PaperBLAST
PaperBLAST Hits for SwissProt::D3DFP8 Putative phosphoserine phosphatase 2; PSP 2; PSPase 2; Metal-independent phosphoserine phosphatase 2; iPSP2; O-phosphoserine phosphohydrolase 2; EC 3.1.3.3 (Hydrogenobacter thermophilus (strain DSM 6534 / IAM 12695 / TK-6)) (203 a.a., MKRLYLVRHA...)
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>SwissProt::D3DFP8 Putative phosphoserine phosphatase 2; PSP 2; PSPase 2; Metal-independent phosphoserine phosphatase 2; iPSP2; O-phosphoserine phosphohydrolase 2; EC 3.1.3.3 (Hydrogenobacter thermophilus (strain DSM 6534 / IAM 12695 / TK-6))
MKRLYLVRHAQSEYNEKGIFQGRLDSDLTPLGFVQARLLAREFLKKKVDIIYSSPQRRAY
KTALTISDMLGTQLVVDERLREMSFGEYEGKHFWSMLEAHKDVFLNWLSNPVKHPLPTQE
SMEEFEKRVRSFLEDVKSSHYQNMLIVAHGGTLHAIVCLLTGIGLENLWNIHMDNAGITE
IHMEGEKSTLVYLNKLCHTRQLT
Running BLASTp...
Found 259 similar proteins in the literature:
PSPB_HYDTT / D3DFP8 Putative phosphoserine phosphatase 2; PSP 2; PSPase 2; Metal-independent phosphoserine phosphatase 2; iPSP2; O-phosphoserine phosphohydrolase 2; EC 3.1.3.3 from Hydrogenobacter thermophilus (strain DSM 6534 / IAM 12695 / TK-6) (see paper)
D3DFP8 phosphoserine phosphatase (EC 3.1.3.3) from Hydrogenobacter thermophilus (see paper)
100% identity, 100% coverage
- function: Part of a complex that catalyzes the dephosphorylation of L- phosphoserine to serine and inorganic phosphate. Is poorly or not active toward D-phosphoserine, DL-phosphothreonine, 3-phosphoglycerate, para-nitrophenylphosphate, and fructose-6-phosphate. Does not display phosphoglycerate mutase activity.
catalytic activity: H2O + O-phospho-L-serine = L-serine + phosphate (RHEA:21208)
catalytic activity: H2O + O-phospho-D-serine = D-serine + phosphate (RHEA:24873)
subunit: Heterodimer with PspA. The PspB subunit appears to have no or considerably lower PSP activity compared with that of PspA.
PSPA_HYDTT / D3DFG8 Phosphoserine phosphatase 1; PSP 1; PSPase 1; Metal-independent phosphoserine phosphatase 1; iPSP1; O-phosphoserine phosphohydrolase 1; EC 3.1.3.3 from Hydrogenobacter thermophilus (strain DSM 6534 / IAM 12695 / TK-6) (see paper)
D3DFG8 phosphoserine phosphatase (EC 3.1.3.3) from Hydrogenobacter thermophilus (see 3 papers)
37% identity, 94% coverage
- function: Catalyzes the dephosphorylation of L-phosphoserine to serine and inorganic phosphate. Is poorly or not active toward D- phosphoserine, DL-phosphothreonine, 3-phosphoglycerate, para- nitrophenylphosphate, and fructose-6-phosphate. Does not display phosphoglycerate mutase activity.
catalytic activity: H2O + O-phospho-L-serine = L-serine + phosphate (RHEA:21208)
catalytic activity: H2O + O-phospho-D-serine = D-serine + phosphate (RHEA:24873)
subunit: Homodimer. Can also form a heterodimer with PspB.
4ij6A / D3DFG8 Crystal structure of a novel-type phosphoserine phosphatase mutant (h9a) from hydrogenobacter thermophilus tk-6 in complex with l-phosphoserine (see paper)
37% identity, 96% coverage
- Ligand: phosphoserine (4ij6A)
Cthe_0707 Phosphoglycerate mutase from Clostridium thermocellum ATCC 27405
35% identity, 97% coverage
- Utilization of Monosaccharides by Hungateiclostridium thermocellum ATCC 27405 through Adaptive Evolution
Ha-Tran, Microorganisms 2021 - “...and GAs8. Gene expression patterns continued their upregulation trend in CGs1, as the three genes Cthe_0707, Cthe_0946 and Cthe_1292 encoding PGAM (EC 3.1.3.3) catalyze the conversion of 3-phosphoglycerate (3PGA) to 2-phosphoglycerate (2PGA) were found to be upregulated in CGs1 relative to FAs1, GAs1 and the evolved...”
- Proteomic analysis of Clostridium thermocellum core metabolism: relative protein expression profiles and growth phase-dependent changes in protein expression
Rydzak, BMC microbiology 2012 - “...mRNA expression profiles on cellulose [ 37 ]. Expression of phosphoglycerate mutase Cthe_0946, Cthe_1292, and Cthe_0707 were also detected, albeit at lower levels than Cthe_0140, while Cthe_1435, Cthe_2449, and Cthe_3153 were not detected. While the majority of glycolytic proteins did not change during transition to stationary...”
- Global gene expression patterns in Clostridium thermocellum as determined by microarray analysis of chemostat cultures on cellulose or cellobiose
Riederer, Applied and environmental microbiology 2011 - “...Cthe_0505 Cthe_0275 Cthe_0506 Cthe_0347 Cthe_2579 Cthe_0707 Cthe_1261 Cthe_0946 Cthe_2989 Cthe_2938 Cthe_1292 Cthe_0349 Cthe_1265 Cthe_1053 Cthe_2449 Cthe_1435...”
Cthe_0707 histidine phosphatase family protein from Acetivibrio thermocellus ATCC 27405
35% identity, 88% coverage
O67797 Phosphoglycerate mutase from Aquifex aeolicus (strain VF5)
aq_1990 phosphoglycerate mutase from Aquifex aeolicus VF5
32% identity, 95% coverage
- Carbon Fixation in the Chemolithoautotrophic Bacterium Aquifex aeolicus Involves Two Low-Potential Ferredoxins as Partners of the PFOR and OGOR Enzymes
Prioretti, Life (Basel, Switzerland) 2023 - “...anabolism in this bacterium [ 17 ]. The corresponding enzyme in A. aeolicus (accession number O67797; Locus tag Aq_1990; annotated as Phosphoglycerate mutase; 65% sequence identity with the H. thermophilus enzyme) was identified in the soluble content of the bacterium with 10 unique peptides and a...”
- “...63 46 21 SERINE AND GLYCINE SYNTHESIS via phosphorylated serine Phospho-serine phosphatase Phospho-serine Serine PspA O67797 aq_1990 pgmA 24.4 17 56 10 Serine hydroxymethyltransferase Serine + THF Glycine + 5,10-methyleneTHF SHMT O66776 aq_479 glyA 47.4 63 46 21 Proteins were identified from the total soluble extract...”
- Carbon Fixation in the Chemolithoautotrophic Bacterium Aquifex aeolicus Involves Two Low-Potential Ferredoxins as Partners of the PFOR and OGOR Enzymes
Prioretti, Life (Basel, Switzerland) 2023 - “...bacterium [ 17 ]. The corresponding enzyme in A. aeolicus (accession number O67797; Locus tag Aq_1990; annotated as Phosphoglycerate mutase; 65% sequence identity with the H. thermophilus enzyme) was identified in the soluble content of the bacterium with 10 unique peptides and a sequence coverage of...”
- “...46 21 SERINE AND GLYCINE SYNTHESIS via phosphorylated serine Phospho-serine phosphatase Phospho-serine Serine PspA O67797 aq_1990 pgmA 24.4 17 56 10 Serine hydroxymethyltransferase Serine + THF Glycine + 5,10-methyleneTHF SHMT O66776 aq_479 glyA 47.4 63 46 21 Proteins were identified from the total soluble extract (except...”
CAETHG_1462 alpha-ribazole phosphatase from Clostridium autoethanogenum DSM 10061
32% identity, 89% coverage
CRIB_1223 histidine phosphatase family protein from Romboutsia ilealis
30% identity, 93% coverage
- Genomic and functional analysis of Romboutsia ilealis CRIBT reveals adaptation to the small intestine
Gerritsen, PeerJ 2017 - “...(CRIB_2223); 12, triosephosphate isomerase (CRIB_189); 13, glyceraldehyde-3-phosphate dehydrogenase (CRIB_187); 14, phosphoglycerate kinase; 15, phosphoglycerate mutase (CRIB_1223) and 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (CRIB_190); 16, enolase (CRIB_191); 17, pyruvate kinase (CRIB_105); 18, L-lactate dehydrogenase (CRIB_684); 19, formate acetyltransferase (CRIB_2141); 20, pyruvate-flavodoxin oxidoreductase (CRIB_2021); 21, phosphate acetyltransferase (CRIB_2171); 22, acetate...”
Cthe_0946 Phosphoglycerate mutase from Clostridium thermocellum ATCC 27405
Cthe_0946 histidine phosphatase family protein from Acetivibrio thermocellus ATCC 27405
29% identity, 84% coverage
- Utilization of Monosaccharides by Hungateiclostridium thermocellum ATCC 27405 through Adaptive Evolution
Ha-Tran, Microorganisms 2021 - “...GAs8. Gene expression patterns continued their upregulation trend in CGs1, as the three genes Cthe_0707, Cthe_0946 and Cthe_1292 encoding PGAM (EC 3.1.3.3) catalyze the conversion of 3-phosphoglycerate (3PGA) to 2-phosphoglycerate (2PGA) were found to be upregulated in CGs1 relative to FAs1, GAs1 and the evolved strains...”
- “...compared to the parent strain, GAs1. In contrast, in FAs8, only two genes (Cthe_1265 and Cthe_0946) exhibited a slightly upregulated pattern relative to FAs1. Therefore, transcriptomic profile alone cannot adequately explain the acquired phenotype of FAs8. Additional information from genome resequencing with genetic mutations may help...”
- Proteomic analysis of Clostridium thermocellum core metabolism: relative protein expression profiles and growth phase-dependent changes in protein expression
Rydzak, BMC microbiology 2012 - “...fermentation, consistent with mRNA expression profiles on cellulose [ 37 ]. Expression of phosphoglycerate mutase Cthe_0946, Cthe_1292, and Cthe_0707 were also detected, albeit at lower levels than Cthe_0140, while Cthe_1435, Cthe_2449, and Cthe_3153 were not detected. While the majority of glycolytic proteins did not change during...”
- “...observe any changes in protein levels. However, we did observe a decrease in phosphoglycerate mutase Cthe_0946 and an increase in Cthe_1292, consistent with cellulose grown C. thermocellum mRNA profiles [ 37 ]. Energy storage Glycogen, an energy and carbon storage compound, is commonly synthesized during periods...”
- Clostridium thermocellum ATCC27405 transcriptomic, metabolomic and proteomic profiles after ethanol stress
Yang, BMC genomics 2012 - “...(Additional file 2 ). Transcriptomic data were consistent with metabolomic results, as several genes (Cthe_0347, Cthe_0946, Cthe_2390, Cthe_2393, Cthe_3020, Cthe_3021, Cthe_3120) related to glycolysis and pyruvate metabolism were down-regulated in the ethanol treatment condition, as well as the pta (Cthe_1028) and ack (Cthe_1029) genes for acetate...”
- Global gene expression patterns in Clostridium thermocellum as determined by microarray analysis of chemostat cultures on cellulose or cellobiose
Riederer, Applied and environmental microbiology 2011 - “...Cthe_0275 Cthe_0506 Cthe_0347 Cthe_2579 Cthe_0707 Cthe_1261 Cthe_0946 Cthe_2989 Cthe_2938 Cthe_1292 Cthe_0349 Cthe_1265 Cthe_1053 Cthe_2449 Cthe_1435 a b c...”
CTN_RS06075 histidine phosphatase family protein from Thermotoga neapolitana DSM 4359
32% identity, 97% coverage
- CO2-Induced Transcriptional Reorganization: Molecular Basis of Capnophillic Lactic Fermentation in Thermotoga neapolitana
d'Ippolito, Frontiers in microbiology 2020 - “...1.39 6-Phosphofructokinase. pyrophosphate-dependent CTN_RS01890 1.66 Fructose-bisphosphate aldolase CTN_RS09450 1.40 Glyceraldehyde-3-phosphate dehydrogenase CTN_RS05810 1.98 Glycerate kinase CTN_RS06075 1.88 Phosphoglycerate mutase CTN_RS08475 2.40 Phosphopyruvate hydratase aka Enolase CTN_RS02350 1.80 Pyruvate kinase OPP and EntnerDoudoroff common enzymes CTN_RS07110 4.84 Glucose-6-phosphate 1-dehydrogenase CTN_RS07115 5.50 6-Phosphogluconolactonase EntnerDoudoroff CTN_RS00550 5.83 6-Phosphogluconate dehydratase...”
Cthe_3153 alpha-Ribazole phosphatase from Clostridium thermocellum ATCC 27405
30% identity, 96% coverage
cobC / D1BMI5 adenosylcobamide phosphatase (EC 3.1.3.73) from Veillonella parvula (strain ATCC 10790 / DSM 2008 / CCUG 5123 / JCM 12972 / NCTC 11810 / Te3) (see paper)
31% identity, 94% coverage
cg2581 putative fructose-2,6-bisphosphatase from Corynebacterium glutamicum ATCC 13032
34% identity, 67% coverage
- Transcriptome profiles of high-lysine adaptation reveal insights into osmotic stress response in Corynebacterium glutamicum
Wang, Frontiers in bioengineering and biotechnology 2022 - “..., 7,8-dihydroneopterin aldolase; folK , 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase; folP1 , dihydropteroate synthase; folp2 , dihydropteroate synthase; cg2581 , glucosyl-3-phosphoglycerate phosphatase; pabAB , para-aminobenzoate synthetase; folC , dihydrofolate synthase; folA , dihydrofolate reductase; dps , starvation-induced DNA protecting protein; grpE/groES/groEL/dnaK/dnaJ, molecular chaperone; cysD, sulfate adenylyltransferase; cysH, phosphoadenosine phosphosulfate...”
slr1748 hypothetical protein from Synechocystis sp. PCC 6803
31% identity, 75% coverage
- Identification of the key functional genes in salt-stress tolerance of Cyanobacterium Phormidium tenue using in silico analysis
Shahbazi, 3 Biotech 2021 - “...Sll0939 ggpS, sll1566 probable phosphoglycerate mutase, slr1748 prqA, slr0896 aspartate transaminase, sll0938 hypothetical protein, slr1895 mapB, slr0786 ggpP,...”
- A novel small RNA CoaR regulates coenzyme A biosynthesis and tolerance of Synechocystis sp. PCC6803 to 1-butanol possibly via promoter-directed transcriptional silencing
Sun, Biotechnology for biofuels 2017 - “...[ 31 ]. In addition, we also found that serine hydroxymethyltransferase (GylA) and phosphoglycerate mutase (Slr1748) involving glycine, serine, and threonine metabolism were down-regulated in the CoaR(+) strain and they have been found up-regulated in Synechocystis upon 1-butanol stress previously [ 17 ]. To determine whether...”
- Proteomic and metabolomic analyses reveal metabolic responses to 3-hydroxypropionic acid synthesized internally in cyanobacterium Synechocystis sp. PCC 6803
Wang, Biotechnology for biofuels 2016 - “...2 fixation, TCA and 3-HP production. The results were consistent with the proteomic analysis showing Slr1748, phosphoglycerate mutase that converts 3GP to 2GP [ 32 ], was up-regulated in SM strain. In addition, enhancement of glycolysis/gluconeogenesis pathway was also found in the quantitative proteomics analysis of...”
B5X54_RS07490 histidine phosphatase family protein from Caldicellulosiruptor bescii
35% identity, 81% coverage
- Gene targets for engineering osmotolerance in Caldicellulosiruptor bescii
Sander, Biotechnology for biofuels 2020 - “...electron transfer subunit No Partial deletion B5X54_RS07485 Dihydroorotate dehydrogenase (NAD+) catalytic subunit, pyrD No Deletion/missing B5X54_RS07490 Probable phosphoglycerate mutase No Deletion/missing B5X54_RS07495 Orotate phosphoribosyltransferase, pyrE No Deletion/missing B5X54_RS07500 Double zinc ribbon No Deletion/missing B5X54_RS07505 Amino acid/amide ABC transporter ATP-binding protein 2, HAAT family No Deletion/missing B5X54_RS07510...”
- “...5.6 5.2 5.7 1.6 212 220 B5X54_RS07485 Dihydroorotate dehydrogenase 6.6 6.9 6.8 0.59 358 383 B5X54_RS07490 Histidine phosphatase family protein 6.5 6.6 7.0 0.62 350 401 B5X54_RS07495 Orotate phosphoribosyltransferase 6.8 6.9 6.9 1 467 523 B5X54_RS07500 Hypothetical protein 6.6 6.4 6.6 0.39 290 304 Many of...”
DET0693 alpha-ribazole-5-phosphate phosphatase, putative from Dehalococcoides ethenogenes 195
DET0659 alpha-ribazole-5-phosphate phosphatase, putative from Dehalococcoides ethenogenes 195
33% identity, 97% coverage
H16_A0493 phosphoglycerate mutase 2 protein from Ralstonia eutropha H16
29% identity, 89% coverage
PhpB / b0638 putative adenosylcobalamin phosphatase/α-ribazole phosphatase (EC 3.1.3.73) from Escherichia coli K-12 substr. MG1655 (see 4 papers)
cobC / P52086 putative adenosylcobalamin phosphatase/α-ribazole phosphatase (EC 3.1.3.73) from Escherichia coli (strain K12) (see 2 papers)
b0638 predicted alpha-ribazole-5'-P phosphatase from Escherichia coli str. K-12 substr. MG1655
31% identity, 95% coverage
Rmet_0420 histidine phosphatase family protein from Cupriavidus metallidurans CH34
Rmet_0420 Phosphoglycerate mutase from Ralstonia metallidurans CH34
29% identity, 89% coverage
- The complete genome sequence of Cupriavidus metallidurans strain CH34, a master survivalist in harsh and anthropogenic environments
Janssen, PloS one 2010 - “...of enzymatic actions by, for example, phosphopyruvate hydratase (ENO; Rmet_1055, Rmet_1176), phosphoglycerate mutase (PGM; Rmet_0251, Rmet_0420), phosphoglycerate kinase (PGK; Rmet_0501, Rmet_1516), glyceraldehyde-3-phosphate dehydrogenase (GAP; Rmet_1096, Rmet_1515, Rmet_2979), and fructose-1,6-biphosphate aldolase (FBA; Rmet_0503, Rmet_1492, Rmet_1518)]. The resulting fructose-1,6-biphosphate is further converted to fructose-6-phosphate by fructose-bisphosphatase (FBP; Rmet_0875,...”
all4906 phosphoglycerate mutase from Nostoc sp. PCC 7120
31% identity, 76% coverage
- The Anabaena sp. PCC 7120 Exoproteome: Taking a Peek outside the Box
Oliveira, Life (Basel, Switzerland) 2015 - “...proteins - All4749 All4749 protein NO 3 , NH 4 + Conserved hypothetical protein - All4906 Phosphoglycerate mutase N 2 Energy metabolism - All4968 Glutathione reductase N 2 , NO 3 Biosynthesis of cofactors, prosthetic groups, and carriers Anabaena All4985 Sucrose synthase NH 4 + Energy...”
- “...Alr4123 (phosphoribulokinase), even though the short gene asl4122 is located in between the respective genes; All4906 (phosphoglycerate mutase) and Alr4907 (ornithine carbamoyltransferase); and Alr0267 and All0268, both unknown proteins. In addition, it is also possible to find proteins encoded by genes not located contiguously, but still...”
C4IFQ5 Phosphoglycerate mutase family protein from Clostridium butyricum E4 str. BoNT E BL5262
34% identity, 73% coverage
NATL1_05721 possible alpha-ribazole-5'-P phosphatase from Prochlorococcus marinus str. NATL1A
31% identity, 45% coverage
- Acclimation and stress response of Prochlorococcus to low salinity
He, Frontiers in microbiology 2022 - “...NATL1A MED4 Locus p- Value log 2 FC Locus p -Value log 2 FC gpgP NATL1_05721 0.001 0.809 PMM0515 0.367 0.214 gpgS NATL1_09131 0.012 0.431 PMM0962 0.476 0.132 spsA NATL1_21951 0.421 0.147 PMM1711 0.143 0.371 Na + /H + antiporter is closely related to plant salinity...”
Ccel_0619 histidine phosphatase family protein from Ruminiclostridium cellulolyticum H10
Ccel_0619 Phosphoglycerate mutase from Clostridium cellulolyticum H10
29% identity, 82% coverage
- Whole Proteome Analyses on Ruminiclostridium cellulolyticum Show a Modulation of the Cellulolysis Machinery in Response to Cellulosic Materials with Subtle Differences in Chemical and Structural Properties
Badalato, PloS one 2017 - “...xylose isomerase (Ccel_3429, xylA), the glyceraldehyde-3-phosphate dehydrogenase (Ccel_2275), the phosphoglycerate kinase (Ccel_2260), the phosphoglycerate mutase (Ccel_0619), the 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (Ccel_2259, gpmI) and the phosphopyruvate hydratase, also known as enolase (Ccel_2254, eno). All 8 of them are enzymes from upstream of the pyruvate node and they...”
tlr1532 phosphoglycerate mutase from Thermosynechococcus elongatus BP-1
33% identity, 38% coverage
CA_C3021 histidine phosphatase family protein from Clostridium acetobutylicum ATCC 824
31% identity, 89% coverage
- Fermentation of oxidized hexose derivatives by Clostridium acetobutylicum
Servinsky, Microbial cell factories 2014 - “...isomerase, CA_C0711; 6) glyceradehyde-3-P dehydrogenase, CA_C0709; 7) phosphoglycerate kinase, CA_C0710; 8) phosphoglycerate mutase, CA_C0712, CA_C2741, CA_C3021; 9) enolase, CA_C0713; 10) pyruvate kinase, CA_C0518, CA_C1036; 11) pyruvate ferredoxin oxidoreductase, CA_C2229, CA_C2499; 12) hydrogenase, CA_C0028; 13) NAD + /ferredoxin oxidoreductase, CA_C?; 14) thiolase, CA_C2873, CA_P0078; 15) phosphotransacetylase, CA_C1742;...”
ML1637 conserved hypothetical protein from Mycobacterium leprae TN
32% identity, 50% coverage
SSO2236 Phosphoglycerate mutase, putative from Sulfolobus solfataricus P2
33% identity, 83% coverage
TTHA0368 phosphoglycerate mutase from Thermus thermophilus HB8
32% identity, 86% coverage
- Structural units important for activity of a novel-type phosphoserine phosphatase from Hydrogenobacter thermophilus TK-6 revealed by crystal structure analysis
Chiba, The Journal of biological chemistry 2013 - “...histidine residue (PspB from H. thermophilus, RCAS3445, TTHA0368, At5g04120, and At3g05170 (1)) possess no activity or very weak PSP activity. Moreover,...”
- “...PhoE and dPGM-like proteins with low PSP activity (TTHA0368 and At5g04120) have a histidine residue at the position corresponding to Asp84 (adjacent to His85)...”
- Discovery and analysis of cofactor-dependent phosphoglycerate mutase homologs as novel phosphoserine phosphatases in Hydrogenobacter thermophilus
Chiba, The Journal of biological chemistry 2012 - “...pET11 expression plasmid for Thermus thermophilus HB8 TTHA0368 (RDB6078) and cDNAs of Arabidopsis thaliana At3g05170 and At5g04120 (pda20245 and pdz61570,...”
- “...BL21 (DE3) was used for the expression of TTHA0368, At3g05170, and At5g04120. The hosts transformed with the expression plasmids were inoculated into...”
KPN_01784 phosphoglycerate mutase from Klebsiella pneumoniae subsp. pneumoniae MGH 78578
26% identity, 98% coverage
- Identification of antigenic proteins of the nosocomial pathogen Klebsiella pneumoniae
Hoppe, PloS one 2014 - “...[A6T7G2] Histidine triad (HIT) protein 118 13.1 1.310.27 KPN_01584 [A6T8U4] Hypothetical protein 113 12.9 1.900.36 KPN_01784 [A6T9E4] Phosphoglycerate mutase 206 22.8 0.960.21 KPN_02199 [A6TAK6] CoA-linked acetaldehyde dehydrogenase and iron-dependent alcohol dehydrogenase; pyruvate-formate-lyase deactivase 891 95.8 2.160.39 KPN_02202 [A6TAK9] Glucose-1-phosphate uridylyltransferase 300 32.6 1.690.56 KPN_02919 [A6TCK4] Putative...”
- “...proteins were as follows: 1 KPN_00786, 2 KPN_03732, 3-5 KPN_02199, 6 KPN_01100, 7 KPN_03638, 8 KPN_01784, 9 KPN_00363, 10 KPN_01584, 11 hisJ, 12 ompA, 13 argC, 14 gapA. Overall expression level is relatively weak, yet all bands are visible. KPN_01100 appears more intense than the candidate...”
Synpcc7942_0485 phosphoglycerate mutase from Synechococcus elongatus PCC 7942
29% identity, 40% coverage
YtjC / b4395 putative phosphatase from Escherichia coli K-12 substr. MG1655 (see 7 papers)
gpmB / RF|NP_418812 PGAM from Escherichia coli K12 (see paper)
P0A7A2 Probable phosphoglycerate mutase GpmB from Escherichia coli (strain K12)
b4395 phosphoglycerate mutase from Escherichia coli str. K-12 substr. MG1655
DR76_2507 2,3-diphosphoglycerate-dependent phosphoglycerate mutase GpmB from Escherichia coli ATCC 25922
30% identity, 84% coverage
- Functional Prediction of Biological Profile During Eutrophication in Marine Environment
Sbaoui, Bioinformatics and biology insights 2022 - “...with Zn-dependent exopeptidase domain GlpX P0A9C9 Fructose-1,6-bisphosphatase 1 class 2 GltA P0ABH7 Citrate synthase GpmB P0A7A2 Putative phosphoglyceromutase 2 GuaC P60560 GMP reductase HcaF Q47140 Putative 3-phenylpropionate/cinnamate dioxygenase subunit Hcp P75825 Hydroxylamine oxidoreductase-like protein HemH P23871 Ferrochelatase HemW P52062 Heme chaperone Hha P0ACE3 Hemolysin expression-modulating protein...”
- The Protein Interactome of Glycolysis in Escherichia coli
Chowdhury, Proteomes 2021 - “...(3-PG) 13 1 7 GpmI P37689 2,3-bisphosphoglycerate-independent phosphoglycerate mutase 3-phosphoglycerate (3-PG) 1 2 7 GpmB P0A7A2 Probable phosphoglycerate mutase 3-phosphoglycerate (3-PG) 1 0 8 Eno P0A6P9 Enolase 2-phosphoglycerate (2-PG) 85 5 9 PykA P21599 Pyruvate kinase II Phosphoenolpyruvate (PEP) 20 2 9 PykF P0AD61 Pyruvate kinase...”
- Systems Biology Approach to Bioremediation of Nitroaromatics: Constraint-Based Analysis of 2,4,6-Trinitrotoluene Biotransformation by Escherichia coli
Iman, Molecules (Basel, Switzerland) 2017 - “...<=> h[c] + no2[c] (b3367 or b1223) PGM Phosphoglycerate mutase 2pg[c] <=> 3pg[c] (b3612 or b4395 or b0755) PTAr Phosphotransacetylase accoa[c] + pi[c] <=> actp[c] + coa[c] (b2297 or b2458) PPS Phosphoenolpyruvate synthase atp[c] + h2o[c] + pyr[c] -> amp[c] + 2 h[c] + pep[c] +...”
- Sparse Regulatory Networks
James, The annals of applied statistics 2010 - “...to be regulated by trpR. Correspondingly, they all have moderate to large estimated activation strengths. b4395 again has an overlapping regulatory region to b4393. The results suggest this is not regulated by trpR. 4.4. Relaxing zero coefficients The results from Section 4.3 use the same relatively...”
- luxS-dependent gene regulation in Escherichia coli K-12 revealed by genomic expression profiling
Wang, Journal of bacteriology 2005 - “...b3829 b1517 b1511 b1520 b2236 b1519 b4308 b1512 b1514 b4395 b3796 b3852 b4017 b2087 b0974 b1127 b1019 b1550 b4196 b0630 b1022 b1437 b4186 b2406 b3939 b3945...”
- Coupling next-generation sequencing to dominant positive screens for finding antibiotic cellular targets and resistance mechanisms in Escherichia coli
Gingras, Microbial genomics 2018 - “...2 TMP 1 406354 DR76_2556 DR76_2564 2722303..2729487 DR76_2559 folA Dihydrofolate reductase 16 16 2 187 DR76_2507 DR76_2508 2666704..2668901 DR76_2506 rob Right origin-binding protein 1 2 The full list of enriched plasmids can be found in Table S2. This fold increase in MIC is meeting the EUCAST...”
CA1P_ARATH / Q9FNJ9 Probable 2-carboxy-D-arabinitol-1-phosphatase; EC 3.1.3.63 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT5G22620 phosphoglycerate/bisphosphoglycerate mutase family protein from Arabidopsis thaliana
29% identity, 41% coverage
- function: Phosphoglycerate mutase-like protein lacking PGM activity, but having 2-carboxy-D-arabinitol 1-phosphate (CA1P) phosphatase activity. Prevents the accumulation of D-glycero-2,3-pentodiulose-1,5- bisphosphate (PDBP) a potent inhibitor of ribulose-1,5-bisphosphate carboxylase (RuBisCO). PDBP is produced during the oxidation of ribulose-1,5-bisphosphate, the substrate of RuBisCO.
catalytic activity: 2-carboxy-D-arabinitol 1-phosphate + H2O = 2-carboxy-D- arabinitol + phosphate (RHEA:17837) - Topology of the redox network during induction of photosynthesis as revealed by time-resolved proteomics in tobacco
Zimmer, Science advances 2021 - “...0 C AT3G02730 (b) pt 4 Sox, S-NO, S-OH, S-SH POT011766 2 10 0 C AT5G22620 pt 2 Sox, S-SH POT005226_3 3 9 0 C AT5G58330 pt 6 TRX, Sox, S-NO, S-OH, S-SH POT004591_1 2 10 0 C AT3G54050 pt 6 GRX, 2CysPRX, S-S, Sox, S-NO,...”
- Mining the soluble chloroplast proteome by affinity chromatography
Bayer, Proteomics 2011 - “...C + AT5G14460 Pseudouridine synthase/transporter C + AT5G15390 tRNA/rRNA methyltransferase (SpoU) family protein C + AT5G22620 a , b) Phosphoglycerate mutase family protein C + LAA AT5G52010 Zinc finger (C2H2 type) family protein C + AT5G62990 Embryo defective 1692 (ubiquitin thiolesterase) C + + AT5G64840 b)...”
- “...C C C + AT5G16810 PPK Putative protein kinase C O C O + + AT5G22620 PGL Phosphoglycerate mutase family protein C C C C + AGI codes of selected proteins, arbitrary name and functional annotation from TAIR9 are shown. YFP indicates the experimentally determined subcellular...”
CA1P_WHEAT / W5EP13 2-carboxy-D-arabinitol-1-phosphatase; EC 3.1.3.63 from Triticum aestivum (Wheat) (see paper)
XP_044374330 2-carboxy-D-arabinitol-1-phosphatase from Triticum aestivum
30% identity, 40% coverage
- function: Phosphoglycerate mutase-like protein lacking PGM activity, but having 2-carboxy-D-arabinitol 1-phosphate (CA1P) phosphatase activity. Can dephosphorylate the closely related compounds 2-carboxy- D-arabinitol 1,5-bisphosphate (CABP) and 2-carboxy-D-ribitol-1,5- bisphosphate(CRBP), and 2,3-diphosphoglycerate. Prevents the accumulation of D-glycero-2,3-pentodiulose-1,5-bisphosphate (PDBP) a potent inhibitor of ribulose-1,5-bisphosphate carboxylase (RuBisCO). PDBP is produced during the oxidation of ribulose-1,5-bisphosphate, the substrate of RuBisCO.
catalytic activity: 2-carboxy-D-arabinitol 1-phosphate + H2O = 2-carboxy-D- arabinitol + phosphate (RHEA:17837) - Overexpression of ca1pase Decreases Rubisco Abundance and Grain Yield in Wheat.
Lobo, Plant physiology 2019 - GeneRIF: Overexpression of ca1pase Decreases Rubisco Abundance and Grain Yield in Wheat.
bhn_I1780 histidine phosphatase family protein from Butyrivibrio hungatei
30% identity, 90% coverage
Cthe_2449 Phosphoglycerate mutase from Clostridium thermocellum ATCC 27405
29% identity, 82% coverage
- Transcriptomic analysis of Clostridium thermocellum Populus hydrolysate-tolerant mutant strain shows increased cellular efficiency in response to Populus hydrolysate compared to the wild type strain
Linville, BMC microbiology 2014 - “...Cthe_0349 fructose-1,6-bisphosphate aldolase, class II 1.60 2.49 3.31 2.50 1.52 1.41 1.49 2.03 3.14 1.42 Cthe_2449 Phosphoglycerate mutase 2.46 1.85 1.42 1.74 1.48 1.90 2.01 2.88 5.18 2.03 Cthe_3153 alpha-ribazole phosphatase 2.11 2.33 1.40 1.40 1.21 1.23 1.42 1.14 1.82 2.04 Cthe_0143 Enolase 1.23 1.04 1.63...”
- Clostridium thermocellum transcriptomic profiles after exposure to furfural or heat stress
Wilson, Biotechnology for biofuels 2013 - “...the up-regulation of central carbon metabolic genes such as Cthe_3116 encoding a mannose-6-phosphate isomerase and Cthe_2449 encoding one of the six C. thermocellum ATCC 27405 phosphoglycerate mutase enzymes. Phosphoglycerate mutase was shown to be highly expressed as part of the E. coli heat shock response and...”
- “...2.84 2.29 1.76 D Cthe_2448 ABC-type transporter, integral membrane subunit 0.40 2.82 2.19 1.66 A Cthe_2449 Phosphoglycerate mutase 0.03 2.44 2.04 1.84 A Cthe_3054 Hypothetical protein 0.01 2.75 2.03 2.33 B Cthe_3112 Glycosidase related protein 0.71 2.61 2.52 1.71 B Cthe_3116 Mannose-6-phosphate isomerase, class I 0.13...”
- Proteomic analysis of Clostridium thermocellum core metabolism: relative protein expression profiles and growth phase-dependent changes in protein expression
Rydzak, BMC microbiology 2012 - “...Cthe_0946, Cthe_1292, and Cthe_0707 were also detected, albeit at lower levels than Cthe_0140, while Cthe_1435, Cthe_2449, and Cthe_3153 were not detected. While the majority of glycolytic proteins did not change during transition to stationary phase, phosphoglycerate kinase and enolase increased by ~1.4-fold with a V diff...”
- Global gene expression patterns in Clostridium thermocellum as determined by microarray analysis of chemostat cultures on cellulose or cellobiose
Riederer, Applied and environmental microbiology 2011 - “...Cthe_2938 Cthe_1292 Cthe_0349 Cthe_1265 Cthe_1053 Cthe_2449 Cthe_1435 a b c Enolase Ferredoxin Acetaldehyde/CoA dehydrogenase Fructose-bisphosphate aldolase...”
MSMEG_4579 phosphoglycerate mutase family protein from Mycobacterium smegmatis str. MC2 155
30% identity, 80% coverage
- A cytoplasmic peptidoglycan amidase homologue controls mycobacterial cell wall synthesis
Boutte, eLife 2016 - “...T378A=0.36. ( G ) Substituted cysteine accessibility. -strep western of cells with strep-tagged Pgm (CB886, MSMEG_4579, cytoplasmic control), lprG (CB706, Rv1411, periplasmic control) and CwlM1cys (CB457) that were cysteine-blocked with MTSEA (membrane permeable) or MTSET (membrane impermeable) then alkylated at unblocked cysteines. Control samples: ()=not alkylated...”
Synpcc7942_2078 phosphoglycerate mutase from Synechococcus elongatus PCC 7942
30% identity, 77% coverage
PMM0515 possible alpha-ribazole-5'-P phosphatase from Prochlorococcus marinus sp. MED4
29% identity, 41% coverage
- Acclimation and stress response of Prochlorococcus to low salinity
He, Frontiers in microbiology 2022 - “...p- Value log 2 FC Locus p -Value log 2 FC gpgP NATL1_05721 0.001 0.809 PMM0515 0.367 0.214 gpgS NATL1_09131 0.012 0.431 PMM0962 0.476 0.132 spsA NATL1_21951 0.421 0.147 PMM1711 0.143 0.371 Na + /H + antiporter is closely related to plant salinity tolerance, and it...”
PA1280 hypothetical protein from Pseudomonas aeruginosa PAO1
28% identity, 87% coverage
- Porin-independent accumulation in Pseudomonas enables antibiotic discovery
Geddes, Nature 2023 - “...clinical isolate from an acute infection, P. aeruginosa PA1280, was evaluated40. MICs for antibiotics against each of these strains were determined and...”
- “...selected for evaluation of accumulation in PA14 and PA1280, comprising 27 non-antibiotics with a range of accumulation amounts in PAO1. Although some variance...”
- Evaluation of Meropenem-Ciprofloxacin Combination Dosage Regimens for the Pharmacokinetics of Critically Ill Patients With Augmented Renal Clearance
Agyeman, Clinical pharmacology and therapeutics 2021 (PubMed) (secret) - A High-Throughput Method for Identifying Novel Genes That Influence Metabolic Pathways Reveals New Iron and Heme Regulation in Pseudomonas aeruginosa
Glanville, mSystems 2021 - “...PA1275 Adenosylcobinamide-phosphate synthase 156 cobP PA1278 Adenosylcobinamide kinase 156 cobV PA1281 Adenosylcobinamide-GDP ribazoletransferase 156 Hypothetical PA1280 Alpha-ribazole phosphatase 156 cobU PA1279 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase 1 156 cobL PA2907 Precorrin-6Y C5,15-methyltransferase 156 a Locus for PAO1 strain. b NA, not applicable. c Tn insertion disrupts predicted promoter. d...”
- PAU-1, a Novel Plasmid-Encoded Ambler Class A β-Lactamase Identified in a Clinical Pseudomonas aeruginosa Isolate
Wang, Infection and drug resistance 2019 - “...conferred resistance to extended-spectrum cephalosporins. Most recently, a clinical P. aeruginosa isolate named P. aeruginosa PA1280 belonging to ST1119 with strong carbapenems resistance was characterized. The major mechanism of high-level carbapenems resistance in P. aeruginosa PA1280 is that it harboured an IncP-1 conjugative plasmid, termed pICP-4GES,...”
- “...coli DH5 used as a host for antimicrobial susceptibility test Our lab collection P. aeruginosa PA1280 A clinical Pseudomonas aeruginosa isolate This study PA1280pICP-4GES PA1280 with the plasmid pICP-4GES cured This study PAO1 P. aeruginosa PAO1 deleted of ampG (PA4393) Our lab collection PAO1[pUCP24] PAO1 ampG...”
- Optimization and Evaluation of Piperacillin-Tobramycin Combination Dosage Regimens against Pseudomonas aeruginosa for Patients with Altered Pharmacokinetics via the Hollow-Fiber Infection Model and Mechanism-Based Modeling
Yadav, Antimicrobial agents and chemotherapy 2018 - “...combinations against a P. aeruginosa ICU isolate (Pa1280) in in vitro static-concentration time-kill experiments. Observed viable counts below the limit of...”
- “...total population for the indicated piperacillin-tobramycin regimens against Pa1280 in the HFIM. Observed viable counts below the limit of counting (i.e., below...”
SACE_3448 phosphoglycerate mutase family protein from Saccharopolyspora erythraea NRRL 2338
27% identity, 85% coverage
t2224 alpha-ribazole-5'-phosphate phosphatase from Salmonella enterica subsp. enterica serovar Typhi Ty2
28% identity, 95% coverage
- Prevalence, resistance pattern, and molecular characterization of Staphylococcus aureus isolates from healthy animals and sick populations in Henan Province, China
Liu, Gut pathogens 2018 - “...1 (0.70) t899 r07-r16-r23-r02-r34 5 Z7, NC5 2 (1.40) t2193 r07-r12-r21-r17-r13-r34-r34 7 ZY11 1 (0.70) t2224 r07-r23-r12-r21-r17-r34-r34-r34-r33-r13 10 12 1 (0.70) t2646 r26-r17-r34-r17-r17-r16 6 J2 1 (0.70) t3155 r07-r12-r21-r17-r13-r34-r34-r33-r13 9 ZY6, ZY7, ZY9, ZY10, ZY12 5 (3.50) t3380 r07-r23-r12-r21-r17-r34-r34 7 NJ26, NZ10 2 (1.40) t3512 r07-r16-r23-r02...”
A5VM95 Phosphoglycerate mutase from Limosilactobacillus reuteri (strain DSM 20016)
33% identity, 77% coverage
DET1422 phosphoglycerate mutase family protein from Dehalococcoides ethenogenes 195
28% identity, 94% coverage
SHALO_1514, SJPD1_1527, SMN_1536, SMUL_1550 histidine phosphatase family protein from Sulfurospirillum multivorans DSM 12446
27% identity, 94% coverage
- Tetrachloroethene respiration in Sulfurospirillum species is regulated by a two-component system as unraveled by comparative genomics, transcriptomics, and regulator binding studies
Esken, MicrobiologyOpen 2020 - “...CobT SHALO_1512 SMUL_1548 SMN_1534 SJPD1_1524 cysteinerich domain protein SHALO_1513 SMUL_1549 SMN_1535 SJPD1_1525 cobamide synthase CobS SHALO_1514 SMUL_1550 SMN_1536 SJPD1_1526 alpharibazole phosphatase CobC SHALO_1515 SMUL_1551 SMN_1537 SJPD1_1527 sirohydrochlorin cobaltochelatase CbiK SHALO_1516 SMUL_1552 SMN_1538 SJPD1_1528 corrinoid ABC transporter, permease component BtuC SHALO_1517 SMUL_1553 SMN_1539 SJPD1_1529 corrinoid ABC transporter...”
- “...SMN_1535 SJPD1_1525 cobamide synthase CobS SHALO_1514 SMUL_1550 SMN_1536 SJPD1_1526 alpharibazole phosphatase CobC SHALO_1515 SMUL_1551 SMN_1537 SJPD1_1527 sirohydrochlorin cobaltochelatase CbiK SHALO_1516 SMUL_1552 SMN_1538 SJPD1_1528 corrinoid ABC transporter, permease component BtuC SHALO_1517 SMUL_1553 SMN_1539 SJPD1_1529 corrinoid ABC transporter ATPase BtuD SHALO_1518 SMUL_1554 SMN_1540 SJPD1_1530 corrinoid ABC transporter, B12binding...”
- “...SMUL_1548 SMN_1534 SJPD1_1524 cysteinerich domain protein SHALO_1513 SMUL_1549 SMN_1535 SJPD1_1525 cobamide synthase CobS SHALO_1514 SMUL_1550 SMN_1536 SJPD1_1526 alpharibazole phosphatase CobC SHALO_1515 SMUL_1551 SMN_1537 SJPD1_1527 sirohydrochlorin cobaltochelatase CbiK SHALO_1516 SMUL_1552 SMN_1538 SJPD1_1528 corrinoid ABC transporter, permease component BtuC SHALO_1517 SMUL_1553 SMN_1539 SJPD1_1529 corrinoid ABC transporter ATPase BtuD...”
- “...SHALO_1512 SMUL_1548 SMN_1534 SJPD1_1524 cysteinerich domain protein SHALO_1513 SMUL_1549 SMN_1535 SJPD1_1525 cobamide synthase CobS SHALO_1514 SMUL_1550 SMN_1536 SJPD1_1526 alpharibazole phosphatase CobC SHALO_1515 SMUL_1551 SMN_1537 SJPD1_1527 sirohydrochlorin cobaltochelatase CbiK SHALO_1516 SMUL_1552 SMN_1538 SJPD1_1528 corrinoid ABC transporter, permease component BtuC SHALO_1517 SMUL_1553 SMN_1539 SJPD1_1529 corrinoid ABC transporter ATPase...”
- “...8.21767E94 SMUL_1547 CobT 7.450000181 2.15013E81 SMUL_1548 cysteinerich domain protein 7.15783996 1.56005E35 SMUL_1549 CobS 7.110218148 1.42499E50 SMUL_1550 CobC 7.570170467 1.10639E46 SMUL_1551 CbiK 6.442502207 1.15417E79 SMUL_1552 BtuC 6.975106327 8.8242E101 SMUL_1553 BtuD 7.322787761 3.64873E59 SMUL_1554 BtuF 6.870970537 2.23065E63 SMUL_1555 CbiC 6.390476154 2.03371E34 SMUL_1556 CbiD 6.293549376 4.05651E85 SMUL_1557 CbiE 5.940440235...”
- Proteomics of the organohalide-respiring Epsilonproteobacterium Sulfurospirillum multivorans adapted to tetrachloroethene and other energy substrates
Goris, Scientific reports 2015 - “...be quantified in at least one sample of PCE-grown cells. The proteins CobC (alpha-ribazole phosphatase, SMUL_1550) and CbiG (cobalamin biosynthesis protein, SMUL_1561) could be identified only in Py/PCE-SF. In general, proteins detected in a lower amount or identified once or not at all, are involved in...”
MSMEG_4305 bifunctional RNase H/acid phosphatase from Mycolicibacterium smegmatis MC2 155
MSMEG_4305 phosphoglycerate mutase from Mycobacterium smegmatis str. MC2 155
30% identity, 54% coverage
- Functional Disassociation Between the Protein Domains of MSMEG_4305 of Mycolicibacterium smegmatis (Mycobacterium smegmatis) in vivo
Czubat, Frontiers in microbiology 2020 - “...Media S.A. 7466739 32973726 10.3389/fmicb.2020.02008 Microbiology Original Research Functional Disassociation Between the Protein Domains of MSMEG_4305 of Mycolicibacterium smegmatis ( Mycobacterium smegmatis ) in vivo Czubat Boena 1 2 Minias Alina 2 * Brzostek Anna 2 aczek Anna 3 Stru Katarzyna 4 Zakrzewska-Czerwiska Jolanta 5 Dziadek...”
- “...practice. No use, distribution or reproduction is permitted which does not comply with these terms. MSMEG_4305 is a two-domain protein of Mycolicibacterium smegmatis ( Mycobacterium smegmatis ) ( Mycolicibacterium smegmatis ). The N-terminal domain of MSMEG_4305 encodes an RNase H type I. The C-terminal domain is...”
- Transcriptome Landscape of Mycobacterium smegmatis
Li, Frontiers in microbiology 2017 - “...experiment also indicate this. (B) Extended, DOOR annotated MSMEG_4307 and MSMEG_4306 as an operon, without MSMEG_4305 (in red arrow); however, our RNA-seq data and RT-PCR experiment found that the transcription was extended to MSMEG_4305 . (C) Dismissed, DOOR annotated MSMEG_1696 to MSMEG_1695 (in green arrow) as...”
- Division of labor among Mycobacterium smegmatis RNase H enzymes: RNase H1 activity of RnhA or RnhC is essential for growth whereas RnhB and RnhA guard against killing by hydrogen peroxide in stationary phase
Gupta, Nucleic acids research 2017 - “...putative native rnhC promoter, i.e. the promoter that drives expression of genes MSMEG_4307, MSMEG_4306 and MSMEG_4305 ( rnhC ) that are arranged as an operon at the endogenous chromosomal locus) at the attB site of the M. smegmatis chromosome in the rnhC strain. This maneuver enabled...”
- “...165 71 75 7489919 11. Jacewicz A. Shuman S. Biochemical characterization of Mycobacterium smegmatis RnhC (MSMEG_4305), a bifunctional enzyme composed of autonomous N-terminal type I ribonuclease H and C-terminal acid phosphatase domains J. Bacteriol. 2015 197 2489 2498 25986906 12. Minias A.E. Brzostek A.M. Minias P....”
- Biochemical Characterization of Mycobacterium smegmatis RnhC (MSMEG_4305), a Bifunctional Enzyme Composed of Autonomous N-Terminal Type I RNase H and C-Terminal Acid Phosphatase Domains
Jacewicz, Journal of bacteriology 2015 - “...(MSMEG_4305), a Bifunctional Enzyme Composed of Autonomous N-Terminal Type I RNase H and C-Terminal Acid Phosphatase Domains Molecular Biology Program, Sloan-Kettering Institute, New York, New...”
- “...2015. Biochemical characterization of Mycobacterium smegmatis RnhC (MSMEG_4305), a bifunctional enzyme composed of autonomous N-terminal type I RNase H and...”
- Mycobacterium smegmatis DinB2 misincorporates deoxyribonucleotides and ribonucleotides during templated synthesis and lesion bypass
Ordonez, Nucleic acids research 2014 - “...in the M. smegmatis proteome of four different RNase H enzymes: MSMEG_5562/RnhA ( 48 ); MSMEG_4305 ( 49 ); MSMEG_2442/RnhB and MSMEG_5849 ( 50 ). Unveiling the prevalence of ribonucleotides in mycobacterial genomic DNA and the roles of DinB2 and other polymerases in their embedding will...”
- MS_RHII-RSD, a dual-function RNase HII-(p)ppGpp synthetase from Mycobacterium smegmatis
Murdeshwar, Journal of bacteriology 2012 - “...smegmatis genome encodes an RNase HI-CobC fusion protein (MSMEG_4305). However, an RNase HII-(p)ppGpp synthetase fusion protein has not yet been reported. Given...”
CE2133 conserved hypothetical protein from Corynebacterium efficiens YS-314
28% identity, 45% coverage
Pro0515 Phosphoglycerate mutase from Prochlorococcus marinus str. SS120
29% identity, 44% coverage
- Glucose uptake and its effect on gene expression in prochlorococcus
Gómez-Baena, PloS one 2008 - “...Pro0901 Glyceraldehyde-3-phosphate dehydrogenase gap3 1.2.1.12 Pro1577 3-phosphoglycerate kinase pgk 2.7.2.3 Pro0221 Phosphoglycerate mutase gpmB 5.4.2.1 Pro0515 Enolase eno 4.2.1.11 Pro0235 Piruvate kinase pykF 2.7.1.40 Pro0923 Fructose-1,6-bisphosphatase aldolase I fda 4.1.2.13 Pro0856 Fructose-1,6-bisphosphatase aldolase II cbba 4.1.2.13 Pro0855 Fructose-1,6-bisphosphatase / Sedoheptulose 1,7-biphosphate phosphatase glpX 3.1.3.11 Pro0840 Glucose-6-phosphate...”
SYNPCC7002_A2560 phosphoglycerate mutase from Synechococcus sp. PCC 7002
29% identity, 43% coverage
ML1452 possible phosphoglycerate mutase from Mycobacterium leprae TN
29% identity, 83% coverage
cobC / P39701 adenosylcobalamin/α-ribazole phosphatase (EC 3.1.3.73) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 2 papers)
COBC_SALTY / P39701 Adenosylcobalamin/alpha-ribazole phosphatase; Adenosylcobalamin phosphatase; Alpha-ribazole-5'-phosphate phosphatase; EC 3.1.3.73 from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 2 papers)
P39701 adenosylcobalamin/alpha-ribazole phosphatase (EC 3.1.3.73) from Salmonella enterica subsp. enterica serovar Typhimurium (see paper)
cobC / RF|NP_459635.1 alpha-ribazole phosphatase; EC 3.1.3.73 from Salmonella typhimurium LT2 (see 2 papers)
NP_459635 alpha ribazole-5'-P phosphatase in cobalamin synthesis from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
28% identity, 95% coverage
SPy0598, SPy_0598 putative phosphoglycerate mutase from Streptococcus pyogenes M1 GAS
Spy49_0505c Phosphoglycerate mutase from Streptococcus pyogenes NZ131
34% identity, 86% coverage
BCAL3342 putative phosphoglycerate mutase from Burkholderia cenocepacia J2315
27% identity, 89% coverage
MAB_1905 Putative phosphoglycerate mutase from Mycobacterium abscessus ATCC 19977
31% identity, 51% coverage
- High throughput screen identifies small molecule inhibitors specific for Mycobacterium tuberculosis phosphoserine phosphatase
Arora, The Journal of biological chemistry 2014 - “...MCOL_V204095, MCOL_V211600 OCU_45260, OCU_22160 MAB_1623, MAB_1905, MAB_0133, MAB_3936c, MAB_2109, MAB_1419, MAB_0254c M. xenopi MUL_2536 MAF_32230 MSMEG_1926,...”
OCU_RS45375 histidine phosphatase family protein from Mycobacterium intracellulare ATCC 13950
29% identity, 77% coverage
y3724 phosphoglyceromutase 2 from Yersinia pestis KIM
28% identity, 84% coverage
Smlt0963 putative phosphoglycerate mutase from Stenotrophomonas maltophilia K279a
27% identity, 92% coverage
XAC1028 phosphoglycerate mutase from Xanthomonas axonopodis pv. citri str. 306
28% identity, 92% coverage
SCO2299 hypothetical protein from Streptomyces coelicolor A3(2)
26% identity, 39% coverage
- Functional Disassociation Between the Protein Domains of MSMEG_4305 of Mycolicibacterium smegmatis (Mycobacterium smegmatis) in vivo
Czubat, Frontiers in microbiology 2020 - “...the RNase H mutant ( Hirasawa et al., 2003 ). Subsequent structural studies with homologs SCO2299 from Streptomyces coelicolor ( Ohtani et al., 2005 ) and Rv2228c from M. tuberculosis ( Watkins and Baker, 2010 ) showed that the RNase H domain shares the archetypal RNase...”
- “...sequences of MSMEG_4305 of M. smegmatis mc 2 , Rv2228c of M. tuberculosis H37Rv and SCO2299 of S. coelicolor . The range of the domains is marked with red. The active site residues are marked with blue. The disagreements between the alignments are highlighted in black....”
- Biochemical Characterization of Mycobacterium smegmatis RnhC (MSMEG_4305), a Bifunctional Enzyme Composed of Autonomous N-Terminal Type I RNase H and C-Terminal Acid Phosphatase Domains
Jacewicz, Journal of bacteriology 2015 - “...(Fig. 1A). It is homologous to Streptomyces coelicolor SCO2299, a bifunctional nuclease-phosphatase enzyme with bona fide RNase H activity in vitro that is...”
- “...is as active in this regard as full-length SCO2299 (20). The C-terminal domain of SCO2299 has a generic phosphatase activity that hydrolyzes p-nitrophenyl...”
- Structural and functional characterization of an RNase HI domain from the bifunctional protein Rv2228c from Mycobacterium tuberculosis
Watkins, Journal of bacteriology 2010 - “...Nocardia genera, and one of these bifunctional proteins, SCO2299 from Streptomyces coelicolor, has RNase HI activity in its N-terminal domain and acid...”
- “...contrast to the demonstrated inactivity of the protein SCO2299 (34). In this case, the C-terminal domain, though predicted to have CobC activity, showed only...”
- The SCO2299 gene from Streptomyces coelicolor A3(2) encodes a bifunctional enzyme consisting of an RNase H domain and an acid phosphatase domain
Ohtani, The FEBS journal 2005 (PubMed)- “...SCO2299 gene from Streptomyces coelicolor A3(2) encodes a bifunctional enzyme consisting of an RNase H domain and an acid phosphatase domain Naoto Ohtani1, Natsumi Saito1, Masaru Tomita1, Mitsuhiro Itaya1,2 and Aya Itoh1 1...”
- “...2005, accepted 5 April 2005) doi:10.1111/j.1742-4658.2005.04704.x The SCO2299 gene from Streptomyces coelicolor encodes a single peptide consisting of 497 amino...”
- Identification of the first archaeal Type 1 RNase H gene from Halobacterium sp. NRC-1: archaeal RNase HI can cleave an RNA-DNA junction
Ohtani, The Biochemical journal 2004 - “...fusca ypdQ * ebsB rnhA Rv2228c ML1637 SCO2299 SAV5877 rnhA (Cgl2236) CE2133 Tfus2822 Archaea Halobacterium sp. NRC-1 Sulfolobus tokodaii Pyrobaculum aerophilum...”
alr3338 phosphoglycerate mutase from Nostoc sp. PCC 7120
28% identity, 40% coverage
- Proteomic Insights into Starvation of Nitrogen-Replete Cells of Nostoc sp. PCC 7120 under β-N-Methylamino-L-Alanine (BMAA) Treatment
Koksharova, Toxins 2020 - “...same time, urease [EC:3.5.1.5, alr3670 ] was upregulated. The enzyme phosphoglycerate mutase/phosphoserine phosphatase (PSP) (EC:3.1.3.3, alr3338 ) was absent ( Table 2 ) in BMAA-treated samples. This enzyme catalyzes one of the terminal steps of the glycolytic pathwaythe interconversion of 2-phosphoglycerate and 3-phosphoglycerateand participates in glycine,...”
- “...regulates the transcription of photorespiratory genes in plants [ 50 ]. The phosphoglycerate mutase ( alr3338 ) is involved in protein interactions with other glycolytic enzymes, such as gap1, enolase, and with proteins involved in carbon fixation, such as Rca, Gap3 proteins and with tryptophan synthase,...”
GPGP_MYCVP / A1TC01 Glucosyl-3-phosphoglycerate phosphatase; EC 3.1.3.85 from Mycolicibacterium vanbaalenii (strain DSM 7251 / JCM 13017 / BCRC 16820 / KCTC 9966 / NRRL B-24157 / PYR-1) (Mycobacterium vanbaalenii) (see paper)
Mvan_3924 Phosphoglycerate mutase from Mycobacterium vanbaalenii PYR-1
41% identity, 40% coverage
- function: Involved in the biosynthesis of mycobacterial methylglucose lipopolysaccharides (MGLP). Catalyzes the dephosphorylation of glucosyl-3-phosphoglycerate (GPG) to glucosylglycerate.
catalytic activity: (2R)-2-O-(alpha-D-glucopyranosyl)-3-phospho-glycerate + H2O = (2R)-2-O-(alpha-D-glucopyranosyl)-glycerate + phosphate (RHEA:31343)
subunit: Homodimer. - Mycobacterium tuberculosis Rv2419c, the missing glucosyl-3-phosphoglycerate phosphatase for the second step in methylglucose lipopolysaccharide biosynthesis
Mendes, Scientific reports 2011 - “...of the proteins below the 25kDa standard was identified as a putative phosphoglycerate mutase (PGM, Mvan_3924) ( Fig. 2A ). Since PGMs are part of the large histidine phosphatase superfamily, which includes several phosphatases with different specificities 23 , this protein was considered a likely GpgP...”
- “...amino acid sequences of the PGM from E. coli , the GpgPs from M. vanbaalenii (Mvan_3924) and from M. tuberculosis (Rv2419c) and its paralogs. The typical RHG motif of the histidine phosphatase superfamily is boxed. Figure 5 (A) Substrate preference of the recombinant GpgP from M....”
WP_014476350 phosphatase PhoE from Bacillus subtilis
29% identity, 92% coverage
MMAR_3747 phosphoglycerate mutase, Gpm_1 from Mycobacterium marinum M
31% identity, 67% coverage
DIP1678 Conserved hypothetical protein from Corynebacterium diphtheriae NCTC 13129
27% identity, 50% coverage
MUL_3691 phosphoglycerate mutase, Gpm_1 from Mycobacterium ulcerans Agy99
42% identity, 40% coverage
GPGP_MYCTU / P9WIC7 Glucosyl-3-phosphoglycerate phosphatase; Mannosyl-3-phosphoglycerate phosphatase; EC 3.1.3.85; EC 3.1.3.70 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see 2 papers)
P9WIC6 glucosyl-3-phosphoglycerate phosphatase (EC 3.1.3.85) from Mycobacterium tuberculosis (see paper)
P9WIC7 glucosyl-3-phosphoglycerate phosphatase (EC 3.1.3.85) from Mycobacterium tuberculosis (see paper)
Rv2419c PROBABLE PHOSPHOGLYCERATE MUTASE (PHOSPHOGLYCEROMUTASE) from Mycobacterium tuberculosis H37Rv
NP_216935 glucosyl-3-phosphoglycerate phosphatase from Mycobacterium tuberculosis H37Rv
31% identity, 67% coverage
- function: Involved in the biosynthesis of mycobacterial methylglucose lipopolysaccharides (MGLPs). Catalyzes the dephosphorylation of glucosyl-3-phosphoglycerate (GPG) to glucosylglycerate (GG). GPG is the preferred substrate, but GpgP also exhibits low dephosphorylation activity on mannosyl-3-phosphoglycerate (MPG) and mannosylglucosyl-3- phosphoglycerate (MGPG) in vitro. Shows only trace of phosphoglycerate mutase (PGM) activity.
catalytic activity: (2R)-2-O-(alpha-D-glucopyranosyl)-3-phospho-glycerate + H2O = (2R)-2-O-(alpha-D-glucopyranosyl)-glycerate + phosphate (RHEA:31343)
catalytic activity: 2-O-(alpha-D-mannosyl)-3-phosphoglycerate + H2O = (2R)-2-O- (alpha-D-mannosyl)-glycerate + phosphate (RHEA:19309)
catalytic activity: (2R)-2-O-[alpha-D-mannopyranosyl-(1->2)-alpha-D- glucopyranosyl]-3-phospho-glycerate + H2O = (2R)-2-O-[alpha-D- mannopyranosyl-(1->2)-alpha-D-glucopyranosyl]-glycerate + phosphate (RHEA:47696)
subunit: Homodimer (PubMed:22355692). Dimerization of the enzyme is essential for its dephosphorylation activity (PubMed:24914210). - Prediction of Certain Well-Characterized Domains of Known Functions within the PE and PPE Proteins of Mycobacteria
Sultana, PloS one 2016 - “...WP_003403850.1, WP_015357328.1 and CPR12073.1 recognized the template PDB_ID: 4PZ9:B corresponding to the mycobacterial glucosyl-3-phosphoglycerate phosphatase Rv2419c [ 55 ]. This enzyme consists of a single domain made up of a central -sheet flanked by -helices on either side and is known to catalyze the second step...”
- Octanoylation of early intermediates of mycobacterial methylglucose lipopolysaccharides
Maranha, Scientific reports 2015 - “...glucosyl-3-phosphoglycerate synthase (GpgS) and glucosyl-3-phosphoglycerate phosphatase (GpgP), encoded in M. tuberculosis H37Rv by Rv1208 and Rv2419c , respectively 20 21 22 23 . A GG hydrolase was recently identified in rapidly-growing mycobacteria but its involvement in the regulation of MGLP biosynthesis has not been examined 24...”
- “...enzymes) to DGG synthesis 6 13 ( Fig. 1 ). After assigning GpgP activity to Rv2419c we deemed it important to investigate the function of the neighboring gene considered essential for M. tuberculosis H37Rv growth 23 26 27 . In addition to Rv2418c, we cloned the...”
- Mechanism of dephosphorylation of glucosyl-3-phosphoglycerate by a histidine phosphatase
Zheng, The Journal of biological chemistry 2014 - “...Glucosyl-3-phosphoglycerate phosphatase (GpgP, EC 5.4.2.1), encoded by Rv2419c gene, catalyzes the second step of the pathway for the biosynthesis of MGLPs....”
- “...methyl and acetyl transfers is currently unknown. Recently, Rv2419c was shown to dephosphorylate GPG with high specificity and hence was annotated as the GpgP...”
- Mycobacterium hassiacum recovers from nitrogen starvation with up-regulation of a novel glucosylglycerate hydrolase and depletion of the accumulated glucosylglycerate
Alarico, Scientific reports 2014 - “...in the MGLP pathway was found to be catalyzed by an atypical glucosyl-3-phosphoglycerate phosphatase (GpgP, Rv2419c in M. tuberculosis H37Rv) of the histidine phosphatase superfamily that was not a sequence homolog of the isofunctional GpgPs of the HAD superfamily (EC 3.1.3.85), initially identified in other microorganisms...”
- “...Maranha A. , Alarico S. , da Costa M. S. & Empadinhas N. Mycobacterium tuberculosis Rv2419c, the missing glucosyl-3-phosphoglycerate phosphatase for the second step in methylglucose lipopolysaccharide biosynthesis . Sci Rep 1 , 177 ( 2011 ). 22355692 Kaur D. et al. Initiation of methylglucose lipopolysaccharide...”
- Functional characterization of two members of histidine phosphatase superfamily in Mycobacterium tuberculosis
Coker, BMC microbiology 2013 - “...Other members include Rv3214c, an acid phosphatase with unknown specific substrate [ 3 ] and Rv2419c which was characterized as glucosyl-3-phosphoglycerate phosphatase in lipopolysaccharide biosynthesis with an optimum pH of 7.0 [ 17 ]. Rv2135c is a paralog of the aforementioned members of the superfamily, but...”
- “...an acid phosphatase when assayed in vitro [ 9 ]. Examples in M. tuberculosis are Rv2419c [ 17 ] and Rv3214c [ 3 ]. In other organisms, examples include PhoE of Bacillus stearothermophillus , and PfPGM2 of Plasmodium falciparum [ 4 , 19 ]. Rv2135c was...”
- Mycobacterium tuberculosis Rv2419c, the missing glucosyl-3-phosphoglycerate phosphatase for the second step in methylglucose lipopolysaccharide biosynthesis
Mendes, Scientific reports 2011 - “...Sci Rep Scientific Reports 2045-2322 Nature Publishing Group 3240985 srep00177 10.1038/srep00177 Article Mycobacterium tuberculosis Rv2419c, the missing glucosyl-3-phosphoglycerate phosphatase for the second step in methylglucose lipopolysaccharide biosynthesis Mendes Vtor 1 Maranha Ana 1 Alarico Susana 1 da Costa Milton S. 1 2 Empadinhas Nuno a...”
- “...corresponding gene deduced from amino acid sequences by mass spectrometry. The M. tuberculosis ortholog ( Rv2419c ), annotated as a putative phosphoglycerate mutase (PGM, EC5.4.2.1), was expressed and functionally characterized as a new GpgP. Regardless of the high specificity for glucosyl-3-phosphoglycerate, the mycobacterial GpgP is not...”
- Prokaryotic ubiquitin-like protein (Pup) proteome of Mycobacterium tuberculosis [corrected]
Festa, PloS one 2010 - “...Rv2243 FabD (30.8) 173 Rv0440 GroEL2 (56.7) 132 Rv2280 48.1 354 Rv0467 Icl (47.0) 334 Rv2419c 24.2 47 Rv0525 22.2 136 Rv2449c 44.3 127 Rv0640 RpkL (15.0) 101 Rv2477c 61.9 338 Rv0684 FusA (77.1) 307 Rv2501c AccA1 (70.6) 321 Rv0733 Adk (20.1) 94 Rv2521 Bcp (17.0)...”
- Cloning, expression, purification and preliminary crystallographic data for Rv3214 (EntD), a predicted cofactor-dependent phosphoglycerate mutase from Mycobacterium tuberculosis
Watkins, Acta crystallographica. Section F, Structural biology and crystallization communications 2005 - “...that encode putative phosphoglycerate mutases. These include Rv0489, Rv2419c, Rv3837c and Rv3214. The latter is of particular interest because although it is...”
- Mycobacterium tuberculosis Rv2419c, the missing glucosyl-3-phosphoglycerate phosphatase for the second step in methylglucose lipopolysaccharide biosynthesis.
Mendes, Scientific reports 2011 - GeneRIF: Mycobacterium tuberculosis Rv2419c is the missing glucosyl-3-phosphoglycerate phosphatase for the second step in methylglucose lipopolysaccharide biosynthesis
MAP3481 LpqD from Mycobacterium avium subsp. paratuberculosis str. k10
28% identity, 73% coverage
- Selection of vaccine-candidate peptides from Mycobacterium avium subsp. paratuberculosis by in silico prediction, in vitro T-cell line proliferation, and in vivo immunogenicity
Lybeck, Frontiers in immunology 2024 - “...LARIRYVHARASLHVVYP 18 2,121.54 MAP3731c 89 (9) IADRIVLLRNGRIAA 15 1,651 MAP1632c 119 (12) RSIFLINIPAAAIIA 15 1,582.96 MAP3481 90 (9) KRSMIRKVSVALAVL 15 1,671.14 The peptide name indicates the MAP gene of origin (open reading frame from https://www.ncbi.nlm.nih.gov/nuccore/AE016958 ), followed by running letter. Peptides in bold blue indicate peptides...”
- Mycobacterium avium Subspecies paratuberculosis Recombinant Proteins Modulate Antimycobacterial Functions of Bovine Macrophages
Bannantine, PloS one 2015 - “...0.399 0.982 0.188 MAP2103c LppP/LprE lipoprotein family 0.049 2.8 3.364 1.737 2.761 1.937 1.764 1.088 MAP3481 Histidine phosphatase, LpqD 0.037 2.1 1.049 0.317 1.058 0.346 1.175 0.616 MAP3041 Dehydrogenase, LppZ 0.057 3.2 1.47 0.364 1.436 0.496 0.539 0.373 MAP3908 Lipoprotein peptidase, LpqM 0.044 2.5 1.033 0.259...”
- Key role for the alternative sigma factor, SigH, in the intracellular life of Mycobacterium avium subsp. paratuberculosis during macrophage stress
Ghosh, Infection and immunity 2013 - “...0.00 0.00 0.00 MAP0076 MAP4320 MAP1938c MAP3946 MAP1241c MAP3481 MAP2936c Rv0402c Rv0402c Rv2198c Rv0677c Rv0451c Rv3390 Rv2864c 68.15 53.19 98.88 50.33 73.52...”
SSA_1528 Phosphoglycerate mutase, putative from Streptococcus sanguinis SK36
32% identity, 86% coverage
- Involvement of signal peptidase I in Streptococcus sanguinis biofilm formation
Aynapudi, Microbiology (Reading, England) 2017 - “...5.12 VTC domain protein No SSA_2359 0.63 10.02 tRNA uridine 5-carboxymethylaminomethyl modification enzyme MnmG No SSA_1528 0.63 5.16 Phosphoglycerate mutase No SSA_0371 0.64 10.9 Glutamate dehydrogenase No SSA_2183 0.76 28.3 Glucose-6-phosphate isomerase No SSA_0126 0.8 26.5 50S ribosomal protein L15 No SSA_2126 0.97 5.44 TatD family...”
- “...cell wall biosynthesis. Finally, two enzymes needed for gluconeogenesis were reduced in SSA_0351 SSA_1012 and SSA_1528 emphasizing the need for glycolysis and energy production. In contrast, 10 enzymes needed for energy production through glycolysis and lactate fermentation were increased significantly. Interestingly, lactate dehydrogenase (SSA_1221), which is...”
4pzaB / P9WIC6 The complex structure of mycobacterial glucosyl-3-phosphoglycerate phosphatase rv2419c with inorganic phosphate (see paper)
31% identity, 69% coverage
- Ligand: phosphate ion (4pzaB)
PHOE_BACSU / O07617 Uncharacterized phosphatase PhoE; EC 3.1.3.- from Bacillus subtilis (strain 168) (see 2 papers)
WP_003233157 phosphatase PhoE from Bacillus subtilis
29% identity, 92% coverage
MAV_4339 phosphoglycerate mutase family protein from Mycobacterium avium 104
28% identity, 77% coverage
DIP1773 Phosphoglycerate mutase family protein from Corynebacterium diphtheriae NCTC 13129
31% identity, 68% coverage
- Transcriptome sequencing of the human pathogen Corynebacterium diphtheriae NCTC 13129 provides detailed insights into its transcriptional landscape and into DtxR-mediated transcriptional regulation
Wittchen, BMC genomics 2018 - “...chaperones DIP1779 - DIP1772 8 not detected obgE , DIP1778, proB, proA, nadD , DIP1774, DIP1773, DIP1772. Function unknown; Carbohydrate metabolism and transport; Coenzyme metabolism; Amino Acid metabolism and transport; Energy production and conversion DIP1857 DIP1850 8 detected clpS , DIP1856, DIP1855, DIP1854, murI , DIP1852,...”
GPM_THEAC / Q9HIJ2 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase; BPG-dependent PGAM; PGAM; Phosphoglyceromutase; dPGM; EC 5.4.2.11 from Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165) (see paper)
WP_048162417 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Thermoplasma acidophilum DSM 1728
30% identity, 91% coverage
GL50803_135885 Histidine phosphatase superfamily protein from Giardia intestinalis
25% identity, 96% coverage
- A Detailed Gene Expression Map of Giardia Encystation
Rojas-López, Genes 2021 - “...changes in energy metabolism can be detected. Fructose-2,6-bisphosphate biosynthesis is upregulated (Histidine phosphatase superfamily proteins GL50803_135885 and 135886), as is the oxidative branch of the pentose phosphate pathway (6-phosphogluconate dehydrogenase, decarboxylating GL50803_14759, and 6-phosphogluconolactonase/Glucose-6-phosphate 1-dehydrogenase GL50803_8682). Aspartate aminotransferase (GL50803_91056), which is involved in anaerobic energy metabolism,...”
- Characterization of the Giardia intestinalis secretome during interaction with human intestinal epithelial cells: The impact on host cells
Ma'ayeh, PLoS neglected tropical diseases 2017 - “...Alpha-14 giardin GL50803_14737 Hypothetical protein GL50803_14521 Peroxiredoxin 1 GL50803_137698 Sec13 (Sec13) GL50803_13766 * Protein 21.1 GL50803_135885 Hypothetical protein GL50803_13127 Proteasome subunit beta type 1 GL50803_114119 Alpha-7.2 giardin GL50803_113970 Hypothetical protein GL50803_11359 Ribosomal protein S4 GL50803_113531 High cysteine membrane protein EGF-like GL50803_112846 * Kinesin-3 GL50803_11165 * Protein...”
BTH_I1243 phosphoglycerate mutase, putative from Burkholderia thailandensis E264
Q2SZ59 Phosphoglycerate mutase, putative from Burkholderia thailandensis (strain ATCC 700388 / DSM 13276 / CCUG 48851 / CIP 106301 / E264)
27% identity, 86% coverage
BPSL2902 putative phosphoglycerate mutase from Burkholderia pseudomallei K96243
26% identity, 86% coverage
- Pathogenicity and virulence of Burkholderia pseudomallei
Bzdyl, Virulence 2022 - “...an upregulation of genes involved in the intermediate steps of the glycolytic pathway (phosphoglycerate mutase, BPSL2902 ), inositol catabolism ( BPSL1996, BPSL1997 ), glucosamine catabolism ( glmS3 ), and tryptophan catabolism/synthesis ( trpE, asnO, glmS3 ). Interestingly, genes involved in oxidative phosphorylation such as cyoA, cyoB...”
- Genome-wide expression analysis of Burkholderia pseudomallei infection in a hamster model of acute melioidosis
Tuanyok, Infection and immunity 2006 - “...(trpE, anthranilate synthase component 1), BPSL2902 (putative phosphoglycerate mutase), BPSL2082 (conserved hypothetical protein), and BPSL0317 (conserved...”
- “...protein BPSL2881 Putative membrane protein BPSL2902 Putative phosphoglycerate mutase BPSL3027 murD, UDP-N-acetylmuramoylalanine-Dglutamate ligase BPSL3050 trpE,...”
Ta1347 hypothetical protein from Thermoplasma acidophilum DSM 1728
30% identity, 86% coverage
LIC13358 phosphoglycerate mutase from Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130
29% identity, 94% coverage
SERP_RS02470 histidine phosphatase family protein from Staphylococcus epidermidis RP62A
33% identity, 92% coverage
OG1RF_12264 histidine phosphatase family protein from Enterococcus faecalis OG1RF
EF2982 phosphoglycerate mutase family protein from Enterococcus faecalis V583
26% identity, 87% coverage
- Detailed Soluble Proteome Analyses of a Dairy-Isolated Enterococcus faecalis: A Possible Approach to Assess Food Safety and Potential Probiotic Value
Cirrincione, Frontiers in nutrition 2019 - “...them the aldehyde-alcohol dehydrogenase (9.47 fold change - OG1RF_10627), phosphoglycerate mutase (5.50 fold change - OG1RF_12264), formate acetyltransferase (5.30 fold change - OG1RF_11329), 2-dehydropantoate 2-reductase (5.20 fold change - OG1RF_11367), uracil phosphoribosyltransferase (5.14 fold change - OG1RF_11432) show the highest fold change values. For what concern...”
- The transcriptome of the nosocomial pathogen Enterococcus faecalis V583 reveals adaptive responses to growth in blood
Vebø, PloS one 2009 - “...of intracellular glucose catabolic intermediates. Simultaneously, glycolysis genes gap-1 (EF1526), glycerate kinase (EF2646) and pgm (EF2982) were up-regulated, indicating increased carbon flux from sources other than hexose sugars. Interestingly, the glycerol catabolic pathway (EF1929-27), was highly up-regulated in response to growth in blood, and was also...”
DSY1979 alpha-ribazole-5-phosphate phosphatase from Desulfitobacterium hafniense Y51
31% identity, 84% coverage
STM4585 putative phosphoglyceromutase 2 from Salmonella typhimurium LT2
SG4407 probable phosphoglycerate mutase 2 from Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91
28% identity, 84% coverage
BAS1929 phosphoglycerate mutase family protein from Bacillus anthracis str. Sterne
AW20_728 histidine phosphatase family protein from Bacillus anthracis str. Sterne
27% identity, 97% coverage
MAB_1623 Probable phosphoglycerate mutase from Mycobacterium abscessus ATCC 19977
42% identity, 41% coverage
- High throughput screen identifies small molecule inhibitors specific for Mycobacterium tuberculosis phosphoserine phosphatase
Arora, The Journal of biological chemistry 2014 - “...MCOL_V200905, MCOL_V204095, MCOL_V211600 OCU_45260, OCU_22160 MAB_1623, MAB_1905, MAB_0133, MAB_3936c, MAB_2109, MAB_1419, MAB_0254c M. xenopi MUL_2536...”
FAD_1350 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Ferroplasma acidiphilum
28% identity, 89% coverage
- Metabolic and evolutionary patterns in the extremely acidophilic archaeon Ferroplasma acidiphilum YT
Golyshina, Scientific reports 2017 - “...dehydrogenase (FAD_0434); 15, aspartate aminotransferase (FAD_1098); 16, phosphoenolpyruvate synthase (FAD_1233); 17, phosphoglycerate mutase (FAD_0440, FAD_1169, FAD_1350); 18,2-phosphoglycerate kinase (FAD_1810); 19, glyceraldehyde-3-phosphate dehydrogenase (FAD_0549); 20, triosephosphate isomerase (FAD_0107); 21, fructose-2,6-bisphosphatase (FAD_0332); 22,6-phosphofructokinase (FAD_0353); 23, bifunctional phosphoglucose/phosphomannose isomerase (FAD_0562); 24, phosphoglucomutase/phosphomannomutase (FAD_0602); 25, transketolase (FAD_14771476); 26, transaldolase (FAD_1201;...”
YQGD_SCHPO / O94420 Probable phosphatase C1620.13; EC 3.1.3.- from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
43% identity, 31% coverage
LEPBI_I2940 putative phosphoglycerate/bisphosphoglycerate mutase from Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'
30% identity, 89% coverage
Glov_3084 alpha-ribazole phosphatase from Geobacter lovleyi SZ
28% identity, 96% coverage
- Genomic determinants of organohalide-respiration in Geobacter lovleyi, an unusual member of the Geobacteraceae
Wagner, BMC genomics 2012 - “...kinase /adenosylcobinamide-phosphate guanylyltransferase 45(57) Glov_3082* Glov_3678 cobT Nicotinate-nucleotide-DMBA-phosphoribosyltransferase 38(57) 39(57) Glov_3083 cobS Cobalamin synthase 35(51) Glov_3084 cobC -Ribazole-5'-phosphate phosphatase 25(43) Glov_3417 cbiT Precorrin decarbocylase 33(54) Glov_3553 cbiB Cobalamin biosynthesis protein 46(62) Glov_3554* Glov_3679 cobD/cbiP L-threonine O-3-phosphate decarboxylase/ cobyric acid synthase 34(51)/45(63) 45(62)/35(51) # Chr. = chromosome....”
WP_019293168 histidine phosphatase family protein from Lactococcus petauri
30% identity, 76% coverage
- Characterization of prophages of Lactococcus garvieae
Eraclio, Scientific reports 2017 - “...+ 37267 37863 198 23 5.5 AGGAGctagtgATG Histidine phosphatase L. garvieae 196/198 (99%) 4.0E-144 198 WP_019293168 a Orientation of the gene in the genome. b MM, molecular mass. c RBS, ribosomal binding site: uppercase letters represent the hypothetical RBS sequences, bold letters the starting codons. d...”
LSA0131 Phosphoglycerate mutase from Lactobacillus sakei subsp. sakei 23K
31% identity, 90% coverage
- Global transcriptome response in Lactobacillus sakei during growth on ribose
McLeod, BMC microbiology 2011 - “...1.1 LSA1791* dexB Glucan 1,6-alpha-glucosidase (dextran glucosidase) 1.1 LSA1795 melA Alpha-galactosidase (melibiase) -0.6 Glycolytic pathway LSA0131 gpm2 Phosphoglycerate mutase 0.7 LSA0206 gpm3 Phosphoglycerate mutase -0.7 -0.8 -0.9 LSA0609* gloAC Lactoylglutathione lyase (C-terminal fragment), authentic frameshift 1.1 0.7 LSA0803 gpm4 Phosphoglycerate mutase 0.5 0.5 LSA1033 pfk 6-phosphofructokinase...”
PG1513 phosphoribosyltransferase, putative/phosphoglycerate mutase family protein from Porphyromonas gingivalis W83
29% identity, 42% coverage
5zr2C / N9V397 Crystal structure of phosphoserine phosphatase mutant (h9a) from entamoeba histolytica in complex with phosphoserine (see paper)
31% identity, 88% coverage
- Ligand: phosphoserine (5zr2C)
ST2120 231aa long conserved hypothetical protein from Sulfolobus tokodaii str. 7
28% identity, 80% coverage
PMI_RS18490 2,3-diphosphoglycerate-dependent phosphoglycerate mutase GpmB from Proteus mirabilis HI4320
PMI3716 probable phosphoglycerate mutase from Proteus mirabilis HI4320
26% identity, 84% coverage
- Decreased biofilm formation in Proteus mirabilis after short-term exposure to a simulated microgravity environment
Wang, Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] 2021 - “...1.7488696118053 Down 6.98E-05 Autonomous glycyl radical cofactor PMI_RS01070 1383 1.36339040837153 Down 6.35E-05 Solute carrier family PMI_RS18490 gpmB 648 1.46649446000024 Down 7.08E-05 Probable phosphoglycerate mutase PMI_RS13405 279 1.90346273574243 Down 0.00028 Ethanolamine utilization protein EutM PMI_RS03835 rmf 171 1.77234261558484 Down 0.00025 Ribosome modulation factor PMI_RS06255 fumc 1398 1.53400675009522...”
- Pathogenesis of Proteus mirabilis Infection
Armbruster, EcoSal Plus 2018 - “...family up B, K PMI2414 deoB phosphopentomutase up B, K PMI3095 N-acetylglucosamine kinase up K PMI3716 gpmB probable phosphoglycerate mutase up K Coenzyme transport and metabolism PMI0105 cyoE protoheme IX farnesyltransferase up B, K PMI2022 visC 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase up K PMI2353 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase down...”
SERCL_ARATH / F4KI56 Metal-independent phosphoserine phosphatase; iPSP; Phosphoglycerate mutase-like protein 3; EC 3.1.3.3 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT5G04120 phosphoglycerate/bisphosphoglycerate mutase family protein from Arabidopsis thaliana
26% identity, 82% coverage
- function: Phosphoglycerate mutase-like protein lacking PGM activity, but having a low metal-independent phosphoserine phosphatase activity in vitro. May be involved in serine biosynthesis.
catalytic activity: H2O + O-phospho-L-serine = L-serine + phosphate (RHEA:21208)
catalytic activity: H2O + O-phospho-D-serine = D-serine + phosphate (RHEA:24873) - PpSAUR5 promotes plant growth by regulating lignin and hormone pathways
Li, Frontiers in plant science 2024 - “...family protein AT5G39110 RmlC-like cupins superfamily protein Selenocompound metabolism (ko00450) AT2G32210 Cysteine-rich/transmembrane domain A-like protein AT5G04120 Phosphoglycerate mutase family protein Glycolysis/gluconeogenesis (ko00010); glycine, serine and threonine metabolism (ko00260); carbon metabolism (ko01200); biosynthesis of amino acids (ko01230) AT1G34510 Peroxidase superfamily protein Phenylpropanoid biosynthesis (ko00940) 3.7 Functional analysis...”
- Complementary environmental analysis and functional characterization of lower glycolysis-gluconeogenesis in the diatom plastid
Dorrell, The Plant cell 2024 - “...BLASTp was performed with query peptide sequences from A. thaliana (AT2G17280, AT1G09780, AT3G05170, AT3G08590, AT3G50520, AT5G04120, and AT5G64460), and a reciprocal BLASTp was performed with the P. tricornutum genome supplemented with these sequences. Similar approaches were subsequently used to identify equivalent plastid glycolysis proteins from Tara...”
- Bacterial Volatiles (mVOC) Emitted by the Phytopathogen Erwinia amylovora Promote Arabidopsis thaliana Growth and Oxidative Stress
Parmagnani, Antioxidants (Basel, Switzerland) 2023 - “...(NSD) and no-go decay (NGD) translation-coupled RNA quality control systems [ 99 ], and for AT5G04120 , a phosphoserine phosphatase that forms serine from L- O -phosphoserine [ 100 ]. Upregulated genes coded for 1-deoxy-D-xylulose 5-phosphate synthase (DXPS1), a protein that either does not have DXS...”
- Genomic Regions Associated With Seed Meal Quality Traits in Brassica napus Germplasm
Bhinder, Frontiers in plant science 2022 - “...Tryptophan biosynthesis GLU1 SNC_027766.2_21272659 21272659 34503 AT5G04140 A10 3.07 Tryptophan biosynthesis PGM SNC_027766.2_21272659 21272659 31690 AT5G04120 A10 3.07 Tryptophan biosynthesis -carotene HDR SNC_027771.2_29995244 29995244 32802 AT4G34350 C05 3.33 MEP Pathway Phenols GAUT13 SNC_027757.2_35744643 35744643 17832 AT3G01040 A01 3.24 Lignification UGT SNC_027762.2_2096323 2096323 25421 AT3G55700 A06 4.10...”
- Complementary environmental analysis and functional characterization of a plastid diatom lower glycolytic-gluconeogenesis pathway
Dorrell, 2022 - Characterization of Arabidopsis thaliana R2R3 S23 MYB Transcription Factors as Novel Targets of the Ubiquitin Proteasome-Pathway and Regulators of Salt Stress and Abscisic Acid Response
Beathard, Frontiers in plant science 2021 - “...Table 1 ) (log2 fold-change by RNA-seq: AT5G46830, +3.8 in shoots; AT2G30770, +2.5 in shoots; AT5G04120, 3.3 in roots; AT3G21352, 2.9 in roots). These genes were selected as they were among the most differentially regulated genes identified and demonstrate the role of MYB25 in influencing biotic...”
- Spaceflight induces novel regulatory responses in Arabidopsis seedling as revealed by combined proteomic and transcriptomic analyses
Kruse, BMC plant biology 2020 - “...all 17 overlapping genes ( p =9.7 e 4 ). A cofactor-dependent phosphoglycerate mutase (dPGM, AT5G04120) predicted to be involved in glycolysis was upregulated in both datasets in response to spaceflight [ 14 ]. Given the etiolated seedlings were grown on sucrose media, this shift in...”
- “...most extreme expression patterns highlight TONOPLAST INTRINSIC PROTEIN 32 (AT1G17810), a cofactor-dependent phosphoglycerate mutase (dPGM, AT5G04120), and a DNA-polymerase epsilon catalytic subunit A (AT1G19530) within the datasets Table 2 Genes altered in response to spaceflight by protein and RNA quantification TAIR ID Symbol Membrane p -value...”
- The promise of single-cell genomics in plants
McFaline-Figueroa, Current opinion in plant biology 2020 - “...root hair cell development colored by the gene expression level of the early hair marker AT5G04120 (d) or the late hair marker AT4G34580 (e). Top: Trajectory reconstruction of root hair development using Monocle3. Line denotes the trajectory identified by Monocle 3. Cells are colored by progression...”
- “...direction of inferred pseudotime using Monocle 3. (g) Expression levels of the early hair marker AT5G04120 (top) or the late hair marker AT4G34580 (bottom) over pseudotime....”
- More
A5VJ49 Phosphoglycerate mutase from Limosilactobacillus reuteri (strain DSM 20016)
30% identity, 77% coverage
KIQ_009610 histidine phosphatase family protein from Corynebacterium glutamicum ATCC 14067
27% identity, 85% coverage
Arch_1063 histidine phosphatase family protein from Arcanobacterium haemolyticum DSM 20595
28% identity, 88% coverage
Smlt0586 putative phosphoglycerate mutase family from Stenotrophomonas maltophilia K279a
26% identity, 93% coverage
MAB_0133 Probable phosphoglycerate mutase from Mycobacterium abscessus ATCC 19977
29% identity, 73% coverage
tll0390 ORF_ID:tll0390~hypothetical protein from Thermosynechococcus elongatus BP-1
31% identity, 53% coverage
BL1656 phosphoglyceromutase from Bifidobacterium longum NCC2705
29% identity, 68% coverage
PGUG_05024 uncharacterized protein from Meyerozyma guilliermondii ATCC 6260
30% identity, 60% coverage
SSU05_0520 Fructose-2,6-bisphosphatase from Streptococcus suis 05ZYH33
29% identity, 85% coverage
BBMN68_1687 phosphoglyceromutase from Bifidobacterium longum subsp. longum BBMN68
P59159 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Bifidobacterium longum (strain NCC 2705)
Blon_2152 phosphoglycerate mutase 1 family from Bifidobacterium longum subsp. infantis ATCC 15697
29% identity, 71% coverage
- Transcriptomic analysis of Bifidobacterium longum subsp. longum BBMN68 in response to oxidative shock
Zuo, Scientific reports 2018 - “...BBMN68_618 Glycolysis Probable phosphoglycerate mutase phoE 1.88 3.24 BBMN68_1437 3-Bisphosphoglycerate-dependent phosphoglycerate mutase gpmA NS 1.07 BBMN68_1687 Aldehyde dehydrogenase (NAD+) putA1 NS 1.08 BBMN68_872 Enolase eno NS 2.11 BBMN68_771 Valine, leucine and isoleucine biosynthesis 2-Isopropylmalate synthase leuA 1.35 1.13 BBMN68_1222 3-Isopropylmalate dehydrogenase leuB 1.55 1.42 BBMN68_984 3-Isopropylmalate/(R)-2-methylmalate...”
- “...utilization of complex carbohydrate sourcesenolase ( BBMN68_771 ) and two phosphoglycerate mutases ( BBMN68_1437 , BBMN68_1687 )was upregulated in BBMN68 after 60min of oxygen exposure (Table 2 ). Enolase overproduction in BBMN68s response to oxygen was also confirmed in our previous proteomics study 16 ; these...”
- Integrated transcriptomic and proteomic analysis of the bile stress response in a centenarian-originated probiotic Bifidobacterium longum BBMN68
An, Molecular & cellular proteomics : MCP 2014 - “...gpmA pgk ackA tas4 pgm BBMN68_1612 BBMN68_606 BBMN68_1687 BBMN68_399 BBMN68_728 BBMN68_1072 BBMN68_1663 BBMN68_1360 28 30 33 argG ilvC1 metC3 BBMN68_809...”
- Mechanism analysis of acid tolerance response of bifidobacterium longum subsp. longum BBMN 68 by gene expression profile using RNA-sequencing
Jin, PloS one 2012 - “...glyceraldehyde 3-phosphate dehydrogenase [EC:1.2.1.12] BBMN68_399 1866.21 2178.88 1.17 G COG0126 pgk K00927, phosphoglycerate kinase [EC:2.7.2.3] BBMN68_1687 2517.93 3284.09 1.30 G COG0588 gpmA K01834, 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase [EC:5.4.2.1] BBMN68_771 2216.28 3869.75 1.75 G COG0148 eno K01689, enolase [EC:4.2.1.11] BBMN68_738 2154.49 2225.71 1.03 G COG0469 pykF K00873, pyruvate...”
- Intracellular proteins moonlighting as bacterial adhesion factors
Jeffery, AIMS microbiology 2018 - “...Q8DXT0 plasminogen, actin [83] , [96] Streptococcus pneumoniae Q8DQX8 plasminogen [97] Phosphoglycerate mutase Bifidobacterium lactis P59159 plasminogen [81] Streptococcus oralis E6IYJ0 plasminogen [78] Pyruvate dehydrogenase Mycoplasma pneumoniae P75391 fibrinogen [36] Pyruvate kinase Lactococcus lactis Q07637 yeast invertase [54] Superoxide dismutase Mycobacterium avium P53647 adhesin [98] Triose...”
- Genome-scale metabolic modeling of the human milk oligosaccharide utilization by Bifidobacterium longum subsp. infantis
Román, mSystems 2024 - “...rate. There were 76 genes of this type across the three HMOs studied (Supplemental Data). Blon_2152 (phosphoglycerate mutase) was previously predicted as an essential gene for B. infantis ( 7 ), and using i LR578, an approx. 51% reduction in growth was indicated by a single...”
- Bifidobacterium longum subsp. infantis utilizes human milk urea to recycle nitrogen within the infant gut microbiome
You, Gut microbes 2023 - “...biosynthesis (Blon_1482), carbohydrate degradation (ribose-5-phosphate isomerase A (Blon_2191), phosphoglycerate kinase (Blon_1087), and 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase (Blon_2152)). Cofactor biosynthesis (Pyridoxal 5-phosphate synthase(Blon_1994)) and protein biosynthesis (Elongation factor P(Blon_0735)) were identified as well (Table S3). A detailed list of 15 N-labeled proteins identified in metabolic pathways is provided...”
- Comparative transcriptomics reveals key differences in the response to milk oligosaccharides of infant gut-associated bifidobacteria
Garrido, Scientific reports 2015 - “...1997 4476 transcriptional regulator, Fis family(EC:2.2.1.2) Blon_0308 4800 1373 1473 ATP synthase F1, gamma subunit(EC:3.6.3.14) Blon_2152 4479 1208 747 phosphoglycerate mutase 1 family(EC:5.4.2.1) Blon_0309 4369 1031 294 ATP synthase F1, beta subunit(EC:3.6.3.14) Blon_1089 4310 978 1119 preprotein translocase, SecG subunit Blon_2215 4041 1713 2181 translation initiation...”
- Proteomic analysis of Bifidobacterium longum subsp. infantis reveals the metabolic insight on consumption of prebiotics and host glycans
Kim, PloS one 2013 - “...genes encoding putative phosphoglycerate mutases, but only the expression of a single gene was appreciated, Blon_2152 ( Figure S3 ). 10.1371/journal.pone.0057535.g002 Figure 2 Central metabolic pathways reconstructed from proteomic datasets. Sugar substrates are presented inside the red boxes. Pathways regulated or induced by the presence of...”
DU507_13760 histidine phosphatase family protein from Lacticaseibacillus rhamnosus GG
31% identity, 66% coverage
1h2eA / Q9ALU0 Bacillus stearothermophilus phoe (previously known as yhfr) in complex with phosphate (see paper)
27% identity, 88% coverage
- Ligand: phosphate ion (1h2eA)
BBMN68_727 histidine phosphatase family protein from Bifidobacterium longum subsp. longum BBMN68
28% identity, 70% coverage
XP_445966 hypothetical protein from Candida glabrata CBS 138
32% identity, 66% coverage
ABIE51_RS06160 phosphoserine phosphatase (EC 3.1.3.3) from Lysobacter sp. OAE881
26% identity, 79% coverage
- mutant phenotype: # This gene and its ortholog in Xanthomonas campestris are essential, which is consistent with a role in serine synthesis. 45% identical to the characterized enzyme slr1124 (PMID:25701735). This protein is significantly shorter than slr1124 but contains an entire phosphatase domain, so we expect that it is still capable of this reaction.
F9UT12 Phosphoglycerate mutase family protein from Lactiplantibacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
28% identity, 95% coverage
SAS020 hypothetical protein from Staphylococcus aureus subsp. aureus N315
32% identity, 86% coverage
SAR0856 phosphoglycerate mutase family protein from Staphylococcus aureus subsp. aureus MRSA252
32% identity, 86% coverage
PAS_chr3_0826 Tetrameric phosphoglycerate mutase from Komagataella phaffii GS115
30% identity, 70% coverage
- Improving Methanol Utilization by Reducing Alcohol Oxidase Activity and Adding Co-Substrate of Sodium Citrate in Pichia pastoris
Liu, Journal of fungi (Basel, Switzerland) 2023 - “...(encoding Tpi, triose phosphate isomerase), PAS_chr2-1_0437 (encoding GAPDH, glyceraldehyde-3-phosphate dehydrogenase), PAS_chr1-4_0292 (encoding Pgk, 3-phosphoglycerate kinase), PAS_chr3_0826 (encoding gpmA, tetrameric phosphoglycerate mutase), PAS_chr3_0082 (encoding ENO, enolase I), PAS_chr2-2_0294 (encoding AceE, E1 alpha subunit of the pyruvate dehydrogenase (PDH) complex), PAS_chr1-4_0593 (encoding AceE, E1 beta subunit of the...”
- Transcriptome Analysis Unveils the Effects of Proline on Gene Expression in the Yeast Komagataella phaffii
Rumyantsev, Microorganisms 2021 - “...( KpPFK1 , PAS_chr2-1_0402), phosphoglucose isomerase ( KpPGI1 , PAS_chr3_0456), phosphoglycerate mutase ( KpGPM1 , PAS_chr3_0826), 3-phosphoglycerate kinase ( KpPGK1 , PAS_chr1-4_0292) and glyceraldehyde 3-phosphate dehydrogenase ( KpTDH1 , PAS_chr2-1_0437). 3.3. The Analysis of the Mitochondrial Activity in K. phaffii Cells The MTT assay is commonly...”
- Transcriptomic Analysis of the Influence of Methanol Assimilation on the Gene Expression in the Recombinant Pichia pastoris Producing Hirudin Variant 3
Li, Genes 2019 - “...Table 1 ). Reaction from glycerate-2P to glycerate -3P was catalyzed by two enzymes, EC5.4.2.11 (PAS_chr3_0826) and EC 5.4.2.12 (PAS_chr2-2_0177). And the expression pattern of the above two genes which located on different chromosomes was different, one was up-regulated, the other was down-regulated. Similar phenomenon was...”
- “...0 1.2.1.12 PAS_chr2-1_0437 8198905 Glyceraldehyde-3-phosphate dehydrogenase 1.9318 1.00 10 134 2.3868 4.91 10 185 5.4.2.11 PAS_chr3_0826 8200319 Tetrameric phosphoglycerate mutase 1.8358 0 2.0814 0 5.4.2.2 PAS_chr1-4_0264 8197873 Phosphoglucomutase 1.7789 0 2.0539 0 2.7.1.11 PAS_chr2-1_0402 8198870 Phosphofructokinase involved in glycolysis 1.759 0 2.711 0 2.7.1.15 PAS_chr3_0604 8199807...”
Bbr_1574 phosphoglyceromutase from Bifidobacterium breve UCC2003
28% identity, 71% coverage
LOC103828089 phosphoglycerate mutase-like protein 4 from Brassica rapa
28% identity, 67% coverage
BB341_RS18990, SCLAV_1867 histidine phosphatase family protein from Streptomyces clavuligerus
27% identity, 95% coverage
- The CagRS Two-Component System Regulates Clavulanic Acid Metabolism via Multiple Pathways in Streptomyces clavuligerus F613-1
Fu, Frontiers in microbiology 2019 - “...Product Pathway p -value Genes involved in G3P and arginine metabolism SCLAV_1867 a ( gpmA1) BB341_RS18990 b 0.17 0.39 Phosphoglycerate mutase Glycolysis 0 SCLAV_1059 ( fucA) BB341_RS22720 2.00 3.73 Class II aldolase family protein Glycolysis 6.66E-16 SCLAV_2648 BB341_RS15270 2.06 4.12 Class II fructose-bisphosphate aldolase Glycolysis 1.11E-15...”
- “...In addition, transcriptome analysis and RT-qPCR revealed that many genes involved in glycolysis, such as BB341_RS18990, BB341_RS26335, BB341_RS21415, BB341_RS13605 , and BB341_RS21120 , were also significantly down-regulated in cagRS compared with F613-1 ( Table 1 ). Furthermore, ChIP-seq assays revealed that BB341_RS22330 ( pgk ), encoding...”
- “...Fold change RT-qPCR d Product Pathway p -value Genes involved in G3P and arginine metabolism SCLAV_1867 a ( gpmA1) BB341_RS18990 b 0.17 0.39 Phosphoglycerate mutase Glycolysis 0 SCLAV_1059 ( fucA) BB341_RS22720 2.00 3.73 Class II aldolase family protein Glycolysis 6.66E-16 SCLAV_2648 BB341_RS15270 2.06 4.12 Class II...”
Q2YJN6 phosphoglycerate mutase (2,3-diphosphoglycerate-dependent) (EC 5.4.2.11) from Brucella abortus (see paper)
Q576R3 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Brucella abortus biovar 1 (strain 9-941)
BAB2_1013 Phosphoglycerate/bisphosphoglycerate mutase:Phosphoglycerate mutase 1 from Brucella melitensis biovar Abortus 2308
BruAb2_0992 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Brucella abortus bv. 1 str. 9-941
28% identity, 92% coverage
MSMEG_1926 phosphoglycerate mutase family protein from Mycobacterium smegmatis str. MC2 155
33% identity, 73% coverage
BMEII0248 PHOSPHOGLYCERATE MUTASE from Brucella melitensis 16M
28% identity, 88% coverage
cce_2454 phosphoglycerate mutase from Cyanothece sp. ATCC 51142
28% identity, 45% coverage
- Analysis of Protein Complexes in the Unicellular Cyanobacterium Cyanothece ATCC 51142
Aryal, Journal of proteome research 2018 - “...(cce_4254), Gap; glyceraldehyde-3-phosphate dehydrogenase (cce_3612), Pgk; phosphoglycerate kinase (cce_4219), Gpm; phosphoglycerate mutase (GpmA; cce_1542, GpmB; cce_2454), Eno; enolase (Eno1; cce_2156, Eno2; cce_5179), Ppc; phosphoenolpyruvate carboxylase (cce_3822), Gnd; 6-phosphogluconate dehydrogenase (cce_3746), RpiA; ribose 5-phosphate isomerase (cce_0103), Rpe; ribulose-phosphate 3-epimerase (cce_0798), TalA; transaldolase (cce_4687), TktA; transketolase (cce_4627), Pkt;...”
- Genome-scale modeling of light-driven reductant partitioning and carbon fluxes in diazotrophic unicellular cyanobacterium Cyanothece sp. ATCC 51142
Vu, PLoS computational biology 2012 - “...In contrast, relative abundances of proteins catalyzing the conversion of glycerate-3P to pyruvate (cce_1789 and cce_2454) were unchanged or up-regulated (pyruvate kinase cce_3420) in light-limited cells. Consistent with the results from global mRNA profiles was the up-regulation of Cyanothece 51142 proteins involved in photosynthesis and carbon...”
A1S_1661 Fructose-26-bisphosphatase from Acinetobacter baumannii ATCC 17978
29% identity, 59% coverage
cgd7_4270 glycolytic phosphoglycerate mutase from Cryptosporidium parvum Iowa II
27% identity, 70% coverage
- The Cryptosporidium parvum transcriptome during in vitro development
Mauzy, PloS one 2012 - “...6 hr. Transcripts for the remaining enzymes cgd1_3020 [fructose-1 disphosphate aldolase], cgd6_3790 [glyceraldehyde 3-phosphate dehydrogenase], cgd7_4270 [phosphoglycerate mutase], and cgd5_1960 [enolase] all spiked at 12 hr. It is interesting to note that these same four proteins are found in the sporozoite proteome [10] , suggesting that...”
BL0966 hypothetical protein from Bifidobacterium longum NCC2705
27% identity, 70% coverage
BBPR_1487 phosphoglyceromutase from Bifidobacterium bifidum PRL2010
28% identity, 71% coverage
- Glycan cross-feeding activities between bifidobacteria under in vitro conditions
Turroni, Frontiers in microbiology 2015 - “...enolase (BBPR_0711), glucose-6-phosphate isomerase (BBPR_354), phosphoglycerate kinase (BBPR_1038), glyceraldehyde 3-phosphate dehydrogenase (BBPR_0587), and phosphoglycerate mutase (BBPR_1487), whose functions are predicted to be related to (carbohydrate-dependent) energy production and conversion through the glycolytic pathway (Supplementary Figure S1 ). These observations indicate that PRL2010 cells have enhanced flux...”
- “...genes include several ORFs-encoding glycolytic enzymatic repertoire of PRL2010, such as enolase (BBPR_0711), phosphoglycerate mutase (BBPR_1487), and pyruvate kinase (BBPR_0747; Figure 3 ). FIGURE 3 Transcriptomic profiling of genes predicted to be involved in the metabolism of carbohydrates by bifidobacteria in response to the different bi-...”
Entcl_3728 2,3-diphosphoglycerate-dependent phosphoglycerate mutase GpmB from [Enterobacter] lignolyticus SCF1
26% identity, 84% coverage
- Multi-time series RNA-seq analysis of Enterobacter lignolyticus SCF1 during growth in lignin-amended medium
Orellana, PloS one 2017 - “...Entcl_2022; (8) phosphoglycerate kinase, EC 2.7.2.3, encoded by Entcl_0828; (9) phosphoglyceratemutase, EC 5.4.2.11, encoded by Entcl_3728, Entcl_0131, and Entcl_3075; (10) 2-phospho-D-glycerate hydro-lyase, EC 4.2.1.11, encoded by Entcl_0935; (11) phosphoenolpyruvatecarboxykinase (ATP), EC 4.1.1.49 encoded by Entcl_0332; (12) malate dehydrogenase, EC 1.1.1.37 encoded by Entcl_0474; (13) fumaratehydratase, EC...”
AT3G50520 phosphoglycerate/bisphosphoglycerate mutase family protein from Arabidopsis thaliana
27% identity, 67% coverage
- Single-cell transcriptomic analysis reveals the developmental trajectory and transcriptional regulatory networks of quinoa salt bladders
Liu, Stress biology 2024 - Complementary environmental analysis and functional characterization of lower glycolysis-gluconeogenesis in the diatom plastid
Dorrell, The Plant cell 2024 - “...second BLASTp was performed with query peptide sequences from A. thaliana (AT2G17280, AT1G09780, AT3G05170, AT3G08590, AT3G50520, AT5G04120, and AT5G64460), and a reciprocal BLASTp was performed with the P. tricornutum genome supplemented with these sequences. Similar approaches were subsequently used to identify equivalent plastid glycolysis proteins from...”
- Complementary environmental analysis and functional characterization of a plastid diatom lower glycolytic-gluconeogenesis pathway
Dorrell, 2022 - The glycolytic enzyme, phosphoglycerate mutase, has critical roles in stomatal movement, vegetative growth, and pollen production in Arabidopsis thaliana
Zhao, Journal of experimental botany 2011 - “...genes, At1g09780, At1g22170, and At3g08590, are annotated as PGAMs in TAIR, and four genes, At1g09780, At3g50520, At3g08590, and At5g04120, are annotated as PGAMs in KEGG. Five genes, At1g58280, At2g17280, At3g50520, At5g04120, and At5g64460, are reported by Mazarei et al. (2003) to contain a dPGAM/bPGAM (cofactor-dependent PGAM/bisphosphoglycerate...”
- “...annotated as dPGAMs in Arabidopsis on the basis of sequence similarity (At1g22170, At1g58280, At1g78050, At2g17280, At3g50520, At5g04120, and At5g64460) ( Mazarei et al. , 2003 ; Andriotis et al. , 2010 ; Stein et al. , 2010 ), and four genes have been annotated as iPGAMs...”
- Tandem affinity purification and mass spectrometric analysis of ubiquitylated proteins in Arabidopsis
Saracco, The Plant journal : for cell and molecular biology 2009 - “...55 At3g44310 Nitrilase 1 (NIT1, NRL1) 2 At [4] 3.24 10 3 2.54 10 3 At3g50520 Phosphoglycerate/bisphosphoglycerate mutase family 3 3.80 10 5 At5g04120 3.27 10 4 2.77 10 5 At3g62870 60S ribosomal protein L7a (RPL7aB) 2 Cyto 3.19 10 4 22 At2g47610 (RPL7aA) 2.89 10...”
PP1680, PP_1680 alpha-ribazole-5'-phosphate phosphatase from Pseudomonas putida KT2440
24% identity, 90% coverage
YFFL_SCHPO / O94461 Probable phosphatase C1687.21; EC 3.1.3.- from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
27% identity, 74% coverage
BHWA1_01353 Fructose-2,6-bisphosphatase from Brachyspira hyodysenteriae WA1
30% identity, 76% coverage
slr1124 phosphoglycerate mutase from Synechocystis sp. PCC 6803
27% identity, 40% coverage
- The primary carbon metabolism in cyanobacteria and its regulation
Lucius, Frontiers in plant science 2024 - “...annotated for Synechocystis . Protein Slr1945 (Pgam1) is a 2,3-bisphosphoglycerate-independent phosphoglycerate mutase, while putative Pgam2 Slr1124 has an additional annotation as phosphoserine phosphatase ( Klemke etal., 2015 ). In addition to the existence of GapDH and Pgam isoenzymes, both GapDH1 and 2 as well as Pgam1...”
- Regulatory Diversity and Functional Analysis of Two-Component Systems in Cyanobacterium Synechocystis sp. PCC 6803 by GC-MS Based Metabolomics
Shi, Frontiers in microbiology 2020 - “...thrC , threonine synthase 11.45 slr2072 ilvA, encoding a L-threonine deaminase 1.30 Phosphoric acid 10.15 slr1124 gpmB , phosphoserine phosphatase, involved in glycine, serine and threonine metabolism 1.96 sll1908 serA , D-3-phosphoglycerate dehydrogenase / 2-oxoglutarate reductase 1.73 Pyruvic acid 3.76 slr0721 me , encoding a malic...”
- Butanol tolerance regulated by a two-component response regulator Slr1037 in photosynthetic Synechocystis sp. PCC 6803
Chen, Biotechnology for biofuels 2014 - “...protein could be important in maintaining proper photosynthesis. Two proteins involved in glycolysis/gluconeogenesis, phosphoglycerate mutase (Slr1124) and bisphosphoglycerate-independent phosphoglycerate mutase (Slr1945), were down-regulated in the slr1037 mutant. The results were consistent with those of a previous study, which found an increased transcript concentration of phosphoglycerate mutase...”
- Sll1330 controls the expression of glycolytic genes in Synechocystis sp. PCC 6803
Tabei, Biochemical and biophysical research communications 2007 (PubMed)- “...is, glk (sll0593), pfkA (sll1196), fbaA (sll0018), gpmB (slr1124), and pk (sll0587), were decreased, and were regulated by Sll1330 under light and...”
- “...pfkA ( sll1196 ), fbaA ( sll0018 ), gpmB ( slr1124 ) and pk ( sll0587 ). The broken line indicates speculative interactions. The question mark indicates unknown...”
- Cadmium triggers an integrated reprogramming of the metabolism of Synechocystis PCC6803, under the control of the Slr1738 regulator
Houot, BMC genomics 2007 - “..., cmp and sbt , as well and numerous carbon metabolism genes: pgk , gpmB (slr1124 and slr1945), eno , fbpI , carA , carB , pdhA , pdhB , pdhC and pdhD . By contrast, Fe and Zn downregulated a few Ci acquisition genes such...”
- Pathway alignment: application to the comparative analysis of glycolytic enzymes
Dandekar, The Biochemical journal 1999 - “...1065 1732 1146 1009 1830 YJL052W 1185 slr0394 693 pgk 722 slr1124 yhfr slr1945 pgm slr0752 587 sll0587 332 slr0301 co co eno pyka ptsi co 0538 1437 0056 2926...”
MONOS_5832 phosphoserine phosphatase from Monocercomonoides exilis
28% identity, 84% coverage
lmo0268 similar to phosphoglycerate mutase from Listeria monocytogenes EGD-e
28% identity, 71% coverage
- Transcriptional and phenotypic responses of Listeria monocytogenes to chlorine dioxide
Pleitner, Applied and environmental microbiology 2014 - “...lmo2398 lmo2426 lmo2673 Energy metabolism lmo0232 lmo0261 lmo0268 lmo0342 lmo0347 lmo0521 lmo0613 lmo0646 lmo0722 lmo0758 lmo0759 lmo0781 lmo0811 lmo0907...”
- Genomic and proteomic analysis of the Alkali-Tolerance Response (AlTR) in Listeria monocytogenes 10403S
Giotis, BMC microbiology 2008 - “...Operons encoding processes of glycolysis ( lmo2476 , lmo2367 , lmo1571 , pfk , and lmo0268 ), the pentose phosphate way ( lmo2712, lmo1978 ) were significantly down regulated. However, other metabolic pathways such as the metabolism of glycerol (dihydroxyacetone kinase, lmo1055 ) were induced during...”
MA3008 phosphoglycerate mutase family protein from Methanosarcina acetivorans C2A
28% identity, 78% coverage
LSEI_1293 Phosphoglycerate mutase family protein from Lactobacillus casei ATCC 334
26% identity, 88% coverage
- New Genes Involved in Mild Stress Response Identified by Transposon Mutagenesis in Lactobacillus paracasei
Palud, Frontiers in microbiology 2018 - “...1.35 0.29 1.41 0.31 1.22 0.38 LSEI_1289 Cysteine desulfurase 1.18 0.25 1.23 0.27 1.10 0.34 LSEI_1293 Phosphoglycerate mutase 1.17 0.25 1.34 0.33 1.22 0.36 LSEI_1360 5'-nucleotidase 1.96 , 0.50 * 1.01 0.30 1.57 0.51 LSEI_1468 Ribonucleotide reductase 1.37 0.33 2.45 0.56 * 2.08 0.57 * LSEI_1565...”
- “...100 95 78 76 LSEI_1007 100 95 81 82 (P) LSEI_1041 100 83 63 68 LSEI_1293 100 88 84 90 LSEI_1360 100 93 84 88 LSEI_1468 100 78 68 70 LSEI_1565 100 88 68 76 LSEI_1738 100 87 70 71 LSEI_1931 100 79 82 79 LSEI_2262...”
LMRG_02608 hypothetical protein from Listeria monocytogenes 10403S
28% identity, 71% coverage
C0P3B4 Pentatricopeptide repeat-containing protein from Zea mays
29% identity, 61% coverage
- Comparative proteomic analysis of maize (Zea mays L.) seedlings under rice black-streaked dwarf virus infection
Yue, BMC plant biology 2018 - “...reduced by RBSDV infection. In the biosynthesis of amino acids pathway, one significantly induced protein (C0P3B4) and five significantly reduced proteins (K7VBU7, K7VC35, B8A068, B6SS03 and K7U2E4) were identified and in the purine metabolism pathway, one significantly induced protein (K7TPZ5) and one significantly reduced protein (K7UGQ5)...”
- “...17.859 0.803660566 0.00348751 K7U1Y7 Zm.133422 Glyoxylate/hydroxypyuvate reductase HPR3 35.576 0.78506559 0.035887012 Biosynthesis of amino acids C0P3B4 Zm.21713 Phosphoglycerate mutase-like protein 26.235 1.31338265 0.001880484 K7VBU7 Zm.85396 D-3-phosphoglycerate dehydrogenase 48.914 0.791407019 0.025750889 K7VC35 Zm.66568 S-adenosylmethionine synthethase 42.54 0.770235935 0.025440529 B8A068 Zm.20018 S-adenosylmethionine synthethase 43.072 0.757097792 0.012769647 B6SS03 Zm.155641...”
KLMA_20098 phosphoglycerate mutase 1 from Kluyveromyces marxianus DMKU3-1042
31% identity, 63% coverage
NP_216651 hypothetical protein from Mycobacterium tuberculosis H37Rv
Rv2135c hypothetical protein from Mycobacterium tuberculosis H37Rv
23% identity, 81% coverage
- Functional characterization of two members of histidine phosphatase superfamily in Mycobacterium tuberculosis.
Coker, BMC microbiology 2013 - GeneRIF: Rv2135c has an acid phosphatase activity with optimal pH of 5.8.
- Impact of Genomics on Clarifying the Evolutionary Relationships amongst Mycobacteria: Identification of Molecular Signatures Specific for the Tuberculosis-Complex of Bacteria with Potential Applications for Novel Diagnostics and Therapeutics
Gupta, High-throughput 2018 - “...Ins 165213 Non-essential DEAD/DEAH box helicase Rv2092c Figure S43 1aa Del 579624 Non-essential phosphoglycerate mutase Rv2135c Figure S44 1aa Del 0148 Non-essential hypothetical protein CAB90_02390 Rv2137c Figure S45 2aa Ins 1054 Non-essential putative glycerol-3-phosphate dehydrogenase * Rv2249c Figure S46 4aa Ins 333380 Non-essential GTP-binding protein LepA...”
- Functional characterization of two members of histidine phosphatase superfamily in Mycobacterium tuberculosis
Coker, BMC microbiology 2013 - “...Background Functional characterization of genes in important pathogenic bacteria such as Mycobacterium tuberculosis is imperative. Rv2135c, which was originally annotated as conserved hypothetical, has been found to be associated with membrane protein fractions of H37Rv strain. The gene appears to contain histidine phosphatase motif common to...”
- “...automatic annotation systems, which can be erroneous. In addition, the motif at the N-terminal of Rv2135c is RHA unlike RHG found in most members of histidine phosphatase superfamily. These necessitate the need for its experimental characterization. The crystal structure of Rv0489, another member of the histidine...”
- The conservation and application of three hypothetical protein coding gene for direct detection of Mycobacterium tuberculosis in sputum specimens
Qin, PloS one 2013 - “...gene showed the secondary high conservation (99.7%) in M. tuberculosis (MTB) strains. SCAR3 based on Rv2135c gene (3.2%) and IS6110 (8%) showed relatively high deletion rate in MTB strains. Secondly, three SCAR markers were evaluated in 307 clinical sputum from patients in whom TB was suspected...”
- “...evaluated the conservation of three hypothetical genes, which code conserved hypothetical protein Rv0264c, Rv1508c, and Rv2135c, in clinical strains of MTB, and then tested the application for direct detection of MTB in sputum specimens. Materials and Methods Ethics Statement All these patients were treated in accordance...”
- Mycobacterium tuberculosis Transcriptome Profiling in Mice with Genetically Different Susceptibility to Tuberculosis
Skvortsov, Acta naturae 2013 - “...Rv3753c, Rv0026, Rv0061, Rv0140, Rv0141c, Rv0145, Rv0332, Rv0712, Rv0785, Rv0998, Rv1514c, Rv1515c, wbbL2, Rv1760, Rv2077A, Rv2135c, Rv2466c, Rv2699c, Rv2751, Rv2823c, Rv3067, Rv3090, Rv3094c, Rv3510c CH conserved hypotheticals Rv0051, Rv0309, lprL, Rv0621, Rv0876c, lytB2, irtA, Rv1687c, secA2, Rv2209, Rv2265, mmpL7, Rv3194c, Rv3658c, embC, espE, ponA1, Rv0072, narK3,...”
- Mycobacterium tuberculosis gene Rv2136c is dispensable for acid resistance and virulence in mice
Darby, Tuberculosis (Edinburgh, Scotland) 2011 - “...in the knock out construct in an effort to maintain expression of the downstream gene Rv2135c , which is in a putative operon with Rv2136c . Deletion of Rv2136c was confirmed by Southern blot ( Figure 1B ) and quantitative real-time PCR ( Figure 1C )....”
- “...entire operon. Quantitative real-time PCR was performed on the Rv2136c:Tn strain to evaluate levels of Rv2135c transcript. We did not detect expression of Rv2135c in the Rv2136c:Tn strain, although it was readily detectable in wild type Mtb (data not shown). Complementation of Rv2136c:Tn strain with a...”
- Mycobacterium tuberculosis Rv2419c, the missing glucosyl-3-phosphoglycerate phosphatase for the second step in methylglucose lipopolysaccharide biosynthesis
Mendes, Scientific reports 2011 - “...a PGM 26 . A sixth hypothetical PGM was annotated in the M. tuberculosis genome (Rv2135c) but no relevant homology with mGpgP was detected with the BLAST tool. A phylogenetic tree constructed from the alignment between mGpgP and other known GpgPs/MpgPs shows that the mycobacterial protein...”
AHA_2360 phosphoglycerate mutase from Aeromonas hydrophila subsp. hydrophila ATCC 7966
27% identity, 87% coverage
OG1RF_12034 histidine phosphatase family protein from Enterococcus faecalis OG1RF
28% identity, 78% coverage
PMGY_CANAL / P82612 Phosphoglycerate mutase; PGAM; BPG-dependent PGAM; MPGM; Phosphoglyceromutase; EC 5.4.2.11 from Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast) (see paper)
GPM1 phosphoglycerate mutase; EC 5.4.2.1 from Candida albicans (see 6 papers)
XP_721022 phosphoglycerate mutase from Candida albicans SC5314
29% identity, 70% coverage
- catalytic activity: (2R)-2-phosphoglycerate = (2R)-3-phosphoglycerate (RHEA:15901)
- CharProtDB CGD description: Surface protein that binds host complement Factor H and FHL-1; phosphoglycerate mutase; antigenic in murine, human infection; biofilm-, fluconazole-, or amino acid starvation (3-aminotriazole treatment) induced, farnesol-downregulated
- Candida albicans uses the surface protein Gpm1 to attach to human endothelial cells and to keratinocytes via the adhesive protein vitronectin.
Lopez, PloS one 2014 - GeneRIF: Gpm1 in Candida albicans attaches to human endothelial cells and to keratinocytes via the adhesive protein vitronectin
- Cell Wall Proteome Profiling of a Candida albicans Fluconazole-Resistant Strain from a Lebanese Hospital Patient Using Tandem Mass Spectrometry-A Pilot Study
Awad, Microorganisms 2021 - “...0 DAVVTVPAYFNDSQR - Q5APD4 MTS1 Sphingolipid C9-methyltransferase 18 2.5 0 ITSVEMAEHVGIR - 0 ITSVEMAEHVGIR - P82612 GPM1 Phosphoglycerate mutase 28 4 0 NLFTGWVDVR - P53705 BUD4 Bud site selection protein 49 2.3 1 FKEVNVMSR - 2 KFKEVNVMSR - 0 SSGSSQSSLQSLR - 2 KESISSKPAKLSSASPR - Q5AIR7 ENG1...”
- Candida albicans PROTEIN PROFILE CHANGES IN RESPONSE TO THE BUTANOLIC EXTRACT OF Sapindus saponariaL
Fiorini, Revista do Instituto de Medicina Tropical de Sao Paulo 2016 - “...Catalyzes conversion of 2-phosphoglycerate to phosphoenolpyruvate during glycolysis and the reverse reaction during gluconeogenesis. GPM1 P82612 Glycolysis Catalyses conversion of 2-phospho-D-glycerate to 3-phospho-D-glycerate. Proteins that are responsive for the MIC of S. saponaria BUTE: The six proteins that were responsive for the MIC of BUTE of...”
- Delicate Metabolic Control and Coordinated Stress Response Critically Determine Antifungal Tolerance of Candida albicans Biofilm Persisters
Li, Antimicrobial agents and chemotherapy 2015 - “...Likely hexokinasea Uncharacterized protein Q9URB4 P30575 P83776 P46273 P82612 Q9P940 Q59K93 Q59TZ8 Q59JX3 Q59RR7 Q5AK23 FBA1 ENO1 HXK2 PGK1 GPM1 TPI1 GLK2 GLK1...”
- Physical Features of Intracellular Proteins that Moonlight on the Cell Surface
Amblee, PloS one 2015 - “...bifidum , and B . longum S3DNJ2 [ 27 ] Phosphoglyceromutase plasminogen binidng Candida albicans P82612 [ 26 ] Phosphoglycerate mutase plasminogen binding Streptococcus anginosus and S . oralis E6IYJ0 [ 50 ] Pyruvate kinase binds invertase Lactococcus lactis F2HMQ3 [ 29 ] Ribonucleotide reductase subunit...”
EF2664 phosphoglycerate mutase family protein from Enterococcus faecalis V583
28% identity, 78% coverage
- Genes Contributing to the Unique Biology and Intrinsic Antibiotic Resistance of Enterococcus faecalis
Gilmore, mBio 2020 - “...(Potentially Critical) and EF0954, EF1039, EF1190, EF1214, EF1250, EF1778, EF1784, EF1787, EF1790, EF1934, EF2367, and EF2664 (Potentially Impaired). Of those, EF1250, EF1375, and EF2367 appear to be extracellular or associated with the cell envelope, and EF1772, EF1778, EF1783, EF1784, EF1787, and EF1790 encode functions associated with...”
SMc02838 PROBABLE PHOSPHOGLYCERATE MUTASE 1 PROTEIN from Sinorhizobium meliloti 1021
27% identity, 89% coverage
LEP1GSC185_3352 histidine phosphatase family protein from Leptospira licerasiae serovar Varillal str. VAR 010
28% identity, 75% coverage
RHECIAT_CH0000213 phosphoglycerate mutase protein from Rhizobium etli CIAT 652
30% identity, 74% coverage
lmo0557 similar to phosphoglycerate mutase from Listeria monocytogenes EGD-e
26% identity, 84% coverage
SUB0594 phosphoglycerate mutase family protein from Streptococcus uberis 0140J
27% identity, 79% coverage
- PIMMS (Pragmatic Insertional Mutation Mapping System) Laboratory Methodology a Readily Accessible Tool for Identification of Essential Genes in Streptococcus
Blanchard, Frontiers in microbiology 2016 - “...enzymes, phosphoglycerate mutase and 2,3-di-phosphoglycerate-dependant phosphoglycerate mutase. Phosphoglycerate mutase has four orthologs in S. uberis (sub0594; sub0838, sub0839, and sub1509) all of which showed insertions throughout their sequences at frequencies ranging from 38.7 to 72.6 unique insertions/kb. Whereas, 2,3-di-phosphoglycerate-dependant phosphoglycerate mutase has only a single ortholog...”
- “...Where clear redundancy existed, for instance in the case of phosphoglycerate mutase, the orthologous CDS (sub0594; sub0838, sub0839, and sub1509) were all mutated; suggesting that none had functional dominance. The interconversion of glycerate-2P to glycerate-3P may also be effected by a distinct activity, 2,3-di-phosphoglycerate-dependant phosphoglycerate mutase,...”
SSA_0422 Phosphoglycerate mutase family protein, putative from Streptococcus sanguinis SK36
28% identity, 91% coverage
XP_845028 phosphoglycerate mutase protein, putative from Trypanosoma brucei brucei TREU927
32% identity, 74% coverage
spr0887 Phosphoglycerate mutase from Streptococcus pneumoniae R6
SPD_0870 phosphoglycerate mutase family protein from Streptococcus pneumoniae D39
31% identity, 78% coverage
- Penicillin induces alterations in glutamine metabolism in Streptococcus pneumoniae
El, Scientific reports 2017 - “...hypothetical protein 1.22 1.42 spr0812 ABC-NBD ABC transporter ATP-binding protein 1.00 spr0840 hypothetical protein 1.00 spr0887 gpmB phosphoglycerate mutase 1.21 spr0946 hydrolase 1.00 spr0959 hypothetical protein 1.58 2.00 spr0997 hypothetical protein 1.04 spr1028 gapN glyceraldehyde-3-phosphate dehydrogenase 1.28 1.32 1.24 1.51 1.65 spr1069 lacG 6-phospho-beta-galactosidase 1.00 1.50...”
- The Small Molecule DAM Inhibitor, Pyrimidinedione, Disrupts Streptococcus pneumoniae Biofilm Growth In Vitro
Yadav, PloS one 2015 - “...-1.6 (0.006) SPD_0143 UDP-glucose 6-dehydrogenase, putative NAD binding/UDP-glucose 6-dehydrogenase activity polysaccharide biosynthetic process -2.1 (0.02) SPD_0870 phosphoglycerate mutase family protein -2.5 (0.009) Hydrolases SPD_1076 (srtA) sortase -1.5 (0.005) Cellular amino acid biosynthesis SPD_1209 (aroB) 3-dehydroquinate synthase 3-dehydroquinate synthase activity aromatic amino acid family biosynthetic process -1.6...”
E3D976 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Gardnerella vaginalis (strain ATCC 14019 / 317)
HMPREF0424_0394 phosphoglycerate mutase 1 family protein from Gardnerella vaginalis 409-05
28% identity, 71% coverage
SCO6218 phosphatase from Streptomyces coelicolor A3(2)
30% identity, 74% coverage
- Genome-wide identification and characterization of reference genes with different transcript abundances for Streptomyces coelicolor
Li, Scientific reports 2015 - “...SCO0710 [E] ABC-type branched-chain amino acid transport systems, ATPase component 0.02 SCO0301 [G] Gluconolactonase 0.59 SCO6218 [G] Fructose-2,6-bisphosphatase 2.25 SCO3183 [H] 5-formyltetrahydrofolate cyclo-ligase 1.12 SCO4758 [J] SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase 1.16 SCO2742 [K] DNA-directed RNA polymerase specialized sigma subunit, sigma 24homolog 0.62 SCO1519 [L]...”
- “...0.431 SCO6185 0.63 SCO1453 8 SCO1596 0.779 SCO1596 0.53 SCO4758 0.64 SCO0301 9 SCO1519 0.803 SCO6218 0.859 SCO2742 0.72 SCO2543 10 SCO2543 0.838 SCO2543 0.885 SCO1962 0.75 SCO1596 11 SCO0301 0.882 SCO1519 0.918 hrdB 0.86 SCO6218 12 SCO6218 0.926 SCO0301 0.928 SCO1519 0.92 SCO1519 13 SCO2742...”
LEUM_0251 Phosphoglycerate mutase family protein from Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293
26% identity, 86% coverage
- Long-term adaptive evolution of Leuconostoc mesenteroides for enhancement of lactic acid tolerance and production
Ju, Biotechnology for biofuels 2016 - “...Nucleotide transport and metabolism LM12 LEUM_0706 gi|116617818 5-methylthioadenosine/S-adenosylhomocysteine nucleosidase Up Carbohydrate transport and metabolism LM15 LEUM_0251 gi|116617380 phosphoglycerate mutase Up Function unknown LM17 LEUM_1148 gi|504090790 short-chain alcohol dehydrogenase Down Coenzyme transport and metabolism LM21 LEUM_0143 gi|116617295 phosphomethylpyrimidine kinase Up Cell cycle control LM29 LEUM_0346 gi|116617471 chromosome...”
- “...may contribute to increased cell viability in an acid stress environment. Furthermore, upregulated phosphoglycerate mutase (LEUM_0251) probably contributes to smooth ATP production from the carbohydrate metabolism during carbon (glucose) utilization. Generally, LAB under acid stress are known to upregulate the pathway of glucose metabolism (glycolysis) to...”
APA386B_1895 histidine phosphatase family protein from Acetobacter pasteurianus 386B
30% identity, 80% coverage
FAD_1169 histidine phosphatase family protein from Ferroplasma acidiphilum
24% identity, 90% coverage
- Metabolic and evolutionary patterns in the extremely acidophilic archaeon Ferroplasma acidiphilum YT
Golyshina, Scientific reports 2017 - “...glutamate dehydrogenase (FAD_0434); 15, aspartate aminotransferase (FAD_1098); 16, phosphoenolpyruvate synthase (FAD_1233); 17, phosphoglycerate mutase (FAD_0440, FAD_1169, FAD_1350); 18,2-phosphoglycerate kinase (FAD_1810); 19, glyceraldehyde-3-phosphate dehydrogenase (FAD_0549); 20, triosephosphate isomerase (FAD_0107); 21, fructose-2,6-bisphosphatase (FAD_0332); 22,6-phosphofructokinase (FAD_0353); 23, bifunctional phosphoglucose/phosphomannose isomerase (FAD_0562); 24, phosphoglucomutase/phosphomannomutase (FAD_0602); 25, transketolase (FAD_14771476); 26, transaldolase...”
SAOUHSC_00827 hypothetical protein from Staphylococcus aureus subsp. aureus NCTC 8325
31% identity, 84% coverage
- Exploring the targetome of IsrR, an iron-regulated sRNA controlling the synthesis of iron-containing proteins in Staphylococcus aureus
Ganske, Frontiers in microbiology 2024 - “...Coronel-Tellez et al. (2022) . Two proteins were identified as potentially positively regulated by IsrR, SAOUHSC_00827 and SAOUHSC_00304 ( Table 2 ). The predicted and experimentally demonstrated (specifically for fdhA and SAOUHSC_02760) IsrR binding sites on the 21 target mRNAs are summarized in Supplementary Table H...”
- “...by IsrR SAOUHSC_00304 exp: 4.5 (8.2e08) stat: 5.6 (5.2e10) exp: 18.0 (3.4e03) stat: 3.2 (1.8e06) SAOUHSC_00827 exp: 1.4 (8.8e01) stat: 2.1 (5.0e03) exp: 2.4 (1.0e+00) stat: 1.6 (4.9e02) The dagger indicates a non-significant difference in protein level in the respective growth phase. IsrR-mediated downregulation of TCA...”
RNHPH_MYCTU / P9WLH5 Bifunctional protein Rv2228c; EC 3.1.26.4; EC 3.1.3.73 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see paper)
P9WLH5 ribonuclease H (EC 3.1.26.4); adenosylcobalamin/alpha-ribazole phosphatase (EC 3.1.3.73) from Mycobacterium tuberculosis (see paper)
Rv2228c hypothetical protein from Mycobacterium tuberculosis H37Rv
NP_216744 multifunctional RNASE H/alpha-ribazole phosphatase/acid phosphatase from Mycobacterium tuberculosis H37Rv
30% identity, 51% coverage
- function: Endonuclease that displays both RNase H activity with a hybrid RNA/DNA substrate as well as double-stranded RNase activity. As the only authenticated RNase HI in M.tuberculosis, probably plays an important role in the physiology of this organism, being likely involved in bacterial replication.
function: Catalyzes the hydrolysis of the phospho group from alpha- ribazole 5'-phosphate to form alpha-ribazole (PubMed:20363939). May also catalyze the conversion of adenosylcobalamin 5'-phosphate to adenosylcobalamin (vitamin B12) (By similarity). Has a possible role in B12 recycling, but the primary role of the C-terminal domain of this phosphatase enzyme could be phosphate generation to help bacterial survival within the macrophage, which is a phosphate-deprived environment (PubMed:20363939).
catalytic activity: Endonucleolytic cleavage to 5'-phosphomonoester.
catalytic activity: adenosylcob(III)alamin 5'-phosphate + H2O = adenosylcob(III)alamin + phosphate (RHEA:30367)
catalytic activity: alpha-ribazole 5'-phosphate + H2O = alpha-ribazole + phosphate (RHEA:24456)
cofactor: Mg(2+) (Binds 2 divalent metal cations per subunit, which may be Mg(2+) or Mn(2+), and which are essential for catalysis.)
subunit: The N-terminal domain alone is monomeric in solution but associates in the crystal to form a dimer. - Identification of gene targets that potentiate the action of rifampicin on Mycobacterium bovis BCG
Chand, Microbiology (Reading, England) 2024 - “...Malonyl CoA-acyl carrier protein transacylase 1.53 <0.001 BCG_2151c Rv2134c Hypothetical protein 1.42 <0.001 BCG_2246c rnhC Rv2228c Bifunctional RNase H/acid phosphatase 1.41 <0.001 BCG_1676 uvrA Rv1638 Excinuclease ABC subunit A, DNA repair 1.39 <0.001 BCG_0201c mce1R Rv0165c Mce1R transcriptional regulator, transport 1.37 <0.001 BCG_3684c Rv3626c Hypothetical protein...”
- “...and its activity is essential for optimal growth. Previous studies have demonstrated that RnhC (BCG_2246c; Rv2228c) is the sole RNase H1 in M. tuberculosis and it has been assumed that mutation of the gene is completely non-viable precluding study of null mutants. Here however, transposon mutants...”
- The C-Terminal Acid Phosphatase Module of the RNase HI Enzyme RnhC Controls Rifampin Sensitivity and Light-Dependent Colony Pigmentation of Mycobacterium smegmatis
Dupuy, Journal of bacteriology 2023 (secret) - RNase HI Depletion Strongly Potentiates Cell Killing by Rifampicin in Mycobacteria
Al-Zubaidi, Antimicrobial agents and chemotherapy 2022 (secret) - Small RNAs Asserting Big Roles in Mycobacteria
Coskun, Non-coding RNA 2021 - “...DNA helicase activity. rv2179c Rnt Mtb, M. smegmatis, M. leprae, M. marinum Conserved hypothetical protein. rv2228c Rv2228c N/A Multifunctional protein. Has RNASE H, alpha-ribazole phosphatase, and acid phosphatase activities. rv2407 Rnz Mtb, M. smegmatis, M. leprae, M. marinum, M. bovis Endonucleolytic cleavage of RNA, removing extra...”
- Cobalamin is present in cells of non-tuberculous mycobacteria, but not in Mycobacterium tuberculosis
Minias, Scientific reports 2021 - “...name Function Aerobic pathway Precorrin-3B methylase, predicted replacement for cobF Rv2067c Bifunctional protein Rnase H/cobC Rv2228c cobF Precorrin-6A synthase MCNS_43990 AWC07_18155 H0P51_RS23435 EET03_RS22025 cobA Probable cob(I)alamin adenosyltransferase CobO Rv2849c MCNS_15910 XA26_25280 AWC07_16325 H0P51_RS10520 EET03_RS08695 cobB Cobyrinic acid A,C-diamide synthase Rv2848c MAB_3155c MCNS_15900 AWC07_16320 cobC L-threonine 3-O-phosphate...”
- “...predicted replacement for cobF Rv2067c 104.4866667 4.4877339 32.90666667 33.05350242 283.67 60.07031935 Bifunctional protein Rnase H/cobC Rv2228c 91.63333333 0.241430919 36.25333333 20.75320752 0 0 cobA Probable cob(I)alamin adenosyltransferase CobO Rv2849c 77.32666667 3.099519676 74.58333333 10.26311302 507.9333333 458.6724143 cobB Cobyrinic acid A,C-diamide synthase Rv2848c 51.04333333 0.651783877 60.56666667 31.54769652 0 0...”
- Genome-wide gene expression tuning reveals diverse vulnerabilities of M. tuberculosis
Bosch, Cell 2021 - “...differentially essential ( Figures 6 A and 6B; Data S2 ). We confirmed rv2017 and rv2228c as essential in H37Rv and dispensable in HN878 ( Figure6 B; FigureS6 G) and validated that this differential essentiality is not due to lack of CRISPRi targeting efficacy in either...”
- “...levels by qRT-PCR (n= 6 technical replicates; mean SEM) following CRISPRi silencing of rv2017 and rv2228c in H37Rv and HN878. Gene expression levels were normalized to the non-targeting control for each strain. (I) Quantification of target gene mRNA levels by qRT-PCR (technical triplicates of biological duplicates)...”
- Functional Disassociation Between the Protein Domains of MSMEG_4305 of Mycolicibacterium smegmatis (Mycobacterium smegmatis) in vivo
Czubat, Frontiers in microbiology 2020 - “...4.5, respectively. The presence of the CobC domain influenced RNase activity in vitro in homolog Rv2228c. Here, we analyzed the role of MSMEG_4305 in vitamin B12 synthesis and the functional association between both domains in vivo in M. smegmatis . We used knock-out mutant of M....”
- “...structural studies with homologs SCO2299 from Streptomyces coelicolor ( Ohtani et al., 2005 ) and Rv2228c from M. tuberculosis ( Watkins and Baker, 2010 ) showed that the RNase H domain shares the archetypal RNase H fold conserved across the entire family of RNases H. The...”
- Metabolic Changes of Mycobacterium tuberculosis during the Anti-Tuberculosis Therapy
Bespyatykh, Pathogens (Basel, Switzerland) 2020 - “...of the ptpA was higher in the 2093 strain. Concordantly, representation of the bifunctional protein Rv2228c, which is associated with PtpA, was higher. At the same time, the level of the Rv2228c transcript was higher in the 3955 strain, compared to the RUS_B0. It is known...”
- “...[ 30 ] and have orthologs among other pathogenic pro- and eukaryotes [ 31 ]. Rv2228c is presumably involved in bacterial replication, as it is only authenticated RNase HI in M. tuberculosis . 3. Materials and Methods 3.1. Mycobacterium Tuberculosis Strains and Growth Conditions Three strains...”
- More
- Structural and functional characterization of an RNase HI domain from the bifunctional protein Rv2228c from Mycobacterium tuberculosis.
Watkins, Journal of bacteriology 2010 - GeneRIF: The double-stranded-RNase activity of Rv2228c/N contrasts with classical RNases H and is attributed to the absence in Rv2228c/N of a key phosphate binding pocket.
HSISS4_00092 histidine phosphatase family protein from Streptococcus salivarius
27% identity, 85% coverage
GPM1 / P00950 phosphoglycerate mutase (EC 5.4.2.11) from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (see paper)
PMG1_YEAST / P00950 Phosphoglycerate mutase 1; PGAM 1; BPG-dependent PGAM 1; MPGM 1; Phosphoglyceromutase 1; EC 5.4.2.11 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 12 papers)
NP_012770 phosphoglycerate mutase GPM1 from Saccharomyces cerevisiae S288C
YKL152C Gpm1p from Saccharomyces cerevisiae
28% identity, 66% coverage
- function: Interconversion of 3- and 2-phosphoglycerate with 2,3- bisphosphoglycerate as the primer of the reaction. Can also catalyze the reaction of EC 5.4.2.4 (synthase), but with a reduced activity.
catalytic activity: (2R)-2-phosphoglycerate = (2R)-3-phosphoglycerate (RHEA:15901)
subunit: Homotetramer: dimer of dimers. - Schistosoma mansoni phosphoglycerate mutase: a glycolytic ectoenzyme with thrombolytic potential
Pirovich, Parasite (Paris, France) 2022 - “...Q8IIG6 ), Onchocerca volvulus ( I6LDA6 ), Biomphalaria glabrata ( XP_013071129.1 ), Saccharomyces cerevisiae ( P00950 ), Trypanosoma brucei ( Q38AH1 ), and Nicotiana tabacum ( P35494 ). These 19 sequences were imported to BioEdit Sequence Alignment Editor and subjected to ClustalW Multiple alignment to generate...”
- “...Dm ( Q9VAN7 ), Homo sapiens Hs PGAM1 ( P18669 ), Saccharomyces cerevisiae Sc ( P00950 ), Escherichia coli Ec 2,3-bisphosphoglycerate-dependent PGM ( P62707 ). (B) Phylogenetic tree of phosphoglycerate mutases. A phylogenetic tree of phosphoglycerate mutases constructed by Molecular Evolutionary Genetics Analysis (MEGA) Version 7.0.21...”
- Vegemite Beer: yeast extract spreads as nutrient supplements to promote fermentation
Kerr, PeerJ 2016 (no snippet) - Orphan proteins of unknown function in the mitochondrial intermembrane space proteome: New pathways and metabolic cross-talk
Nuebel, Biochimica et biophysica acta 2016 - “...Yes [25] P14832 Cytoplasmic peptidyl-prolyl cis-trans isomerase CPR1 (YDR155C) PPIF 17.4 Cytosol [28] Yes [25] P00950 Tetrameric phosphoglycerate mutase GPM1 (YKL152C) PGAM2 27.6 Cytosol, extracellular [29] Yes [25] P40037 Homologous Mmf1p Factor , member of the p14.5 protein family HMF1 (YER057C) 13.9 Cytosol [30] Yes [25]...”
- Relationship between Metabolic Fluxes and Sequence-Derived Properties of Enzymes
Zikmanis, International scholarly research notices 2014 (no snippet) - Ebselen induces reactive oxygen species (ROS)-mediated cytotoxicity in Saccharomyces cerevisiae with inhibition of glutamate dehydrogenase being a target
Azad, FEBS open bio 2014 - “...cerevisiae ) Amino acid Accession MW [kDa] pI Score 1 Phosphoglycerate mutase 1 (PGM1) 247 P00950 27.6 8.84 2920.62 2 Glyceraldehyde-3-phosphate dehydrogenase 3 (TDH3) 332 P00359 35.7 6.96 932.30 3 60S ribosomal protein L12-A (RPL12A) 165 P0CX53 17.8 9.41 4979.88 4 10 kDa heat shock protein,...”
- Oxidative stress activates SIRT2 to deacetylate and stimulate phosphoglycerate mutase
Xu, Cancer research 2014 - “..., AAF56866.2), thale cress ( Arabidopsis thaliana , O04499), budding yeast ( Saccharomyces cerevisiae , P00950), fission yeast ( Schizosaccharomyces pombe , P36623), and bacterial ( E. coli , WP_001333397.1). Bold, lysine 100. B, molecular modeling of acetylation of K100 in PGAM. The 3-PG binding site...”
- A model of yeast glycolysis based on a consistent kinetic characterisation of all its enzymes
Smallbone, FEBS letters 2013 - “...0.9 76700 ENO Eno2p P00925 5950000 0.7 2610 FBA Fba1p P14540 4030000 1020000 GPM Gpm1p P00950 2200000 0.6 172000 HXK Glk1p P17709 136000 5.5 21100 HXK Hxk1p P04806 50500 1.1 40800 HXK Hxk2p P04807 185000 0.6 114000 PDC Pdc1p P06169 3220000 0.8 8970 PDC Pdc5p P16467...”
- Structure and activity of the metal-independent fructose-1,6-bisphosphatase YK23 from Saccharomyces cerevisiae
Kuznetsova, The Journal of biological chemistry 2010 - “...the biochemically characterized phosphoglyceromutase GPM1 (P00950) and fructose-2,6-bisphosphatase FBP26 (P32604), whereas other proteins are annotated as...”
- More
- The Role of Transcription Factors at Antisense-Expressing Gene Pairs in Yeast.
Mostovoy, Genome biology and evolution 2016 - GeneRIF: at this locus, the intergenic region serves as a focal point of regulatory input, driving antisense expression and mediating the coordinated regulation of YKL151C and GPM1 Together, our findings implicate transcription factors in the joint control of neighboring genes specialized to opposing conditions and the antisense transcripts expressed between them.
- Phosphoglycerate mutase knock-out mutant Saccharomyces cerevisiae: physiological investigation and transcriptome analysis.
Papini, Biotechnology journal 2010 (PubMed)- GeneRIF: Findings strongly suggest a severely impaired growth ability of the GPM1 knock-out mutant, which presents increased transcript levels of genes involved in the pentose phosphate pathway and in the glyoxylate shunt.
- Yeast Rim11 kinase responds to glutathione-induced stress by regulating the transcription of phospholipid biosynthetic genes
Yasukawa, Molecular biology of the cell 2024 - “...(glucose fermentation) respiration; regulated via allosteric activation by fructose bisphosphate 0.48 0.65 0.70 0.04 GPM1 YKL152C Tetrameric phosphoglycerate mutase; mediates the conversion of 3-phosphoglycerate to 2-phosphoglycerate during glycolysis and the reverse reaction during gluconeogenesis 0.61 0.65 1.89 1.23 TPI1 YDR050C Triose phosphate isomerase, abundant glycolytic enzyme;...”
- Changes in a Protein Profile Can Account for the Altered Phenotype of the Yeast Saccharomyces cerevisiae Mutant Lacking the Copper-Zinc Superoxide Dismutase
Kwolek-Mirek, Metabolites 2023 - “...10 1.84 13. YGR192C TDH3 Glyceraldehyde-3-phosphate dehydrogenase 35.84 35.74 6.96 1978 39 21 7.35 14. YKL152C GPM1 Tetrameric phosphoglycerate mutase 27.59 27.61 9.34 706 13 10 2.92 15. YML028W TSA1 Thioredoxin peroxidase 21.69 21.58 4.77 957 20 9 3.88 16. YDR454C GUK1 Guanylate kinase 20.68 20.64...”
- Metabolic flux sampling predicts strain-dependent differences related to aroma production among commercial wine yeasts
Scott, Microbial cell factories 2021 - “...PYK2 YAL038W YOR347C Pyruvate kinase r_0962 Pyruvate metabolism, Glycolysis, Purine metabolism, Carbon metabolism, GPM1 YOR283W YKL152C Phosphoglycerate mutase r_0893 Glycine, serine and threonine metabolism, Glycolysis, Carbon metabolism PDC6 PDC1 PDC5 YGR087C YLR044C YLR134W Pyruvate decarboxylase r_0959 Glycolysis, Gluconeogenesis, Biosynthesis of secondary metabolites (Ehrlich pathway) ADH2 YMR303C...”
- Yeast metabolic innovations emerged via expanded metabolic network and gene positive selection
Lu, Molecular systems biology 2021 - “...all five functionally important sites (H9, R60, E87, K98 and H182) of phosphoglycerate mutase 1 (YKL152C) are invariable across all yeast species. Also, we could find signs of divergent evolution at some important sites; for example, for the putative 6phosphofructo2kinase (YLR345W) in 337 fungal species, the...”
- Orphan proteins of unknown function in the mitochondrial intermembrane space proteome: New pathways and metabolic cross-talk
Nuebel, Biochimica et biophysica acta 2016 - “...cis-trans isomerase CPR1 (YDR155C) PPIF 17.4 Cytosol [28] Yes [25] P00950 Tetrameric phosphoglycerate mutase GPM1 (YKL152C) PGAM2 27.6 Cytosol, extracellular [29] Yes [25] P40037 Homologous Mmf1p Factor , member of the p14.5 protein family HMF1 (YER057C) 13.9 Cytosol [30] Yes [25] P40581 Peroxiredoxin HYR1 HYR1 (YIR037W)...”
- Transcriptome-wide mapping of pseudouridines: pseudouridine synthases modify specific mRNAs in S. cerevisiae
Lovejoy, PloS one 2014 - “...1231 CDS CDC19 chr16:702042 4.004 4.914 4.619 YPR080W 1450 3-UTR TEF1 chr11:164375 2.988 5.089 5.165 YKL152C 11 CDS GPM1 chr4:556458 3.170 5.004 4.742 YDR050C 12 CDS TPI1 chr13:511403 3.335 5.047 4.463 YMR122W-A 89 CDS YMR122W-A chr2:89115 0.262 5.487 5.869 YBL072C 8 CDS RPS8A List of the...”
- High-temporal-resolution view of transcription and chromatin states across distinct metabolic states in budding yeast
Kuang, Nature structural & molecular biology 2014 - “...Red arrows label the direction of interesting genes: from left to right are YKL156W (RPS27A), YKL152C (GPM1) , and YKL148C (SDH1) . (c-e) Spatial distributions of the chromatin modifiers and the corresponding modifications. ChIP signals were averaged from 1000 to +1000 bp of TSSs (transcription start...”
- Adjustment of trehalose metabolism in wine Saccharomyces cerevisiae strains to modify ethanol yields
Rossouw, Applied and environmental microbiology 2013 - “...PDC2 TOA2 UGP1 YBR196c YKL060c YDR050c YCR012w YKL152c YGR254w YAL038w YDR081c YKL058w YKL035w Y23336 Y24909 Y23986 Y23492 Y25002 Y27286 Y20368 Y24016...”
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BRADO4917 putative Alpha-ribazole phosphatase (anaerobic pathway of cobalamin biosynthesis, cobC) from Bradyrhizobium sp. ORS278
28% identity, 84% coverage
MSMEG_0935 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Mycobacterium smegmatis str. MC2 155
27% identity, 70% coverage
- Monitoring global protein thiol-oxidation and protein S-mycothiolation in Mycobacterium smegmatis under hypochlorite stress
Hillion, Scientific reports 2017 - “...23,4 MSMEG_0839 lon1 ATP-dependent protease 72 (MSH) B 25,7 11,1 38,5 Glycolysis/Gluconeogenesis and TCA cycle MSMEG_0935 gpmA 2,3-bisphosphoglycerate-mutase 149 E 20,0 7,3 27,9 9,9 13,6 22,0 MSMEG_0970 MSMEG_0970 Phosphoglycerate mutase 146 B 10,6 13,4 21,5 MSMEG_1547 pduC Glycerol dehydratase large SU 156 B 12,2 20,6 31,0...”
- High throughput screen identifies small molecule inhibitors specific for Mycobacterium tuberculosis phosphoserine phosphatase
Arora, The Journal of biological chemistry 2014 - “...Rv0489 BCG_0530 MMAR_0814, MMAR_3747 ML2441c MUL_3691 MAF_04930 MSMEG_0935, MSMEI_0912 M. tuberculosis M. bovis strain BCG M. marinum M. leprae M. ulcerans...”
PGN_1973 probable phosphoglycerate mutase from Porphyromonas gingivalis ATCC 33277
29% identity, 65% coverage
Rv3390 PROBABLE CONSERVED LIPOPROTEIN LPQD from Mycobacterium tuberculosis H37Rv
26% identity, 62% coverage
- Mycobacterium tuberculosis carrying the rifampicin drug-resistance-conferring rpoB mutation H445Y is associated with suppressed immunity through type I interferons
Bobba, mBio 2023 - “...Pks12 3690948 C C T 3804941 G G A 26/236 Missense_variant c.77G > A p.Cys26Tyr Rv3390 lpqD Probable conserved lipoprotein LpqD 3846791 A G A 3846851 A G A 3846852 G C G 3846853 C T C 3846857 A G A 3846860 G T G 3846866...”
- Key role for the alternative sigma factor, SigH, in the intracellular life of Mycobacterium avium subsp. paratuberculosis during macrophage stress
Ghosh, Infection and immunity 2013 - “...MAP3481 MAP2936c Rv0402c Rv0402c Rv2198c Rv0677c Rv0451c Rv3390 Rv2864c 68.15 53.19 98.88 50.33 73.52 77.02 89.72 Cell processes/transport MAPK_3150 efpA_2...”
- Differential gene expression between Mycobacterium bovis and Mycobacterium tuberculosis
Rehren, Tuberculosis (Edinburgh, Scotland) 2007 - “...0.0234 Probable transposase for insertion sequence IS6110 Rv3390 lpqD 3.1 0.0121 Probable conserved lipoprotein Rv3407 15.9 0.00818 Conserved hypothetical...”
- Evolution and expansion of the Mycobacterium tuberculosis PE and PPE multigene families and their association with the duplication of the ESAT-6 (esx) gene cluster regions
Gey, BMC evolutionary biology 2006 - “...in the TIGR annotation, but they are in fact not. NT03MA3679 is an orthologue of Rv3390 (lpqD), while NT03MA4076 is a gene which is absent in M. tuberculosis (situated between Rv0358 and Rv0357c). Although it is slightly homologous to the PE_PGRS Rv0754, this homology is only...”
Alvin_2702 Phosphoglycerate mutase from Allochromatium vinosum DSM 180
26% identity, 78% coverage
SUB0839 phosphoglycerate mutase family protein from Streptococcus uberis 0140J
29% identity, 92% coverage
- PIMMS (Pragmatic Insertional Mutation Mapping System) Laboratory Methodology a Readily Accessible Tool for Identification of Essential Genes in Streptococcus
Blanchard, Frontiers in microbiology 2016 - “...mutase and 2,3-di-phosphoglycerate-dependant phosphoglycerate mutase. Phosphoglycerate mutase has four orthologs in S. uberis (sub0594; sub0838, sub0839, and sub1509) all of which showed insertions throughout their sequences at frequencies ranging from 38.7 to 72.6 unique insertions/kb. Whereas, 2,3-di-phosphoglycerate-dependant phosphoglycerate mutase has only a single ortholog (sub1263; gpmA...”
- “...redundancy existed, for instance in the case of phosphoglycerate mutase, the orthologous CDS (sub0594; sub0838, sub0839, and sub1509) were all mutated; suggesting that none had functional dominance. The interconversion of glycerate-2P to glycerate-3P may also be effected by a distinct activity, 2,3-di-phosphoglycerate-dependant phosphoglycerate mutase, for which...”
Q6CFX7 Phosphoglycerate mutase from Yarrowia lipolytica (strain CLIB 122 / E 150)
30% identity, 68% coverage
- Proteomic Study of Response to Copper, Cadmium, and Chrome Ion Stress in Yarrowia lipolytica Strains Isolated from Andean Mine Tailings in Peru
Sánchez-Rojas, Microorganisms 2022 - “...protein domain superfamily, AH/BAR, involved in the maturation of the vesicular Golgi complex; phosphoglycerate mutase (Q6CFX7), which functions as an isomerase via glycolysis; thiol-specific peroxidase (Q6CEJ7), which catalyzes the reduction of hydrogen peroxide and organic compounds; thioredoxin reductase (Q6C7L4), which participates in the formation of redox-active...”
- “...+2 . Proteins involved in carbohydrate metabolism, such as malate dehydrogenase (Q6C8V3) and phosphoglycerate mutase (Q6CFX7), were also identified in the fungus R. mucilaginosa AN5 upon treatment with Cd +2 , Cu +2 , and Cr +6 [ 64 ]. Interestingly, enzymes related to oxidative stress,...”
LOC100691625 phosphoglycerate mutase 2 from Oreochromis niloticus
27% identity, 71% coverage
- Transcriptome Sequencing, De Novo Assembly and Differential Gene Expression Analysis of the Early Development of Acipenser baeri
Song, PloS one 2015 - “..., thbs1b , alb2 , LOC100696099 , LOC100547249 , LOC100699459 , col4a5 , mmp and LOC100691625 . Finally, the huge number of genes specifically over-expressed at T17 were specialized in translation, oxygen transport, gas transport, electron transport chain and various respiratory processes. The most enriched molecular...”
Synpcc7942_1516 phosphoglycerate mutase from Synechococcus elongatus PCC 7942
24% identity, 86% coverage
AL01_07655 histidine phosphatase family protein from Bombella intestini
27% identity, 75% coverage
- Whole-Genome Sequence Analysis of Bombella intestini LMG 28161T, a Novel Acetic Acid Bacterium Isolated from the Crop of a Red-Tailed Bumble Bee, Bombus lapidarius
Li, PloS one 2016 - “...fructose-bisphosphate aldolase (AL01_06890); 6, glyceraldehyde-3-phosphate dehydrogenase (AL01_03750); 7, phosphoglycerate kinase (AL01_03755); 8, phosphoglycerate mutase (AL01_07435, AL01_07655); 9, enolase (AL01_00860); 10, pyruvate kinase (AL01_00625); 11, malate dehydrogenase (AL01_05845); 12, pyruvate dehydrogenase (AL01_00915, AL01_00920, AL01_03860); 13, pyruvate dehydrogenase E2 (AL01_00925); 14, dihydrolipoamide dehydrogenase (AL01_00930); 15, lactate dehydrogenase (AL01_06935);...”
PMGY_SCHPO / P36623 Phosphoglycerate mutase; PGAM; BPG-dependent PGAM; MPGM; Phosphoglyceromutase; EC 5.4.2.11 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
gpm1 / RF|NP_594889.1 monomeric 2,3-bisphosphoglycerate (BPG)-dependent phosphoglycerate mutase (PGAM), Gpm1; EC 5.4.2.1 from Schizosaccharomyces pombe (see paper)
27% identity, 76% coverage
- catalytic activity: (2R)-2-phosphoglycerate = (2R)-3-phosphoglycerate (RHEA:15901)
subunit: Monomer. - CharProtDB Source (per GeneDB): GeneDB_Spombe
- Enzymatic attributes of an l-isoaspartyl methyltransferase from Candida utilis and its role in cell survival
Banerjee, Biochemistry and biophysics reports 2015 - “...10. Enolase A Q12560 72 Glycolysis 11. Phosphoglycerate kinase P00560 68 Glycolysis 12. Phosphoglycerate mutase P36623 70 Glycolysis 13. Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit wbp1 O59866 74 Glycosylation 14. Guanine nucleotide-binding protein subunit beta-like protein P83774 70 G-protein coupled receptor signaling pathway 15. Phosphatidylinositol transfer protein PDR17 P53844...”
- Oxidative stress activates SIRT2 to deacetylate and stimulate phosphoglycerate mutase
Xu, Cancer research 2014 - “..., O04499), budding yeast ( Saccharomyces cerevisiae , P00950), fission yeast ( Schizosaccharomyces pombe , P36623), and bacterial ( E. coli , WP_001333397.1). Bold, lysine 100. B, molecular modeling of acetylation of K100 in PGAM. The 3-PG binding site of PGAM (from Burkholderia pseudomallei , which...”
PECL_1361 histidine phosphatase family protein from Pediococcus claussenii ATCC BAA-344
27% identity, 86% coverage
blr0686 phosphoglycerate mutase from Bradyrhizobium japonicum USDA 110
28% identity, 80% coverage
CA_C2741 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Clostridium acetobutylicum ATCC 824
29% identity, 79% coverage
- Fermentation of oxidized hexose derivatives by Clostridium acetobutylicum
Servinsky, Microbial cell factories 2014 - “...triosephosphate isomerase, CA_C0711; 6) glyceradehyde-3-P dehydrogenase, CA_C0709; 7) phosphoglycerate kinase, CA_C0710; 8) phosphoglycerate mutase, CA_C0712, CA_C2741, CA_C3021; 9) enolase, CA_C0713; 10) pyruvate kinase, CA_C0518, CA_C1036; 11) pyruvate ferredoxin oxidoreductase, CA_C2229, CA_C2499; 12) hydrogenase, CA_C0028; 13) NAD + /ferredoxin oxidoreductase, CA_C?; 14) thiolase, CA_C2873, CA_P0078; 15) phosphotransacetylase,...”
MUL_5010 phosphoglycerate mutase from Mycobacterium ulcerans Agy99
26% identity, 76% coverage
cg0482 phosphoglyceromutase from Corynebacterium glutamicum ATCC 13032
NCgl0390 phosphoglyceromutase from Corynebacterium glutamicum ATCC 13032
25% identity, 76% coverage
- Identifying the Growth Modulon of Corynebacterium glutamicum
Haas, Frontiers in microbiology 2019 - “...were found to be members of the growth modulon, with the single exception of gpmA (cg0482). By contrast, the PPP comprised only of a single gene, namely rpi (cg2658), as a component of the growth modulon. In the TCA cycle only three genes, aceA (cg2658), sucCD...”
- “...ppgk (cg2091) and cg2932 , which encode glucokinases were also in cluster 1. Interestingly, gpmA (cg0482) and pgm (cg2800) were the only genes encoding enyzmes of the glycolysis that did not amplify expression with increasing growth rates. No regulatory interactions were identified for these two genes....”
- Understanding the high L-valine production in Corynebacterium glutamicum VWB-1 using transcriptomics and proteomics
Zhang, Scientific reports 2018 - “...2845.32 NC 66 NCgl0982 cg1164 ispH Penicillin tolerance protein 5.02/35602.44 1249.36 2364.57 NC 69 NCgl0390 cg0482 gpmA Phosphoglyceromutase 4.91/27245.55 2173.02 3689.50 NC 72 NCgl1255 cg1479 glgP1 Glycogen phosphorylase 4.91/90494.91 751.29 3238.52 NC 73 NCgl2068 cg2359 ileS Isoleucine-trna ligase-like protein 4.77/117403.9 4098.11 1747.63 15.6 74 NCgl2594 cg2974...”
- Phosphorylation of a novel cytoskeletal protein (RsmP) regulates rod-shaped morphology in Corynebacterium glutamicum
Fiuza, The Journal of biological chemistry 2010 - “...fructosebiphosphate aldolase (Cg3068), phosphoglyceromutase (Cg0482), thioredoxin domain-containing protein (Cg0792), phospho-3sulfolactate synthase (Cg2797),...”
- “...aldolase (Cg3068); bar 7, phosphoglyceromutase (Cg0482); bar 8, thioredoxin domain-containing protein (Cg0792); bar 9, phospho-3-sulfolactate synthase...”
- Target genes and DNA-binding sites of the response regulator PhoR from Corynebacterium glutamicum
Schaaf, Journal of bacteriology 2007 - “...together with those of acn (aconitase) and gpmA (cg0482; phosphoglycerate mutase), which served as negative controls, were incubated with PhoR up to a 300-fold...”
- Adaptation of Corynebacterium glutamicum to ammonium limitation: a global analysis using transcriptome and proteome techniques
Silberbach, Applied and environmental microbiology 2005 - “...cg1290 cg2450 cg1725 cg2166 cg2323 cg2166 cg1629 cg0583 cg0482 cg2797 cg2958 cg0299 cg2429 cg1267 cg0655 cg1790 cg1790 cg0655 cg0948 cg1072 cg2782 cg1774 cg1290...”
- “...cg1451 cg2361 cg0873 cg1814 cg1145 cg2453 cg3096 cg0482 cg2797 cg1693 cg0755 cg0422 cg2192 cg0984 NCgl2133 NCgl1071 NCgl2133 NCgl1071 NCgl2826 NCgl2471 NCgl1502...”
- Leaderless Bicistronic Design for Precise and Reliable Control of Gene Expression in Corynebacterium Glutamicum
Liu, ACS synthetic biology 2023 - “...NCgl2673 atgcctatcgcaactcccgaggtctataacgagatgctcgatcgtgctaaggaaggcggatt HP-4 NCgl1041 tpx atggggtccatggctaaaacacattttcaaggcaacgaaactgctacctccggcgaactgcc HP-5 NCgl1316 NCgl1316 atgagcgagaattacagcaagattgtcgttggcactgatggatctaagtcgtcccttctagc HP-6 NCgl2501 NCgl2501 atggcccgtgtagttgtcaatgtcatgcctaaggctgagattctggatccccaggggcaggc HP-7 NCgl0390 gpmA atgactaacggaaaattgattcttcttcgtcacggtcagagcgaatggaacgcatccaacca HP-8 NCgl0935 eno atggctgaaatcatgcacgtattcgctcgcgaaattctcgactcccgcggtaacccaaccgt HP-9 NCgl2328 clpP atgagcgatattcgtatggcagcccagggtgggcctggtttcggaaatgacgtctttgatcg HP-10 NCgl0533 adk atgcgactcgtactcctcggacctcccggtgctggtaagggcacccaggctgcaattctctc HP-11 NCgl2473 NCgl2473 atgattggagcaccacccgacatgggcaatgtgtacaacaacatcaccgaaaccatcggcca HP-12 NCgl2826 NCgl2826 atggctgtatacgaactcccagaactcgactacgcatacgacgctctcgagccacacatcgc a Red base represents mutation. As shown in...”
- Understanding the high L-valine production in Corynebacterium glutamicum VWB-1 using transcriptomics and proteomics
Zhang, Scientific reports 2018 - “...1268.78 2845.32 NC 66 NCgl0982 cg1164 ispH Penicillin tolerance protein 5.02/35602.44 1249.36 2364.57 NC 69 NCgl0390 cg0482 gpmA Phosphoglyceromutase 4.91/27245.55 2173.02 3689.50 NC 72 NCgl1255 cg1479 glgP1 Glycogen phosphorylase 4.91/90494.91 751.29 3238.52 NC 73 NCgl2068 cg2359 ileS Isoleucine-trna ligase-like protein 4.77/117403.9 4098.11 1747.63 15.6 74 NCgl2594...”
- Altered acetylation and succinylation profiles in Corynebacterium glutamicum in response to conditions inducing glutamate overproduction
Mizuno, MicrobiologyOpen 2016 - “...(NCgl1524); Gap, glyceraldehyde3phosphate dehydrogenase (NCgl1526); GapX, glyceraldehyde3phosphate dehydrogenase (NCgl0900); Pgk, phosphoglycerate kinase (NCgl1525); GpmA, phosphoglyceromutase (NCgl0390); Eno, enolase (NCgl0935); Pyk, pyruvate kinase (NCgl2008); Zwf, glucose6phosphate 1dehydrogenase (NCgl1514); DevB, 6phosphogluconolactonase (NCgl1516); Gnd, 6phosphogluconate dehydrogenase (NCgl1396); Rpi, ribose5phosphate isomerase B (NCgl2337); Tkt, transketolase (NCgl1512); Tal, transaldolase (NCgl1513); AceE,...”
- Adaptation of Corynebacterium glutamicum to ammonium limitation: a global analysis using transcriptome and proteome techniques
Silberbach, Applied and environmental microbiology 2005 - “...NCgl1471 NCgl1900 NCgl2037 NCgl1900 NCgl1384 NCgl0478 NCgl0390 NCgl2451 NCgl2582 NCgl0242 NCgl2133 NCgl1071 NCgl0540 NCgl1525 NCgl1525 NCgl0540 NCgl0794...”
- “...NCgl1235 NCgl2070 NCgl0730 NCgl1548 NCgl0967 NCgl2153 NCgl2698 NCgl0390 NCgl2451 NCgl1442 NCgl0625 NCgl0345 NCgl1926 NCgl0827 cg1203 cg1451 cg2361 cg0873 cg1814...”
R4GIZ6 Fructose-2,6-bisphosphatase TIGAR from Gallus gallus
30% identity, 47% coverage
- Characterization of the Role of Extracellular Vesicles Released from Chicken Tracheal Cells in the Antiviral Responses against Avian Influenza Virus
O'Dowd, Membranes 2021 - “...(AIV group), TICRR (E1BU88), WISP1 (A0A1L1RKD5), COL27A1 (F1NHH4), DENND4A (A0A1D5PE26), FYB (E1C908), GRIN2C (R4GFN5), TIGAR (R4GIZ6), and ZYX (A0A3Q2UIH4) (LPS group), and DENND4C (F1NQ24), STAG1 (A0A1D5NY78), EPHA5 (A0A1D5PES4), and AMHR2/Gga.10225 (E1BQF4) (polyI:C group).The proteins associated to immune system process were EOMES (R4GH67) (common to all three...”
- “...protein 0.22 2.17 7.11 10 6 E1BQG1 Uncharacterized protein TNRC6B 0.24 2.07 3.35 10 3 R4GIZ6 TIGAR C1H12orf5; TIGAR 0.24 2.06 1.72 10 4 H9KYN7 Peptidase S1 domain-containing protein LOC431235; CTRB2; LOC100859877; CTRB1 0.25 2.02 6.02 10 4 A0A1D5PPH7 UnbV_ASPIC domain-containing protein CRTAC1 0.27 1.89 2.97...”
A5VI87 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Limosilactobacillus reuteri (strain DSM 20016)
28% identity, 75% coverage
1qhfA / P00950 Yeast phosphoglycerate mutase-3pg complex structure to 1.7 a (see paper)
28% identity, 67% coverage
- Ligand: 3-phosphoglyceric acid (1qhfA)
DR_0602 phosphoglycerate mutase-related protein from Deinococcus radiodurans R1
A2G07_RS10465 histidine phosphatase family protein from Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539
28% identity, 78% coverage
AL01_07435 histidine phosphatase family protein from Bombella intestini
28% identity, 85% coverage
- Whole-Genome Sequence Analysis of Bombella intestini LMG 28161T, a Novel Acetic Acid Bacterium Isolated from the Crop of a Red-Tailed Bumble Bee, Bombus lapidarius
Li, PloS one 2016 - “...5, fructose-bisphosphate aldolase (AL01_06890); 6, glyceraldehyde-3-phosphate dehydrogenase (AL01_03750); 7, phosphoglycerate kinase (AL01_03755); 8, phosphoglycerate mutase (AL01_07435, AL01_07655); 9, enolase (AL01_00860); 10, pyruvate kinase (AL01_00625); 11, malate dehydrogenase (AL01_05845); 12, pyruvate dehydrogenase (AL01_00915, AL01_00920, AL01_03860); 13, pyruvate dehydrogenase E2 (AL01_00925); 14, dihydrolipoamide dehydrogenase (AL01_00930); 15, lactate dehydrogenase...”
BP0607 phosphoglycerate mutase 1 from Bordetella pertussis Tohama I
27% identity, 69% coverage
CSP5_0806 histidine phosphatase family protein from Cuniculiplasma divulgatum
27% identity, 88% coverage
MAB_3936c Probable phosphoglycerate mutase from Mycobacterium abscessus ATCC 19977
30% identity, 75% coverage
CPAR2_211810 uncharacterized protein from Candida parapsilosis
28% identity, 75% coverage
- A common vesicle proteome drives fungal biofilm development
Zarnowski, Proceedings of the National Academy of Sciences of the United States of America 2022 - “...CPAR2_104450 CAGL0M03465g B9J08_002831 GPM1 Phosphoglycerate mutase (PGAM) (EC 5.4.2.11) (BPG-dependent PGAM) (MPGM) (Phosphoglyceromutase) C2_03270W_A CTRG1_01175 CPAR2_211810 CAGL0E06358g B9J08_004375 KAR2 Hsp70 family ATPase C2_01120W_A CTRG1_01299 CPAR2_213780 CAGL0D02948g B9J08_002819 KRE9 Protein of beta-1,6-glucan biosynthesis C3_04180W_A CTRG1_02327 CPAR2_404060 CAGL0C00363g B9J08_000049 MP65 Cell surface mannoprotein MP65 (EC 3.2.1.-) (Mannoprotein of...”
- Moonlighting proteins are variably exposed at the cell surfaces of Candida glabrata, Candida parapsilosis and Candida tropicalis under certain growth conditions
Karkowska-Kuleta, BMC microbiology 2019 - “...hypothetical protein CPAR2_204880 [ Candida parapsilosis ] phosphoglucose isomerase (Pgi1) 0.01127 gi|354,546,805 (CCE43537) hypothetical protein CPAR2_211810 [ Candida parapsilosis ] phosphoglycerate mutase (Gpm1) 0.07052 gi|354,546,845 (CCE43577) hypothetical protein CPAR2_212210 [ Candida parapsilosis ] NAD-aldehyde dehydrogenase (Ald5) 0.23428 gi|354,547,299 (CCE44033) hypothetical protein CPAR2_502580 [ Candida parapsilosis ]...”
- Fibronectin-, vitronectin- and laminin-binding proteins at the cell walls of Candida parapsilosis and Candida tropicalis pathogenic yeasts
Kozik, BMC microbiology 2015 - “...albicans Gnd1, putative 6-phosphogluconate dehydrogenase 55.4 184 5 15 + + + gi|354546805 hypothetical protein CPAR2_211810 [ C. parapsilosis ], similar to C. albicans Gpm1, phosphoglycerate mutase 27.6 366 13 33 + + Vitronectin-binding proteins gi|8927048 elongation factor 2 [ C. parapsilosis ] 90.3 362 8...”
- “...C. parapsilosis ], putative amidase 61.7 1629 67 58 + + + gi|354546805 hypothetical protein CPAR2_211810 [ C. parapsilosis ], similar to C. albicans Gpm1, phosphoglycerate mutase 27.3 167 4 18 + + Fibronectin-binding proteins gi|255722852 predicted protein [ C. tropicalis MYA-3404], hyphally regulated cell wall...”
Cbei_3168 phosphoglycerate mutase from Clostridium beijerincki NCIMB 8052
25% identity, 83% coverage
- Sigma Factor Regulated Cellular Response in a Non-solvent Producing Clostridium beijerinckii Degenerated Strain: A Comparative Transcriptome Analysis
Zhang, Frontiers in microbiology 2017 - “...(Cbei_0998, -2.15, -3.61; Cbei_4852, -2.69, -2.48), pyk (Cbei_4851, -2.22, -1.73; Cbei_1412, -1.43, -3.16) and pgam (Cbei_3168, -8.02, -9.44) were all down-regulated ( Figures 3B and 4B ). Lower transcription of rate-limiting enzymes in the glycolytic pathway pfk and pyk may cause decreased expression of phosphofructokinase and...”
LT988_13795 histidine phosphatase family protein from Thiocapsa bogorovii
27% identity, 69% coverage
- The Complete Genome of a Novel Typical Species Thiocapsa bogorovii and Analysis of Its Central Metabolic Pathways
Petushkova, Microorganisms 2024 - “...dehydrogenase 7 K00927 phosphoglycerate kinase [EC:2.7.2.3] LT988_08060 phosphoglycerate kinase 8 K15634 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase [EC:5.4.2.11] LT988_13795 histidine phosphatase family protein 8 K15633 2,3-bisphosphoglycerate-independent phosphoglycerate mutase [EC:5.4.2.12] LT988_06575 gpmI ; 2,3-bisphosphoglycerate-independent phosphoglycerate mutase 9 K01689 enolase [EC:4.2.1.11] LT988_19115 eno ; phosphopyruvate hydratase 10 K00873 pyruvate kinase [EC:2.7.1.40]...”
LIMLP_18450 histidine phosphatase family protein from Leptospira interrogans serovar Manilae
28% identity, 61% coverage
TWT755 phosphoglycerate mutase from Tropheryma whipplei str. Twist
33% identity, 73% coverage
CNA05980 cytoplasm protein from Cryptococcus neoformans var. neoformans JEC21
24% identity, 30% coverage
blr2630 phosphoglycerate mutase from Bradyrhizobium japonicum USDA 110
28% identity, 81% coverage
C7W88_RS04095 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Novosphingobium sp. THN1
30% identity, 74% coverage
LB149 phosphoglycerate mutase from Leptospira interrogans serovar lai str. 56601
LIC20119 phosphoglycerate mutase from Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130
LB_149 histidine phosphatase family protein from Leptospira interrogans serovar Lai str. 56601
27% identity, 61% coverage
- A putative regulatory genetic locus modulates virulence in the pathogen Leptospira interrogans
Eshghi, Infection and immunity 2014 - “...la3179 lb333c la0263 la3235 la1552 la3333 la1404 la3854 la1745 la2974 la1467 lb149 la2796 la3793 2.3 2.3 2.3 2.3 2.3 2.3 2.3 2.3 2.3 2.2 2.2 2.2 2.2 2.2 2.2 2.2...”
- A model system for studying the transcriptomic and physiological changes associated with mammalian host-adaptation by Leptospira interrogans serovar Copenhageni
Caimano, PLoS pathogens 2014 - “...levels in DMCs and in vitro ( Table S4 ). However, two genes, LIC13358 and LIC20119 , both encoding putative phosphoglucomutases, and LIC12908 , encoding the only glucose transporter identified in L. interrogans [11] , [12] , [42] , were expressed at extremely low levels, both...”
- What Makes a Bacterial Species Pathogenic?:Comparative Genomic Analysis of the Genus Leptospira
Fouts, PLoS neglected tropical diseases 2016 - “...P P P I I I I I S S S S S S cobI/III LB_149 NP_714693.1 phosphoglycerate mutase + + + + - + - + + + + - + + - - - - - - LB_150 NP_714694.1 cobalamin biosynthesis protein CobD/CbiB +...”
lmo1244 weakly similar to phosphoglycerate mutase 1 from Listeria monocytogenes EGD-e
29% identity, 74% coverage
- Whole Genome and Core Genome Multilocus Sequence Typing and Single Nucleotide Polymorphism Analyses of Listeria monocytogenes Isolates Associated with an Outbreak Linked to Cheese, United States, 2013
Chen, Applied and environmental microbiology 2017 - “...primase, LMON_1266 1334724 C T C No T I T CG42_RS06775, histidine phosphatase family protein, lmo1244 1740888 T C C Yes CG42_RS08730, VOC family protein, lmo1635 1762440 C G G Intergenic 1775838 C A C No A D A CG42_RS08875, rRNA methyltransferase, lmo1662 2275331 T T...”
- “...Copper homeostasis protein CutC, CG42_RS05405 LMON_1266 a , e 4 4 24 DNA primase, CG42_RS06585 lmo1244 a 13 128 13 Histidine phosphatase family protein, CG42_RS06775 lmo1337 4 4 117 Rhomboid family intramembrane serine protease, d CG42_RS07240 lmo1635 a 36 6 6 VOC family protein, d CG42_RS08730...”
- Deciphering the intracellular metabolism of Listeria monocytogenes by mutant screening and modelling
Schauer, BMC genomics 2010 - “...glycerol-3-phosphate dehydrogenase no 4.8 1.0 4,6,7 lmo0794 B. subtilis YwnB protein no 12.4 2.0 6 lmo1244 weakly similar to phosphoglycerate mutase 1 no 8.3 2.0 lmo1379 B. subtilis SpoIIIJ protein, hypothetical membrane protein no 4.8 3.0 lmo2005 Oxidoreductase no 7.4 3.9 3 lmo1402 B. subtilis YmcA...”
- Identification of Listeria monocytogenes genes contributing to intracellular replication by expression profiling and mutant screening
Joseph, Journal of bacteriology 2006 - “...of the 16 genes identified by both approaches (lmo1244, lmo1538, lmo2434, and gidA) Downloaded from http://jb.asm.org/ on February 11, 2017 by University of...”
- “...Oa Gene lmo2739 lmo2814 lmo2820 Unknown lmo2206 (clpB) lmo1244 lmo2734 lmo0119 lmo0207 lmo0227 lmo0704 lmo0748d lmo0749 d lmo0750 d lmo0751d lmo0752d lmo0759...”
RL0179 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase (phosphoglyceromutase) (pgam) (bpg-dependent pgam) (dpgm) from Rhizobium leguminosarum bv. viciae 3841
28% identity, 81% coverage
PITG_13749 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Phytophthora infestans T30-4
29% identity, 56% coverage
- Rethinking the evolution of eukaryotic metabolism: novel cellular partitioning of enzymes in stramenopiles links serine biosynthesis to glycolysis in mitochondria
Abrahamian, BMC evolutionary biology 2017 - “...false positives and none have been tuned to stramenopiles. This was achieved by expressing PITG_00132, PITG_13749, and PITG_07405, which encode PGK, PGM, and PK, respectively, in P. infestans using C-terminal tdTomato or green fluorescent protein (GFP) tags. The TPI-GAPDH fusion was not tested since a prior...”
- “...gene PITG_00132 fused to tdTomato (red). b, coexpression of GFP-tagged -ATPase and PGM from gene PITG_13749 fused to tdTomato. c , coexpression of cytoplasmic tdTomato and the PK from gene PITG_07405 fused to GFP. d, pattern exhibited by a canonical cytoplasmic enzyme, fructose bisphosphatase from gene...”
PGM / AAA26800.1 phosphoglycerate mutase from Streptomyces coelicolor (see paper)
SCO4209 phosphoglyceromutase from Streptomyces coelicolor A3(2)
28% identity, 64% coverage
- Expression of genes of the Pho regulon is altered in Streptomyces coelicolor
Millan-Oropeza, Scientific reports 2020 - “...metabolism were more abundant in S. lividans than in S. coelicolor , except SCO7511 and SCO4209 Among the 140 proteins of carbon metabolism that showed significant abundance variation between strains and/or nature of the carbon sources, 72 proteins belong to conserved pathways of central carbon metabolism....”
- “...7 by the phosphoglycerate kinase (PGK, SCO1946), step 8 by two different phosphoglycerate mutases (PGM, SCO4209 and SCO4470), step 9 by two different enolases (ENO, SCO3096 and SCO7638) and step 10 by the pyruvate kinase (PYK, SCO2014) 42 . Interestingly, the Fructose bis-phosphate aldolase (SCO3649, step...”
- The Streptomyces coelicolor Small ORF trpM Stimulates Growth and Morphological Development and Exerts Opposite Effects on Actinorhodin and Calcium-Dependent Antibiotic Production
Vassallo, Frontiers in microbiology 2020 - “...metabolism SCO3649 Fructose-bisphosphate aldolase 1.52 1.87 10 4 SCO3649 Fructose-bisphosphate aldolase 1.61 1.22 10 4 SCO4209 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase 1.37 2.01 10 3 SCO4827 Malate dehydrogenase 1.54 4.44 10 5 SCO5042 Fumarate hydratase class II 2.14 1.82 10 5 SCO2619 ATP-dependent Clp protease proteolytic subunit 1...”
- Cross-talk of global nutritional regulators in the control of primary and secondary metabolism in Streptomyces
Martín, Microbial biotechnology 2011 - “...etal . (2007 ) Nieselt etal . (2010 ) Modulation of central pathways SCO7630 and SCO4209 Two paralogous phosphoglycerate mutases RodrguezGarca etal . (2007 ) Energy metabolism b SCO215048 qcrCAB SCO215655 cox21 SCO021617 narG2H2 SCO653435 narHG SCO4947/50 narG3/I3 Downregulators of respiratory metabolism and upregulators of the...”
- Rapid functional screening of Streptomyces coelicolor regulators by use of a pH indicator and application to the MarR-like regulator AbsC
Yang, Applied and environmental microbiology 2010 - “...O 3 2 2 SCO1946 SCO1947 SCO2180 SCO4209 SCO5107 SCO5424 SCO5425 SCO7000 SCO7412 Phosphoglycerate kinase, Pgk Glyceraldehyde-3-phosphate dehydrogenase, Gap1...”
- Quantitative proteomics analysis of Streptomyces coelicolor development demonstrates that onset of secondary metabolism coincides with hypha differentiation
Manteca, Molecular & cellular proteomics : MCP 2010 - “...and energy metabolism Function and KEGG SCO5423 SCO4209 SCO1946 SCO4914 SCO3877 SCO6661 SCO6658 SCO6662 SCO6659 SCO3092 SCO4855 SCO2951 SCO4809 SCO5368 SCO2736...”
Rv3837c PROBABLE PHOSPHOGLYCERATE MUTASE (PHOSPHOGLYCEROMUTASE) (PHOSPHOGLYCERATE PHOSPHOMUTASE) from Mycobacterium tuberculosis H37Rv
P96241 Probable phosphoglycerate mutase (Phosphoglyceromutase) (Phosphoglycerate phosphomutase) from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
25% identity, 75% coverage
- The unfoldase ClpC1 of Mycobacterium tuberculosis regulates the expression of a distinct subset of proteins having intrinsically disordered termini
Lunge, The Journal of biological chemistry 2020 (secret) - Functional characterization of two members of histidine phosphatase superfamily in Mycobacterium tuberculosis
Coker, BMC microbiology 2013 - “...M. tuberculosis. YDR051pgm: Cofactor dependent phosphoglycerate mutase of Saccharomyces arboricola. Functions of Bacillusap, Cryparpgm and Rv3837c were predicted with bioinformatics while E.colidpgM, Rv0489, PhoE, Rv2419c, Rv3214 and YDR051pgm have been experimentally characterized. Cloning and expression of C-His-Rv2135c and C-His-Rv0489 Rv2135c and Rv0489 genes of M. tuberculosis...”
- “...newly characterized glucosyl-3-phosphoglycerate phosphatase of M. tuberculosis , Rv2419c [ 17 ] (Swissprot P71724), and Rv3837c (GAN CAB06204) an uncharacterized paralog of Rv2135c. Members of histidine phosphatase superfamily from eukaryotes, the cofactor dependent phosphoglycerate mutase of Saccharomyces arboricola (YDR051pgm) (GAN EJS44264) and phosphoglycerate mutase domain containing...”
- Mycobacterium tuberculosis Rv2419c, the missing glucosyl-3-phosphoglycerate phosphatase for the second step in methylglucose lipopolysaccharide biosynthesis
Mendes, Scientific reports 2011 - “...( Table 2 ); the C-terminal domain of Rv2228c (43% amino acid identity), Rv3214 (33%), Rv3837c (32%), Rv0525 (32%) and Rv0489 (30%), all contained the distinctive RHG motif of the histidine phosphatase superfamily 24 25 26 and some have assigned putative PGM functions. However, only the...”
- “...25 Rv0489 249 30 (in 194 aa) 1,3BPG + 3PGA = 2,3BPG + 3PGA 26 Rv3837c 232 32 (in 172 aa) Possible 3PGA = 2PGA - Rv0525 202 32 (in 123 aa) Unknown - Table 3 Properties of known GpgPs and one MpgP (with GpgP activity)....”
- Fumarate reductase activity maintains an energized membrane in anaerobic Mycobacterium tuberculosis
Watanabe, PLoS pathogens 2011 - “...icl1 , (R) ilvB2 , (S) hsaG , (T) accA1 , (U) glpD1 , (V) Rv3837c , (W) tgs1 , and (X) hspX . They were normalized to the expression levels of sigA . (DOC) Click here for additional data file. Figure S2 Transcriptional profile of...”
- Targeting fatty acid biosynthesis for the development of novel chemotherapeutics against Mycobacterium tuberculosis: evaluation of A-ring-modified diphenyl ethers as high-affinity InhA inhibitors
Boyne, Antimicrobial agents and chemotherapy 2007 - “...Rv3251c Rv3252c Rv3408 Rv3496c Rv3500c Rv3740c Rv3741c Rv3810 Rv3837c fbpC2 Rv0171 Rv0172 lprO Rv0180c Rv0181c Rv0197 iniA pknG glnH Rv0412c Rv0474 mmpL5 Rv0678...”
- “...Rv2516c Rv2963 fadE23 PPE Rv3209 Rv3249c rubA Rv3252c Rv3408 Rv3496c Rv3500c Rv3740c Rv3741c pirG Rv3837c 0 0 0 0 0 1 0 0 0 0 0 0 0 1 0 0 0 0 0 0 1 0 0 0 0...”
- Lipid composition and transcriptional response of Mycobacterium tuberculosis grown under iron-limitation in continuous culture: identification of a novel wax ester
Bacon, Microbiology (Reading, England) 2007 - “...isoprenoid quinones ( Garbe et al. , 1996 ). We observed upregulation of Rv2182c, Rv3842c, Rv3837c and Rv3097c ( lipY ), which are putatively involved in glycerophospholipid metabolism ( Bono et al. , 1998 ; Karp et al. , 1999 ). These genes could be associated...”
- “...involved in glycerophospholipid metabolism: Rv2182c (1-acylglycerol-3-phosphate O -acyltransferase), Rv3842c ( glpQ1 , glycerophosphoryl diester phosphodiesterase), Rv3837c (phosphoglycerate mutase) and Rv3097c (PE-PGRS family, triacylglycerol lipase/esterase). Triacylglycerol lipases generate DAG and fatty acid from TAG, and recently the product of Rv3097c ( lipY ) has been shown to...”
- Cloning, expression, purification and preliminary crystallographic data for Rv3214 (EntD), a predicted cofactor-dependent phosphoglycerate mutase from Mycobacterium tuberculosis
Watkins, Acta crystallographica. Section F, Structural biology and crystallization communications 2005 - “...putative phosphoglycerate mutases. These include Rv0489, Rv2419c, Rv3837c and Rv3214. The latter is of particular interest because although it is identified...”
PAP_04825 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Palaeococcus pacificus DY20341
25% identity, 83% coverage
- Metabolic Adaptation to Sulfur of Hyperthermophilic Palaeococcus pacificus DY20341T from Deep-Sea Hydrothermal Sediments
Zeng, International journal of molecular sciences 2020 - “...phosphofructokinase (PFK, PAP_04875), triosephosphate isomerase (TIM, PAP_09970), fructose-1,6-bisphosphate aldolase (FBA, PAP_03775), phosphoglycerate mutase (PGM, PAP_01310, PAP_04825), enolase (ENO, PAP_04410), pyruvate kinase (PYK, PAP_08515), and phosphoenolpyruvate synthase (PPS, PAP_01340) ( Figure 2 ). Palaeococcus pacificus chooses two pathways of catalyzing glyceraldehyde-3-phosphate (G3P) metabolism: (1) the bacterial/eukaryotic classic...”
APY09_03840 phosphoglyceromutase from Schaalia odontolytica
26% identity, 70% coverage
F1N2F2 Phosphoglycerate mutase from Bos taurus
28% identity, 64% coverage
- Age-dependent variations in proteomic characteristics of spermatozoa in Simmental bull
Satrio, Frontiers in veterinary science 2024 - “...binding) SPAM1 Sperm fusion to membrane plasm of oocyte, hyaluronoglucosaminidase activity, acrosomal vesicle/cytoplasmic vesicle/plasma membrane F1N2F2 Phosphoglycerate mutase 2 PGAM2 Glycolysis Process, phosphoglycerate mutase activity Q3ZBD7 Glucose-6-phosphate isomerase GPI Converts glucose-6-phosphate to fructose-6-phosphate; important for glycolysis and ATP yield for sperm motility; prevents apoptosis and oxidative...”
- iTRAQ-based comparative proteomics reveal an enhancing role of PRDX6 in the freezability of Mediterranean buffalo sperm
Luo, BMC genomics 2023 - “...0.577890724 0.722641837 E1BD64 Mitochondrial pyruvate carrier 0.367672664 0.684912461 F1MYH5 A-kinase anchoring protein 4 0.56593542 0.632369262 F1N2F2 Phosphoglycerate mutase 1.590575011 1.899681405 Q24JZ7 Succinyl-CoA:3-ketoacid-coenzyme A transferase 0.608101513 0.603642301 Fig. 5 ( a ) Western blot analysis of PRDX6 abundance in GFE and PFE sperms. The samples derived from...”
- Feedlot diets containing different starch levels and additives change the cecal proteome involved in cattle's energy metabolism and inflammatory response
Rocha, Scientific reports 2022 - “...6.37/39,211 Pyruvate kinase A5D984 98.4805 7.96/57,948.91 5.9/57,613 Fructose-bisphosphate aldolase A6QLL8 1850.8330 8.45/39,436.12 6.37/39,211 Phosphoglycerate mutase F1N2F2 427.2343 9.01/28,699.04 6.37/39,211 l -lactate dehydrogenase F1MK19 70.7983 5.72/36,724.58 6.37/39,211 Glyceraldehyde-3-phosphate dehydrogenase P10096 11,907.1000 8.51/35,868.09 8.12/29,321 ATP synthase subunit beta_ mitochondrial P00829 533.0471 5.15/56,283.53 5.49/47,920 Inflammatory response Leukocyte elastase inhibitor...”
- Application of proteomics to understand the molecular mechanisms determining meat quality of beef muscles during postmortem aging.
Yang, PloS one 2021 - “...Table ). DEPs between samples at 7 d and 0 d, including downregulated A6QLL8, Q3ZC87, F1N2F2, A0A3S5ZPB0, B3IVN4, Q3T145, P33097, and A0A3Q1M5R4, were involved in GO processes like glycolytic process (GO: 0006096), nucleoside metabolic process (GO: 0009116), organic acid metabolic process (GO: 0006082), and organic substance...”
- “...Q3T145, and A0A3Q1M5R4), Glucagon signaling pathway (map04922) and Biosynthesis of amino acids (map01230; A6QLL8, Q3ZC87, F1N2F2, A0A3S5ZPB0, P33097, B3IVN4, and G5E5C8; Fig 4B and 4C , and S3 Table ). DEPs between 7 d and 0 d were also associated with the PPAR signaling pathway (map03320;...”
- Regional Differences of Proteins Expressing in Adipose Depots Isolated from Cows, Steers and Bulls as Identified by a Proteomic Approach.
Cho, Asian-Australasian journal of animal sciences 2016 - “...L-lactate dehydrogenase A chain LDHA 8 36.6 18.67 16.69 22.01 35.86 0 2.11 4.31 21 F1N2F2 Bt.23217 Phosphoglycerate mutase 2 PGAM2 8.9 28.7 16.21 8.57 3.86 19.32 0 0 0 22 P00829 Bt.4431 ATP synthase subunit beta, mitochondrial ATP5B 5.27 56.2 15.34 11.48 4.89 11.38 19.53...”
- “...8 Q3ZC09 Bt.49475 Beta-enolase ENO3 7.72 47.1 29.26 36.37 47.08 56.06 4.08 6.85 0 9 F1N2F2 Bt.23217 Phosphoglycerate mutase 2 PGAM2 8.9 28.7 16.21 8.57 3.86 19.32 0 0 0 10 A5D984 Bt.40497 Pyruvate kinase PKM2 7.85 57.9 14.69 25.77 20 35.69 0 0 0 Muscle...”
MUL_2536 phosphoglycerate mutase Gpm2 from Mycobacterium ulcerans Agy99
32% identity, 57% coverage
NE1780 Phosphoglycerate mutase family from Nitrosomonas europaea ATCC 19718
26% identity, 69% coverage
3lg2A / P36136 A ykr043c/ fructose-1,6-bisphosphate product complex following ligand soaking (see paper)
25% identity, 61% coverage
- Ligand: phosphate ion (3lg2A)
SHB17_YEAST / P36136 Sedoheptulose 1,7-bisphosphatase; EC 3.1.3.37 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 4 papers)
P36136 fructose-bisphosphatase (EC 3.1.3.11) from Saccharomyces cerevisiae (see paper)
YKR043C Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus from Saccharomyces cerevisiae
25% identity, 61% coverage
- function: Sedoheptulose 1,7-bisphosphatase involved in riboneogenesis. Dephosphorylates sedoheptulose 1,7-bisphosphate (SBP), which is converted via the non-oxidative pentose phosphate pathway to ribose-5- phosphate. Has a fructose 1,6-bisphosphatase activity in vitro, but this is probably not biologically relevant, since deletion does not affect fructose 1,6-biphosphate (FBP) levels.
catalytic activity: D-sedoheptulose 1,7-bisphosphate + H2O = D-sedoheptulose 7- phosphate + phosphate (RHEA:17461)
subunit: Homodimer. - Macroevolutionary diversity of traits and genomes in the model yeast genus Saccharomyces
Peris, Nature communications 2023 - “...), QCR7 ( YDR529C ), RPA34 ( YJL148W ), SGF73 ( YGL066W ), SHB17 ( YKR043C ), SMT3 ( YDR510W ), SUB1 ( YMR039C ), TUB2 ( YFL037W ), and YAR1 ( YPL239W ). We blasted those genes to pull out the orthologs from the strains...”
- The Pentose Phosphate Pathway in Yeasts-More Than a Poor Cousin of Glycolysis
Bertels, Biomolecules 2021 - “...in S. cerevisiae . Cells with a deletion of the previously uncharacterized open reading frame YKR043c showed a distinct accumulation of seven and eight carbon sugar phosphates, identified as sedoheptulose-1,7- and octulose-1,8-bisphosphate [ 25 ]. Apparently, sedoheptulose-1,7-bisphosphate (S1,7P 2 ) is a metabolite that serves to...”
- “...conserved amongst the different biological kingdoms. In fact, homologs of the SHB17 gene (renamed from YKR043c ) of S. cerevisiae are present in the genomes of all other yeasts listed in the genome order browser ( http://ygob.ucd.ie/ as of 25 March 2021 [ 61 ]), including...”
- Dual metabolomic profiling uncovers Toxoplasma manipulation of the host metabolome and the discovery of a novel parasite metabolic capability
Olson, PLoS pathogens 2020 - “...the A . thaliana gene ID At3g55800 and the S . cerevisiae gene ID is YKR043C. Residues of the A . thaliana SBP predicted for metal binding are boxed in blue and substrate binding are boxed in red ( https://www.uniprot.org/uniprot/P46283 ). (TIF) Click here for additional...”
- Interaction of the Jhd2 Histone H3 Lys-4 Demethylase with Chromatin Is Controlled by Histone H2A Surfaces and Restricted by H2B Ubiquitination
Huang, The Journal of biological chemistry 2015 - “...NAT4 (sense transcription up-regulated); PHO84-AS, SHB17/ YKR043C, and DUR1 (antisense transcription down-regulated); and BUB3 and HOL1 (antisense transcription...”
- Systems-level organization of yeast methylotrophic lifestyle
Rußmayer, BMC biology 2015 - “...among the up-regulated gene/protein pairs was identified to be the homolog of S. cerevisiae , YKR043C, which was recently reported to encode sedoheptulose-1,7-bisphosphatase (Shb17) [ 46 ]. Further, this protein was found to be enriched in the peroxisomes in methanol-grown P. pastoris (Table 2 ). Shb17...”
- Riboneogenesis in yeast
Clasquin, Cell 2011 - “...2010 ). We found that deletion of SHB17 , formerly known as the uncharacterized gene YKR043c , consistently led to the accumulation of four metabolites, and the depletion of a fifth ( Figure 1 ). Candidate formulae were obtained based on exact masses, and included seven-...”
- “...ura3 0 leu2 0 his3 1 lys2 0 met15 0 can1 ::LEU2 + - MFA1pr-HIS3/CAN1 ykr043c ::kanMX and a yar047c ::kanMX control in the same background. Prototrophic deletions were also created by homologous recombination using the YKR043C::ClonNAT allele amplified by PCR from the above deletion. Prototrophic...”
- Structure and activity of the metal-independent fructose-1,6-bisphosphatase YK23 from Saccharomyces cerevisiae
Kuznetsova, The Journal of biological chemistry 2010 - “...Overexpression, and Protein Purification--The genes encoding YK23 (YKR043C) and YO283 (YOR283W) were amplified by PCR using S. cerevisiae genomic DNA. The...”
- “...suite (37). The final model contains four molecules of Ykr043C and 51 solvent molecules refined to an Rwork of 24.0% and Rfree of 28.5%, including TLS...”
- A multispecies-based taxonomic microarray reveals interspecies hybridization and introgression in Saccharomyces cerevisiae
Muller, FEMS yeast research 2009 - “...YGL036W XI + + + 512700 524680 KAE1, GAP1, YKR040C, YKR041W, UTH1, PORF13342 (2) , YKR043C, UIP5, YKR045C, PET10 Starts at position 511750 in YJM218 XVI + - + 817610 837960 KAR3, YPR142C, RRP15, NOC4, PORF22909 (2) , SNR45 (1) , ASN1, YPR145C-A (1) , YPR146C...”
- More
- Structure and activity of the metal-independent fructose-1,6-bisphosphatase YK23 from Saccharomyces cerevisiae
Kuznetsova, The Journal of biological chemistry 2010 - “...in YK23). The compared proteins are YK23 (P36136), YALI0D09229p from Y. lipolytica (Q6C9Q2), phosphoglycerate mutase from Aspergillus oryzae (Q2U6P9),...”
W5PVY5 Phosphoglycerate mutase from Ovis aries
29% identity, 63% coverage
- Proteomics and metabolomics combined study on endopathic changes of water-soluble precursors in Tan lamb during postmortem aging
Ji, Food science & nutrition 2022 - “...Tropomyosin 2 0.22 2.63E05 W5PS88 Aspartate aminotransferase 0.24 2.94E04 W5PUC1 Carbonic anhydrase 3 0.28 1.14E05 W5PVY5 Phosphoglycerate mutase 0.23 1.59E05 W5PWE9 Serum albumin 0.28 4.16E06 W5PZS7 Serpin family A member 1 0.43 3.22E04 W5Q0I1 Myosin binding protein C, slow type 0.42 3.44E05 W5Q2E1 Lumican 0.41 7.06E03...”
- “...0.41 W5PIN6 Llactate dehydrogenase 1.46 0.18 W5PJB6 Phosphoglucomutase 1 1.48 0.39 W5PS88 Aspartate aminotransferase 0.24 W5PVY5 Phosphoglycerate mutase 1.37 0.23 W5Q0I1 Myosin binding protein C, slow type 1.21 0.42 W5Q8N4 Myosin light chain 2 1.76 0.25 W5Q983 Glycerol3phosphate dehydrogenase [NAD (+)] 1.45 0.27 W5QBV3 Phosphoglycerate kinase...”
SPD_1468 phosphoglycerate mutase from Streptococcus pneumoniae D39
C1C8P5 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Streptococcus pneumoniae (strain 70585)
Q04JB4 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Streptococcus pneumoniae serotype 2 (strain D39 / NCTC 7466)
SP_1655 phosphoglyceromutase from Streptococcus pneumoniae TIGR4
spr1499 Phosphoglyceromutase from Streptococcus pneumoniae R6
26% identity, 76% coverage
- The role of pneumococcal extracellular vesicles on the pathophysiology of the kidney disease hemolytic uremic syndrome
Battista, mSphere 2023 - “...1.1.1.44) gnd SPD_0343 Q04JB4 2,3-Bisphosphoglycerate-dependent phosphoglycerate mutase (BPG-dependent PGAM) (PGAM) (phosphoglyceromutase) (dPGM) (EC 5.4.2.11) gpmA SPD_1468 A0A0H2ZNC0 1,4-beta-N-acetylmuramidase, putative (EC 3.2.1.96) lytC SPD_1403 A0A0H2ZPB4 NADH oxidase (EC 1.6.99.3) nox SPD_1298 Q04MI4 ProlinetRNA ligase (EC 6.1.1.15) (Prolyl-tRNA synthetase) (ProRS) proS SPD_0246 A0A0H2ZMX6;A0A0H2ZLS0 Pneumococcal surface protein A pspA...”
- Dynamic Pneumococcal Genetic Adaptations Support Bacterial Growth and Inflammation during Coinfection with Influenza
Smith, Infection and immunity 2021 - “...pgdA Peptidoglycan GlcNAc deacetylase SPD_1333 Conserved hypothetical protein SPD_1354 Conserved hypothetical protein SPD_1414 Oxalate:formate antiporter SPD_1468 Phosphoglycerate mutase SPD_1782 ksgA Dimethyladenosine transferase SPD_1923 2,3,4,5-Tetrahydropyridine-2-carboxylate N -succinyltransferase, putative SPD_2047 cbiO1 Cobalt ABC transporter, ATP-binding protein CbiO1 SPD_2048 cbiO2 Cobalt ABC transporter, ATP-binding protein CbiO2 Total 17 23...”
- Inactivation of Transcriptional Regulator FabT Influences Colony Phase Variation of Streptococcus pneumoniae
Zhang, mBio 2021 - “...permease protein, putative 1.97 0.006 SPD_1463 psaA Metal ABC transporter substrate-binding lipoprotein/adhesin PsaA 1.88 0.022 SPD_1468 gpmA Phosphoglycerate mutase 0.98 0.001 SPD_1483 murF UDP- N -acetylmuramoyl-tripeptide d -alanyl- d -alanine ligase 0.78 0.000 SPD_1548 gmk Guanylate kinase 0.48 0.042 SPD_1581 tRNA-Lys-CUU 1.11 0.000 SPD_1594 XRE family...”
- Cadmium stress dictates central carbon flux and alters membrane composition in Streptococcus pneumoniae
Neville, Communications biology 2020 - “...4.2.1.11) 1.22 SPD_1039 ptsI Phosphocarrier protein HPr 1.30 SPD_1040 ptsH Phosphoenolpyruvate-protein phosphotransferase (EC 2.7.3.9) 1.31 SPD_1468 gpmA 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase (EC 5.4.2.11) 1.44 Pyruvate metabolism SPD_0420 pflB Formate acetyltransferase (EC 2.3.1.54) 1.41 SPD_0636 spxB Pyruvate oxidase (EC 1.2.3.3) 1.33 Fatty acid biosynthesis SPD_0378 fabM Enoyl-CoA hydratase/isomerase...”
- Molecular Mimicry Mapping in Streptococcus pneumoniae: Cues for Autoimmune Disorders and Implications for Immune Defense Activation
Mashraqi, Pathogens (Basel, Switzerland) 2023 - “...4-epimerase Q14376 ARD35197.1 A5MBZ8 2 VIHFAGLKAVGES DYDTEDGTGVRDYIHVVDLAKGH 0.84 0.99 12 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase P15259 ARD35240.1 C1C8P5 1 WRLNERHYGGLTG 1.03 1.03 13 chaperonin GroL P10809 ARD35488.1 J1NT41 2 AGDGTTTATVL DALNATRAAVEEGIV 1.81 3.81 pathogens-12-00857-t002_Table 2 Table 2 Database and literature information for S. pneumoniae and human-homologous-protein-linked pathways involved...”
- The role of pneumococcal extracellular vesicles on the pathophysiology of the kidney disease hemolytic uremic syndrome
Battista, mSphere 2023 - “...2.7.1.30) (ATP:glycerol 3-phosphotransferase) (glycerokinase) (GK) glpK SPD_2013 A0A0H2ZLA5 6-Phosphogluconate dehydrogenase, decarboxylating (EC 1.1.1.44) gnd SPD_0343 Q04JB4 2,3-Bisphosphoglycerate-dependent phosphoglycerate mutase (BPG-dependent PGAM) (PGAM) (phosphoglyceromutase) (dPGM) (EC 5.4.2.11) gpmA SPD_1468 A0A0H2ZNC0 1,4-beta-N-acetylmuramidase, putative (EC 3.2.1.96) lytC SPD_1403 A0A0H2ZPB4 NADH oxidase (EC 1.6.99.3) nox SPD_1298 Q04MI4 ProlinetRNA ligase (EC...”
- Biofilm and planktonic pneumococci demonstrate disparate immunoreactivity to human convalescent sera
Sanchez, BMC microbiology 2011 - “...fba SP_0605 6 32 Glycerol-3-phosphate dehydrogenase [NAD(P)+] gpsA (SP_2091) 2 6 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase gpmA (SP_1655) 7 11 6-phosphofructokinase pfkA (SP_0896) 8 21 Phosphoenolpyruvate-protein phosphotransferase ptsI (SP_1176) 0 10 Ribose-phosphate pyrophosphokinase 1 prsA (SP_0027) 2 4 Ribose-5-phosphate isomerase A rpiA (SP_0828) 0 3 Triosephosphate isomerase tpiA...”
- Reactive Oxygen Species Contribute to the Bactericidal Effects of the Fluoroquinolone Moxifloxacin in Streptococcus pneumoniae
Ferrándiz, Antimicrobial agents and chemotherapy 2016 - “...spr0823 (but)d spr1324 (apbE)d spr0530 (fba) spr1902 (gpdA) spr1499 (gpmA) spr0647 (pmi) spr0415 (pfl) spr1438 (entB)d spr1841 (tktA) 2.0 2.0 3.9 2.3 2.8 2.7...”
- Phenotypic characterization of Streptococcus pneumoniae biofilm development
Allegrucci, Journal of bacteriology 2006 - “...(spr2033) SP0266 pyrDA (spr0672) ppc (spr0974) gpmA (spr1499) ldh (spr1100) gpi (spr1882) pgk (spr0441) SP0265 pykF (spr0797) atpA (spr1362) Planktonic growth...”
B5KJG2 phosphoglycerate mutase (2,3-diphosphoglycerate-dependent) (EC 5.4.2.11) from Sus scrofa (see paper)
NP_001128440 phosphoglycerate mutase 2 from Sus scrofa
28% identity, 64% coverage
- Assignment and expression patterns of porcine muscle-specific isoform of phosphoglycerate mutase gene.
Qiu, Journal of genetics and genomics = Yi chuan xue bao 2008 (PubMed)- GeneRIF: Pgam2 gene plays an important role in muscle growth and development.
- Metabolomics and proteomics insights into hepatic responses of weaned piglets to dietary Spirulina inclusion and lysozyme supplementation
Martins, BMC veterinary research 2024 - Influence of Pig Genetic Line and Salt Reduction on Peptide Production and Bioactivity of Dry-Cured Hams.
Muñoz-Rosique, Foods (Basel, Switzerland) 2023 - “...968.44 Myosin 2-4-7 F1SS64/Q9TV62/A0A2867PQ9 16 LGIDVWEH 968.48 Superoxide dismutase A0A287A4Z2 17 WNDEIAPQ 972.44 Phosphoglycerate mutase B5KJG2 18 AFPPDVGGNV 972.48 Myosin regulatory light chain 2 Q5XLD2 19 AGNPDLVLPV 994.56 Beta-enolase A0A287AZR0 20 AAFPPDVGGNV 1043.52 Myosin regulatory light chain 2 Q5XLD2 21 AFPPDVGGNVD 1087.51 Myosin regulatory light chain...”
- Transcriptomic and proteomic studies of condylar ossification of the temporomandibular joint in porcine embryos.
Xiang, Animal models and experimental medicine 2023 - “...UP/UP ENSSSCG00000011299 CLEC3B F1SRC8 2.2829262 2.74049 UP/UP ENSSSCG00000010281 PSAP A0A287A0D2 1.205685019 2.66323 UP/UP ENSSSCG00000016720 PGAM2 B5KJG2 2.029791498 2.64612 UP/UP ENSSSCG00000004193 ENPP1 A0A287AT99 1.043508529 2.6114 UP/UP ENSSSCG00000009216 SPP1 P14287 2.032302041 2.49845 UP/UP ENSSSCG00000010494 SORBS1 A0A286ZJT5 1.013649233 2.44681 UP/UP ENSSSCG00000010123 CLDN5 C3VML1 1.158519528 2.34631 UP/UP ENSSSCG00000006648 CTSS F1SS93...”
- Novel α-Glucosidase Inhibitory Peptides Identified In Silico from Dry-Cured Pork Loins with Probiotics through Peptidomic and Molecular Docking Analysis.
Kęska, Nutrients 2023 - “...in Table 1 . The best source turned out to be the protein Phosphoglycerate mutase (B5KJG2) It is an enzyme involved in glycolysis, and its shorter fragments (peptides) can be found in the meat matrix [ 33 ]. Taking into account the method of obtaining the...”
- “...[Da] Protein ID C_S LOCK_S BB_S BAUER_S C_M LOCK_M BB_M BAUER_M 1 DIPPPPMDEK 0.400 1137.54 B5KJG2 + + + + + 2 EAPPPPAEVH 0.400 1042.51 Q75NG9 + + + 3 FDIPPPPMDE 0.400 1156.51 B5KJG2 + 4 SFDIPPPPMD 0.400 1114.50 B5KJG2 + + + + 5 DLFPPPP...”
- Distinct myofibrillar sub-proteomic profiles are associated with the instrumental texture of aged pork loin.
Johnson, Journal of animal science 2023 - “...10 -0.694 0.008 Glyceraldehyde-3-phosphate dehydrogenase (fragment) G3CKJ2 Sarcoplasm 38 2 -0.685 0.004 Phosphoglycerate mutase 2 B5KJG2 Sarcoplasm 53 13 -0.235 0.023 SuccinateCoA ligase [ADP-forming] subunit beta, mitochondrial F1RK10 Mitochondrial matrix 31 10 -0.274 0.004 Uncategorized 14_3_3 domain-containing protein epsilon A0A4X1U626 Sarcoplasm 67 12 -0.220 0.029 14_3_3...”
- Mechanisms of Mitochondrial Apoptosis-Mediated Meat Tenderization Based on Quantitative Phosphoproteomic Analysis.
Zhang, Foods (Basel, Switzerland) 2022 - “...1.132 0.863 Q5XLD3 140 Y Creatine kinase M-type CKM ATP metabolic process 1.250 0.855 1.158 B5KJG2 238 T Phosphoglycerate mutase PGAM2 ATP metabolic process 1.654 1.208 1.575 F1RFH3 52 S Neurofilament heavy polypeptide NEFH Biological regulation 0.379 0.706 1.306 A0A287A7G2 232 S PDZ and LIM domain...”
- Potential DPP IV Inhibitory Peptides from Dry-Cured Pork Loins after Hydrolysis: An In Vitro and In Silico Study
Kęska, Current issues in molecular biology 2021 - “...+ + 0.5000 FA [34], AP [89], AG [12] [45], GF [23] 2 AGLKPGEL Phosphoglyceratemutase (B5KJG2; PGAM2) + + + 0.6250 KP [45], GL [23], AG [12], GE [67], PG [56] 3 ALESPERPF Phosphoglyceratekinase (F1RPH0; PGK1) + + + + + 0.5556 SP [45], RP [78],...”
- “...0.6667 VV [23], KV [12] [89], SK [78], VD [34], VG [56] 11 LDQALKPTKPM Phosphoglyceratemutase (B5KJG2; PGAM2) + - + + + 0.7273 KP [67] [910], AL [45], DQ [23], PM [1011], PT [78], QA [34],TK [89] 12 LFDKPVSPI Creatine kinase B-type (Q29594; CKB) + +...”
- Differential Protein Profiling of Cerebrospinal Fluid in Piglets with Severe Meningoencephalitis Caused by Streptococcus suis Type 2 Compared to Controls
Liu, Frontiers in cellular and infection microbiology 2018 - “...phosphoprotein 1 SPP1 A7YX24 776620000 2.65 3.70 Gamma-synuclein SNCG A8D737 65674000 2.40 5.26 T-cadherin N/A B5KJG2 55810000 8.35 3.37 Phosphoglycerate mutase PGAM2 F1RI57 203610000 2.82 4.82 Beta-1,3-N-acetylglucosaminyltransferase LFNG K7GQL2 11579000 4.20 90.59 Coagulation factor XIII, A1 polypeptide LOC100153504 Q007T6 57101000 3.60 11.76 Superoxide dismutase [Cu-Zn] N/A...”
- More
STER_1172, STER_RS05785, T303_06885 phosphoglycerate mutase from Streptococcus thermophilus ASCC 1275
26% identity, 76% coverage
- In Vitro Anti-Inflammatory Activity of Peptides Obtained by Tryptic Shaving of Surface Proteins of Streptococcus thermophilus LMD-9
Allouche, Foods (Basel, Switzerland) 2022 - “...enolase 46.95 CS/M/Cyto 63.2 28 STER_1163|ID:1899979|pykF| STER_RS05740 pyruvate kinase I 54.49 Cyto 55.1 22 STER_1172|ID:1899988|gpmA| STER_RS05785 phosphoglyceromutase 1 26.17 Cyto 53.7 21 STER_1876|ID:1900541|kbaY| STER_RS09185 tagatose 6-phosphate aldolase 1, kbaY subunit 31.51 Cyto 47.3 14 STER_0241|ID:1898909| STER_RS01180 glucose-6-phosphate isomerase A (GPI A) 49.76 Cyto 34.7 14 STER_1241|ID:1900050|gabD|...”
- Identification of Hanks-Type Kinase PknB-Specific Targets in the Streptococcus thermophilus Phosphoproteome
Henry, Frontiers in microbiology 2019 - “...STER_0684 STER_RS03365 GlgP Glycogen/starch/alpha-glucan family phosphorylase YP_820422.1 WP_011681138.1 STER_1016 STER_RS05015 GpmA Phosphoglycerate mutase YP_820559.1 WP_011226119.1 STER_1172 STER_RS05785 Pyk Pyruvate kinase YP_820550.1 WP_011681242.1 STER_1163 STER_RS05740 PgmA Phosphoglucosamine mutase YP_820614.1 WP_011226155.1 STER_1230 STER_RS06065 PtsI Phosphoenolpyruvate protein phosphotransferase YP_820626.1 WP_011681297.1 STER_1242 STER_RS06130 PtsH Phosphocarrier protein HPr YP_820627.1 WP_002946351.1 STER_1243...”
- “...STER_RS03365 GlgP Glycogen/starch/alpha-glucan family phosphorylase YP_820422.1 WP_011681138.1 STER_1016 STER_RS05015 GpmA Phosphoglycerate mutase YP_820559.1 WP_011226119.1 STER_1172 STER_RS05785 Pyk Pyruvate kinase YP_820550.1 WP_011681242.1 STER_1163 STER_RS05740 PgmA Phosphoglucosamine mutase YP_820614.1 WP_011226155.1 STER_1230 STER_RS06065 PtsI Phosphoenolpyruvate protein phosphotransferase YP_820626.1 WP_011681297.1 STER_1242 STER_RS06130 PtsH Phosphocarrier protein HPr YP_820627.1 WP_002946351.1 STER_1243 STER_RS06135...”
- Transcriptomic Insights Into the Growth Phase- and Sugar-Associated Changes in the Exopolysaccharide Production of a High EPS-Producing Streptococcus thermophilus ASCC 1275
Padmanabhan, Frontiers in microbiology 2018 - “...2.93 T303_07890 Galactokinase 169 GGGAACAAGAAGGAGTATTAGG CCAGTTACTTCGGCAATATAGA 3.74 3.18 T303_06336 epsN 149 CCTGCCTCCTTTCATCATC CAACTCCAAGCTCTACTTCTAC 1.67 1.39 T303_06885 Phosphoglycerate mutase 162 GTACTCAGCACACAAAGACC CCATGTGCACCTACGAATAC 1.37 1.25 L5h vs. L10h T303_07870 Lactose/galactose permease 155 CTTCAGGTAGCATGGGTAAAG GATGCCAACGTGGATAAGAA 2.01 2.21 T303_03155 6-phosphofructokinase 124 GACAAGGTAGAGATTGGTGAAG TGAAGCCCGTAGCAGTAT 3.39 2.96 T303_06085 4-alpha-glucanotransferase 156 CGTCAAGGTGAACCAATCA CATACGCCATCTCCAGTTTC...”
PSPPH_A0112 phosphoglycerate mutase family protein from Pseudomonas syringae pv. phaseolicola 1448A
26% identity, 70% coverage
- Variable suites of non-effector genes are co-regulated in the type III secretion virulence regulon across the Pseudomonas syringae phylogeny
Mucyn, PLoS pathogens 2014 - “...ND PSPTO_1843 aspartate kinase 1.48E-03 0.9 ND ND PSPTO_4716 hypothetical protein 1.89E-02 1.5 ND ND PSPPH_A0112 phosphoglycerate mutase family protein 3.11E-11 + 4.8 + 20.5 PSPPH_A0110 hypothetical protein 3.94E-10 ND ND + 53.6 PSPPH_A0109 sulfotransferase, putative 7.96E-08 + 4.3 + 51.6 PSPPH_1906 LuxR family DNA-binding response...”
- “...a sulfotransferase, an amino transferase, and an oxidoreductase respectively. We confirmed the HrpL-dependent expression of PSPPH_A0112 , A0110 , A0109 , and A0107 ( Table 3 , Figure S2 , and S3 ). This operon is typically found as a presence/absence polymorphism; when present, it is...”
BT1660 phosphoglycerate mutase from Bacteroides thetaiotaomicron VPI-5482
26% identity, 71% coverage
MMAR_1343 phosphoglycerate mutase Gpm2 from Mycobacterium marinum M
32% identity, 60% coverage
- The FBPase Encoding Gene glpX Is Required for Gluconeogenesis, Bacterial Proliferation and Division In Vivo of Mycobacterium marinum
Tong, PloS one 2016 - “...gene gpm2 (Rv3214) was identified to encode a novel functional FBPase [ 19 ]. Notably, MMAR_1343 which is annotated as a homologous gene to Rv3214 in M . marinum , exhibited a higher relative expression in the absence of glpX under gluconeogenic culture conditions ( S4D...”
- “...1 ) and virulence attenuation in zebrafish ( Fig 3 ) of glpX indicates that MMAR_1343 cannot substitute glpX in M . marinum . Furthermore, the significantly attenuated virulence of glpX in zebrafish ( Fig 3 ) could be due to the declined bacterial proliferation in...”
- High throughput screen identifies small molecule inhibitors specific for Mycobacterium tuberculosis phosphoserine phosphatase
Arora, The Journal of biological chemistry 2014 - “...MAF_30010 MSMEG_2378, MSMEI_2318 Rv3214 BCG_3241, BCG_3334 MMAR_1343 Rv0489 BCG_0530 MMAR_0814, MMAR_3747 ML2441c MUL_3691 MAF_04930 MSMEG_0935, MSMEI_0912 M....”
VC1240 alpha-ribazole-5`-phosphate phosphatase CobC, putative from Vibrio cholerae O1 biovar eltor str. N16961
25% identity, 97% coverage
F1613_RS00620 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Staphylococcus epidermidis
SE1995 phosphoglycerate mutase from Staphylococcus epidermidis ATCC 12228
26% identity, 74% coverage
- Genome-wide transcription response of Staphylococcus epidermidis to heat shock and medically relevant glucose levels
Benjamin, Frontiers in microbiology 2024 - “...gap , F1613_RS05590 (phosphoglycerate kinase), tpiA , gpmI , and eno ), the alsS/budA operon, F1613_RS00620 (2,3-diphosphoglycerate-dependent phosphoglycerate mutase), F1613_RS01410 (fructose bisphosphate aldolase), fdaB , F1613_RS01355 (L-lactate dehydrogenase), sdaAA , pyk , ilvB , F1613_RS06110 (glucose-6-phosphate isomerase) and sdhB were slightly upregulated (~3 to 8-fold) in...”
- Fluorescent amplified fragment length polymorphism (FAFLP) genotyping demonstrates the role of biofilm-producing methicillin-resistant periocular Staphylococcus epidermidis strains in postoperative endophthalmitis
Kenchappa, BMC ophthalmology 2006 - “...ORFs such as SE0884, SE0177, SE2068, SE0841 in ATCC 12228 and SE0775, SE2397, SE 2081, SE1995 in RP62a strain. Modification in at least two of the above ORFs namely SE0775 (fbe gene) and SE2081 putatively coding for fibronectin/fibrinogen binding protein and an adhesion protein respectively, seems...”
Q7T3G4 Phosphoglycerate mutase from Danio rerio
28% identity, 61% coverage
C4R2M0 Sedoheptulose 1,7-bisphosphatase from Komagataella phaffii (strain GS115 / ATCC 20864)
21% identity, 73% coverage
- Evaluation of the potential food allergy risks of human lactoferrin expressed in Komagataella phaffii
Anaya, Frontiers in immunology 2024 - “...co-chaperone that interacts with the HSP70 protein Ssa1p C4R2Q1 0.001411637 0.00045896 0 0.000935299 Sedoheptulose 17-bisphosphatase C4R2M0 0.000546974 0.000771788 0 0.000659381 Fructose-bisphosphatase C4R5T8 0 0.000450901 0 0.000450901 Xylose and arabinose reductase C4R135 0.000386269 0.000487704 0 0.000436987 Dihydrolipoyl dehydrogenase C4R312 0 0.000389153 0 0.000389153 Serine/threonine-protein phosphatase C4R1A4 0...”
- Comparative proteomics analysis of Pichia pastoris cultivating in glucose and methanol
Hou, Synthetic and systems biotechnology 2022 - “...(C4R5Q6; 2.7.1.29); Fba2, fructose 1,6-bisphosphate aldolase (C4QWS2; 4.1.2.13); Fbp1, fructose-bisphosphates (C4R5T8; 3.1.3.11); Shb17, sedoheptulose 1,7-bisphosphatase (C4R2M0; 3.1.3.37); Tal2, transaldolase 2 (C4R244; 2.2.1.2); Gst, glutathione transferase (C4R2T6; 2.5.1.18); Gsr, glutathione reductase (C4R686; 1.8.1.7); Fld, S -hydroxymethyl dehydrogenase (C4R6A5; 1.1.1.284); Fgh, S -formyl glutathione hydrolase (C4R5T5; 3.1.2.12); Fdh,...”
B7GEI2 Phosphoglycerate mutase from Phaeodactylum tricornutum (strain CCAP 1055/1)
XP_002185492 phosphoglycerate mutase from Phaeodactylum tricornutum CCAP 1055/1
29% identity, 54% coverage
- Proteomic and biochemical responses to different concentrations of CO2 suggest the existence of multiple carbon metabolism strategies in Phaeodactylum tricornutum
Wu, Biotechnology for biofuels 2021 - “...triose phosphate isomerase (TIM, B7FSQ0, B7G3C1), GAPDH (Q9M7R3, B7FSI4), PGK (B8LCF8, B7G938), phosphoglycerate mutase (PGAM, B7GEI2, B7FU06), plastic enolase (B7GEF2), pyruvate kinase (PK, Q2TSX0, Q2TSW9) and pyruvate dehydrogenase complex-related proteins (B7FZN6, B7FZE1, B7GDA9) were upregulated under HC conditions, indicating that the glycolysis pathway was enhanced under...”
- Proteome response of Phaeodactylum tricornutum, during lipid accumulation induced by nitrogen depletion
Longworth, Algal research 2016 - “...dehydrogenase 15 1.19 B7FYT9 Malate synthase 6 1.41 B7GCG9 PFP pyrophosphate dependent phosphofructokinase 11 1.58 B7GEI2 Phosphoglycerate mutase 4 1.87 B7G492 Phosphomannose mutase 5 1.66 B7GEF2 Plastidic enolase 17 1.20 B7G0M9 Precursor of ATPase ATPase gamma subunit 11 1.58 B7FZE1 Precursor of dehydrogenase pyruvate dehydrogenase E1,...”
- Broad distribution of TPI-GAPDH fusion proteins among eukaryotes: evidence for glycolytic reactions in the mitochondrion?
Nakayama, PloS one 2012 - “...50. Sequences from Phaeodactylum tricornutum CCAP 1055/1 were used as queries (GenBank accession numbers XP_002183701, XP_002185492, XP_002176181 and XP_002183584 for PGK, PGAM, enolase and PK, respectively). Sequences for these four proteins were also retrieved from the genome of the chlorarachniophyte alga Bigelowiella natans CCMP2275 via the...”
TGME49_273030 phosphoglycerate mutase family protein from Toxoplasma gondii ME49
26% identity, 57% coverage
P50201 Agropine synthesis reductase from Rhizobium rhizogenes
28% identity, 40% coverage
RL0954 putative phosphoglycerate mutase from Rhizobium leguminosarum bv. viciae 3841
36% identity, 43% coverage
WP_010371458 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Weissella cibaria
28% identity, 74% coverage
BCAM2488 putative Phosphoglycerate/bisphosphoglycerate mutase from Burkholderia cenocepacia J2315
23% identity, 76% coverage
lmo0907 similar to phosphoglycerate mutase from Listeria monocytogenes EGD-e
28% identity, 88% coverage
PGAM1_CHICK / Q5ZLN1 Phosphoglycerate mutase 1; BPG-dependent PGAM 1; EC 5.4.2.11; EC 5.4.2.4 from Gallus gallus (Chicken) (see paper)
NP_001026727 phosphoglycerate mutase 1 from Gallus gallus
28% identity, 67% coverage
- function: Catalyzes the interconversion of 2-phosphoglycerate and 3- phosphoglyceratea crucial step in glycolysis, by using 2,3- bisphosphoglycerate. Also catalyzes the interconversion of (2R)-2,3- bisphosphoglycerate and (2R)-3-phospho-glyceroyl phosphate.
catalytic activity: (2R)-2-phosphoglycerate = (2R)-3-phosphoglycerate (RHEA:15901)
catalytic activity: (2R)-3-phospho-glyceroyl phosphate = (2R)-2,3- bisphosphoglycerate + H(+) (RHEA:17765)
subunit: Homodimer. - Oxidative stress activates SIRT2 to deacetylate and stimulate phosphoglycerate mutase
Xu, Cancer research 2014 - “...NCBI reference number: NP_002620.1), mouse ( Mus musculus , NP_0075907), chicken ( Gallus gallus , NP_001026727), frog ( Xenopus laevis , NP_001084996), zebrafish ( Danio rerio , NP_942099.1), fruitfly ( Drosophila melanogaster , AAF56866.2), thale cress ( Arabidopsis thaliana , O04499), budding yeast ( Saccharomyces cerevisiae...”
- Comparative proteomics revealed duodenal metabolic function associated with feed efficiency in slow-growing chicken
Kaewsatuan, Poultry science 2022 - “...VAPA 0.023 0.37 Z4YJB8 Destrin DSTN 0.002 0.56 A0A3Q2UD12 Collagen alpha-3(VI) chain COL6A3 0.007 0.86 Q5ZLN1 Phosphoglycerate mutase 1 PGAM1 0.030 0.38 P00940 Triosephosphate isomerase 1 TPI1 0.045 0.55 A0A1D5P9N7 L-lactate dehydrogenase B chain LDHB 0.043 0.62 P84175 40S ribosomal protein S12 RPS12 0.017 0.51 F1NYE5...”
- Quantitative Proteomic Analysis Reveals Yeast Cell Wall Products Influence the Serum Proteome Composition of Broiler Chickens
Conlon, International journal of molecular sciences 2022 - “...zeta 0.67 14 31.2 Day 21 Q5ZJ54 Phosphoglycerate mutase 1 0.62 9 25.4 Day 35 Q5ZLN1 Tubulin beta-6 chain 0.62 14 38.2 Day 21 P09207 LSM8 homolog, U6 small nuclear RNA associated 0.6 4 55.9 Day 21 E1BZ75 Chaperonin containing TCP1 subunit 2 0.57 11 26.5...”
- A Proteomic View of the Cross-Talk Between Early Intestinal Microbiota and Poultry Immune System
Rodrigues, Frontiers in physiology 2020 - “...0.063 P26990 ARF6 ADP ribosylation factor 6 2.400 0.063 P47807 MYO1A Myosin IA 1.600 0.066 Q5ZLN1 PGAM1 Phosphoglycerate mutase 1 1.420 0.068 Q5ZHX7 CYB5R2 Cytochrome b5 reductase 2 2.500 0.072 Q5ZLR5 UQCRFS1 Ubiquinol-cytochrome c reductase, Rieske ironsulfur polypeptide 1 1.400 0.074 P17790 BSG Basigin (Ok blood...”
- “...UQCRFS1 Ubiquinol-cytochrome c reductase, Rieske iron-sulfur polypeptide 1 1.600 0.044 P27731 TTR Transthyretin 1.800 0.049 Q5ZLN1 PGAM1 Phosphoglycerate mutase 1 1.420 0.050 P23228 HMGCS1 3-Hydroxy-3-methylglutaryl-CoA synthase 1 3.300 0.051 P08106 HSPA2 Heat shock protein family A (Hsp70) member 2 1.420 0.051 Q5ZK33 LETM1 Leucine zipper and...”
- Analysis of differentially expressed proteins in Muscovy duck embryo fibroblasts infected with virulent and attenuated Muscovy duck reovirus by two-dimensional polyacrylamide gel electrophoresis.
Huang, The Journal of veterinary medical science 2017 - “...1 0.64 8.34 0.069 5.73E-08 Q9Z0V6 Thioredoxin-dependent peroxide reductase 20.1 4 0.79 0.91 0.19 0.76 Q5ZLN1 Phosphoglycerate mutase 1 43.6 6 2.83 7.16 0.042 6.50E-08 Q90593 78 kDa glucose-regulated protein 73.2 29 0.29 1.41 9.10E-12 0.27 P00940 Triosephosphate isomerase 62.8 13 1.03 1.19 0.93 0.59 Q90635...”
- Differential Proteome Analysis of Breast and Thigh Muscles between Korean Native Chickens and Commercial Broilers.
De, Asian-Australasian journal of animal sciences 2012 - “...54 6.1 20.68 TU2301 1.31 NP_001019999 DNMT3B DNA methyltransferase 3B 22 7.3 96.45 TU2369 1.42 Q5ZLN1 RCJMB04_5g20 Phosphoglycerate mutase 1 57 7.0 29.09 TU2822 1.54 P12620-3 TNNT3 Isoform TNT-2 of Troponin T, fast skeletal muscle isoforms 47 8.6 30.41 TU2829 1.26 XP_414589 MYOZ3 hypothetical protein 50...”
Lreu_0146 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Limosilactobacillus reuteri subsp. reuteri
Lreu_0146 phosphoglycerate mutase from Lactobacillus reuteri DSM 20016
28% identity, 76% coverage
TWT655 phosphoglycerate mutase from Tropheryma whipplei str. Twist
28% identity, 71% coverage
LLNZ_01860 phosphoglycerate mutase from Lactococcus cremoris subsp. cremoris NZ9000
LACR_0382 Phosphoglycerate mutase 1 from Lactococcus lactis subsp. cremoris SK11
26% identity, 75% coverage
PGAM2_MOUSE / O70250 Phosphoglycerate mutase 2; BPG-dependent PGAM 2; Muscle-specific phosphoglycerate mutase; Phosphoglycerate mutase isozyme M; PGAM-M; EC 5.4.2.11; EC 5.4.2.4 from Mus musculus (Mouse) (see 2 papers)
O70250 phosphoglycerate mutase (2,3-diphosphoglycerate-dependent) (EC 5.4.2.11) from Mus musculus (see paper)
NP_061358 phosphoglycerate mutase 2 from Mus musculus
29% identity, 64% coverage
- function: Interconversion of 3- and 2-phosphoglycerate with 2,3- bisphosphoglycerate as the primer of the reaction. Can also catalyze the reaction of EC 5.4.2.4 (synthase), but with a reduced activity
catalytic activity: (2R)-2-phosphoglycerate = (2R)-3-phosphoglycerate (RHEA:15901)
catalytic activity: (2R)-3-phospho-glyceroyl phosphate = (2R)-2,3- bisphosphoglycerate + H(+) (RHEA:17765)
subunit: Homodimer (By similarity). Interacts with ENO1 (PubMed:23446454). - Characterization of genetically modified mice for phosphoglycerate mutase, a vitally-essential enzyme in glycolysis.
Mikawa, PloS one 2021 - GeneRIF: Characterization of genetically modified mice for phosphoglycerate mutase, a vitally-essential enzyme in glycolysis.
- Persistent overexpression of phosphoglycerate mutase, a glycolytic enzyme, modifies energy metabolism and reduces stress resistance of heart in mice.
Okuda, PloS one 2013 - GeneRIF: Persistent overexpression of phosphoglycerate mutase, a glycolytic enzyme, modifies energy metabolism and reduces stress resistance of heart in mice.
- Changes in protein fluxes in skeletal muscle during sequential stages of muscle regeneration after acute injury in male mice.
Bizieff, Scientific reports 2024 - “...12.1626.198% 11.1812.325%* 2.8170.330% 45 Alpha-actinin-3 O88990 Myofibril 6.1045.176% 18.83416.162% 9.6702.019%* 3.3170.560% 46 Phosphoglycerate mutase 2 O70250 Glycolysis 1.8630.543% 12.2365.528%* 9.8973.362%* 2.1990.390% 47 Cytochrome b-c1 complex subunit 7 Q9D855 OxPhos 5.994.283% 14.07110.397% 9.1804.145% 3.2080.168% 48 ATP synthase subunit O Q9DB20 OxPhos 0.9330.428% 12.0586.922% 8.4081.559%* 1.9381.097% 49 ATP...”
- Systemic Immunomodulatory Effects of Codonopsis pilosula Glucofructan on S180 Solid-Tumor-Bearing Mice.
Fan, International journal of molecular sciences 2023 - “...P48036 Annexin A5 35,787 4.83 Downregulation 7 P16015 Carbonic anhydrase 3 29,633 6.89 Upregulation 8 O70250 Phosphoglycerate mutase 2 28,980 8.65 Downregulation 9 Q62422 Osteoclast-stimulating factor 1 23,996 5.46 Upregulation 10 Q9R0Q7 Prostaglandin E synthase 3 18,995 4.36 Downregulation 11 Q60605 Myosin light polypeptide 16,930 4.40...”
- Pien Tze Huang regulates phosphorylation of metabolic enzymes in mice of hepatocellular carcinoma.
Lin, Scientific reports 2023 - “...Q9DBJ1 Glucagon signaling pathway Glycolysis/gluconeogenesis Phosphoglycerate mutase 1 (PGAM1) 1.23* 0.82 0.90 0.67 1.37** 1.23 O70250 Phosphoglycerate mutase 2 (PGAM2) 0.56 0.82 1.18 0.84 0.48** 0.82 Q9D051 Pyruvate dehydrogenase E1 (PDHB) 0.80 0.41 1.15 1.40 0.70 0.41* P06151 L-lactate dehydrogenase A chain (LDHA) 0.82 0.87 1.05...”
- “...PZH versus sora TMT Phospho proteomics PRM TMT Phospho proteomics PRM TMT Phospho proteomics PRM O70250 Glucagon signaling pathway Glycolysis/gluconeogenesis Phosphoglycerate mutase 2 (PGAM2) \ \ \ \ \ \ Peptide (residues 129139) : HGE S LWNQENR 0.68# 0.63** 0.88* 0.79* 0.64** 0.80# Peptide (residues 1220)...”
- Schistosoma mansoni phosphoglycerate mutase: a glycolytic ectoenzyme with thrombolytic potential
Pirovich, Parasite (Paris, France) 2022 - “...) and PGAM2 ( P15259 ), Mus musculus PGAM1 ( Q9DBJ1 ) and PGAM2 ( O70250 ), Drosophila melanogaster ( Q9VAN7 ), Escherichia coli 2,3-bisphosphoglycerate-dependent PGM ( P62707 ) and 2,3-bisphosphoglycerate-independent PGM ( P37689 ), Clonorchis sinensis ( AAX29976.1 ), Fasciola hepatica ( THD19385.1 ), Caenorhabditis...”
- A Study on MDA5 Signaling in Splenic B Cells from an Imiquimod-Induced Lupus Mouse Model with Proteomics
Su, Cells 2022 - “...ALAD 2-5-oligoadenylate synthase 3 3.66 0.00 cytosol P11928 OAS1A 2-5-oligoadenylate synthase 1A 3.42 0.02 cytosol O70250 PGAM2 Phosphoglycerate mutase 2 3.12 0.04 cytosol Q6NSU3 GLT8D1 Glycosyltransferase 8 domain-containing protein 1 2.86 0.02 cytosol F8WIG5 DIAPH3 Protein diaphanous homolog 3 2.83 0.03 cytosol A0A075B5R7 IGHV14-2 Immunoglobulin heavy...”
- Hippocampal Proteomic Analysis in Male Mice Following Aggressive Behavior Induced by Long-Term Administration of Perampanel
Yang, ACS omega 2022 - “...= Mzt2 9 1 0.914477964 0.046210189 Q9CQM0 nicolin-1, GN = Nicn1 4 1 0.90052069 0.001735753 O70250 phosphoglycerate mutase 2, GN = Pgam2 34 5 0.899310792 0.04662173 Q61838 pregnancy zone protein, GN = Pzp 20 30 0.893129596 0.008922305 Q8K013 GTP-binding protein 10, GN = Gtpbp10 2 1...”
- A proteome signature for acute incisional pain in dorsal root ganglia of mice.
Pogatzki-Zahn, Pain 2021 - “...muscle isoform P04247 Mb 0.949 12 0.0004906 Myoglobin P32848 Pvalb 0.500 18 0.0006162 Parvalbumin alpha O70250 Pgam2 0.462 16 0.0009156 Phosphoglycerate mutase 2 P06151 Ldha 0.207 28 0.0012775 L-lactate dehydrogenase A chain P16015 Ca3 0.650 15 0.0015511 Carbonic anhydrase 3 P97457 Mylpf 1.472 5 0.0015511 Myosin...”
- Identification of biomarkers of brown adipose tissue aging highlights the role of dysfunctional energy and nucleotide metabolism pathways.
Mancini, Scientific reports 2021 - “...(Q91V92) Acly NM_134037 0.96 Isocitrate Dehydrogenase 1 (O88844) Idh1 NM_001111320 0.84 Glycolysis Phosphoglycerate Mutase 2 (O70250) Pgam2 NM_018870 4.12 Hexokinase 1 (G3UVV4) Hk1 NM_001146100 2.98 Amino acid metabolism Branched Chain Keto Acid Dehydrogenase E1 Subunit Alpha (Q3U3J1) Bckdha NM_007533.5 0.89 Branched Chain Amino Acid Transaminase 2...”
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G1U7S4 Phosphoglycerate mutase from Oryctolagus cuniculus
28% identity, 64% coverage
M3WYZ8 Phosphoglycerate mutase from Felis catus
28% identity, 64% coverage
- Serum proteomics analysis of feline mammary carcinoma based on label-free and PRM techniques
Zheng, Journal of veterinary science 2020 - “...M3WFT4 HSPA5 0.254585428 0.003848397 1 M3WG98 FETUB 0.338539837 0.000413087 1 M3WKC7 F10 0.589201352 0.001317432 1 M3WYZ8 PGAM2 0.444775417 0.022068764 1 M3WN61 ITIH4 0.598273187 0.002881156 1 M3WN87 APOA2 0.154237646 1.31441E-05 1 M3WNX1 APOC2 0.265080498 0.001790853 1 M3WZC2 0.119091719 0.000846624 1 M3X116 MAN2B1 0.294465392 0.008850929 1 M3X6U7 0.563686709...”
LMOf2365_2238 phosphoglycerate mutase from Listeria monocytogenes str. 4b F2365
Q71XG0 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Listeria monocytogenes serotype 4b (strain F2365)
25% identity, 75% coverage
ABO_1769 Phosphoglycerate mutase from Alcanivorax borkumensis SK2
28% identity, 67% coverage
3gp5A / Q3JWH7 Crystal structure of phosphoglyceromutase from burkholderia pseudomallei with 3-phosphoglyceric acid and vanadate (see paper)
27% identity, 71% coverage
- Ligand: vanadate ion (3gp5A)
GPMA_BURP1 / Q3JWH7 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase; BPG-dependent PGAM; PGAM; Phosphoglyceromutase; dPGM; EC 5.4.2.11 from Burkholderia pseudomallei (strain 1710b) (see paper)
Q3JWH7 phosphoglycerate mutase (2,3-diphosphoglycerate-dependent) (EC 5.4.2.11) from Burkholderia pseudomallei (see paper)
YP_332076 phosphoglycerate mutase from Burkholderia pseudomallei 1710b
27% identity, 71% coverage
- function: Catalyzes the interconversion of 2-phosphoglycerate and 3- phosphoglycerate.
catalytic activity: (2R)-2-phosphoglycerate = (2R)-3-phosphoglycerate (RHEA:15901)
subunit: Homodimer. - An ensemble of structures of Burkholderia pseudomallei 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase
Davies, Acta crystallographica. Section F, Structural biology and crystallization communications 2011 - “...to date. 2. Methods 2.1. Protein expression and purification Full-length 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase (accession ID YP_332076) was amplified from purified B.pseudomallei strain 1710b genomic DNA (kindly provided by Rajinder Kaul, University of Washington) using the following primer sequences: FWD primer 5-CTCACCACCACCACCACCATATGTACAAGCTCGTTCTCATCCG-3 and REV primer 5-ATCCTATCTTACTCACTTATGCCGCGGACTTGCCCTGCT-3 (Invitrogen)....”
NCDO2118_0399 phosphoglycerate mutase from Lactococcus lactis subsp. lactis NCDO 2118
26% identity, 75% coverage
MT3310 phosphoglycerate mutase family protein from Mycobacterium tuberculosis CDC1551
30% identity, 65% coverage
SUGPH_MYCTU / Q6MWZ7 Acid phosphatase; Broad-specificity phosphatase; Fructose-1,6-bisphosphatase; FBPase; EC 3.1.3.2; EC 3.1.3.11 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see 2 papers)
Rv3214 POSSIBLE PHOSPHOGLYCERATE MUTASE GPM2 (PHOSPHOGLYCEROMUTASE) (PGAM) (BPG-DEPENDENT PGAM) from Mycobacterium tuberculosis H37Rv
BCG_3241 putative phosphoglycerate mutase gpm2 from Mycobacterium bovis BCG str. Pasteur 1173P2
BCG_3334 putative phosphoglycerate mutase gpm2 from Mycobacterium bovis BCG str. Pasteur 1173P2
Mb3240 POSSIBLE PHOSPHOGLYCERATE MUTASE GPM2 (PHOSPHOGLYCEROMUTASE) (PGAM) (BPG-DEPENDENT PGAM) from Mycobacterium bovis AF2122/97
YP_177944 phosphoglycerate mutase from Mycobacterium tuberculosis H37Rv
29% identity, 76% coverage
- function: Phosphatase with a broad specificity. Can dephosphorylate a variety of substrates including phosphorylated sugars like fructose-6- phosphate (F6P) (PubMed:16672613). Is able to function in vivo as a fructose-1,6-bisphosphatase (FBPase) and to maintain gluconeogenesis when the classical FBPase GlpX is absent (PubMed:26258286). Shows negligible phosphoglycerate mutase activity (PubMed:16672613). Has no phosphatase activity against 3-phosphoglycerate, 2,3- bisphosphoglycerate, or hydrophobic substrates such as alpha-napthyl phosphate (PubMed:16672613).
catalytic activity: a phosphate monoester + H2O = an alcohol + phosphate (RHEA:15017)
catalytic activity: beta-D-fructose 1,6-bisphosphate + H2O = beta-D-fructose 6- phosphate + phosphate (RHEA:11064)
subunit: Homodimer.
disruption phenotype: Cells lacking both glpX and gpm2 grow as well as wild-type on glucose, but are unable to grow on any of the gluconeogenic carbon sources tested (glycerol, acetate and butyrate); the growth defect on gluconeogenic carbon sources is fully complemented by restoring expression of either GlpX or Gpm2. This double mutant lacks detectable FBPase activity and accumulates FBP. It is also severely attenuated in a mouse model of infection, as it fails to replicate in mouse lungs during the first 10 days of infection and begins to die thereafter. - Phosphofructokinases A and B from Mycobacterium tuberculosis Display Different Catalytic Properties and Allosteric Regulation
Snášel, International journal of molecular sciences 2021 - “...fructose-1,6-bisphosphatase (FBPase, glpX ) [ 13 ]. In Mtb, an additional broad-specificity fructose bisphosphatase, GPM2 (Rv3214), that catalyzes the same reaction, has been identified. Both Mtb FBPase and GPM2 appear to be involved in gluconeogenesis, as deletion of both genes is required to disrupt the pathway...”
- The FBPase Encoding Gene glpX Is Required for Gluconeogenesis, Bacterial Proliferation and Division In Vivo of Mycobacterium marinum
Tong, PloS one 2016 - “...essential for both proliferation and virulence of Mtb [ 18 ]. In addition, gene gpm2 (Rv3214) was identified as a novel FBPase [ 19 ], and the gluconeogenesis and virulence were seriously affected by the disruption of both gpm2 and glpX . The importance of glpX...”
- “...demonstrated essential for proliferation and virulence of Mtb [ 18 ], and another gene gpm2 (Rv3214) was identified to encode a novel functional FBPase [ 19 ]. Notably, MMAR_1343 which is annotated as a homologous gene to Rv3214 in M . marinum , exhibited a higher...”
- Two enzymes with redundant fructose bisphosphatase activity sustain gluconeogenesis and virulence in Mycobacterium tuberculosis
Ganapathy, Nature communications 2015 - “...has detectable FBPase activity. We demonstrate that the Mtb genome encodes an alternative FBPase (GPM2, Rv3214) that can maintain gluconeogenesis in the absence of GLPX. Consequently, deletion of both GLPX and GPM2 is required for disruption of gluconeogenesis and attenuation of Mtb in a mouse model...”
- “...( Fig. 3c ). Peptide mass fingerprinting identified the protein in this band as GPM2 (Rv3214, molecular weight=21.95kDa, 66.5% coverage, eight peptides, Supplementary Table 2 ), which has been reported to function as an acid phosphatase 26 . GPM2 can dephosphorylate a variety of substrates including...”
- High throughput screen identifies small molecule inhibitors specific for Mycobacterium tuberculosis phosphoserine phosphatase
Arora, The Journal of biological chemistry 2014 - “...MMAR_1715 ML1692 MUL_1952 MAF_30010 MSMEG_2378, MSMEI_2318 Rv3214 BCG_3241, BCG_3334 MMAR_1343 Rv0489 BCG_0530 MMAR_0814, MMAR_3747 ML2441c MUL_3691 MAF_04930...”
- Functional characterization of two members of histidine phosphatase superfamily in Mycobacterium tuberculosis
Coker, BMC microbiology 2013 - “...Functions of Bacillusap, Cryparpgm and Rv3837c were predicted with bioinformatics while E.colidpgM, Rv0489, PhoE, Rv2419c, Rv3214 and YDR051pgm have been experimentally characterized. Cloning and expression of C-His-Rv2135c and C-His-Rv0489 Rv2135c and Rv0489 genes of M. tuberculosis were successfully cloned with 6 histidine codons tagged at the...”
- “...with no significant change in activity. Discussion In addition to Rv2419c [ 17 ] and Rv3214 [ 3 ] characterized recently, we have presented the study of a new mycobacterial phosphatase belonging to the histidine phosphatase superfamily. We report the first cloning, expression and characterization of...”
- Mycobacterium tuberculosis Rv2419c, the missing glucosyl-3-phosphoglycerate phosphatase for the second step in methylglucose lipopolysaccharide biosynthesis
Mendes, Scientific reports 2011 - “...were identified ( Table 2 ); the C-terminal domain of Rv2228c (43% amino acid identity), Rv3214 (33%), Rv3837c (32%), Rv0525 (32%) and Rv0489 (30%), all contained the distinctive RHG motif of the histidine phosphatase superfamily 24 25 26 and some have assigned putative PGM functions. However,...”
- “...to Rv0489 and to Rv2419c and all share the RHG motif. One of these paralogs, Rv3214, was annotated as a putative PGM but has recently been shown to be an acid phosphatase without PGM activity, although the specific substrate has not been identified 25 . While...”
- Structural and functional characterization of an RNase HI domain from the bifunctional protein Rv2228c from Mycobacterium tuberculosis
Watkins, Journal of bacteriology 2010 - “...with PhoE from Bacillus subtilis (34% identity) and Rv3214 from M. tuberculosis (28% identity), both of which have acid phosphatase activity (39, 46)....”
- “...Baker. 2006. Structural and functional analysis of Rv3214 from Mycobacterium tuberculosis, a protein with conflicting functional annotations, leads to its...”
- Structure and activity of the metal-independent fructose-1,6-bisphosphatase YK23 from Saccharomyces cerevisiae
Kuznetsova, The Journal of biological chemistry 2010 - “...with the top five matches including the phosphatase Rv3214 from M. tuberculosis (2a6p; Z-score 23.7; r.m.s. deviation 1.9 A), the phosphoglyceromutase GpmA from...”
- “...(1rii; Z-score 19.5; r.m.s. deviation 2.6 A). Although Rv3214 and PhoE were designated as broad specificity phosphatases (55, 61), Rv3214 showed low activity...”
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- High throughput screen identifies small molecule inhibitors specific for Mycobacterium tuberculosis phosphoserine phosphatase
Arora, The Journal of biological chemistry 2014 - “...ML1692 MUL_1952 MAF_30010 MSMEG_2378, MSMEI_2318 Rv3214 BCG_3241, BCG_3334 MMAR_1343 Rv0489 BCG_0530 MMAR_0814, MMAR_3747 ML2441c MUL_3691 MAF_04930 MSMEG_0935,...”
- High throughput screen identifies small molecule inhibitors specific for Mycobacterium tuberculosis phosphoserine phosphatase
Arora, The Journal of biological chemistry 2014 - “...MAF_30010 MSMEG_2378, MSMEI_2318 Rv3214 BCG_3241, BCG_3334 MMAR_1343 Rv0489 BCG_0530 MMAR_0814, MMAR_3747 ML2441c MUL_3691 MAF_04930 MSMEG_0935, MSMEI_0912...”
- Genomic analysis of a Mycobacterium bovis bacillus [corrected] Calmette-Guérin strain isolated from an adult patient with pulmonary tuberculosis.
Li, PloS one 2015 - “...protein Mb3266c Mb3238 hypothetical protein BCG_1955c PPE family protein Mb3239c SOJ/PARA-like protein BCG_2407 hypothetical protein Mb3240 acid phosphatase BCG_3228 hypothetical protein Mb3241 isochorismate synthase BCG_3354c L-lysine-epsilon aminotransferase lat' Mb3242 acetyltransferase Mb1951c malto-oligosyltrehalose synthase Mb3243c hypothetical protein Mb2572 lipoprotein LppA Mb3244 hypothetical protein Mb2573 lipoprotein LprR Mb3245...”
- Two enzymes with redundant fructose bisphosphatase activity sustain gluconeogenesis and virulence in Mycobacterium tuberculosis.
Ganapathy, Nature communications 2015 - GeneRIF: alternative fructose bisphosphatase that can maintain gluconeogenesis in the absence of GLPX
UMAG_02407 thymidylate synthase from Ustilago maydis 521
26% identity, 32% coverage
P16290 Phosphoglycerate mutase 2 from Rattus norvegicus
28% identity, 64% coverage
- Seminal plasma S100A8/A9 as a potential biomarker of genital tract inflammation
Shen, Asian journal of andrology 2024 - “...Down 0.000003175 --- P14141 Carbonic anhydrase 3 OS=Rattus norvegicus OX=10116 GN=Ca3 1.55 Up 0.000096657 Ca3 P16290 Phosphoglycerate mutase 2 OS=Rattus norvegicus OX=10116 GN=Pgam2 0.513 Down 0.00112155 Pgam2 P20760 Ig gamma-2A chain C region OS=Rattus norvegicus OX=10116 GN=Igg-2a 1.614 Up 0.000159865 Igg-2a P20767 Ig lambda-2 chain C...”
- Local glycolysis fuels actomyosin contraction during axonal retraction
Santos, The Journal of cell biology 2023 - “...1 P16617 39.81 84.60 PGAM1 Phosphoglycerate mutase 1 P25113 33.46 100 PGAM2 Phosphoglycerate mutase 2 P16290 8.30 100 ENO1 Enolase P04764 34.56 7.82 PKM Pyruvate kinase P11980 38.04 59.99 a (NMII area GFP area)/NMII area. Figure 5. Glycolytic enzymes dynamically associate with actomyosin during axonal retraction....”
- Role of Glycolysis/Gluconeogenesis and HIF-1 Signaling Pathways in Rats with Dental Fluorosis Integrated Proteomics and Metabolomics Analysis.
Ba, International journal of molecular sciences 2022 - “...8 1.50 Pgam1 Phosphoglycerate mutase 1 P25113 6.13 10 7 1.48 Pgam2 Phosphoglycerate mutase 2 P16290 2.20 10 9 1.43 Eno3 Beta-enolase P15429 1.35 10 7 1.40 Tpi1 Triosephosphate isomerase P48500 2.95 10 4 1.29 Aldoa Fructose-bisphosphate aldolase A P05065 3.32 10 11 0.69 Tfrc transferrin...”
- Intestinal changes associated with fluoride exposure in rats: Integrative morphological, proteomic and microbiome analyses
Dionizio, Chemosphere 2021 - “...AMPK subunit alpha-1 (P54645), AMPK subunit beta-1 (P80386), Tumor necrosis factor (P16599), Phosphoglycerate mutase 2 (P16290), Calciumactivated potassium channel subunit alpha-1 (Q62976) and Dynein light chain 1 , cytoplasmic (P63170), Polyubiquitin-6 (Q63429) ( Fig. 2A ) or GLUT4 (P19357), MAPK3 (P21708), Dystrophin (P11530), Calcium/calmodulin-dependent protein kinase...”
- Identification of differentially expressed proteins involved in fetal scarless wound healing using a rat model of cleft lip.
Yan, Molecular medicine reports 2021 - “...0.427 P51868 Casq2 Calsequestrin-2 precursor 0.008 0.425 B4F789 Apobec2 Probable C->U-editing enzyme APOBEC-2 0.008 0.421 P16290 Pgam2 Phosphoglycerate mutase 2 0.014 0.418 Q9Z2J4 Nexn Nexilin 0.002 0.412 Q9QYU4 Crym Thiomorpholine-carboxylate dehydrogenase 0.017 0.411 D3ZUQ0 Rilpl1 RILP-like protein 1 0.006 0.409 D4A2H6 Rbfox3 Fox-1 homolog C 0.037...”
- Long-Term Lead Exposure Since Adolescence Causes Proteomic and Morphological Alterations in the Cerebellum Associated with Motor Deficits in Adult Rats
Leão, International journal of molecular sciences 2020 - “...synthase, mitochondrial (Q8VHF5), Glyceraldehyde-3-phosphate dehydrogenase (P04797), Alpha-enolase (P04764), Hippocalcin-like protein 1 (P62749), Phosphoglycerate mutase 2 (P16290), Creatine kinase B-type (P07335), Aconitate hydratase, mitochondrial (Q9ER34), Microtubule-associated protein 1B (P15205), Tubulin beta-2B chain (Q3KRE8), Ataxin-3 (O35815), Microtubule-associated protein 1A (P34926), Microtubule-associated proteins 1A/1B light chain 3A (Q6XVN8), Ras-related...”
- Striated muscle-specific serine/threonine-protein kinase beta segregates with high versus low responsiveness to endurance exercise training
Kusić, Physiological genomics 2020 (secret) - Inflammation and apoptosis accelerate progression to irreversible atrophy in denervated intrinsic muscles of the hand compared with biceps: proteomic analysis of a rat model of obstetric brachial plexus palsy.
Yu, Neural regeneration research 2020 - “...Q9Z1N1, B1WBN9, P49432, E9PTV9, Q6P6R2, P08461, P27881, P09117, P16617, P42123, P48500, Q6P6G4, Q6P6V0, Q499Q4, M0R660, P16290, P15429, P11980, Q52KS1, P05065 < 0.001 Calcium signaling 29 G3V6Q6 * , D3ZH00 * , P15791 * , Q09073 * , P29117, P68182, D3ZB81, A0A0G2K5J1, P84903, A0A0G2JSR0, F1LMY4, Q4PP99, P13286,...”
- “...3 weeks Glycolysis / Gluconeogenesis 22 P11884 * , P07323, E9PTV9, P16617, P04642, P48500, P11980, P16290, P15429, Q52KS1, Q6P6V0, A0A0G2K7M1, E9PTN6, M0R660, Q9Z1N1, P05065, Q6P6R2, P08461, D3ZZN3, F7FKI5, P49432, A0A0G2JZH8 < 0.001 Pyruvate metabolism 17 P11884 * , B0BN46, P04642, P11980, P35745, P14408, A0A0G2K4C6, Q6P6R2, P04636,...”
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LSA0803 Phosphoglycerate mutase from Lactobacillus sakei subsp. sakei 23K
26% identity, 77% coverage
- Global transcriptome response in Lactobacillus sakei during growth on ribose
McLeod, BMC microbiology 2011 - “...Phosphoglycerate mutase -0.7 -0.8 -0.9 LSA0609* gloAC Lactoylglutathione lyase (C-terminal fragment), authentic frameshift 1.1 0.7 LSA0803 gpm4 Phosphoglycerate mutase 0.5 0.5 LSA1033 pfk 6-phosphofructokinase -0.6 -1.1 -0.5 LSA1157 mgsA Methylglyoxal synthase 2.3 1.4 1.7 LSA1179 pgi Glucose-6-phosphate isomerase 0.5 LSA1527 fba Fructose-bisphosphate aldolase -1.0 -0.7 -1.1...”
SPD_0222 phosphoglycerate mutase family protein from Streptococcus pneumoniae D39
27% identity, 72% coverage
- The five homologous CiaR-controlled Ccn sRNAs of Streptococcus pneumoniae modulate Zn-resistance
De, PLoS pathogens 2024 - “...protein 3.55 2.80 SPD_0090 galactose ABC transport protein 2.09 2.00 SPD_0104 aggregation-promoting factor 2.69 2.27 SPD_0222 gpmB1 phosphoglycerate mutase family protein 25.0 22.9 SPD_0243 uppS undecaprenyl diphosphate synthase 5.97 4.42 SPD_0244 cdsA phosphatidate cytidylyltransferase 5.50 4.49 SPD_0245 eep intramembrane protease 5.57 4.19 SPD_0246 proS prolyl-tRNA synthetase...”
- “...pavB cell wall surface anchor family protein 6.69 6.32 SPD_0163 DNA binding protein 2.00 2.07 SPD_0222 gpmB1 phosphoglycerate mutase family protein 25.0 21.7 SPD_0243 uppS undecaprenyl diphosphate synthase 5.97 7.61 SPD_0244 cdsA phosphatidate cytidylyltransferase 5.50 7.77 SPD_0245 eep intramembrane protease 5.57 8.59 SPD_0246 proS prolyl-tRNA synthetase...”
- Pivotal Roles for Ribonucleases in Streptococcus pneumoniae Pathogenesis
Sinha, mBio 2021 - “...a sRNA ID Flanking genes Fold change P adj Increased relative expression CcnE spd_0221 , spd_0222 2.05 2.87E09 CcnA spd_0240 , ruvB 1.86 3.56E03 SPD_SR32 b spd_0490 , spd_0491 3.77 4.24E18 SPD_SR33 spd_0500 , licT 14.8 9.22E41 SPD_SR12 b ppC , spd_0954 15.2 3.46E02 SPD_SR107 malP...”
- S1 Domain RNA-Binding Protein CvfD Is a New Posttranscriptional Regulator That Mediates Cold Sensitivity, Phosphate Transport, and Virulence in Streptococcus pneumoniae D39
Sinha, Journal of bacteriology 2020 (secret) - Redefining the Small Regulatory RNA Transcriptome in Streptococcus pneumoniae Serotype 2 Strain D39
Sinha, Journal of bacteriology 2019 - “...spd_0143, spd_0144 spd_0160, spd_0161 ruvA, ribD spd_0221, spd_0222 spd_0240, ruvB spd_0240, ruvB spd_0240, ruvB ruvB, spd_0240 spd_0242, uppS spd_0266,...”
SP_0240 phosphoglycerate mutase family protein from Streptococcus pneumoniae TIGR4
27% identity, 72% coverage
OG1RF_10217 histidine phosphatase family protein from Enterococcus faecalis OG1RF
28% identity, 72% coverage
- ClpP participates in stress tolerance, biofilm formation, antimicrobial tolerance, and virulence of Enterococcus faecalis
Zheng, BMC microbiology 2020 - “...lipase/acylhydrolase 1.247 AEA93429.1 ( OG1RF_10742 ) DEAD/DEAH box family ATP-dependent RNA helicase 1.243 AEA92904.1 ( OG1RF_10217 ) phosphoglycerate mutase 1.241 AEA93066.1 ( OG1RF_10379 ) phage integrase family site-specific recombinase 1.238 AEA94914.1 ( OG1RF_12227 ) HAD superfamily hydrolase 1.237 AEA95081.1 ( OG1RF_12394 ) YicC like protein 1.236...”
- Comprehensive Functional Analysis of the Enterococcus faecalis Core Genome Using an Ordered, Sequence-Defined Collection of Insertional Mutations in Strain OG1RF
Dale, mSystems 2018 - “...of Tn insertions in single genes, a region of the chromosome spanning genes OG1RF_10198 to OG1RF_10217 was examined in detail ( Fig.4 ). This region contains a variety of genomic features, including known genes, hypothetical genes, intergenic regions, one of four rRNA operons in OG1RF, and...”
- “...insertions (dots) mapped to the genomic region from OG1RF_10198 ( aldA , aldehyde dehydrogenase) through OG1RF_10217 (phosphoglycerate mutase). The y axis indicates the chromosome position. Each rectangle spanning the x axis represents a different genomic feature (characterized protein-encoding genes [orange], hypothetical genes [green], intergenic regions [white],...”
spr0219 Phosphoglycerate mutase 2 paralog from Streptococcus pneumoniae R6
27% identity, 66% coverage
Q8Y2I3 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Ralstonia nicotianae (strain ATCC BAA-1114 / GMI1000)
25% identity, 71% coverage
SYNW0746 putative phosphoglycerate mutase family protein from Synechococcus sp. WH 8102
23% identity, 93% coverage
- Computational prediction of the osmoregulation network in Synechococcus sp. WH8102
Mao, BMC genomics 2010 - “...(SYNW0808), ProVWX (SYNW1916-1918), and KtrBA (SYNW2168-2169) already in our initial network are identified again. SYNW0689, SYNW0746, SYNW0853, SYNW1282, SYNW1526-1527, and SYNW1530-1531 are added since they have very similar phylogenetic profiles with those of GgtCDA (SYNW1283-1285). We believe that they may be candidates for GgtB (b0529) of...”
Q6AAU8 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Cutibacterium acnes (strain DSM 16379 / KPA171202)
27% identity, 69% coverage
B1745_06170 histidine phosphatase family protein from Lactobacillus amylolyticus
28% identity, 72% coverage
- Adaptive mechanism of Lactobacillus amylolyticus L6 in soymilk environment based on metabolism of nutrients and related gene-expression profiles
Fei, Food science & nutrition 2022 - “...1.93 B1745_03820 gyaR hypothetical protein 1.80 B1745_03825 spp sugarphosphatase 1.69 B1745_01805 zwf glucose6phosphate dehydrogenase 1.62 B1745_06170 gpmB histidine phosphatase family protein 1.58 B1745_07215 transcriptional regulator 1.44 B1745_02045 dacC DalanylDalanine carboxypeptidase 1.44 B1745_02005 bcrC phospholipid phosphatase 1.44 B1745_03140 fumC class II fumarate hydratase 1.43 B1745_04590 murB UDP...”
- “...glutaminefructose6phosphate transaminase (isomerizing) 2.34 B1745_04615 spp HAD family hydrolase 1.91 B1745_04860 pgl 3carboxymuconate cyclase 1.30 B1745_06170 gpmB histidine phosphatase family protein 1.26 B1745_04485 spp sugarphosphatase 1.20 B1745_06775 nplT alphaglycosidase 1.14 Amino acid transport and metabolism B1745_04550 glmS glutaminefructose6phosphate transaminase (isomerizing) 2.34 B1745_00615 adaB cysteine methyltransferase 2.00...”
NP_956485 fructose-2,6-bisphosphatase TIGAR B from Danio rerio
27% identity, 60% coverage
LOC111359970 phosphoglycerate mutase 1 from Spodoptera litura
26% identity, 63% coverage
A3CLS0 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Streptococcus sanguinis (strain SK36)
SSA_0688 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase, putative from Streptococcus sanguinis SK36
26% identity, 76% coverage
- Environmental influences on Streptococcus sanguinis membrane vesicle biogenesis
Helliwell, The ISME journal 2023 - “...SSA_0176 SSA_0453 A3CK77 SSA_0120 A3CKL7 A3CMA7 SSA_0886 A3CLV0 A3CLS0 SSA_0688 SSA_0263 A3CQ08 SSA_1882 SSA_0721 Accession Ensembl Gene ID Table 3. List of...”
- Environmental influences on Streptococcus sanguinis membrane vesicle biogenesis
Helliwell, The ISME journal 2023 - “...log2FC Pg + SK36/ SK36 1437 (enolase, SSA_0886; GpmA, SSA_0688, Pfk, SSA_0847, and Pgk, SSA_0302). The full list of these proteins is in Table 3, and labeled...”
- “...SSA_0453 A3CK77 SSA_0120 A3CKL7 A3CMA7 SSA_0886 A3CLV0 A3CLS0 SSA_0688 SSA_0263 A3CQ08 SSA_1882 SSA_0721 Accession Ensembl Gene ID Table 3. List of predicted...”
- Analysis of essential gene dynamics under antibiotic stress in Streptococcus sanguinis
El-Rami, Microbiology (Reading, England) 2018 - “...SSA_0302) was observed, with the remaining three enzymes leading to pyruvate production being transcriptionally down-regulated (SSA_0688, SSA_0886, SSA_0848) across all three time points ( Fig. 6a ). However, proteomic findings revealed down-regulation of eight glycolytic enzymes across all time points, except for SSA_0688 which showed a...”
- Involvement of signal peptidase I in Streptococcus sanguinis biofilm formation
Aynapudi, Microbiology (Reading, England) 2017 - “...21.1 DNA-directed RNA polymerase subunit beta No SSA_1062 5.75 11.69 50S ribosomal protein L27 No SSA_0688 5.77 32.78 2,3-bisphosphoglycerate-dep phosphoglycerate mutase No SSA_0859 7.75 62.77 Triosephosphate isomerase No SSA_0813 9.7 11.04 Thioredoxin reductase No SSA_0772 9.91 75.4 PTS family porter, phosphocarrier protein HPR No SSA_0878 11.11...”
For advice on how to use these tools together, see
Interactive tools for functional annotation of bacterial genomes.
The PaperBLAST database links 784,739 different protein sequences to 1,253,012 scientific articles. Searches against EuropePMC were last performed on November 25 2024.
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