ad 3 SA0925 31.2/31.2 0.75 ad 4 SA0927 62.5/62.5 1 ad 5 SA0928 62.5/62.5 1 ad 6 SA0929 31.2/31.2 0.5 Syn 7 SA0930 62.5/31.2 1 ad 8 SA0933...”
- An RpoB mutation confers dual heteroresistance to daptomycin and vancomycin in Staphylococcus aureus
Cui, Antimicrobial agents and chemotherapy 2010 - “...of signal intensitya ORF ID SA0918 SA0919 SA0920 SA0922 SA0923 SA0924 SA0925 SA0926 SA1052 SA1172 SA1173 SA1461 Pyrimidine metabolism SA0440 SA0719 SA1041...”
- Transcriptome and functional analysis of the eukaryotic-type serine/threonine kinase PknB in Staphylococcus aureus
Donat, Journal of bacteriology 2009 - “...2017 by University of California, Berkeley SA0920 SA0921 SA0922 SA0923 SA0924 SA0925 SA0926 SA1041 SA1043 SA1044 SA1045 SA1046 SA1047 SA1048 Description or...”
- “...kinase purF purH fmtA sgtB lrgA prsA rocA rocD vraS SA0922 SA0925 SA0909 SA1691 SA0252 SA1659 SA2341 SA0818 SA1701 3.0 1.8 2.3 2.5 2.8 2.9 3.5 2.5 2.5 3.0...”
- Reporter metabolite analysis of transcriptional profiles of a Staphylococcus aureus strain with normal phenotype and its isogenic hemB mutant displaying the small-colony-variant phenotype
Seggewiss, Journal of bacteriology 2006 - “...by University of California, Berkeley SA0150 SA0232 SA0742 SA0922 SA1141 SA1142 SA2206 SA2424 Gene S. AUREUS hemB MUTANT TRANSCRIPTIONAL PROFILE VOL. 188, 2006...”
- “...Metabolism of nucleotides and nucleic acids SA0923 SA0924 SA0921 SA0922 SA0916 SA0925 SA0920 SA2297 SA0373 SA0918 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00...”
- Transcriptomic and functional analysis of an autolysis-deficient, teicoplanin-resistant derivative of methicillin-resistant Staphylococcus aureus
Renzoni, Antimicrobial agents and chemotherapy 2006 - “...0.05 0.001 0.001 0.05 0.05 NS 0.001 0.05 0.001 SA0922 SA0925 SA0917 SA0921 SA0923 SA0924 SA0920 SA0454 purF purH purK purL purM purN purQ purR Hypothetical...”
- Staphylococcus aureus mutants with increased lysostaphin resistance
Gründling, Journal of bacteriology 2006 - “...in SAV1001 SAV1002 SAV1064 SAV1065 SAV1066 SAV1067 SAV1068 SAV1070 SAV1071 SAV1074 (purE) (purK) (purC) (purS) (purQ) (purF) (purM) (purD) This study 29 This...”
- “...biosynthesis cluster (SAV1064, SAV1065, SAV1066, SAV1067, SAV1068, SAV1070, SAV1071, and SAV1074 [Table 1]) generated mutants with intermediate levels of...”
- Combined proteomic and transcriptomic analysis of the antimicrobial mechanism of tannic acid against Staphylococcus aureus
Wang, Frontiers in pharmacology 2023 - “...thrB WP_000073182.1 Homoserine kinase 2.93 0.36 B4602_RS07310 tdcB WP_000210820.1 Bifunctional threonine ammonia-lyase/L-serine ammonia-lyase 2.78 2.08 B4602_RS05210 purF WP_000483720.1 Amidophosphoribosyltransferase 1.16 2.53 B4602_RS05200 purQ WP_000666806.1 Phosphoribosylformylglycinamidine synthase I 1.41 2.46 B4602_RS05220 purN WP_000238669.1 phosphoribosylglycinamide formyltransferase, partial 1.33 2.45 B4602_RS10010 purB WP_000572878.1 Adenylosuccinate lyase 0.32 1.02 B4602_RS00095 -...”
- Metabolic activity, urease production, antibiotic resistance and virulence in dual species biofilms of Staphylococcus epidermidis and Staphylococcus aureus
Vandecandelaere, PloS one 2017 - “...-2.98 + 0.16 0.00 purH SAV_RS05785 Bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase -3.83 + 0.12 0.00 purF SAV_RS05770 Amidophosphoribosyltransferase -3.91 + 0.15 0.00 purM SAV_RS05775 Phosphoribosylaminoimidazole synthetase -4.08 + 0.13 0.00 SAV1064 SAV_RS05740 Phosphoribosylaminoimidazole carboxylase -3.72 + 0.18 0.00 purQ SAV_RS05760 Phosphoribosylformylglycinamidine synthase I -4.59 + 0.13 0.00...”
Q86A85 Amidophosphoribosyltransferase from Dictyostelium discoideum
36% identity, 86% coverage
Mlab_0150 hypothetical protein from Methanocorpusculum labreanum Z
39% identity, 89% coverage
- Purine biosynthesis in archaea: variations on a theme
Brown, Biology direct 2011 - “...of the Euryarchaeota studied, only Methanocorpusculum labreanum 's genome includes two candidate sequences, Mlab_0202 and Mlab_0150. As Mlab_0150's predicted protein has a serine in place of the active site cysteine, we suspect that Mlab_0150 does not encode a glutamine phosphoribosylpyrophosphate amidotransferase, and that Mlab_0202 is the...”
ASE3_ARATH / Q9T0J5 Amidophosphoribosyltransferase 3, chloroplastic; AtATase3; PRPP3; Glutamine phosphoribosylpyrophosphate amidotransferase 3; AtGPRAT3; EC 2.4.2.14 from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
Q9T0J5 amidophosphoribosyltransferase (EC 2.4.2.14) from Arabidopsis thaliana (see paper)
NP_195599 GLN phosphoribosyl pyrophosphate amidotransferase 3 from Arabidopsis thaliana
AT4G38880 ATASE3 (GLN PHOSPHORIBOSYL PYROPHOSPHATE AMIDOTRANSFERASE 3); amidophosphoribosyltransferase from Arabidopsis thaliana
37% identity, 87% coverage
- function: Catalyzes the first committed step of 'de novo' purine biosynthesis from glutamine.
catalytic activity: 5-phospho-beta-D-ribosylamine + L-glutamate + diphosphate = 5- phospho-alpha-D-ribose 1-diphosphate + L-glutamine + H2O (RHEA:14905)
cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster per subunit.)
cofactor: Mg(2+) (Binds 1 Mg(2+) ion per subunit.) - Chemical genetic identification of glutamine phosphoribosylpyrophosphate amidotransferase as the target for a novel bleaching herbicide in Arabidopsis.
Walsh, Plant physiology 2007 - GeneRIF: Chemical genetic identification of glutamine phosphoribosylpyrophosphate amidotransferase as the target for a novel bleaching herbicide in Arabidopsis.
- A Global Proteomic Approach Sheds New Light on Potential Iron-Sulfur Client Proteins of the Chloroplastic Maturation Factor NFU3
Berger, International journal of molecular sciences 2020 - “...nucleotide biosynthesis Amidophosphoribosyltransferase 1 At4g34740 ASE2 0.25 * n.v. 4Fe4S Purine nucleotide biosynthesis Amidophosphoribosyltransferase 2 At4g38880 ASE3 n.d. n.q. 4Fe4S Purine nucleotide biosynthesis Amidophosphoribosyltransferase 3 At1g44446 CAO n.q. n.q. rieske 2Fe/2S Chlorophyll biosynthesis Chloropyll a oxygenase At2g42750 CDJ1 n.d. n.q. 4Fe4S Unknown DNA J protein C77...”
- SNPeffect: identifying functional roles of SNPs using metabolic networks
Sarkar, The Plant journal : for cell and molecular biology 2020 - “...leaf growth (Cookson et al. , 2007 ). Interestingly, inactivating SNPs were found in genes AT4G38880 and AT2G16570 (Figure 3 ) that encode for amidophosphoribosyltransferase, indicating that plant growth is associated with decreased flux through purine metabolism. This enzyme catalyzes the first dedicated step of de...”
- Proteomic Analysis of the Function of a Novel Cold-Regulated Multispanning Transmembrane Protein COR413-PM1 in Arabidopsis
Su, International journal of molecular sciences 2018 - “...]. The isozymes are encoded by the three genes ASE1 (AT2G16570), ASE2 , and ASE3 (AT4G38880). Both ASE1 and ASE2 were localized to chloroplasts [ 57 ]. ASE2 , one of the three ATase isozymes responsible for the first committed step of de novo purine biosynthesis,...”
- Roles and maturation of iron-sulfur proteins in plastids
Przybyla-Toscano, Journal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry 2018 - “...van den Graaf et al. [ 146 ], Rosar et al. [ 172 ] ATase3 At4g38880 [Fe 4 S 4 ] Not yet described APR1 At4g04610 [Fe 4 S 4 ] Not yet described APR2 At1g62180 [Fe 4 S 4 ] Knock-out None but increased sensitivity...”
- Fine mapping in tomato using microsynteny with the Arabidopsis genome: the Diageotropica (Dgt) locus
Oh, Genome biology 2002 - “...AT4g38840 1 / 1 / 6 AT4g38850 - TG269 RFLP - 5'-CAAATTCTTCCTCAGCTTGACT-3' 5'-TGATCTCACATCTTGCTTGCG-3' Dde I AT4g38880 1 / 1 / 1 TC87150 (APRT) EST 3.8e -90 5'-CAGAAAAATGACTTGGAGGGAGAG-3' 5'-CCAAGATTGTGAGGCTGTTAAAGG-3' Rsa I AT4g38900 1 / 1 / 3 TC47447 (bZIP) EST 1.3e -98 5'-AACTTGGAAGCGTCTGCACT-3' 5'-GGACGACCTGTTTTCTGCAT-3' Rsa I AT4g34830...”
BJK46_008835 amidophosphoribosyltransferase from Staphylococcus pseudintermedius
37% identity, 92% coverage
- Erythritol alters gene transcriptome signatures, cell growth, and biofilm formation in Staphylococcus pseudintermedius
Fujii, BMC veterinary research 2023 - “...purine biosynthesis protein PurH -4.69 0 BJK46_008830 phosphoribosylformylglycinamidine cyclo-ligase purM 0.67 phosphoribosylformylglycinamidine cyclo-ligase -4.67 0 BJK46_008835 Amidophosphoribosyltransferase purF 0.63 amidophosphoribosyltransferase 0.75 GO:0009113 purine nucleobase biosynthetic process 0.70 GO:0006189 de novo IMP biosynthetic process 0.70 GO:0009116 nucleoside metabolic process 0.69 GO:0006541 glutamine metabolic process -4.56 2.34E-321 BJK46_008815...”
- “...( purD ), BJK46_008820 ( purH ), BJK46_008825 ( purN ), BJK46_008830 ( purM ), BJK46_008835 ( purF ), BJK46_008840 ( purL ), BJK46_008845 ( purQ ), BJK46_008850 ( purS ), BJK46_008855 ( purC ), BJK46_008860 ( purK ), and BJK46_008865 ( purE ), were located...”
BMEI1488 AMIDOPHOSPHORIBOSYLTRANSFERASE from Brucella melitensis 16M
38% identity, 90% coverage
Wbm0255 Glutamine phosphoribosylpyrophosphate amidotransferase from Wolbachia endosymbiont strain TRS of Brugia malayi
34% identity, 93% coverage
- Defining Brugia malayi and Wolbachia symbiosis by stage-specific dual RNA-seq
Grote, PLoS neglected tropical diseases 2017 - “...in de novo purine biosynthesis, is differentially expressed during female worm development. Additionally, we find wBm0255 amidophosphoribosyltransferase, also involved in de novo purine biosynthesis, to be differentially expressed in both males and females. This supports a potential role of nucleotide production by Wolbachia in the lateral...”
BAB1_0472 Glutamine amidotransferase, class-II:Phosphoribosyltransferase:Purine/pyrimidine phosphoribosyl transferase:Amidophosphoribos... from Brucella melitensis biovar Abortus 2308
38% identity, 93% coverage
- A comprehensive review of small regulatory RNAs in Brucella spp
King, Frontiers in veterinary science 2022 - “...BASRCI414, BASRCI153, or BASRCII26 led to reduced -galactosidase activity when lacZ was fused to BAB1_2002, BAB1_0472, BAB1_0854, BAB1_1361, and BAB2_0187, respectively, indicating that these sRNAs negatively regulate their specific target genes. In the end, further investigation on the regulatory mechanism of these sRNAs is needed to...”
SSO0632 Amidophosphoribosyltransferase (glutamine phosphoribosylpyrophosphate amidotransferase) (ATase) (GPAT) (purF-1) from Sulfolobus solfataricus P2
35% identity, 89% coverage
- Something old, something new, something borrowed; how the thermoacidophilic archaeon Sulfolobus solfataricus responds to oxidative stress
Maaty, PloS one 2009 - “...3-end processing factor, putative SSO0761 1.34E-03 1.856 COG1782 N Glutamine phosphoribosylpyrophosphate amidotransferase) (ATase) (GPAT) (purF-1) SSO0632 8.02E-04 1.851 COG0034 Y Phosphatase, putative (nagD-like) SSO2355 3.41E-03 1.849 COG0647 Y Conserved hypothetical protein SSO2332 1.81E-02 1.827 COG0455 Y Ammonium transporter SSO1054 3.46E-02 1.794 COG0004 N Conserved hypothetical protein...”
- “...relation to oxidative stress earlier. In addition to SSO2044, we found three other regulated genes (SSO0632, SSO0684, and SSO0936) which participate in the glutamate metabolism pathway. This could represent a good example of gene regulation on the level of a pathway. Glutamate metabolism is one of...”
B7P592 Amidophosphoribosyltransferase from Ixodes scapularis
34% identity, 90% coverage
HMPREF0397_RS09955 amidophosphoribosyltransferase from Fusobacterium nucleatum subsp. nucleatum ATCC 23726
36% identity, 86% coverage
- The Fused Methionine Sulfoxide Reductase MsrAB Promotes Oxidative Stress Defense and Bacterial Virulence in Fusobacterium nucleatum
Scheible, mBio 2022 - “...10.19 HMPREF0397_RS09940 Phosphoribosylformylglycinamidine synthase 10.12 HMPREF0397_RS09945 purE 5-(Carboxyamino)imidazole ribonucleotide mutase 9.84 HMPREF0397_RS09960 Phosphoribosylformylglycinamidine cyclo-ligase 9.28 HMPREF0397_RS09955 Amidophosphoribosyltransferase 8.51 HMPREF0397_RS09950 Phosphoribosylaminoimidazolesuccinocarboxamide synthase 8.34 HMPREF0397_RS09980 purH Bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase 8.27 HMPREF0397_RS09985 purD Phosphoribosylamine-glycine ligase 7.39 HMPREF0397_RS04385 Glutaminase A 5.63 HMPREF0397_RS05685 Bifunctional glycosyltransferase family 2 5.22 Miscellaneous HMPREF0397_RS07870...”
PUR1_CHICK / P28173 Amidophosphoribosyltransferase; ATase; Glutamine phosphoribosylpyrophosphate amidotransferase; GPAT; EC 2.4.2.14 from Gallus gallus (Chicken) (see paper)
34% identity, 87% coverage
- function: Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine.
catalytic activity: 5-phospho-beta-D-ribosylamine + L-glutamate + diphosphate = 5- phospho-alpha-D-ribose 1-diphosphate + L-glutamine + H2O (RHEA:14905)
cofactor: Mg(2+) (Binds 1 Mg(2+) ion per subunit.)
cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster per subunit.)
subunit: Homotetramer.
PPAT / Q06203 Amidophosphoribosyltransferase (EC 2.4.2.14) from Homo sapiens (see 2 papers)
PUR1_HUMAN / Q06203 Amidophosphoribosyltransferase; ATase; Glutamine phosphoribosylpyrophosphate amidotransferase; GPAT; EC 2.4.2.14 from Homo sapiens (Human) (see paper)
Q06203 amidophosphoribosyltransferase (EC 2.4.2.14); pantetheine-phosphate adenylyltransferase (EC 2.7.7.3) from Homo sapiens (see 4 papers)
NP_002694 amidophosphoribosyltransferase from Homo sapiens
A8K4H7 Amidophosphoribosyltransferase from Homo sapiens
34% identity, 86% coverage
- function: Catalyzes the formation of phosphoribosylamine from phosphoribosylpyrophosphate (PRPP) and glutamine.
catalytic activity: 5-phospho-beta-D-ribosylamine + L-glutamate + diphosphate = 5- phospho-alpha-D-ribose 1-diphosphate + L-glutamine + H2O (RHEA:14905)
cofactor: Mg(2+) (Binds 1 Mg(2+) ion per subunit.)
cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster per subunit.)
subunit: Homotetramer. - SHMT2 promotes the tumorigenesis of renal cell carcinoma by regulating the m6A modification of PPAT.
Huo, Genomics 2022 (PubMed)- GeneRIF: SHMT2 promotes the tumorigenesis of renal cell carcinoma by regulating the m6A modification of PPAT.
- Phosphopantetheine Adenylyltransferase: A promising drug target to combat antibiotic resistance.
Gupta, Biochimica et biophysica acta. Proteins and proteomics 2021 (PubMed)- GeneRIF: Phosphopantetheine Adenylyltransferase: A promising drug target to combat antibiotic resistance.
- Species-Specific Deamidation of RIG-I Reveals Collaborative Action between Viral and Cellular Deamidases in HSV-1 Lytic Replication.
Huang, mBio 2021 - GeneRIF: Species-Specific Deamidation of RIG-I Reveals Collaborative Action between Viral and Cellular Deamidases in HSV-1 Lytic Replication.
- Frameshift mutations of OGDH, PPAT and PCCA genes in gastric and colorectal cancers.
Jo, Neoplasma 2016 (PubMed)- GeneRIF: The data indicate that amino acid/nucleotide metabolism-related genes OGDH, PPAT and PCCA acquire somatic mutations in microsatellite instability-high gastric cancers and colorectal cancers and that mutational intratumoral heterogeneity may occur in at least some of these tumors.
- Role and regulation of coordinately expressed de novo purine biosynthetic enzymes PPAT and PAICS in lung cancer.
Goswami, Oncotarget 2015 - GeneRIF: purine biosynthetic pathway enzymes PPAT and PAICS, as well as pyruvate kinase activity are increased in lung cancer
- miR-543 functions as a tumor suppressor in glioma in vitro and in vivo
Xu, Oncology reports 2017 - “...0.092072 RUSD2 0.096349 OVCA2 0.103314 RBM15 0.121837 C9K0W8 0.133651 A0A024R7D5 0.145933 ARI3C 0.1481 NOL7 0.154437 A8K4H7 0.163771 CE051 0.174426 B4DKM0 0.176571 PP2AA 0.178847...”
- Epstein-Barr Virus miR-BARTs 7 and 9 modulate viral cycle, cell proliferation, and proteomic profiles in Burkitt lymphoma
Caetano, Tumour virus research 2024 - “...STK4 Serine/threonine-protein kinase 4 1.46 0.542 P31323 PRKAR2B cAMP-dependent protein kinase type II-beta 1.49 0.632 Q06203 PPAT Amidophosphoribosyltransferase 1.58 0.583 E9PBG7 CAMK2D Calcium/calmodulin-dependent protein kinase 1.70 0.659 Q4G176 ACSF3 Malonate--CoA ligase ACSF3 1.71 0.505 Q9NVI7 ATAD3A ATPase family AAA domain-containing protein 3A 1.74 0.505 J3KQ32 OLA1...”
- The Human Ntn-Hydrolase Superfamily: Structure, Functions and Perspectives
Linhorst, Cells 2022 - “...domain-containing protein 1 (ASNSD1) 6.3.5.- Q9NWL6 PPAT Glutamine phosphoribosyl-pyrophosphate amidotransferase (GPAT), Amidophosphoribosyltransferase PPAT, PUR1 2.4.2.14 Q06203 GFPT1 Glutamine fructose-6-phosphate amidotransferase 1 (GFAT1) Gln-Fru6P-Transaminase 1 (GFPT1) 2.6.1.16 Q06210 GFPT2 Glutamine fructose-6-phosphate amidotransferase 2 (GFAT2) Gln-Fru6P-Transaminase 2 (GFPT2) 2.6.1.16 O94808 Penicillin acylase (PVA) d.153.1.3 C89 ASAH1 Acid Ceramidase...”
- Not Drug-like, but Like Drugs: Cnidaria Natural Products.
Laguionie-Marchais, Marine drugs 2021 - “...kinase MLT Q9NYL2 6JUU 2 Mast/stem cell growth factor receptor Kit P10721 6HH1 3 Amidophosphoribosyltransferase Q06203 6CZF 4 Tyrosine-protein kinase BTK Q06187 6AUB 5 Receptor-type tyrosine-protein kinase FLT3 P36888 4XUF 6 LIM domain kinase 1 P53667 5NXC 7 Platelet-derived growth factor receptor alpha P16234 5GRN 8...”
- ATXN1 N-terminal region explains the binding differences of wild-type and expanded forms
Rocha, BMC medical genomics 2019 - “...Q9H1U9); MLST8 (64223; Q9BVC4); NCAM1 (4684; P13591); OTX2 (5015; P32243); PIAS1 (8554; O75925); PPAT (5471; Q06203); QKI (9444; Q96PU8); RAPGEF1 (2889; Q13905); RBFOX2 (23543; O43251); SF1 (7536; Q15637); SLC6A13 (6540; Q9NSD5); STAM2 (10254; O75886); TMX2 (51075; Q9Y320); TRIM38 (10475; O00635); TSC1 (7248; Q92574); TTRAP (51567; O95551);...”
- “...NCAM1 (4684; P13591); OTX2 (5015; P32243); PIAS1 (8554; O75925); PLEKHB1 (58473; Q9UF11) ; PPAT (5471; Q06203); PSPH (5723; P78330) ; QKI (9444; Q96PU8); RAPGEF1 (2889; Q13905); RBM9 (23543; O43251); SF1 (7536; Q15637); SLC6A13 (6540; Q9NSD5); SV2A (9900; Q7L0J3) ; TMX2 (51075; Q9Y320); TRIM38 (10475; O00635); TTRAP...”
- A Proteomic Approach to Uncover Neuroprotective Mechanisms of Oleocanthal against Oxidative Stress.
Giusti, International journal of molecular sciences 2018 - “...6.42 521 Pyruvate kinase PKM PKM P14618 36 6 59 57,937 7.96 559 Amidophosphoribosyltransferase PPAT Q06203 4 4 10 57,398 6.3 693 Gamma-enolase ENO2 P09104 13 13 46 47,269 4.91 856 Cytosolic acyl coenzyme A thioester hydrolase ACOT7 O00154 3 3 14 27,041 6.51 876 Alcohol...”
- “...3 1.56 0.022 506 P10809 HSPD1 60 kDa heat shock protein. mitochondrial 0.83 0.011 559 Q06203 PPAT Amidophosphoribosyltransferase 0.57 0.046 621 Q13838 DDX39B Spliceosome RNA helicase DDX39B 0.83 0.022 624 P31943 HNRNPH1 Heterogeneous nuclear ribonucleoprotein H 0.81 0.039 701 DNAJA2 O60884 DnaJ homolog subfamily A member...”
- Alternative splicing events implicated in carcinogenesis and prognosis of colorectal cancer.
Liu, Journal of Cancer 2018 - “...2.68 1.67 4.31 <0.001 ALS2CL RI 18.2:18.3 Q60I27 2.67 1.68 4.24 <0.001 PPAT AA 3.1 Q06203 0.34 0.21 0.54 <0.001 PIGH AA 1 Q14442 0.36 0.23 0.57 <0.001 LSM7 AA 3.1 Q9UK45 0.36 0.23 0.58 <0.001 PSPC1 AT 9 Q8WXF1 0.37 0.23 0.60 <0.001 UPK3B AT...”
- Probing the prostate tumour microenvironment II: Impact of hypoxia on a cell model of prostate cancer progression
Tonry, Oncotarget 2017 - “...phosphofructokinase, platelet Q01813 -1.143 -0.343 -0.912 -0.585 1.246 1.291 Cytoplasm kinase PPAT phosphoribosyl pyrophosphate amidotransferase Q06203 -0.899 -0.632 -0.68 -0.289 1.272 1.163 Cytoplasm enzyme 5 PPM1G protein phosphatase, Mg2+/Mn2+ dependent, 1G O15355 -0.795 -0.844 -0.934 -0.261 0.998 1.203 Nucleus phosphatase PPP2R2A protein phosphatase 2, regulatory subunit...”
- Inhibition of SCF ubiquitin ligases by engineered ubiquitin variants that target the Cul1 binding site on the Skp1-F-box interface.
Gorelik, Proceedings of the National Academy of Sciences of the United States of America 2016
Q53H22 Amidophosphoribosyltransferase (Fragment) from Homo sapiens
34% identity, 86% coverage
PUR1_RAT / P35433 Amidophosphoribosyltransferase; ATase; Glutamine phosphoribosylpyrophosphate amidotransferase; GPAT; EC 2.4.2.14 from Rattus norvegicus (Rat) (see paper)
34% identity, 86% coverage
NP_523949 phosphoribosylamidotransferase 2, isoform B from Drosophila melanogaster
34% identity, 83% coverage
DKAM_0523 amidophosphoribosyltransferase from Desulfurococcus kamchatkensis 1221n
34% identity, 91% coverage
- Purine biosynthesis in archaea: variations on a theme
Brown, Biology direct 2011 - “...in IMG are underlined, with protein sequences for our proposed earlier start sites shown for DKAM_0523, Mthe_0230, and CENSYa_1910. The cysteine nucleophile is in bold. Alignment and phylogenetic tree generation for the two PurF-like proteins in each of the Crenarchaeota revealed that two distinct clusters (Additional...”
Q8CIH9 Amidophosphoribosyltransferase from Mus musculus
NP_742158 amidophosphoribosyltransferase from Mus musculus
33% identity, 86% coverage
LOC116321116 LOW QUALITY PROTEIN: amidophosphoribosyltransferase-like from Oreochromis aureus
36% identity, 85% coverage
PUR1_DROME / Q27601 Amidophosphoribosyltransferase; ATase; Glutamine phosphoribosylpyrophosphate amidotransferase; GPAT; Phosphoribosylamidotransferase; PRAT; EC 2.4.2.14 from Drosophila melanogaster (Fruit fly) (see paper)
NP_524271 phosphoribosylamidotransferase, isoform A from Drosophila melanogaster
33% identity, 86% coverage
- function: Involved in the first step (and regulatory point) of the de novo biosynthesis of purine nucleotides, where it catalyzes the transfer of glutamine amide to 5-phospho-alpha-D-ribose 1-diphosphate.
catalytic activity: 5-phospho-beta-D-ribosylamine + L-glutamate + diphosphate = 5- phospho-alpha-D-ribose 1-diphosphate + L-glutamine + H2O (RHEA:14905)
cofactor: Mg(2+) (Binds 1 Mg(2+) ion per subunit.)
cofactor: [4Fe-4S] cluster (Binds 1 [4Fe-4S] cluster per subunit.)
disruption phenotype: Reduction in viability and frequent wing defects. - Transcriptional regulation of the purine de novo synthesis gene Prat in Drosophila melanogaster.
Merzetti, Gene 2013 (PubMed)- GeneRIF: DREF binds directly upstream of Prat and the DRE sites associated with its activity are necessary for Prat expression
- A link between impaired purine nucleotide synthesis and apoptosis in Drosophila melanogaster.
Holland, Genetics 2011 - GeneRIF: Data show the presence of apoptosis at the cellular level in both ade2 and Prat mutants, and the upregulated gene HtrA2, which encodes an apoptosis effector and is thus a candidate for initiating apoptosis in response to purine depletion.
- Modifiers of Prat, a de novo purine synthesis gene, in Drosophila melanogaster.
Hackett, Genome 2009 (PubMed)- GeneRIF: whereas Mod(Prat:bw)3-5 suppresses Prat in all stages and tissues examined for both sexes.
- Expression pattern diversity and functional conservation between retroposed PRAT genes from Drosophila melanogaster and Drosophila virilis.
Penney, Journal of molecular evolution 2008 (PubMed)- GeneRIF: Data show that the requirement for both Prat and Prat2 in Drosophila is not simply due to differences in protein function. Both genes have developed nonoverlapping patterns of expression, which correlate with their respective loss-of-function phenotypes.
- The purine synthesis gene Prat2 is required for Drosophila metamorphosis, as revealed by inverted-repeat-mediated RNA interference.
Ji, Genetics 2006 - GeneRIF: Use of Prat and Prat2 double RNA interference causes more severe pupal lethal phenotypes and suggests that Prat and Prat2 have partially additive functions during Drosophila metamorphosis.
- Drosophila melanogaster Prat, a purine de novo synthesis gene, has a pleiotropic maternal-effect phenotype.
Malmanche, Genetics 2004 - GeneRIF: limiting factor in the processes of cellular or nuclear proliferation that take place during egg chamber and embryonic development
- The PRAT purine synthesis gene duplication in Drosophila melanogaster and Drosophila virilis is associated with a retrotransposition event and diversification of expression patterns.
Malmanche, Journal of molecular evolution 2003 (PubMed)- GeneRIF: Evidence suggests that Prat originated by gene duplication by retrotransposition of Prat2.
- Identification of trans-dominant modifiers of Prat expression in Drosophila melanogaster.
Malmanche, Genetics 2003 - GeneRIF: Regulation of expression of prat in the adult eye was studied.
F1RTV4 Amidophosphoribosyltransferase from Sus scrofa
35% identity, 80% coverage
- Proteome Analysis Reveals Syndecan 1 Regulates Porcine Sapelovirus Replication
Zhao, International journal of molecular sciences 2020 - “...Peptides Fold-Change Ratios p -Value Up-regulated A0A286ZSR7 Olfactory receptor 2.56 1 3.02 9.2167 10 5 F1RTV4 Amidophosphoribosyltransferase 1.9 1 2.80 4.2788 10 5 I3LEQ6 Ral GTPase activating protein catalytic alpha subunit 2 2.13 1 2.06 0.0111 F1RL90 PPARG coactivator 1 beta 1.56 1 1.88 0.0194 A0A287BN67...”
SSO0633 Amidophosphoribosyltransferase (glutamine phosphoribosylpyrophosphate amidotransferase) (ATase) (GPAT) (purF-2) from Sulfolobus solfataricus P2
27% identity, 89% coverage
BF9343_2577 amidophosphoribosyltransferase from Bacteroides fragilis NCTC 9343
29% identity, 57% coverage
- Multi-omics approach for understanding the response of Bacteroides fragilis to carbapenems
Zholdybayeva, Heliyon 2024 - “...synthase (dxs) 7,26E-01 DNA polymerase activity, BF9343_3805 DNA polymerase III subunit delta' 7,80E-01 transferase activity BF9343_2577 amidophosphoribosyltransferase 1,45E+00 BF9343_3403 UDP-N-acetylglucosamine 1-carboxyvinyltransferase (murA) 1,17E+00 phosphorylase activity, BF9343_1084 Purine nucleoside phosphorylase/uridine phosphorylase family protein (deoD) 7,71E-01 proton antiporter activity BF9343_2115 Na+/H+ exchanger 1,97E+00 dioxygenase activity BF9343_1318 Pirin-related protein...”
PGN_1445 putative amidophosphoribosyltransferase from Porphyromonas gingivalis ATCC 33277
27% identity, 56% coverage
PRU_1973 glutamine amidotransferase from Prevotella ruminicola 23
25% identity, 69% coverage
- Metabolic networks for nitrogen utilization in Prevotella ruminicola 23
Kim, Scientific reports 2017 - “...and protein biosynthesis ( dapF , diaminopimelate epimerase; asnB , asparagine synthase; PRU_1974, aminotransferase, homolog; PRU_1973, glutamine amidotransferase). Highest values under growth on peptides corresponded to genes involved in protein biosynthesis (PRU_2971, O-acetylhomoserine aminocarboxypropyltransferase; cysK , cysteine synthase; PRU_2042, diaminopimelate dehydrogenase), or had unclear roles in...”
RL2382 putative glucosamine--fructose-6-phosphate aminotransferase [isomerizing] from Rhizobium leguminosarum bv. viciae 3841
35% identity, 28% coverage
G3IFL1 Amidophosphoribosyltransferase from Cricetulus griseus
30% identity, 45% coverage
- Mapping the molecular basis for growth related phenotypes in industrial producer CHO cell lines using differential proteomic analysis
Bryan, BMC biotechnology 2021 - “...high peak VCD G3H412 PCNA Proliferating cell nuclear antigen 2.72 Up in high peak VCD G3IFL1 PPAT Amidophosphoribosyltransferase 2.07 Up in high peak VCD G3IP86 RPA1 Replication protein A 70kDa DNA-binding subunit 1.52 Up in high peak VCD G3IDS7 SLC16A1 Monocarboxylate transporter 1 1.64 Up in...”
- “...G3GZQ9 MCM6 DNA replication licensing factor MCM6 0.00037305 2.57 Up in high peak VCD D10 G3IFL1 PPAT Amidophosphoribosyltransferase 0.00210528 2.07 Up in high peak VCD D10 G3H412 PCNA Proliferating cell nuclear antigen 0.01155428 2.72 Up in high peak VCD D10 G3IP86 RPA1 Replication protein A 70kDa...”
GLMS_METMP / Q6LWM9 Glutamine--fructose-6-phosphate aminotransferase [isomerizing]; D-fructose-6-phosphate amidotransferase; GFAT; Glucosamine-6-phosphate synthase; Hexosephosphate aminotransferase; L-glutamine--D-fructose-6-phosphate amidotransferase; EC 2.6.1.16 from Methanococcus maripaludis (strain DSM 14266 / JCM 13030 / NBRC 101832 / S2 / LL) (see paper)
30% identity, 33% coverage
- function: Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source.
catalytic activity: D-fructose 6-phosphate + L-glutamine = D-glucosamine 6- phosphate + L-glutamate (RHEA:13237)
subunit: Homodimer.
MMP1680 glucosamine--fructose-6-phosphate aminotransferase from Methanococcus maripaludis S2
30% identity, 33% coverage
- Identification of a Direct Biosynthetic Pathway for UDP-N-Acetylgalactosamine from Glucosamine-6-Phosphate in Thermophilic Crenarchaeon Sulfolobus tokodaii
Dadashipour, Journal of bacteriology 2018 - “...for 101 UDP-GlcNAc biosynthetic pathway that the MMP1680 protein and the MMP1077 102 protein, identified from Methanococcus maripoludis, respectively exhibited...”
- N-linked glycosylation in Archaea: a structural, functional, and genetic analysis
Jarrell, Microbiology and molecular biology reviews : MMBR 2014 - “...starting from Fru-6-P involves the combined activities of MMP1680, MMP1077, and MMP1076 to form UDPGlcNAc (108). This precursor is converted to the second sugar...”
- “...Fru-6-P, an isomerizing glutamine-Fru-6-P transaminase, MMP1680 (GlmS), produces glucosamine-6-phosphate (GlcN-6-P). The phosphoglucosamine mutase activity of...”
- Biosynthesis and role of N-linked glycosylation in cell surface structures of archaea with a focus on flagella and s layers
Jarrell, International journal of microbiology 2010 - “...describe the biosynthesis of the acetamido sugar subunit precursors in M. maripaludis [ 119 ]. MMP1680 was shown to transamidate and epimerize the reaction of fructose-6-phosphate and L-glutamine to glucosamine-6-phosphate and glutamate, respectively. Additionally, the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate through the activity of MMP1077 was...”
- Acetamido sugar biosynthesis in the Euryarchaea
Namboori, Journal of bacteriology 2008 - “...assayed for the predicted activities. The MMP1680 protein encodes a universally conserved glucosamine-6-phosphate synthase. The MMP1077 phosphomutase converted...”
- “...reactions catalyzed by the following proteins. The MMP1680 protein catalyzed the isomerization of Fru-6-P and its transamination from the L-glutamine amide,...”
- Complete genome sequence of the genetically tractable hydrogenotrophic methanogen Methanococcus maripaludis
Hendrickson, Journal of bacteriology 2004 - “...from Methanothermobacter thermautotrophicus (110). A final aminotransferase, Mmp1680, does not belong to any of the recognized subgroups and was assigned as...”
O57981 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
29% identity, 29% coverage
ZMO0056 glucosamine--fructose-6-phosphate aminotransferase from Zymomonas mobilis subsp. mobilis ZM4
ZMO_RS00235 glutamine--fructose-6-phosphate transaminase (isomerizing) from Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821
29% identity, 39% coverage
- Construction and comparison of different vehicles for heterologous gene expression in Zymomonas mobilis
Behrendt, Microbial biotechnology 2024 - “...recombination Malic acid production ATCC 31821 Ec mae Khandelwal etal.( 2022 ), Journal of Biotechnology ZMO0056 (downstream) Tn7 transposon CRISPR interference ATCC 31821 Spy dcas9 Banta etal.( 2020 ), Applied and Environmental Microbiology ZMO0038, ZMO1360, ZMO1650 Native CRISPRCas Lactate production native pdc and ldhA of L.mesenteroides...”
- Molecular mechanism of engineered Zymomonas mobilis to furfural and acetic acid stress
Shabbir, Microbial cell factories 2023 - “...recently developed acid tolerant mutant strains have single nucleotide variants (SNVs) in glutamine-fructose-6-phosphate aminotransferase (encoding ZMO0056) and DNA repair proteins. A strain known as RadA (encoding ZMO0589 ) contributes to acid tolerance in mutant strains [ 27 ]. According to some studies, adaptive evolution and forward...”
- Investigation of the impact of a broad range of temperatures on the physiological and transcriptional profiles of Zymomonas mobilis ZM4 for high-temperature-tolerant recombinant strain development
Li, Biotechnology for biofuels 2021 - “...7.09 7.15 7.22 ZZ6_1376 5,10-methylenetetrahydrofolate reductase ZMO1747 6.39 6.57 7.20 7.87 6.08** ZZ6_1146 Glucosamine-fructose-6-phosphate aminotransferase ZMO0056 7.66 7.53 7.53 7.48 8.08* ZZ6_0929 Glycosyl transferase group ZMO0306 6.62 6.36 6.40 6.30 5.73* ZZ6_0923 Phospholipase D/transphosphatidylase ZMO0314 6.41 6.42 6.47 6.50 6.74* ZZ6_1551 Squalene-hopene cyclase ZMO1548 7.19 7.25...”
- Development and characterization of acidic-pH-tolerant mutants of Zymomonas mobilis through adaptation and next-generation sequencing-based genome resequencing and RNA-Seq
Yang, Biotechnology for biofuels 2020 - “...in AcR mutant [ 24 , 25 ]. And single nucleotide variants (SNVs) in genes ZMO0056 and ZMO0589 , which encode a glutamine-fructose-6-phosphate aminotransferase and a DNA repair protein RadA, respectively, have been characterized to likely contribute to acid tolerance in mutant stains developed by a...”
- Engineered Zymomonas mobilis tolerant to acetic acid and low pH via multiplex atmospheric and room temperature plasma mutagenesis
Wu, Biotechnology for biofuels 2019 - “...regions led to two nonsynonymous amino acid (AA) changes in glutaminefructose-6-phosphate aminotransferase encoded by gene ZMO0056 , and RadA encoded by ZMO0589 , respectively. Intergenic SNVs detected in all mutants were targeted in regions between gene ZMO0952 and ZMO0956 . In addition, more unique SNVs were...”
- “...A7 PH 1-29 A7-2 Gene/product 1 51967 C T G276R + + + + + ZMO0056 /glutaminefructose-6-phosphate aminotransferase 2 122147 G A D104N + ZMO0133 /outer membrane-associated acid tolerance proteins 3 122153 C G Q106E + 4 122161 G C Syn. + 5 122169 T G...”
- Prediction and characterization of promoters and ribosomal binding sites of Zymomonas mobilis in system biology era
Yang, Biotechnology for biofuels 2019 - “...0.020.0008 Candidate promoters with medium strength ZMO1351 clcD1 Yes Carboxymethylenebutenolidase 12.93 6.81 3.14 0.140.0064 0.160.0036 ZMO0056 glmS Glucosaminefructose-6-phosphate aminotransferase 12.93 6.91 2.45 0.120.0021 0.110.0024 ZMO0559 Hypothetical protein 12.68 6.75 3.1 0.110.0064 0.080.0039 ZMO1385 Toxic anion resistance family protein 12.83 6.93 2.55 0.060.0012 0.050.0018 ZMO0127 Yes S1/P1...”
- Identification and Characterization of 5' Untranslated Regions (5'UTRs) in Zymomonas mobilis as Regulatory Biological Parts
Cho, Frontiers in microbiology 2017 - “...Bacillus Up in xylose Acetate ZMO0547 chloride channel core Conserved with Gluconobacter crcB Fluoride riboswitches ZMO0056 Glucosamine/fructose-6-phosphate aminotransferase glmS ribozyme ZMO0376 ATP-dependent protease La ZMO0546 sulfate transporter ABC transporter family Up in 5% ethanol stress; up in xylose stress Acetate ZMO0660 DnaK molecular chaperone DnaK ZMO1069...”
- Elucidation of Zymomonas mobilis physiology and stress responses by quantitative proteomics and transcriptomics
Yang, Frontiers in microbiology 2014 - “...A190 P190 14 UNIQUE TRANSCRIPTOMICSPROTEOMICS PAIRS IDENTIFIED ONLY IN 190 h ZMO0017 Fmu 0.73 0.90 ZMO0056 Glucosamine/fructose6phosphate aminotransferase 0.78 1.10 ZMO0062 Aldo/keto reductase 0.97 0.95 ZMO0070 Glutaredoxin, GrxB family 0.75 1.35 ZMO0106 3isopropylmalate dehydratase, small subunit 1.09 0.75 ZMO1885 NADH:flavin oxidoreductase/NADH oxidase 0.74 0.75 ZMO1956 DNA...”
- Molecular mechanism of engineered Zymomonas mobilis to furfural and acetic acid stress
Shabbir, Microbial cell factories 2023 - “...one non-synonymous and synonymous AA change was identified at the same time. In contrast, in ZMO_RS00235 and ZMO_RS02620, two non-synonymous AA changes were detected, which are linked to glutamine-fructose-6-phosphate aminotransferase and DNA repair protein RadA, respectively (Table 1 ). As synonymous (silent) mutations are largely invisible...”
- “...(Additional file 1 : Tables S7, S8, S9, S10). Moreover, we identified four key mutations ZMO_RS00235, ZMO_RS03765 ZMO_RS06410and ZMO_RS04295 in our transcriptome and proteomic data (Additional file 1 : Tables S7, S8, S9, S10), which encode glutamine-fructose-6-phosphate aminotransferase, arginine-tRNA ligase, FUSC family protein and cytochrome c...”
- Genome shuffling enhances stress tolerance of Zymomonas mobilis to two inhibitors
Wang, Biotechnology for biofuels 2019 - “...led to synonymous and non-synonymous amino acid (AA) changes, including two non-synonymous AA changes in ZMO_RS00235 (glutamine-fructose-6-phosphate aminotransferase) and ZMO_RS02620 (DNA repair protein RadA), one non-synonymous AA change and one synonymous AA change in ZMO_RS03765 (arginine-tRNA ligase), and two non-synonymous AA changes in ZMO_RS09165 (IS5/IS1128 family...”
- “...two parents. Genome shuffling revealed that several genes likely contributed to acid/furfural tolerance. The gene ZMO_RS00235 encodes a glutamine-fructose-6-phosphate aminotransferase that was reported to be critical for cells against organic acid stress, and gene ZMO_RS02620 encodes a DNA repair protein RadA, which is essential for the...”
- Replacing water and nutrients for ethanol production by ARTP derived biogas slurry tolerant Zymomonas mobilis strain
Duan, Biotechnology for biofuels 2019 - “...U71Q + + ZMO_RS09165 IS5 family transposase 971,332 TC I63V + 51,967 CT G276R + ZMO_RS00235 Glutaminefructose-6-phosphate aminotransferase 590,452 GA E432K + ZMO_RS02620 DNA repair protein RadA 1,657,469 Delete CAGTTTC Shift + + ZMO_RS07255 Carbamoyl phosphate synthase large subunit Syn.: Synonymous, variation in nucleotide led to...”
- “...SNVs were found in glutaminefructose-6-phosphate transaminase and DNA repair protein RadA which was encoded by ZMO_RS00235 and ZMO_RS02620 , respectively, and new single nucleotide deletion occurred between gene ZMO - _RS06410 and ZMO_RS06415. It has been reported that glutaminefructose-6-phosphate aminotransferase is critical for cells against organic...”
ZZ6_1146 glutamine--fructose-6-phosphate transaminase (isomerizing) from Zymomonas mobilis subsp. mobilis ATCC 29191
29% identity, 39% coverage
- Investigation of the impact of a broad range of temperatures on the physiological and transcriptional profiles of Zymomonas mobilis ZM4 for high-temperature-tolerant recombinant strain development
Li, Biotechnology for biofuels 2021 - “...ZMO0558 7.20 7.16 7.09 7.15 7.22 ZZ6_1376 5,10-methylenetetrahydrofolate reductase ZMO1747 6.39 6.57 7.20 7.87 6.08** ZZ6_1146 Glucosamine-fructose-6-phosphate aminotransferase ZMO0056 7.66 7.53 7.53 7.48 8.08* ZZ6_0929 Glycosyl transferase group ZMO0306 6.62 6.36 6.40 6.30 5.73* ZZ6_0923 Phospholipase D/transphosphatidylase ZMO0314 6.41 6.42 6.47 6.50 6.74* ZZ6_1551 Squalene-hopene cyclase...”
- Enhancement of Thermal Resistance by Metal Ions in Thermotolerant Zymomonas mobilis TISTR 548
Kosaka, Frontiers in microbiology 2020 - “...TISTR 548 ( ZZ6_1376 :Tn 10 ) Charoensuk et al., 2017 TE12 TISTR 548 ( ZZ6_1146 :Tn 10 ) Charoensuk et al., 2017 C12-36 TISTR 548 ( ZZ6_1551 :Tn 10 ) Charoensuk et al., 2017 C11-44 TISTR 548 ( ZZ6_1046 :Tn 10 ) Charoensuk et al.,...”
- “...23 ZZ6_1376 TC03 5,10-methylenetetrahydrofolate reductase Soluble ++++ ++++ + 126 1 118 4 Membrane stabilization ZZ6_1146 TE12 Glucosamine/fructose 6-phoshate aminotransferase Membrane + + 119 6 328 14 ZZ6_0929 3-24 Glycosyl transferase group 1 Soluble + 138 6 146 2 ZZ6_0923 TC04 Phospholipase D/transphosphatidylase Membrane 176 7...”
- Thermotolerant genes essential for survival at a critical high temperature in thermotolerant ethanologenic Zymomonas mobilis TISTR 548
Charoensuk, Biotechnology for biofuels 2017 - “...++++ Metabolism (Group A) ZZ6_1376 5,10-methylenetetrahydrofolate reductase S ++++ ++++ + +++ +++ +++ Membrane ZZ6_1146 Glucosamine/fructose 6-phosphate aminotransferase M + + ++ ++ +++ Stabilization (Group B) ZZ6_0929 Glycosyltransferase group 1 S + ++++ + ++++ ZZ6_0923 Phospholipase D/transphosphatidylase M ZZ6_1551 Squalene hopene cyclase (Shc)...”
- “...group that consists of 12 genes related to membrane stabilization or membrane formation. Of these, ZZ6_1146 encodes glucosamine/fructose 6-phosphate aminotransferase, which is the first and rate-limiting enzyme in the hexosamine biosynthetic pathway and catalyzes the formation of glucosamine-6-phosphate using glutamine as an ammonia donor. This amino...”
EF2151 glucosamine--fructose-6-phosphate aminotransferase, isomerizing from Enterococcus faecalis V583
36% identity, 23% coverage
- Transcriptome, proteome, and metabolite analyses of a lactate dehydrogenase-negative mutant of Enterococcus faecalis V583
Mehmeti, Applied and environmental microbiology 2011 - “...metabolism Cell envelope Energy metabolism EF1900 EF1962 EF1964 EF2151 EF2193 EF2425 etaR araD fba luxS asd panB tpiA gap-2 glmS epaF EF2550 EF2591 EF2881...”
- “...dehydrogenase EF0020 EF0200 EF0282 EF0283 EF0517 EF1002 EF1167 EF2151 EF2550 EF3293 a b pdhA pflB fusA fabL fabF fba glmS glyA guaB Aminotransferase AlaT...”
- Identification of proteins related to the stress response in Enterococcus faecalis V583 caused by bovine bile
Bøhle, Proteome science 2010 - “...EF1405 11.7 4.35 66 9 1.49 0.40 0.60 24 e Cell wall/membrane biogenesis D-fructose-6-phosphate amidotransferase EF2151 65.7 4.93 24 12 1.93 1.13 2.12 25 Coenzyme transport and metabolism Naphthoate synthase EF0445 30.0 5.24 39 10 0.89 1.46 0.43 26 e 2-dehydropantoate 2-reductase EF2445 34.7 5.08 3...”
- “...these cases an upregulation of the mRNA is not accompanied by higher protein levels (EF1499, EF2151, EF1171, EF0020, EF3184, EF3186). One may speculate that other regulatory mechanisms come into play, such as translational regulation or specific protein degradation. Two of these genes (EF3184, EF3186) are part...”
- Comparative genomic analysis of pathogenic and probiotic Enterococcus faecalis isolates, and their transcriptional responses to growth in human urine
Vebø, PloS one 2010 - “...substrates were utilized by E. faecalis during growth in urine. A massive down-regulation of glmS (EF2151), which is responsible for conversion of fructose-6P into glucosamine-6P using glutamine as a nitrogen source, could signify glutamine constraints. Growth in urine also had an impact on pyruvate metabolic pathways...”
Q890U2 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Clostridium tetani (strain Massachusetts / E88)
30% identity, 40% coverage
RTCIAT899_PB02710 glutamine--fructose-6-phosphate transaminase (isomerizing) from Rhizobium tropici CIAT 899
35% identity, 22% coverage
P59362 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Bradyrhizobium diazoefficiens (strain JCM 10833 / BCRC 13528 / IAM 13628 / NBRC 14792 / USDA 110)
31% identity, 29% coverage
- Differential protein profiling of soil diazotroph Rhodococcus qingshengii S10107 towards low-temperature and nitrogen deficiency.
Suyal, Scientific reports 2019 - “...(Phenylalanine tRNA ligase beta subunit, Q8YMH5); PheS (PhenylalaninetRNA ligase alpha subunit, A0A1D8TAJ1); GlmS (Glutaminefructose-6-phosphate aminotransferase, P59362) and EcaA (Carbonic anhydrase, P94170) were identified as hub nodes along with higher BC values (Table 1 ). Besides them, AtpA (ATP synthase subunit alpha, Q98EV6); AtpH (ATP synthase subunit...”
- “...and D-alanine D-alanine ligase, B2JHF8 ); Glutamine synthesis ( CTP synthase, B7KF08; Glutamine fructose-6-phosphate aminotransferase, P59362 ); Biotin metabolism ( ATP-dependent dethiobiotin synthetase, B7K5E6 and Biotin carboxylase, Q06862 ), Nitrogen metabolism (Urease enzyme complex) and Nucleotide metabolism ( dITP/XTP pyrophosphatase, Q98DN4 and Thymidylate synthase, Q0SEI1 )...”
APA386B_546 glutamine--fructose-6-phosphate transaminase (isomerizing) from Acetobacter pasteurianus 386B
30% identity, 39% coverage
CLIBASIA_04210 glucosamine--fructose-6-phosphate aminotransferase from Candidatus Liberibacter asiaticus str. psy62
29% identity, 35% coverage
B9DMA1 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Staphylococcus carnosus (strain TM300)
32% identity, 29% coverage
Cbei_0246 glucosamine--fructose-6-phosphate aminotransferase, isomerizing from Clostridium beijerincki NCIMB 8052
30% identity, 33% coverage
P08633 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Rhizobium leguminosarum bv. viciae
28% identity, 35% coverage
pRL100180 glucosamine--fructose-6-phosphate aminotransferase from Rhizobium leguminosarum bv. viciae 3841
28% identity, 35% coverage
AK34_4894, AK34_RS08675 glutamine--fructose-6-phosphate transaminase (isomerizing) from Burkholderia dolosa AU0158
32% identity, 35% coverage
SO_4741 glucosamine--fructose-6-phosphate aminotransferase (isomerizing) from Shewanella oneidensis MR-1
29% identity, 35% coverage
glmS / F9VPA4 glutamine—fructose-6-phosphate transaminase (EC 2.6.1.16) from Sulfurisphaera tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) (see paper)
GLMS_SULTO / F9VPA4 Glutamine--fructose-6-phosphate aminotransferase [isomerizing]; D-fructose-6-phosphate amidotransferase; GFAT; Glucosamine-6-phosphate synthase; Glutamine:fructose-6-phosphate amidotransferase; Hexosephosphate aminotransferase; L-glutamine--D-fructose-6-phosphate amidotransferase; EC 2.6.1.16 from Sulfurisphaera tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) (Sulfolobus tokodaii) (see paper)
28% identity, 34% coverage
- function: Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source.
catalytic activity: D-fructose 6-phosphate + L-glutamine = D-glucosamine 6- phosphate + L-glutamate (RHEA:13237)
subunit: Homodimer.
Atu1786 D-fructose-6-phosphate amidotransferase from Agrobacterium tumefaciens str. C58 (Cereon)
32% identity, 28% coverage
nodM / CAA41485.1 glucosamine--fructose-6-phosphate aminotransferase (isomerizing) from Sinorhizobium meliloti (see paper)
P25195 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Rhizobium meliloti
31% identity, 35% coverage
Q92PS4 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Rhizobium meliloti (strain 1021)
SMc00231 GLUCOSAMINE--FRUCTOSE-6-PHOSPHATE AMINOTRANSFERASE (NODM PARALOGUE) PROTEIN from Sinorhizobium meliloti 1021
33% identity, 22% coverage
MMB18_RS24585 glutamine--fructose-6-phosphate transaminase (isomerizing) from Burkholderia contaminans
31% identity, 35% coverage
- Biofilm formation is correlated with low nutrient and simulated microgravity conditions in a Burkholderia isolate from the ISS water processor assembly
Diaz, Biofilm 2023 - “...Metabolism MMB18_RS22640 5.04 3.74E-03 aromatic-ring-hydroxylating dioxygenase subunit beta MMB18_RS14330 2.32 3.85E-02 glycerol-3-phosphate dehydrogenase glpD GO:0009331 MMB18_RS24585 2.41 1.56E-02 glutamine--fructose-6-phosphate transaminase (isomerizing) glmS GO:0004360 MMB18_RS34095 2.95 1.71E-02 cyclopropane-fatty-acyl-phospholipid synthase family protein MMB18_RS32955 3.27 1.27E-02 CoA transferase Transcriptional regulation MMB18_RS05045 2.11 1.67E-02 GntR family transcriptional regulator MMB18_RS37535 2.28...”
- “...4.65 4.57E-03 alcohol dehydrogenase AdhP adhP MMB18_RS28595 3.76 6.91E-03 2-aminoethylphosphonate transporter substrate-binding proteinPhnS phnS GO:0055052 MMB18_RS24585 2.49 1.25E-02 glutamine--fructose-6-phosphate transaminase (isomerizing) glmS GO:0004360 MMB18_RS36430 4.37 1.36E-02 SulP family inorganic anion transporter GO:0016021 Phosphate utilization MMB18_RS06635 2.03 1.89E-02 phosphate signaling complex protein PhoU phoU GO:0003700 MMB18_RS06615 2.03...”
BAB2_0658 Glutamine amidotransferase, class-II:Sugar isomerase (SIS):Glucosamine-fructose-6-phosphate aminotransferase, isomerising from Brucella melitensis biovar Abortus 2308
33% identity, 23% coverage
BMEII0685 GLUCOSAMINE-FRUCTOSE-6-PHOSPHATE AMINOTRANSFERASE (ISOMERIZING) from Brucella melitensis 16M
33% identity, 23% coverage
NP_435728 NodM Glutamine aminotransferase from Sinorhizobium meliloti 1021
Q92ZK3 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Rhizobium meliloti (strain 1021)
33% identity, 22% coverage
- 'Ca. Liberibacter asiaticus' proteins orthologous with pSymA-encoded proteins of Sinorhizobium meliloti: hypothetical roles in plant host interaction
Kuykendall, PloS one 2012 - “...711 70 NP_385436 0E+00 Peptidoglycan synthetase NP_436482.1 YP_003065516 1E-93 416 60 NP_386288 1E-100 penicillin-binding transmembrane NP_435728.1 YP_003065356 0E+00 608 76 NP_435728 0E+00 glucosamine-6-Phos transporter Genbank numbers, E-values, number of amino acids (AA) in the homologous region of the protein and the percentage of similar amino acids...”
- “...( Table 1 ), a glucosamine-fructose-5-phosphate aminotransferase, needed for N-acetyl D-glucosamine synthesis, aligns with pSymA-encoded NP_435728.1 (E=0). Electron Transfer An important conserved microsyntenous orthologous gene (MOG) cluster, occurs in the Ca . Liberibacter asiaticus genome and in the genomes of four other members of the Rhizobiales...”
- Genome-Wide Association Studies across Environmental and Genetic Contexts Reveal Complex Genetic Architecture of Symbiotic Extended Phenotypes
Batstone, mBio 2022 - “...including kdp A (Q92XI9), potE (Q92ZU0), and msbA1 (Q92VZ4)in addition to the nodulation protein glmS/nodM (Q92ZK3) and the universally associated cax transporter (discussed above). The role of potassium transporters such as kdp A in osmoregulation during symbiosis is not well understood ( 84 ). The pot...”
- “...et al. ( 45 ). Most notable is the fructose-6-phosphate aminotransferase nod M/ glm S (Q92ZK3) that catalyzes a precursor of both peptidoglycan and Nod factor in the glucosamine biosynthesis pathway. This locus is located in the symbiosis gene region of pSymA, though a paralog exists...”
ST2186 592aa long hypothetical glucosamine--fructose-6-phosphate aminotransferase from Sulfolobus tokodaii str. 7
28% identity, 34% coverage
glmS / AAA86988.1 L-glutamine:D-fructose-6-P amidotransferase precursor from Thermus thermophilus (see paper)
33% identity, 39% coverage
BT_0554 glucosamine--fructose-6-phosphate aminotransferase from Bacteroides thetaiotaomicron VPI-5482
31% identity, 31% coverage
- Systems-level characterization of a host-microbe metabolic symbiosis in the mammalian gut
Heinken, Gut microbes 2013 - “...in silico essential in i exGF MM _ B . The rescued gene knockouts were: BT_0554 (glutamine-fructose-6-phosphate transaminase, EC 2.6.1.16), BT_0558 (mannose-1-phosphate guanylyltransferase, EC 2.7.7.22), BT_1224 (GDP-D-mannose dehydratase, EC 4.2.1.47), and BT_1225 (GDP-L-fucose synthase, EC 1.1.1.271). The deletion of mouse genes did not cause any lethality...”
- “...medium-derived L-fucose into its capsule polysaccharides. 48 For the fourth rescued growth phenotype (glutamine-fructose-6-phosphate transaminase, BT_0554), no information could be found for B. thetaiotaomicron , but in E. coli , the gene knockout causes a glucosamine requirement. 49 When supplying either glucosamine or N-acetylglucosamine to the...”
PF0157 glucosamine-fructose-6-phosphate aminotransferase (isomerizing) from Pyrococcus furiosus DSM 3638
28% identity, 29% coverage
BCAM0478 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 2 from Burkholderia cenocepacia J2315
31% identity, 35% coverage
O26060 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Helicobacter pylori (strain ATCC 700392 / 26695)
HP1532 glucosamine fructose-6-phosphate aminotransferase (isomerizing) (glmS) from Helicobacter pylori 26695
28% identity, 32% coverage
SCO2789 glucosamine-fructose-6-phosphate aminotransferase from Streptomyces coelicolor A3(2)
31% identity, 28% coverage
GSU0270 glucosamine--fructose-6-phosphate aminotransferase (isomerizing) from Geobacter sulfurreducens PCA
30% identity, 27% coverage
BC0190 Glucosamine--fructose-6-phosphate aminotransferase [isomerizing] from Bacillus cereus ATCC 14579
29% identity, 39% coverage
- Analysis of microbial sequences in plasma cell-free DNA for early-onset breast cancer patients and healthy females
Huang, BMC medical genomics 2018 - “...6, 2017 Library statistics Five plasma DNA libraries including BBC (normal), EJC (normal), BC0145 (EOBC), BC0190 (EOBC) and CGBC025 (EOBC) were sequenced by Illumina HiSeq X Ten to produce at least 384 million PE reads per library (eq. ~38-fold coverage) (Table 2 ). Mapping against human...”
- “...(eq. to 5.38%, 3.21%, 7.87%, 4.01% and 4.84% of unmappable ratios) for BBC, EJC, BC0145, BC0190 and CGBC025 libraries, respectively. Table 2 Library statistics Library BBC (normal) EJC (normal) BC0145 (EOBC) BC0190 (EOBC) CGBC025 (EOBC) Raw PE reads 384,623,309 420,790,943 392,322,204 434,928,103 628,712,403 Quality PE reads...”
- Accurate localization of the integration sites of two genomic islands at single-nucleotide resolution in the genome of Bacillus cereus ATCC 10987
Zhang, Comparative and functional genomics 2008 - “...of the ORF's in the B. cereus ATCC 14579 genome, BC0185, BC0186, BC0187, BC0188, and BC0190, respectively. At the 3 end of BCEGI-1, the ORF's BCE0191, BCE0192, BCE0194, and BCE0195 are homologues of the ORF's BC0192, BC0193, BC0195, and BC0196, respectively ( Figure 3 ). The...”
- “...intergenic sequence adjacent to ORF BCE0158 is homologous to an intergenic sequence adjacent to ORF BC0190, whereas an intergenic sequence adjacent to ORF BCE0191 is homologous to an intergenic sequence adjacent to ORF BC0192 ( Figure 4 ). Therefore, it is likely that BCEGI-1 is the...”
SVEN_2576 glutamine--fructose-6-phosphate transaminase (isomerizing) from Streptomyces venezuelae ATCC 10712
30% identity, 28% coverage
BTF1_26825 glutamine--fructose-6-phosphate transaminase (isomerizing) from Bacillus thuringiensis HD-789
28% identity, 39% coverage
- NagRBt Is a Pleiotropic and Dual Transcriptional Regulator in Bacillus thuringiensis
Cao, Frontiers in microbiology 2018 - “...regulator LrgA / / / 10.165 NT BTF1_26820 Group-specific protein / / / 13.357 NT BTF1_26825 glmS Glucosamine-fructose-6-phosphate aminotransferase / / / 5.506 NT BTF1_28050 chiB Chitinase B 113 agacatcacgaagtct 9.57 39.320 NT GENES DOWNREGULATED IN THE nagR MUTANT COMPARED TO WILD-TYPE STRAIN Bti75 BTF1_00565 pphA...”
- “...(BTF1_06850), pyrimidine-nucleoside phosphorylase (BTF1_06845), nucleoside transporter nupC (BTF1_06840) involved in pyrimidine metabolism, glucosamine-fructose-6-phosphate aminotransferase, glmS (BTF1_26825) involved in amino sugar metabolism, and so on. These genes are believed to be indirectly regulated by NagR Bt. For example, the expression of glmS (BTF1_26825) and its riboswitch gene...”
VpaChn25_0345, WU75_06265 glutamine--fructose-6-phosphate transaminase (isomerizing) from Vibrio parahaemolyticus
30% identity, 35% coverage
- Identification of Antibacterial Components and Modes in the Methanol-Phase Extract from a Herbal Plant Potentilla kleiniana Wight et Arn
Tang, Foods (Basel, Switzerland) 2023 - “...cpxA 10.981 Two-component sensor protein WU75_18575 cpxR 26.5 Transcriptional regulator Alanine, aspartate and glutamate metabolism WU75_06265 glmS 0.037 Glucosamine-fructose-6-phosphate Aminotransferase WU75_07465 glnA 0.123 Glutamine synthetase WU75_04655 putA 0.145 Pyrroline-5-carboxylate dehydrogenase WU75_14680 - 0.286 NAD-glutamate dehydrogenase WU75_05875 carB 0.343 Carbamoyl phosphate synthase large subunit WU75_05820 gltB 0.414...”
- Genomic and transcriptomic analyses reveal distinct biological functions for cold shock proteins (VpaCspA and VpaCspD) in Vibrio parahaemolyticus CHN25 during low-temperature survival
Zhu, BMC genomics 2017 - “...subunit IIB Alanine, aspartate and glutamate metabolism VpaChn25A_0370 3.4733 Adenylosuccinate synthase VpaChn25_0104 2.2225 Glutamine synthetase VpaChn25_0345 0.3501 Glucosamine-fructose-6-phosphate aminotransferase VpaChn25_0436 2.1782 Glutamate synthase subunit beta VpaChn25_0437 2.0222 Glutamate synthase subunit alpha VpaChn25_1375 3.4554 Succinate-semialdehyde dehydrogenase VpaChn25_1376 3.0672 4-aminobutyrate aminotransferase VpaChn25_2552 0.4804 Glutaminase VpaChn25_2583 2.0986 Aspartate carbamoyltransferase...”
- “.../ornithine succinyltransferase VpaChn25_2721 0.2687 Bifunctional N-succinyldiaminopimelate-aminotransferase / acetylornithine transaminase protein Alanine, aspartate and glutamate metabolism VpaChn25_0345 0.2743 Glucosamine-fructose-6-phosphate aminotransferase VpaChn25_0438 2.461 Glutamate synthase subunit beta VpaChn25_0439 2.6963 Glutamate synthase, large subunit VpaChn25_1114 0.407 Alanine dehydrogenase VpaChn25_2022 0.4771 Cytoplasmic asparaginase I * VpaChn25, chromosome 1; VpaChn25A, chromosome...”
CPF_2636 glucosamine--fructose-6-phosphate aminotransferase, isomerizing from Clostridium perfringens ATCC 13124
31% identity, 22% coverage
BCE0158 glucosamine--fructose-6-phosphate aminotransferase (isomerizing) from Bacillus cereus ATCC 10987
29% identity, 39% coverage
- Accurate localization of the integration sites of two genomic islands at single-nucleotide resolution in the genome of Bacillus cereus ATCC 10987
Zhang, Comparative and functional genomics 2008 - “...10987 genome, the ORF's at the 5 end of BCEGI-1, BCE0154, BCE0155, BCE0156, BCE0157, and BCE0158 are homologues of the ORF's in the B. cereus ATCC 14579 genome, BC0185, BC0186, BC0187, BC0188, and BC0190, respectively. At the 3 end of BCEGI-1, the ORF's BCE0191, BCE0192, BCE0194,...”
- “...Figure 3(b) ). Therefore, it is highly likely that BCEGI-1 was integrated between the ORF's BCE0158 and BCE0191, whereas BCEGI-2 was integrated between the ORF's BCE4594 and BCE4627, respectively. Besides comparing at the gene level, we also performed homology searches at the sequence level to determine...”
BP0666 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] from Bordetella pertussis Tohama I
30% identity, 35% coverage
RSc0178 PROBABLE GLUCOSAMINE--FRUCTOSE-6-PHOSPHATE AMINOTRANSFERASE PROTEIN from Ralstonia solanacearum GMI1000
30% identity, 38% coverage
lp_0822 glutamine-fructose-6-phosphate transaminase (isomerizing) from Lactobacillus plantarum WCFS1
39% identity, 22% coverage
- Transcriptomic Evidence of Molecular Mechanisms Underlying the Response of Lactobacillus Plantarum WCFS1 to Hydroxytyrosol
Reverón, Antioxidants (Basel, Switzerland) 2020 - “...in the influx and production of glutamine and ammonium, i.e., lp_1581 or glnA (glutamine synthetase), lp_0822 (glutamine-fructose-6-P transaminase), genes coding for two Gln ABC transporters ( lp_0802 and lp_0803 ) ( lp_2110 and lp_2111 ), lp_2830 (aspartate ammonia lyase which produces fumarate from Asp with the...”
- Molecular adaptation of Lactobacillus plantarum WCFS1 to gallic acid revealed by genome-scale transcriptomic signature and physiological analysis
Reverón, Microbial cell factories 2015 - “...functions involved in influx and production of glutamine (Gln) and ammonium, i.e. glnA (glutamine synthetase), lp_0822 (glutamine-fructose-6-phosphate transaminase), genes coding for a Gln ABC transporter ( lp_0802 and lp_0803 ), lp_2830 (aspartate ammonia-lyase which produces fumarate from Asp with the production of ammonium), amtB (NH 4...”
- Identification of prebiotic fructooligosaccharide metabolism in Lactobacillus plantarum WCFS1 through microarrays
Saulnier, Applied and environmental microbiology 2007 - “...lp_0329 lp_0349 lp_0436 lp_0576 lp_0575 lp_0577 lp_0587 lp_0822 lp_1083 lp_1386 lp_1409 lp_1466 lp_1468 lp_1469 lp_1471 lp_1472 lp_1473 lp_1686 lp_1921 lp_2531...”
VIBHAR_00831 glucosamine-fructose-6-phosphate aminotransferase from Vibrio harveyi ATCC BAA-1116
30% identity, 35% coverage
Hsero_4426 glutamine--fructose-6-phosphate transaminase (isomerizing) from Herbaspirillum seropedicae SmR1
29% identity, 35% coverage
- Essential Genes for In Vitro Growth of the Endophyte Herbaspirillum seropedicae SmR1 as Revealed by Transposon Insertion Site Sequencing
Rosconi, Applied and environmental microbiology 2016 - “...dispensable regions were located between Hsero_2418 and Hsero-4580 ( trnL ) (202,525 bp) and between Hsero_4426 ( glmS ) and Hsero_4580 (194,479 bp). In-depth analysis of the genes required for in vitro growth and survival. Of the 395 genes identified as being required for growth and...”
- “...the AsnC family of transcription-regulating proteins. It is divergently transcribed from the essential gene glmS (Hsero_4426). Homologs of glmS have been described as essential for 25 other bacterial species, and the arrangement of these two genes is conserved in many proteobacteria (data not shown). It is...”
CD0120 glucosamine--fructose-6-phosphate aminotransferase (isomerizing) from Clostridium difficile 630
28% identity, 38% coverage
CC0118 glucosamine--fructose-6-phosphate aminotransferase from Caulobacter crescentus CB15
30% identity, 33% coverage
AL538_RS12075 glutamine--fructose-6-phosphate transaminase (isomerizing) from Vibrio harveyi
30% identity, 35% coverage
LSEI_1019 glutamine--fructose-6-phosphate transaminase (isomerizing) from Lacticaseibacillus paracasei ATCC 334
LSEI_1019 Glucosamine 6-phosphate synthetase, amidotransferase and phosphosugar isomerase domains from Lactobacillus casei ATCC 334
36% identity, 25% coverage
XP_650078 glucosamine--fructose-6-phosphate aminotransferase, putative from Entamoeba histolytica HM-1:IMSS
28% identity, 31% coverage
- Molecular and biochemical characterization of Entamoeba histolytica fructokinase
Matt, Parasitology research 2015 - “...6-phosphate can be converted in one step to glucosamine 6-phosphate by a glucosaminefructose-6-phosphate aminotransferase (candidate XP_650078) followed by acetylation by a glucosamine-6-phosphate N -acetyltransferase (candidates XP_655194, XP_649522, and XP_648703). The resulting N -acetylglucosamine 6-phosphate can serve as a direct precursor of chitin in the E. histolytica...”
KSF55_04140 glutamine--fructose-6-phosphate transaminase (isomerizing) from Lactiplantibacillus pentosus
38% identity, 22% coverage
Clocel_2403 glutamine--fructose-6-phosphate transaminase (isomerizing) from Clostridium cellulovorans 743B
29% identity, 31% coverage
CT816 Glucosamine-Fructose-6-P Aminotransferase from Chlamydia trachomatis D/UW-3/CX
31% identity, 29% coverage
BJS_08489 glutamine--fructose-6-phosphate transaminase (isomerizing) from Bradyrhizobium japonicum SEMIA 5079
blr1632 nodM from Bradyrhizobium japonicum USDA 110
30% identity, 28% coverage
- Genetic variation in symbiotic islands of natural variant strains of soybean Bradyrhizobium japonicum and Bradyrhizobium diazoefficiens differing in competitiveness and in the efficiency of nitrogen fixation
Bender, Microbial genomics 2022 - “...A C BJS_08142 GCG GTG A/V 266 89 SNP 9 384 316 A G C BJS_08489 AGG GGG R/G 16 6 SNP 9 482 621 G C C BJS_08333 GCT GGT A/G 434 145 S 340 Indel 9 569 452 G GT C BJS_08412 CGT CGTT...”
- “...subunit CobS Yes Glutenin_hmw pfam03157 BJS_08142 Hypothetical protein No putative conserved domains have been detected BJS_08489 Glucosamine-fructose-6-phosphate aminotransferase Yes GlmS COG0449 BJS_08333 C4-dicarboxylic acid transport protein Yes GltP COG1301 S 340 BJS_08412 Transposase Yes HTH_32 pfam13565 BJS_05315 Alpha/beta fold hydrolase No putative conserved domains have been...”
- Soybean-mediated suppression of BjaI/BjaR1 quorum sensing in Bradyrhizobium diazoefficiens impacts symbiotic nitrogen fixation
Han, Applied and environmental microbiology 2024 (secret) - Influence of elevated atmospheric carbon dioxide on transcriptional responses of Bradyrhizobium japonicum in the soybean rhizoplane
Sugawara, Microbes and environments 2013 - “...fixK 1 1.6 2.2 Transcriptional regulator, Crp family Symbiosis Nodulation bll1631 noeL 1.7 GDP-mannose 4,6-dehydratase blr1632 nodM 5.9 Putative glucosamine synthase bll2016 nolY 2.0 Nodulation protein NolY blr2024 nodY 1.6 Nodulation protein NodY blr2025 nodA 1.9 Acyl transferase blr2029 nodU 1.8 6-O-carbamoyl transferase blr2034 nolO 1.6...”
- Soybean seed extracts preferentially express genomic loci of Bradyrhizobium japonicum in the initial interaction with soybean, Glycine max (L.) Merr
Wei, DNA research : an international journal for rapid publication of reports on genes and genomes 2008 - “...24) covering five genes that encode multidrug resistance protein (blr1629), NolK (bll1630), NoeL (bll1631), NodM (blr1632), and NoeD (blr1633) was induced by SSE and genistein at 6 hpi and then became weaker at 12 hpi. Downstream of this locus, two other loci (clone 57, 1112) covering...”
LMOf2365_0762 D-fructose-6-phosphate amidotransferase from Listeria monocytogenes str. 4b F2365
34% identity, 28% coverage
- Transcriptomic Analysis of Listeria monocytogenes in Response to Bile Under Aerobic and Anaerobic Conditions
Chakravarty, Frontiers in microbiology 2021 - “...family 7.3 LMOf2365_0021 Glycosyl hydrolase, family 1 6.9 LMOf2365_2146 Hydrogen peroxide-dependent heme synthase 6.5 glmS LMOf2365_0762 Glutaminefructose-6-phosphate transaminase 6.3 LMOf2365_1093 N-acetylmuramoyl-L-alanine amidase 6.3 LMOf2365_0057 Accessory gene regulator B 5.9 LMOf2365_1386 Phosphate butyryltransferase 5.7 thiI LMOf2365_1614 tRNA uracil 4-sulfurtransferase 5.7 galU LMOf2365_1099 UTPglucose-1-phosphate uridylyltransferase 5.6 LMOf2365_1702 Methionine...”
PputGB1_5427 glucosamine--fructose-6-phosphate aminotransferase from Pseudomonas putida GB-1
29% identity, 35% coverage
CTL0188 glucosamine--fructose-6-phosphate aminotransferase from Chlamydia trachomatis 434/Bu
30% identity, 29% coverage
TK0809 glucosamine--fructose-6-phosphate aminotransferase (isomerizing) from Thermococcus kodakaraensis KOD1
31% identity, 23% coverage
LMOSA_16310 glutamine--fructose-6-phosphate transaminase (isomerizing) from Listeria monocytogenes str. Scott A
34% identity, 28% coverage
Igni_0171 glutamine--fructose-6-phosphate transaminase from Ignicoccus hospitalis KIN4/I
30% identity, 29% coverage
- Multi-omics analysis provides insight to the Ignicoccus hospitalis-Nanoarchaeum equitans association
Rawle, Biochimica et biophysica acta. General subjects 2017 - “...gamma subunit t Igni_0728 N-acetyl-gamma-glutamyl-phosphate reductase t Igni_1387 Ornithine carbamoyltransferase t L-Ornithine m L-Citrulline m Igni_0171 Glutaminefructose-6-phosphate transaminase t Igni_1430 Argininosuccinate lyase t Fumarate m Igni_0635 Argininosuccinate synthase L-Citrulline m Note: Gene/proteins are listed by Ignicoccus gene identifiers with corresponding annotations. Metabolites are listed below enzymes...”
PSPTO5595 glucosamine--fructose-6-phosphate aminotransferase, isomerizing from Pseudomonas syringae pv. tomato str. DC3000
33% identity, 23% coverage
BPSL1312 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 2 from Burkholderia pseudomallei K96243
29% identity, 34% coverage
Gmet_0104 Glucosamine-fructose-6-phosphate aminotransferase, isomerising from Geobacter metallireducens GS-15
27% identity, 27% coverage
PP_5409 glucosamine--fructose-6-phosphate aminotransferase, isomerizing from Pseudomonas putida KT2440
30% identity, 35% coverage
HZ99_17745 glutamine--fructose-6-phosphate transaminase (isomerizing) from Pseudomonas fluorescens
31% identity, 35% coverage
- Transcriptomic analysis of the response of Pseudomonas fluorescens to epigallocatechin gallate by RNA-seq
Liu, PloS one 2017 - “...glycoside hydrolase RfaB Peptidoglycan HZ99_00070 7.32 4.53E-03 peptidoglycan biosynthesis protein MviN HZ99_13545 3.56 1.05E-02 LD-carboxypeptidase HZ99_17745 2.42 7.97E-03 glucosamine fructose-6-phosphate aminotransferase GlmS HZ99_12130 1.98 4.14E-02 UDP-N-acetylmuramoyl-tripeptideD-alanyl-D-alanine ligase MurF HZ99_06200 -2.36 2.52E-02 D-alanyl-D-alanine endopeptidase PBP7 Cell wall related proteins and exopolysaccharides HZ99_06855 8.84 1.03E-05 porin OprD HZ99_18605...”
SAR11_1151 glutamine-fructose-6-phosphate transaminase (isomerizing) from Candidatus Pelagibacter ubique HTCC1062
29% identity, 35% coverage
LM6179_1039 glutamine--fructose-6-phosphate transaminase (isomerizing) from Listeria monocytogenes 6179
30% identity, 39% coverage
lmo0727 similar to L-glutamine-D-fructose-6-phosphate amidotransferase from Listeria monocytogenes EGD-e
30% identity, 39% coverage
- Genomic characteristics of listeria that caused invasive listeriosis during the COVID-19 pandemic
Voronina, 2022 - SecA2 Associates with Translating Ribosomes and Contributes to the Secretion of Potent IFN-β Inducing RNAs
Teubner, International journal of molecular sciences 2022 - “...protein S1 homolog Translation 0.08 0.08 lmo1755 gatA Glutamyl-tRNA(Gln) amidotransferase subunit A Translation 0.07 0.08 lmo0727 glmS Glutamine--fructose-6-phosphate aminotransferase [isomerizing] Cell wall/membrane biogenesis 0.07 0.08 lmo1286 parE DNA topoisomerase 4 subunit B Replication. recombination and repair 0.06 0.07 lmo0258 * rpoB RNA polymerase beta subunit Transcription...”
- Transcriptomic and phenotypic responses of Listeria monocytogenes strains possessing different growth efficiencies under acidic conditions
Bowman, Applied and environmental microbiology 2010 - “...SigB, CtsR lmo0292 lmo0486 (rpmF) SigB lmo0726, lmo0727 (glmS) lmo0866 lmo0919 HrcA lmo0953 SigB, PrfA, CodY lmo0964 lmo1302 (lexA), lmo1303 lmo1369-lmo1374...”
- Glycerol metabolism and PrfA activity in Listeria monocytogenes
Joseph, Journal of bacteriology 2008 - “...YG-A lmo0632b lmo0640a,b lmo0643a,b lmo0650 lmo0669 lmo0722b lmo0727 lmo0769 lmo0781 lmo0782b lmo0783 lmo0784b lmo0810 lmo0813 uhpTb,d lmo0859 lmo0860 lmo0861...”
- Transcriptomic and phenotypic analyses suggest a network between the transcriptional regulators HrcA and sigmaB in Listeria monocytogenes
Hu, Applied and environmental microbiology 2007 - “...lmo0044 lmo0045 lmo0046 lmo0223 lmo0248 lmo0249 lmo0726 lmo0727 lmo1059 lmo1268 lmo1469 lmo1468 lmo1523 lmo1542 lmo1541 lmo1657 lmo1658 lmo1683 lmo1785 lmo1784...”
- Overexpression of PrfA leads to growth inhibition of Listeria monocytogenes in glucose-containing culture media by interfering with glucose uptake
Marr, Journal of bacteriology 2006 - “...Unknown Conserved hypothetical protein Group III lmo0726 lmo0727 gbuAd gbuC glnRd glnA lmo1516d lmo1517 lmo1518 lmo1625 lmo1626 trpBd trpFd trpG lmo2101d...”
VDA_003226 glutamine--fructose-6-phosphate transaminase (isomerizing) from Photobacterium damselae subsp. damselae CIP 102761
32% identity, 28% coverage
BPSS2009 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] 3 from Burkholderia pseudomallei K96243
30% identity, 35% coverage
BMMGA3_01020 glutamine--fructose-6-phosphate transaminase (isomerizing) from Bacillus methanolicus MGA3
29% identity, 29% coverage
Pput_5291 glucosamine--fructose-6-phosphate aminotransferase from Pseudomonas putida F1
30% identity, 35% coverage
SA1959 D-fructose-6-phosphate amidotransferase from Staphylococcus aureus subsp. aureus N315
SAV2154 D-fructose-6-phosphate amidotransferase from Staphylococcus aureus subsp. aureus Mu50
30% identity, 35% coverage
- The effect of skin fatty acids on Staphylococcus aureus
Neumann, Archives of microbiology 2015 - “...hydroxymethyltransferase 1.24 364 SA1915 GlyA Serine hydroxymethyltransferase 0.90 367 SA1927 FbaA Fructose-bisphosphate aldolase 0.61 530 SA1959 GlmS Glucosamine-fructose-6-phosphate transferase 1.12 218 SA1984 Asp23 Alkaline shock protein 23 1.66 827 SA2003 HysA Hyaluronate lyase precursor 0.30 156 SA2093 SsaA Secretory antigen precursor SsaA homolog ue 0.09 592...”
- “...SA1811 Hlb Beta-hemolsysin 0.16 519 SA1812 Hypothetical protein 0.44 500 SA1813 Hypothetical protein 0.07 494 SA1959 GlmS Glucosamine-fructose-6-phosphate transferase 0.05 218 SA2093 SsaA Secretory antigen precursor SsaA homologue 4.74 592 SA2093 SsaA Secretory antigen precursor SsaA homologue 6.24 593 SA2204 GpmA Phosphoglycerate mutase, pgm homologue 0.08...”
- Coordinated phenotype switching with large-scale chromosome flip-flop inversion observed in bacteria
Cui, Proceedings of the National Academy of Sciences of the United States of America 2012 - “...murZ UDP-N-acetylglucosamine-1-carboxylvinyl transferase 2 SA1959 glmS Glucosamine-fructose-6-phosphate aminotransferase SA1965 glmM Phosphoglucosamine-mutase...”
- The SAV1322 gene from Staphylococcus aureus: genomic and proteomic approaches to identification and characterization of gene function
Kim, BMC microbiology 2016 - “...SAV1737 Up Cell division, cell wall, cell envelope biogenesis A017 gi|15925144 Glucosamine--fructiose-6-phosphate aminotransferase 167 glmS SAV2154 Down A032 gi|15925072 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase 792 murF SAV2082 Down A033 gi|15925114 UDP-N-acetylglucosamine-1-carboxylvinyl transferase 1062 murZ SAV2124 Down A048 gi|15923145 Capsular polysaccharide synthesis enzyme Cap5G 518 capG SAV0155 Down A274 gi|15924665...”
Q6GES3 glutamine-fructose-6-phosphate transaminase (isomerizing) (EC 2.6.1.16) from Staphylococcus aureus (see paper)
SAR2242 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] from Staphylococcus aureus subsp. aureus MRSA252
30% identity, 35% coverage
SAOUHSC_02399 glucosamine--fructose-6-phosphate aminotransferase, isomerizing from Staphylococcus aureus subsp. aureus NCTC 8325
Q2FWA0 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Staphylococcus aureus (strain NCTC 8325 / PS 47)
SACOL2145 glucosamine--fructose-6-phosphate aminotransferase (isomerizing) from Staphylococcus aureus subsp. aureus COL
30% identity, 35% coverage
- Modulation of cell wall synthesis and susceptibility to vancomycin by the two-component system AirSR in Staphylococcus aureus NCTC8325
Sun, BMC microbiology 2013 - “...Alanine racemase, putative 2.81 SAOUHSC_02317 murF UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanyl ligase 2.3 SAOUHSC_02318 ddl D-alanyl-alanine synthetase A 2.34 SAOUHSC_02399 glmS Glucosamine--fructose-6-phosphate aminotransferase 2.05 SAOUHSC_02444 Osmoprotectant transporter, BCCT family, opuD-like protein 2.86 SAOUHSC_02998 cap5C Capsular polysaccharide biosynthesis protein, Cap5C 2.04 a - indicates down-regulated in the airSR mutant. Autolysis rate...”
- Isocyanides inhibit bacterial pathogens by covalent targeting of essential metabolic enzymes
Geißler, Chemical science 2024 - “...proteins that have various molecular functions. Only two essential enzymes, glutaminefructose-6-phosphate aminotransferase (GlmS, Uniprot ID: Q2FWA0) and 3-oxoacyl-[acyl-carrier-protein] synthase 2 (FabF, Uniprot ID: Q2FZR9), were identified among the major hits ( Fig. 4C , Tables S8 and S9 ). 49 Importantly, I16 modified these enzymes at...”
- Identification of commonly expressed exoproteins and proteolytic cleavage events by proteomic mining of clinically relevant UK isolates of Staphylococcus aureus
Smith, Microbial genomics 2016 - “...factor C SACOL1729 Threonyl-tRNA synthetase C SACOL1745 Pyruvate kinase C SACOL1952 Ferritins family protein C SACOL2145 Glucosamine-fructose-6-phosphate aminotransferase C SACOL2213 DNA-directed RNA polymerase subunit alpha C SACOL2618 l -Lactate dehydrogenase C SACOL0545 50S ribosomal protein L25/general stress protein Ctc C SACOL2117 Fructose-bisphosphate aldolase C SACOL2224 50S...”
P0E69_19890 glutamine--fructose-6-phosphate transaminase (isomerizing) from Chimaeribacter arupi
30% identity, 35% coverage
- Chimaeribacter arupi a new member of the Yersineacea family has the characteristics of a human pathogen
Riediger, Frontiers in cellular and infection microbiology 2023 - “...peptidoglycan transglycosylase P0E69_18200 alr 3963797..3964876 alanine racemase P0E69_19885 glmU 4335096..4336466 bifunctional UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase GlmU P0E69_19890 glmS 4336668..4338497 glutaminefructose-6-phosphate transaminase (isomerizing) P0E69_02635 glmM 551934..553271 phosphoglucosamine mutase P0E69_04295 uppS 926815..927573 (2E,6E)-farnesyl-diphosphate-specific ditrans,polycis-undecaprenyl-diphosphate synthase Another important factor contributing to the virulence of a bacterium is its flagellar motility....”
HI0429 glucosamine--fructose-6-phosphate aminotransferase (glmS) from Haemophilus influenzae Rd KW20
P44708 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
30% identity, 35% coverage
AT00_18800 glutamine--fructose-6-phosphate transaminase (isomerizing) from Pseudoalteromonas lipolytica SCSIO 04301
29% identity, 35% coverage
A0J47_RS01525 glutamine--fructose-6-phosphate transaminase (isomerizing) from Photobacterium damselae subsp. damselae
32% identity, 28% coverage
RBAM_002320 GlmS from Bacillus amyloliquefaciens FZB42
29% identity, 35% coverage
- Linking plant nutritional status to plant-microbe interactions
Carvalhais, PloS one 2013 - “...RBAM_018960 yocH 3.2 2.7 -N RBAM_001110 clpC 2.0 2.2 -N RBAM_036710 iolH 4.7 28.5 -N RBAM_002320 glmS 2.2 2.3 -N RBAM_018960 yocH 2.0 1.9 -K RBAM_019060 dhaS 2.1 68.6 -K RBAM_036760 iolC 2.1 244.0 -K RBAM_018960 yocH 2.7 22.1 -K RBAM_030250 yvqH 5.5 305.8 Root exudates...”
GLMS_BACSU / P0CI73 Glutamine--fructose-6-phosphate aminotransferase [isomerizing]; D-fructose-6-phosphate amidotransferase; GFAT; Glucosamine-6-phosphate synthase; Hexosephosphate aminotransferase; L-glutamine--D-fructose-6-phosphate amidotransferase; EC 2.6.1.16 from Bacillus subtilis (strain 168) (see paper)
P0CI73 glutamine-fructose-6-phosphate transaminase (isomerizing) (EC 2.6.1.16) from Bacillus subtilis (see 3 papers)
BSU01780, NP_388059 L-glutamine-D-fructose-6-phosphate amidotransferase from Bacillus subtilis subsp. subtilis str. 168
34% identity, 22% coverage
- function: Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source.
catalytic activity: D-fructose 6-phosphate + L-glutamine = D-glucosamine 6- phosphate + L-glutamate (RHEA:13237)
subunit: Homodimer. - The Blueprint of a Minimal Cell: MiniBacillus
Reuß, Microbiology and molecular biology reviews : MMBR 2016 - “...Yes 2.5.1.30 3AQB M. luteus hepS BSU22760 Yes 2.5.1.30 BSU01780 Yes 2.6.1.16 4AMV E. coli glmM gcaD BSU01770 BSU00500 Yes Yes 5.4.2.10 2.7.7.23 3PDK 4AAW B....”
- Secondary structural entropy in RNA switch (Riboswitch) identification
Manzourolajdad, BMC bioinformatics 2015 - “...0.293 79 yxkD BSU38840 0.825 59 200120 200276 forward BSU01770 glmM -198 0.2611 79 glmS BSU01780 0.825 60 2186812 2186968 reverse BSU20420 yorD -94 0.2611 79 yorE BSU20410 0.825 61 2926840 2926996 reverse BSU28630 pheT -89 0.3185 1021 yshA BSU28610 0.823 62 2054401 2054557 reverse BSU18840...”
- Rapid steps in the glmS ribozyme catalytic pathway: cation and ligand requirements.
Brooks, Biochemistry 2011 - GeneRIF: investigation of catalytic mechanism of glmS ribozyme: kinetic requirement for Mg2+ (or other divalent cations); prefolding occurs in presence of Mg2+; substrate GlcN6P binds by phosphate moiety in ligand-binding pocket; pH dependence
A0KQX0 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Aeromonas hydrophila subsp. hydrophila (strain ATCC 7966 / DSM 30187 / BCRC 13018 / CCUG 14551 / JCM 1027 / KCTC 2358 / NCIMB 9240 / NCTC 8049)
30% identity, 35% coverage
- Mechanisms of low susceptibility to the disinfectant benzalkonium chloride in a multidrug-resistant environmental isolate of Aeromonas hydrophila
Chacón, Frontiers in microbiology 2023 - “...Serine transporter family protein 1.583 0.00- A0KPA7 TIGR04219 family outer membrane beta-barrel protein 1.491 0.002 A0KQX0 Glutaminefructose-6-phosphate aminotransferase 0.740 0.014 A0KEG2 Deoxyribonuclease TatD 1.581 0.008 A0KN64 ATP-dependent Zn proteases 1.480 0.012 A q -value of < 0.05 corresponds to adjusted p -values after false discovery rate...”
- “...A0KP12 AHA_3543 6 A0KQG0 pyrB 0 A0KPA7 AHA_3652 1 A0KP19 ppa 0 A0KPP9 rsmC 10 A0KQX0 glmS 9 4. Conclusion In summary, we have characterized the strain A. hydrophila INISA09 and its low susceptibility to BAC using various genomic, proteomic, and phenotypic techniques. This natural isolate...”
VF_2372 D-fructose-6-phosphate amidotransferase from Vibrio fischeri ES114
29% identity, 35% coverage
- Mutational Analysis of Vibrio fischeri c-di-GMP-Modulating Genes Reveals Complex Regulation of Motility
Shrestha, Journal of bacteriology 2022 (secret) - Tools for Rapid Genetic Engineering of Vibrio fischeri
Visick, Applied and environmental microbiology 2018 - “...the intergenic region between yeiR (VF_2370) and glmS (VF_2372). The arrow indicates the site of insertion, while the arrowhead indicates the position of the...”
- An Expanded Transposon Mutant Library Reveals that Vibrio fischeri δ-Aminolevulinate Auxotrophs Can Colonize Euprymna scolopes
Lyell, Applied and environmental microbiology 2017 - “...functionb 1,263 Cell division 522 Cell division NL81 glmS (VF_2372) 686 1,830 AN4, DD1, RM1 alr (VF_0302) 246, 465, 134 1,080 AN3, SV8, SV14 RP4 glr (murI)...”
DIP1700 glucosamine--fructose-6-phosphate aminotransferase [isomerizing] from Corynebacterium diphtheriae NCTC 13129
30% identity, 28% coverage
WP_042362290 glutamine--fructose-6-phosphate transaminase (isomerizing) from Staphylococcus xylosus
28% identity, 35% coverage
AK34_RS13635 glutamine--fructose-6-phosphate transaminase (isomerizing) from Burkholderia dolosa AU0158
28% identity, 35% coverage
OEOE_RS03035 glutamine--fructose-6-phosphate transaminase (isomerizing) from Oenococcus oeni PSU-1
30% identity, 40% coverage
- Transcriptomic and Proteomic Analysis of Oenococcus oeni Adaptation to Wine Stress Conditions
Margalef-Català, Frontiers in microbiology 2016 - “...Glycerophosphoryl diester phosphodiesterase OEOE_RS07050 1.49 1.64 2.08 2.51 2.57 2.56 Cell wall/membrane/envelope biogenesis Glucosaminefructose-6-phosphate aminotransferase OEOE_RS03035 2.94 3.14 3.65 3.92 3.99 3.97 D-alanyl-D-alanine carboxypeptidase OEOE_RS03435 5.53 5.83 6.01 5.82 5.61 5.64 Peptidoglycan interpeptide bridge formation protein OEOE_RS06965 0.95 1.87 2.52 2.39 1.85 1.70 Sortase OEOE_RS06970 1.46...”
- “...OEOE_RS07670 0.8 1.1 33.6 2-nitropropane dioxygenase OEOE_RS07675 1.5 0.7 33.5 Cell wall/membrane/envelope biogenesis Glucosaminefructose-6-phosphate aminotransferase OEOE_RS03035 1.7 1.1 66.2 Rod shape-determining protein MreB OEOE_RS03200 1.2 1.1 40.1 UDP-N-acetylmuramateL-alanine ligase OEOE_RS06110 0.6 1.6 48.1 Peptidoglycan interpeptide bridge formation protein OEOE_RS06975 1.1 1 39.4 D-alanyl-D-alanine carboxypeptidase OEOE_RS07530 0.8...”
XP_012650079 glucosamine--fructose-6-phosphate aminotransferase (isomerizing) from Babesia microti strain RI
30% identity, 31% coverage
- In Silico Survey and Characterization of Babesia microti Functional and Non-Functional Proteases
Florin-Christensen, Pathogens (Basel, Switzerland) 2021 - “...carbamoyl-phosphate synthase// aspartate carbamoyltransferase BMR1_01G02285 BBM_I02285 - cl36884 CPSaseII_lrg Superfamily 459-1571 C334, H407 T C44 XP_012650079 glucosamine--fructose-6-phosphate aminotransferase BmR1_04g07400 BBM_III07400 - cl36542 PTZ00295 super family C40 T C48 XP_012648199 sentrin-specific protease 1 BMR1_02g02160 BBM_II02160 MER0378492 family C48 unassigned peptidases cl23802 Peptidase_C48 Superfamily 191-358 H279, D298, Q347,...”
ETH_00019125 Glucosamine: fructose-6-phosphate aminotransferase (Fragment) from Eimeria tenella
33% identity, 22% coverage
- RNA Seq analysis of the Eimeria tenella gametocyte transcriptome reveals clues about the molecular basis for sexual reproduction and oocyst biogenesis
Walker, BMC genomics 2015 - “...79.18 mannitol 2-dehydrogenase oxidoreductase ETH_00015660 153.33 UDP-glucose 4-epimerase glycosylation ETH_00007235 58.24 oligosaccharyl transferase STT3 glycosylation ETH_00019125 52.30 glucosamine-fructose-6-phosphate aminotransferase glycosylation ETH_00005370 52.07 UDP-N-acetyl-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase T3 glycosylation ETH_00007230 44.54 dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit stt3a glycosylation ETH_00018780 44.49 beta-n-acetylglucosaminyltransferase-like protein glycosylation ETH_00004905 653.67 GNS1/SUR4 family fatty acid metabolism ETH_00007660...”
- “...identified that code for enzymes in the protein glycosylation pathway, including EtGFAT (glucosamine: fructose-6-phophate aminotransferase) (ETH_00019125), the primary enzyme in the amino sugar biosynthesis pathway that was previously localised to E. tenella macrogametes [ 17 ]. Interestingly, recent studies have indicated the coccidian oocyst wall architecture...”
DR0302 glucosamine--fructose-6-phosphate aminotransferase (isomerizing) from Deinococcus radiodurans R1
31% identity, 30% coverage
PmVP161_1917 glutamine--fructose-6-phosphate transaminase (isomerizing) from Pasteurella multocida
28% identity, 35% coverage
APL_1631 Glucosamine--fructose-6-phosphate aminotransferase (isomerizing) from Actinobacillus pleuropneumoniae L20
28% identity, 40% coverage
DR_0302 glutamine--fructose-6-phosphate transaminase (isomerizing) from Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539
31% identity, 32% coverage
- Essentiality of threonylcarbamoyladenosine (t(6)A), a universal tRNA modification, in bacteria
Thiaville, Molecular microbiology 2015 - “...(EC 1.4.4.2) 2.1 2.79E-02 0.922 DR_0608 Histone acetyltransferase HPA2 and related acetyltransferases 2.0 4.27E-03 1 DR_0302 Glucosamine--fructose-6-phosphate aminotransferase [isomerizing] (EC 2.6.1.16) -2.0 1.59E-03 0.338 DR_0113 oxidoreductase, short-chain dehydrogenase/reductase family -2.0 1.88E-04 0.922 DR_0456 MotA/TolQ/ExbB proton channel family protein -2.0 6.70E-03 0.775 DR_2221 Tellurium resistance protein TerD...”
VC0487 glucosamine--fructose-6-phosphate aminotransferase (isomerizing) from Vibrio cholerae O1 biovar eltor str. N16961
MS6_0339 glutamine--fructose-6-phosphate transaminase (isomerizing) from Vibrio cholerae MS6
30% identity, 35% coverage
- Dynamic transitions of initiator binding coordinate the replication of the two chromosomes in Vibrio cholerae
Niault, Nature communications 2025 - “...we inserted one or two copies of crtS into the att Tn7 site (located near VC0487 on Chr1) and deleted the endogenous crtS site. As anticipated, the strain with two crtS exhibited a higher Chr2 copy number compared to the strain with a single crtS when...”
- Outer membrane vesicles and the outer membrane protein OmpU govern Vibrio cholerae biofilm matrix assembly
Potapova, mBio 2024 - “...strains were generated through a Tn7-based system that inserts in the genomic region between loci VC0487 and VC0488, as described previously ( 78 ). Triparental conjugation was performed, with donor E. coli S17-1 pir cells carrying either pGP704::Tn7-GFP (or desired promoter-gene in place of GFP), as...”
- A peptide-binding domain shared with an Antarctic bacterium facilitates Vibrio cholerae human cell binding and intestinal colonization
Lloyd, Proceedings of the National Academy of Sciences of the United States of America 2023 - “...the V. cholerae chromosome via Tn7 mutagenesis that inserts in the genomic region between loci VC0487 and VC0488, as described previously ( 45 ). Hemagglutination. The HA assay was adapted from refs. 5 and 34 . V. cholerae strains from overnight cultures grown in LB at...”
- S-Nitrosylation of the virulence regulator AphB promotes Vibrio cholerae pathogenesis
Chen, PLoS pathogens 2022 - “...containing gentamicin (20 g/ml). The insertion of mini Tn7 cassette at the intergenic region of VC0487 and VC0488 was confirmed by PCR and sequencing using flanking primers of insertion site. The chromosomal lacZ ::P tac-tcpPH strain was constructed by the multiplex genome editing by natural transformation...”
- The quorum sensing transcription factor AphA directly regulates natural competence in Vibrio cholerae
Haycocks, PLoS genetics 2019 - “...gtagtcgagcagttgcttac (VC0317) 371706 371662 ggatgcaacaggtcgattgg (VC0348) VC0349 423066 423063 ctatgcaacaatctgcgcct (VC0397) VC0398 519136 519147 caatgcaactgctctcttac (VC0487) 707906 707923 ctaagcagcgaaatgcatac VC0661 < > VC0662 r VC0661 < > VC0662 r 924229 924216 ctatgcaagttgattcatca VC0857 a < > VC0858 VC0857 a < > VC0858 929346 929341 gcaggcgccctgttgcatag (VC0864)...”
- “...opposite regulatory effect. Where annotated, the gene numbers correspond to hflX (VC0348), mshH (VC0398), glmS (VC0487), brnQ (VC0662), pilE (VC0857), fimT (VC0858), tnpA (VC0870, VCA0202, VCA0275 and VCA0493), luxO (VC1021), tfoX (VC1153), feoB (VC2077), prsA (VC2183), viuA (VC2211), pyrG (VC2448), hutR (VCA0064), pncB (VCA0098), intI4 (VCA0291),...”
- A Conserved Regulatory Circuit Controls Large Adhesins in Vibrio cholerae
Kitts, mBio 2019 - “...generated through a Tn 7 -based system that inserts in the genomic region between loci VC0487 and VC0488, as described previously ( 78 ). Triparental conjugation was performed, with donor E. coli S17-1 ( pir ) cells carrying either pGP704::Tn 7 -GFP (or desired promoter-gene in...”
- Quorum sensing controls Vibrio cholerae multicellular aggregate formation
Jemielita, eLife 2018 - “...merodiploid/haploid vc0092 LexA transcriptional repressor ( lexA ) Merodiploid vc0175 Deoxycytidylate deaminase-like protein, putative Merodiploid vc0487 Glucosamine-fructose-6-phosphate aminotransferase ( glmS ) Merodiploid vc0576 Stringent starvation protein A ( sspA ) Merodiploid vc0647 Polyribonucleotide nucleotidyltransferase ( pnp ) Both vc1836 Translocation protein ( tolB ) Haploid vc1904...”
- Vibrio cholerae Response Regulator VxrB Controls Colonization and Regulates the Type VI Secretion System
Cheng, PLoS pathogens 2015 - “...expression was driven from its native promoter was inserted into the Tn7 site (located between VC0487 and VC0488) on the chromosome of vxrB . In vivo competition assay of vxrB-Tn7vxrB had a CI of 0.93, similar to wild type levels, where vxrB had a CI of...”
- More
- Vibrio cholerae embraces two major evolutionary traits as revealed by targeted gene sequencing
Okada, Scientific reports 2018 - “...V. tasmaniensis, and V. cyclitrophicus carry M near the homologue of the glutamine-fructose-6-phosphate transaminase gene (MS6_0339), which is located on chromosome I. The latter three species and V. tubiashii and V. jasicida harbored homologous of MS6_A0926 and MS6_A0928 at various distances (0.2kb to 10kb) from the...”
ABD05_RS12450 glutamine--fructose-6-phosphate transaminase (isomerizing) from Burkholderia pyrrocinia
30% identity, 35% coverage
SSU05_0549 D-fructose-6-phosphate amidotransferase from Streptococcus suis 05ZYH33
32% identity, 23% coverage
AN415_00168 glutamine--fructose-6-phosphate transaminase (isomerizing) from Acinetobacter baumannii
AB57_3845 glutamine-fructose-6-phosphate transaminase (isomerizing) from Acinetobacter baumannii AB0057
28% identity, 35% coverage
- Dissemination of novel Tn7 family transposons carrying genes for synthesis and uptake of fimsbactin siderophores among Acinetobacter baumannii isolates
Hamidian, Microbial genomics 2021 - “...Here, Tn 6171 was found to be located 25bp downstream of the glmS gene (locus_id AN415_00168 in CP012952) and flanked by a 5bp target site duplication (TSD) AAGGC (bases 133823133827 and 183750183754 in CP012952). As this is the location targeted by Tn 7 [ 16, 17...”
- Variation in the complex carbohydrate biosynthesis loci of Acinetobacter baumannii genomes
Kenyon, PloS one 2013 - “...PglL, GlmS, GlmM, GlmU, Gne, and Wzi are found in the at locus tags AB57_3633, AB57_3845, AB57_3769, AB57_3844, AB57_2335, and AB57_1078 respectively. Synthesis of both capsular and O-antigen polysaccharides begins with the synthesis of the repeat unit in the cytoplasm. A pre-formed sugar precursor is transferred...”
- “...baumannii chromosome (see Figure 1 ). The glmS , glmM and glmU genes [locus tags AB57_3845, AB57_3769, and AB57_3844 respectively in CP001182] are required for the synthesis of UDP-D-Glc p NAc. Another gene [locus tag AB57_2335 in CP001182] predicts a protein with 36% identity to Gne...”
YPTB3964 glucosamine--fructose-6-phosphate aminotransferase from Yersinia pseudotuberculosis IP 32953
30% identity, 35% coverage
K9C16_00775 glutamine--fructose-6-phosphate transaminase (isomerizing) from Acinetobacter baumannii
28% identity, 35% coverage
VV1_0641 D-fructose-6-phosphate amidotransferase from Vibrio vulnificus CMCP6
28% identity, 35% coverage
Q9HT25 glutamine-fructose-6-phosphate transaminase (isomerizing) (EC 2.6.1.16) from Pseudomonas aeruginosa (see paper)
PA5549 D-fructose-6-phosphate amidotransferase from Pseudomonas aeruginosa PAO1
30% identity, 35% coverage
- Pseudomonas aeruginosa Lipoxygenase LoxA Contributes to Lung Infection by Altering the Host Immune Lipid Signaling
Morello, Frontiers in microbiology 2019 - “...P1 was inserted in the chromosomal att site (intergenic region located between genes PA5548 and PA5549 on the chromosome) using pUC18-miniTn7T vector strategy. Upper right panel: colorimetric assay performed on overnight grown cultures (50 l) of PAK wt , loxA , and overloxA mutants; recombinant LoxA...”
- Identification of a Chemoreceptor in Pseudomonas aeruginosa That Specifically Mediates Chemotaxis Toward α-Ketoglutarate
Martín-Mora, Frontiers in microbiology 2016 - “...pMAMV257 Ap r ; 1.4-kb PCR product containing the intergenic region between genes pa5548 and pa5549 ( glmS ) of P. aeruginosa PAO1 was inserted into the EcoRI/HindIII sites of pUC18NotI. A BamHI site was inserted into this intergenic region by PCR. This study pMAMV258 Ap...”
- “...was generated by separately amplifying the 5 ends of the convergently transcribed genes pa5548 and pa5549 ( glmS ) of P. aeruginosa PAO1. These PCR products were obtained using primers glmS-EcoRI_fw and gmlS-BamHI_rv (for amplifying 5 end of glmS ) and glmS-BamHI_fw and glmS-HindIII_rv (for amplifying...”
- Antibacterial phage ORFans of Pseudomonas aeruginosa phage LUZ24 reveal a novel MvaT inhibiting protein
Wagemans, Frontiers in microbiology 2015 - “...the phage proteins in the Pseudomonas genome (specifically in the Tn7 site between PA5548 and PA5549 ) under the control of an IPTG-inducible lac promoter which was verified using PCR and DNA sequencing ( Choi et al., 2005 , 2006 ). Escherichia coli and P. aeruginosa...”
- Image-based 384-well high-throughput screening method for the discovery of skyllamycins A to C as biofilm inhibitors and inducers of biofilm detachment in Pseudomonas aeruginosa
Navarro, Antimicrobial agents and chemotherapy 2014 - “...genome was biased toward several base pairs between the PA5549 and PA5548 loci. Confirmation of the GFP insertion was performed by colony PCR using primers...”
- A systems-level approach for investigating Pseudomonas aeruginosa biofilm formation
Xu, PloS one 2013 - “...1 6 PA0945( purM ) ,PA4693( pssA ),PA4855( purD ),PA4957( psd ), PA5164( rmlC ), PA5549( glmS ) 2 1 1 PA5161( rmlB ) 3 1 1 PA3639( accA ) 4 1 99 PA0005( lptA ),PA0006( yaeD ),PA0280( cysA ),PA0281( cysW ), PA0282( cysT ),PA0283( sbp...”
- A systems biology approach to drug targets in Pseudomonas aeruginosa biofilm
Sigurdsson, PloS one 2012 - “...Branched chain amino acid biosynthesis IlvC (PA4694), IlvD (PA0353) Cell envelope biosynthesis GlmU (PA5552), GlmS (PA5549), MurI (PA4662), MraY (PA4415), MurE (PA4417), MurC (PA4411), MurB (PA2977) DdlB (PA4410), DdlA (PA4201), MurA (PA4450),MurD (PA4414) Cell envelope biosynthesis- O-antigen RmlA (PA5163) RmlC (PA5164) RmlB (PA5161) Citrate acid cycle...”
- Selection of an antibiotic-hypersusceptible mutant of Pseudomonas aeruginosa: identification of the GlmR transcriptional regulator
Ramos-Aires, Antimicrobial agents and chemotherapy 2004 - “...we called glmR, is located between the glmS (PA5549) and glmU (PA5552) homologues of E. coli, responsible for the synthesis of UDP-N-acetylglucosamine-1-P, a...”
- “...represses the transcription of the adjacent glmS homologue (PA5549) in P. aeruginosa, possibly affecting the pool of precursors for peptidoglycan and LPS...”
- A superfamily of metalloenzymes unifies phosphopentomutase and cofactor-independent phosphoglycerate mutase with alkaline phosphatases and sulfatases
Galperin, Protein science : a publication of the Protein Society 1998 - “...129 162 167 164 131 165 171 lsal am pa5549 P51690 PO8842 P34059 P22304 P15586 P51688 Fig. 1. Multiple alignment of the alkaline phosphatase superfamily. The...”
SERP1760 glucosamine--fructose-6-phosphate aminotransferase, isomerizing from Staphylococcus epidermidis RP62A
Q5HM69 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Staphylococcus epidermidis (strain ATCC 35984 / DSM 28319 / BCRC 17069 / CCUG 31568 / BM 3577 / RP62A)
35% identity, 22% coverage
PA14_73170 glucosamine--fructose-6-phosphate aminotransferase from Pseudomonas aeruginosa UCBPP-PA14
30% identity, 35% coverage
Cthe_1162 D-fructose-6-phosphate amidotransferase from Clostridium thermocellum ATCC 27405
29% identity, 22% coverage
SGO_1757 glucosamine--fructose-6-phosphate aminotransferase from Streptococcus gordonii str. Challis substr. CH1
35% identity, 22% coverage
- Proteomic response in Streptococcus gordonii DL1 biofilm cells during attachment to salivary MUC5B
Robertsson, Journal of oral microbiology 2021 - “...gene neighborhood, this protein is suggested to be functionally associated with the isomerizing glutaminefructose-6-phosphate aminotransferase (SGO_1757, GlmS) and glycosyl hydrolase 6-phospho-beta-glucosidase (SGO_1759, Ghg) [ 27 ]. GlmS is involved in the direction of carbohydrates from glycolysis to cell wall peptidoglycan synthesis through conversion of fructose-6-phosphate to...”
- Transcriptome analysis of Streptococcus gordonii Challis DL1 indicates a role for the biofilm-associated fruRBA operon in response to Candida albicans
Jesionowski, Molecular oral microbiology 2016 - “...energy metabolism (SGO_0184, SGO_0440, SGO_0631, SGO_1283, SGO_1300, SGO_1592, SGO_1593, SGO_0384), central intermediary metabolism (SGO_0278, SGO_1720, SGO_1757), and transport and binding proteins (SGO_0383, SGO_0630, SGO_0982, SGO_0985, SGO_1216). The shifts in expression generally relate to genes involved in amino acid metabolism and transport. Accordingly, representative genes arcA and...”
- “...Energy metabolism/Sugars 2.0 0.019 SGO_1593 arginine deiminase arcA Energy metabolism/Amino acids and amines 1.9 0.009 SGO_1757 glucosamine-fructose-6-phosphate aminotransferase glmS Central intermediary metabolism/Amino sugars 1.9 0.008 SGO_1300 NADPH-dependent reductase Energy metabolism/Electron transport 1.8 0.005 SGO_0985 amino acid permease protein SP0711 Transport and binding proteins/Amino acids, peptides and...”
- Amino Sugars Enhance the Competitiveness of Beneficial Commensals with Streptococcus mutans through Multiple Mechanisms
Zeng, Applied and environmental microbiology 2016 - “...also harbors a gene for GlcN-6-P synthase (glmS, SGO_1757). Similar to S. mutans, computer algorithms predict at least one putative binding site (dre) for...”
HAH_0486 glutamine--fructose-6-phosphate transaminase (isomerizing) from Haloarcula hispanica ATCC 33960
31% identity, 29% coverage
Q9CGT6 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] from Lactococcus lactis subsp. lactis (strain IL1403)
30% identity, 35% coverage
BHWA1_01145 glucosamine--fructose-6-phosphate aminotransferase, isomerizing from Brachyspira hyodysenteriae WA1
29% identity, 22% coverage
PD0110 glucosamine--fructose-6-phosphate aminotransferase from Xylella fastidiosa Temecula1
27% identity, 28% coverage
M28_Spy0958 isomerizing glucosamine--fructose-6-phosphate aminotransferase from Streptococcus pyogenes MGAS6180
35% identity, 19% coverage
- Adaptation of group A Streptococcus to human amniotic fluid
Sitkiewicz, PloS one 2010 - “...system, mannose fructose family M28_Spy0759 SPy1059 ptsC 4.04 7.65 13.42 PTS system, mannose fructose family M28_Spy0958 SPy1280 glmS 2.80 2.01 Glucosaminefructose-6-phosphate aminotransferase M28_Spy1036 SPy1291 glgP 2.16 Maltodextrin phosphorylase M28_Spy1037 SPy1292 malM 14.96 4-alpha-glucanotransferase M28_Spy1039 SPy1294 malE 4.94 Maltose maltodextrin-binding protein M28_Spy1041 SPy1296 malG 2.19 Maltose transport...”
MT3542 D-fructose-6-phosphate amidotransferase from Mycobacterium tuberculosis CDC1551
Rv3436c D-fructose-6-phosphate amidotransferase from Mycobacterium tuberculosis H37Rv
29% identity, 27% coverage
- Structural and functional features of enzymes of Mycobacterium tuberculosis peptidoglycan biosynthesis as targets for drug development
Moraes, Tuberculosis (Edinburgh, Scotland) 2015 - “...of the refinement. Protein Sequence * Ramachandran LG score QMEAN score Template RMSD () GlmS MT3542 90.6% (84.8%) 5.83 (1.03) 0.75 (0.06) 4AMV [ 21 ] 0.21 GlmM MT3546 93.1% (91.8%) 6.23 (5.58) 0.87 (0.86) 3PDK [ 36 ] 0.81 GlmU Rv1018c 94.7% (93.1%) 5.93 (6.02)...”
- Mutations in the promoter region of methionine transporter gene metM (Rv3253c) confer para-aminosalicylic acid (PAS) resistance in Mycobacterium tuberculosis
Zhang, mBio 2024 - “...the intergenic region of metM and Rv3254 , two isolates presented mutations in glmS ( Rv3436c , encoding glutamine-fructose-6-phosphate aminotransferase) and Rv1363c (encoding an uncharacterized protein), respectively. In total, nine mutations (G-7T, G-31A, G-33A, G-35T, A-39G, C-40T, C-42T, C-57T, and C-101T) were detected in the metM...”
- “...No P15 WT G31A C60T No P18 WT G31A C60T No P19 WT G31A C60T Rv3436c (a1658t, Q553L) P20 WT G31A C60T No P21 WT G31A C60T No P22 WT G31A C60T No P23 WT G31A C60T No P25 WT G31A C60T No P26 WT G31A...”
- Overcoming Mycobacterium tuberculosis through small molecule inhibitors to break down cell wall synthesis
Kuang, Acta pharmaceutica Sinica. B 2022 - “...glucosamine-6-phosphate (GlcN-6-P) by glucosamine-6-phosphate synthetase (GlmS). The GlmS on MTB is encoded by glms gene (rv3436c), which is homologous to E. coli glms . GlcN-6-P is then converted to glucosamine-1-phosphate (GlcN-1-P) by glucose phosphate mutase (GlmM). GlmM, similar to E. coli GlmM, is encoded by the...”
- Large-scale genomic analysis shows association between homoplastic genetic variation in Mycobacterium tuberculosis genes and meningeal or pulmonary tuberculosis
Ruesen, BMC genomics 2018 - “...27 11 0.007 21 32 0.001 PEPGRS26 (Rv1441c) 0 5 0.031 2 4 0.491 glmS (Rv3436c) 0 5 0.031 0 0 n.a. Unnamed (Rv3740c) 0 4 0.05 3 0 0.011 Pathway-level Genes with mutation (N) Genes with mutation (N) Pathway name TBM PTB P-value TBM PTB...”
- The glyceraldehyde-3-phosphate dehydrogenase GapDH of Corynebacterium diphtheriae is redox-controlled by protein S-mycothiolation under oxidative stress
Hillion, Scientific reports 2017 - “...UPF0210 protein DIP1287 Cys324 (K)GGMMAC 324 SR(V) GlmS DIP1700 Glutamine-fructose-6-P aminotransferase Cys74 (K)VQALEQELETSPMPQSC 74 LGIGHTR(W) Rv3436c The S -mycothiolated proteins were identified using shotgun LC-MS/MS analysis and the Scaffold proteome software based on the mass increase of 484Da (for -SSM) at Cys peptides. The table lists...”
- Construction and application of a co-expression network in Mycobacterium tuberculosis
Jiang, Scientific reports 2016 - “..., Rv1829, Rv1833c, Rv2527, Rv2530c, Rv2531c, Rv2534c, Rv2535c, Rv2549c, Rv3365c, Rv3433c, Rv3434c, and glmS ( Rv3436c )), and significantly down-regulated Rv1788 ( PE18 ) ( Fig. 9B ). The dark violet module contains three TFs ( Rv0324, Rv3334, and Rv3833 ). Overexpression of Rv0324 up-regulated the...”
- A multi-level multi-scale approach to study essential genes in Mycobacterium tuberculosis
Ghosh, BMC systems biology 2013 - “...path between Rv3441c (mrsA) and Rv1240 (mdh) in a WT network. This path includes genes Rv3436c (glmS) and Rv2332 (mez) and has path cost equal to 6.36 10 -5 . All the four genes are involved in cellular metabolism according to Tuberculist [ 39 ] and...”
- “...list of annotations are provided in Additional file 7 : Table S4. Upon KO of Rv3436c (glmS), the simulation indicates that the next best theoretically possible path (Figure 3 c), is much longer than the original path and also has a higher path cost, 2.6 10...”
- Insight into human alveolar macrophage and M. tuberculosis interactions via metabolic reconstructions
Bordbar, Molecular systems biology 2010 - “...Yes Rv3266c rmlD dTDP-6-deoxy- L -lyxo-4-hexulose reductase Yes Rv3398c idsA1 Dimethylallyltranstransferase Rv3423c alr Alanine racemase Rv3436c glmS Glutamine-fructose-6-phosphate transaminase Rv3465 rmlC dTDP-4-dehydrorhamnose 3,5-epimerase Rv3581c ispF 2- C -methyl- D -erythritol 2,4-cyclodiphosphate synthase Rv3582c ispD 2- C -methyl- D -erythritol 4-phosphate cytidylyltransferase Rv3792 Arabinofuranosyl transferase Rv3793 embC...”
- Expression, essentiality, and a microtiter plate assay for mycobacterial GlmU, the bifunctional glucosamine-1-phosphate acetyltransferase and N-acetylglucosamine-1-phosphate uridyltransferase
Zhang, The international journal of biochemistry & cell biology 2008 - “...has shown that the protein encoded by M. tuberculosis Rv3436c, Rv3441c and Rv1018c are homologous to E. coli GlmS, GlmM, and GlmU, respectively. Therefore, we...”
SPy1280 putative L-glutamine-D-fructose-6-phosphate amidotransferase from Streptococcus pyogenes M1 GAS
35% identity, 19% coverage
- Adaptation of group A Streptococcus to human amniotic fluid
Sitkiewicz, PloS one 2010 - “...mannose fructose family M28_Spy0759 SPy1059 ptsC 4.04 7.65 13.42 PTS system, mannose fructose family M28_Spy0958 SPy1280 glmS 2.80 2.01 Glucosaminefructose-6-phosphate aminotransferase M28_Spy1036 SPy1291 glgP 2.16 Maltodextrin phosphorylase M28_Spy1037 SPy1292 malM 14.96 4-alpha-glucanotransferase M28_Spy1039 SPy1294 malE 4.94 Maltose maltodextrin-binding protein M28_Spy1041 SPy1296 malG 2.19 Maltose transport system...”
SCO4740 D-fructose-6-phosphate amidotransferase from Streptomyces coelicolor A3(2)
29% identity, 28% coverage
glmS / AAC21670.1 glucosamine synthase from Acidithiobacillus ferridurans (see paper)
30% identity, 29% coverage
SeKA_A3487 glutamine--fructose-6-phosphate transaminase (isomerizing) from Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188
30% identity, 35% coverage
LSA_RS02715 glutamine--fructose-6-phosphate transaminase (isomerizing) from Fructilactobacillus sanfranciscensis TMW 1.1304
31% identity, 23% coverage
- The Mutual Influence of Predominant Microbes in Sourdough Fermentation: Focusing on Flavor Formation and Gene Transcription
Liu, Foods (Basel, Switzerland) 2022 - “...in glutamate metabolism were significantly changed. As shown in Figure 6 c, the two genes LSA_RS02715 and LSA_RS02155 encoding the enzymes glutamine-fructose-6-phosphate transaminase and type I glutamate-ammonia ligase, respectively, catalyzing the generation of D-glucosamine-6P from L-glutamate via L-glutamine were significantly upregulated, suggesting an increase in D-glucosamine-6P...”
- “...Upregulated genes LSA_RS01375 N-acetyltransferase 28.40 4.03 10 11 LSA_RS01370 ammonium transporter 22.07 4.52 10 54 LSA_RS02715 glutaminefructose-6-phosphate transaminase (isomerizing) 21.02 8.99 10 58 LSA_RS00920 amino acid ABC transporter permease 20.00 3.82 10 4 LSA_RS00925 amino acid ABC transporter ATP-binding protein 17.54 8.63 10 4 LSA_RS00930 amino...”
HSISS4_01060 glutamine--fructose-6-phosphate transaminase (isomerizing) from Streptococcus salivarius
33% identity, 22% coverage
For advice on how to use these tools together, see
Interactive tools for functional annotation of bacterial genomes.
The PaperBLAST database links 793,807 different protein sequences to 1,259,118 scientific articles. Searches against EuropePMC were last performed on March 13 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