PaperBLAST
PaperBLAST Hits for tr|Q9I1C6|Q9I1C6_PSEAE Probable glycerophosphoryl diester phosphodiesterase OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=PA2352 PE=4 SV=1 (375 a.a., MRQRFWQGTF...)
Show query sequence
>tr|Q9I1C6|Q9I1C6_PSEAE Probable glycerophosphoryl diester phosphodiesterase OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=PA2352 PE=4 SV=1
MRQRFWQGTFKTLGFLGLTAGLAAQAAEPSGKALSAAAGVPWPAVIAHRGASYDAPEETA
AAYLLARDLGADYLEADVQRSRDGVLVALHDDTLERTTDVAEVFPERAKDPVSSFTLAEL
KRLDAGSWFNRAFPQRARPGFVGLRILTLDEMLDIAEGGANKPGLYLETKVPAQFPGIED
DLRKLLERRGWLQPRERAAAGHVDVAHGNGRVILQTFEKSSLELLQESMPQVPKILLLWL
GDGYLEARSPVTFKESGETDKAAFYARQEVKSEAEFGAWLDWAKAHGALGTGPSATLSER
GEQSYADLVKPWMNRMTHARGLFIHAYSVDSAEDFKALGAAGVDGFFTNRTSELLKFQGR
PAAQDMDALLRRHGY
Running BLASTp...
Found 183 similar proteins in the literature:
PA2352 probable glycerophosphoryl diester phosphodiesterase from Pseudomonas aeruginosa PAO1
100% identity, 100% coverage
- Network analysis for identifying potential anti-virulence targets from whole transcriptome of Pseudomonas aeruginosa and Staphylococcus aureus exposed to certain anti-pathogenic polyherbal formulations
Ruparel, Drug target insights 2023 - “...2.32 0.01 80 PA5033 Hypothetical protein 2.32 0.001 81 PA3453 Hypothetical protein 2.32 1.43E-07 82 PA2352 Glycerophosphoryl diester phosphodiesterase 2.3 0.0008 83 PA3534 Oxidoreductase 2.3 1.04E-06 84 PA0962 Starvation-inducible DNA-binding protein 2.28 4.83E-09 85 hcnA Hydrogen cyanide synthase 2.27 0.01 86 mobA Molybdenum cofactor guanylyltransferase 2.27...”
- Genome-wide association study of signature genetic alterations among pseudomonas aeruginosa cystic fibrosis isolates
Hwang, PLoS pathogens 2021 - “...transport system ATP-binding protein ABC transporters PA2351 K02072 D-methionine transport system permease protein ABC transporters PA2352 K01126 glycerophosphoryl diester phosphodiesterase Glycerophospholipid metabolism PA3193 K00845 glucokinase Glycolysis / Gluconeogenesis PA3540 K00066 GDP-mannose 6-dehydrogenase Fructose and mannose metabolism PA3617 K03553 recombination protein RecA Homologous recombination PA3687 K01595 phosphoenolpyruvate...”
- Genetically and Phenotypically Distinct Pseudomonas aeruginosa Cystic Fibrosis Isolates Share a Core Proteomic Signature
Penesyan, PloS one 2015 - “...leucine and isoleucine; and genes involved in the utilization of gluconate and glycerol (PA2321-2322 and PA2352 respectively). Minimal media growth experiments confirmed that PASS2 was unable to grow in the minimal medium in the presence of the above-mentioned compounds as sole carbon sources (data not shown)....”
- Phosphate starvation promotes swarming motility and cytotoxicity of Pseudomonas aeruginosa
Bains, Applied and environmental microbiology 2012 - “...value Descriptiona PA1903 PA1904 PA1905 PA1930 PA1985 PA1987 PA2352 PA2360 PA2365 PA2366 PA2367 PA2368 PA2369 PA2370 PA2371 PA2372 PA2373 PA2374 PA2396 PA2426...”
- “...that of the phosphodiesterases glpQ and gene locus PA2352, the putative phosphate transporter PA0450, the alkaline phosphatase-encoding phoA gene, and the genes...”
- Induction by cationic antimicrobial peptides and involvement in intrinsic polymyxin and antimicrobial peptide resistance, biofilm formation, and swarming motility of PsrA in Pseudomonas aeruginosa
Gooderham, Journal of bacteriology 2008 - “...dehydrogenases Probable acyl-CoA thiolase Probable transcriptional regulator PA2352 PA2371 PA2396 PA2398 PA2432 PA2469 PA2522 PA2535 PA2536 PA2550 PA2551 PA2573...”
C3JZ29 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Pseudomonas fluorescens (see paper)
PFLU4789 putative glycerophosphoryl diester phosphodiesterase from Pseudomonas fluorescens SBW25
58% identity, 94% coverage
- Rapid decline of adaptation of Pseudomonas fluorescens to soil biotic environment
Gómez, Biology letters 2022 - “...proteins catalytic activity 1 0 0 0 0 0 0 0 0 0 0 0 PFLU4789 putative glycerophosphoryl diester phosphodiesterase periplasmic glycerophosphoryl diester phosphodiesterase catalytic activity 1 0 0 0 0 0 0 0 0 0 0 0 rpoN RNA polymerase factor sigma-54 cytoplasmic sigma factor...”
- Identification of extracellular glycerophosphodiesterases in Pseudomonas and their role in soil organic phosphorus remineralisation
Lidbury, Scientific reports 2017 - “...to possess signal peptides. One of these sequences, retrieved from P . fluorescens SBW25 (ORF, PFLU4789, hereafter referred to as GlpQII), showed similarity to GlpQI (Identity 28.77%, e-value 4.0 e-23). The GlpQII cluster also contained sequences retrieved from other Pseudomonas spp. Like GlpQI produced by P...”
- Comparative genomic, proteomic and exoproteomic analyses of three Pseudomonas strains reveals novel insights into the phosphorus scavenging capabilities of soil bacteria
Lidbury, Environmental microbiology 2016 - “...et al ., 2013 ). We also identified an UshAlike homolog and a GlpQlike homolog (PFLU4789) in the genomes of BIRD1 and SBW25, respectively, but in contrast to DSM4166, neither or these homologs were secreted in response to Pi depletion. SBW25 also heavily secreted Psp, a...”
- Proteome Analyses of Soil Bacteria Grown in the Presence of Potato Suberin, a Recalcitrant Biopolymer
Sidibé, Microbes and environments 2016 - “...(a protein with lipid-binding properties [ 45 ]); E2XW23, a long-chain fatty acid transporter; and C3JZ29, a glycerophosphoryl diester phosphodiesterase, enzymes involved in glycerol and lipid catabolism ( 26 ). Nevertheless, the constant decrease in Pseudomonas protein concentrations suggests that the energy obtained from the suberin...”
GBAA3560 glycerophosphoryl diester phosphodiesterase, putative from Bacillus anthracis str. 'Ames Ancestor'
BA3560 glycerophosphoryl diester phosphodiesterase, putative from Bacillus anthracis str. Ames
32% identity, 81% coverage
4r7oC / A0A6L7H2E6 Crystal structure of putative glycerophosphoryl diester phosphodiesterasefrom bacillus anthraci
32% identity, 81% coverage
- Ligand: magnesium ion (4r7oC)
SA0820 glycerophosphoryl diester phosphodiesterase from Staphylococcus aureus subsp. aureus N315
SAOUHSC_00897 hypothetical protein from Staphylococcus aureus subsp. aureus NCTC 8325
NWMN_0830 glycerophosphoryl diester phosphodiesterase from Staphylococcus aureus subsp. aureus str. Newman
SACOL0962 glycerophosphoryl diester phosphodiesterase GlpQ, putative from Staphylococcus aureus subsp. aureus COL
32% identity, 90% coverage
- The effect of skin fatty acids on Staphylococcus aureus
Neumann, Archives of microbiology 2015 - “...protein 0.52 296 SA0787 IS1181 transposase 0.37 242 SA0802 NADH dehydrogenase-like protein SA0802 0.94 411 SA0820 GlpQ Glycerophosphoryl diester phosphodiesterase 2.31 569 SA0820 GlpQ Glycerophosphoryl diester phosphodiesterase 1.72 570 SA0823 Pgi Glucose-6-phosphate isomerase 1.10 378 SA0829 Hypothetical protein 0.16 573 SA0831 Cdr Coenzyme A disulphide reductase...”
- “...712 SA0505 FusA Elongation factor G 0.20 162 SA0506 Tuf Elongation factor Tu 0.17 371 SA0820 GlpQ Glycerophosphoryl diester phosphodiesterase 2.88 569 SA0843 Fab (fabF) 3-Oxoacyl-synthase 0.10 362 SA0900 SspB1 Cysteine protease precursor SspB 7.57 427 SA0900 SspB1 Cysteine protease precursor SspB 5.78 432 SA0901 SspA...”
- Growth-dependent release of carbohydrate metabolism-related and antioxidant enzymes from Staphylococcus aureus strain 6 as determined by proteomic analysis
Donenko, Experimental and therapeutic medicine 2011 - “...pgk SA0728 6 D89795 SA0295 SA0295 7 H89862 glpQ SA0820 8 D89825 SAS0528 SAS0528 9 H89935 sodA SA1382 10 F89963 SA1599 SA1599 11 G89850 tpiA SA0729 Fructose...”
- Repair of global regulators in Staphylococcus aureus 8325 and comparative analysis with other clinical isolates
Herbert, Infection and immunity 2010 - “...culture 2884 INFECT. IMMUN. 1.band SA2463 SA0674 SA0820 COL C1 C2 C3 SACOL2694 SACOL0778 SACOL0962 SAOUHSC_00300 SAOUHSC_00069 SAOUHSC_00728 SAOUHSC_00897...”
- “...d 2.5-h culture. a SA0309 SA0107 SA0674 SA0820 SA0129 SA0905 SAOUHSC_00994 SAOUHSC_03006 SAOUHSC_00897 SAOUHSC_02972 SA2463 SA0820 SA2431 SA2463 SA0309 SA2463...”
- Characterizing the effects of inorganic acid and alkaline shock on the Staphylococcus aureus transcriptome and messenger RNA turnover
Anderson, FEMS immunology and medical microbiology 2010 - “...SA0778 sulfatase family protein sa_c8964s7875_a_at 4.5 2.5 2.5 SA0810 glycosyl transferase sa_c8344s7317_a_at 4.8 2.5 5 SA0820 LysM domain protein sa_c524s9582cv_s_at 14.4 2.5 ND SA1043 glycosyl transferase, group 1 family protein sa_c2175s1875_a_at 2.4 2.5 2.5 SA1498 glycosyl transferase, group 1 family protein sa_c10078s8796_a_at 7.4 2.5 2.5 SA1687...”
- Transcriptional signature following inhibition of early-stage cell wall biosynthesis in Staphylococcus aureus
O'Neill, Antimicrobial agents and chemotherapy 2009 - “...SA0269 SA0270 SA0325 SA0423 SA0497 SA0498 SA0654 SA0655 SA0820 SA0905 SA0912 SA0913 SA0951 SA1056 SA1160 SA1502 SA1665 SA1850 SA1921 SA1979 SA2016 SA2093 SA2097...”
- Overexpression of genes of the cell wall stimulon in clinical isolates of Staphylococcus aureus exhibiting vancomycin-intermediate- S. aureus-type resistance to vancomycin
McAleese, Journal of bacteriology 2006 - “...cysM atl SA1691 sgtB SA1926 murZ SA0909 SA0312 fmt SA0820 SA0937 glpQ SA0969 SA1236 SA0341 SA2146 SA2297 SA2481 SAS044 SA0166 csbD yvqF tcaA dmp1 spsA spsB...”
- Staphylococcal Superantigen-Like Protein 1 and 5 (SSL1 & SSL5) Limit Neutrophil Chemotaxis and Migration through MMP-Inhibition
Koymans, International journal of molecular sciences 2016 - “...(SAV0282), EsxB (SAV0290), FatB (SA0691), FLIPr (SA1001), FLIPr-like (MW1038), GAPDH (SA0727), GDPD (glycerophosphoryl diester phosphodiesterase; SAOUHSC_00897), Hla (Newbould305 1801), Hlb (PHLC STAAU), HlgA (NWMN_2318), HlgB (HLGB STAAU), HlgC (HLGC STAAU), IsdA (SA0977), IsdC (SA0978), Lipase (MW0297), LukA (NWMN_1928), LukB (NWMN_1927), LukD (SAUSA300_1768), LukE (SAUSA300_1769), LukF-PV (O50604...”
- Type I signal peptidase and protein secretion in Staphylococcus aureus
Schallenberger, Journal of bacteriology 2012 - “...glycerophosphoryl diester phosphodiesterase (GlpQ; SAOUHSC_00897), hyaluronate lyase (HysA; SAOUHSC_02463, hysA), staphylokinase (SAOUHSC_02171), thermonuclease...”
- Repair of global regulators in Staphylococcus aureus 8325 and comparative analysis with other clinical isolates
Herbert, Infection and immunity 2010 - “...C2 C3 SACOL2694 SACOL0778 SACOL0962 SAOUHSC_00300 SAOUHSC_00069 SAOUHSC_00728 SAOUHSC_00897 SAOUHSC_00094 glpQ geh glpQ geh spa atl lip geh lip spa lip spa lip...”
- “...SA0107 SA0674 SA0820 SA0129 SA0905 SAOUHSC_00994 SAOUHSC_03006 SAOUHSC_00897 SAOUHSC_02972 SA2463 SA0820 SA2431 SA2463 SA0309 SA2463 SA0107 SA2463 SA0107 SA2463...”
- Staphylococcus aureus fur regulates the expression of virulence factors that contribute to the pathogenesis of pneumonia
Torres, Infection and immunity 2010 - “...2 Ssl 7 Efb NWMN_1040 NWMN_1041 NWMN_1718 NWMN_1719 NWMN_0830 NWMN_0393 NWMN_0396 NWMN_0389 NWMN_0394 NWMN_1069 pI 72 38.6 36.8 34.8 35.2 26.6 26.7 26.4 26.1...”
- Inhibition of Staphylococcus aureus biofilm formation by gurmarin, a plant-derived cyclic peptide
Chang, Frontiers in cellular and infection microbiology 2022 - “...-2.58 Transcriptional regulator tcaR 0.05 SAV2651 -2.57 Hypothetical protein 0.04 MW2255 -2.46 Hypothetical protein 0.02 SACOL0962 -2.45 Glycerophosphoryl diester phosphodiesterase GlpQ, putative glpQ 0.04 SACOL1410 -2.39 FemA protein femA 0.01 SACOL1997 -2.35 Transcriptional regulator, GntR family 0.04 SACOL0485 -2.28 Staphylococcus tandem lipoprotein 0.02 SACOL0652 -2.25 Conserved...”
- “...xseA 0.03 SAV0756 -2.85 Hydrolase 0.04 SAV1482 -2.67 ATP-binding, hydrolase 0.03 SAV2651 -2.57 Hydrolase 0.04 SACOL0962 -2.45 Hydrolase 0.04 SAV2031 -2.15 protease 0.03 In addition to peptidoglycan, Sa contains capsular polysaccharide (CP), cell wall teichoic acid (WTA), and PNAG/PIA as major surface polysaccharide components of the...”
- Identification of commonly expressed exoproteins and proteolytic cleavage events by proteomic mining of clinically relevant UK isolates of Staphylococcus aureus
Smith, Microbial genomics 2016 - “...B E SACOL2666 N -Acetylmuramoyl- l -alanine amidase E SACOL2694 Lipase E SACOL1377 Transketolase U SACOL0962 Glycerophosphoryl diester phosphodiesterase GlpQ, putative U SACOL0303 5-Nucleotidase U SACOL1704 Rod shape-determining protein MreC U SACOL2418 IgG-binding protein SBI U Evidence of post-translational modifications As the supernatant proteins were first...”
- Repair of global regulators in Staphylococcus aureus 8325 and comparative analysis with other clinical isolates
Herbert, Infection and immunity 2010 - “...SA0674 SA0820 COL C1 C2 C3 SACOL2694 SACOL0778 SACOL0962 SAOUHSC_00300 SAOUHSC_00069 SAOUHSC_00728 SAOUHSC_00897 SAOUHSC_00094 glpQ geh glpQ geh spa atl lip geh...”
- Comprehensive characterization of methicillin-resistant Staphylococcus aureus subsp. aureus COL secretome by two-dimensional liquid chromatography and mass spectrometry
Ravipaty, Molecular & cellular proteomics : MCP 2010 - “...SACOL0860 SACOL0886 SACOL0887 SACOL0907 SACOL0908 SACOL0962 SACOL0985 SACOL1056 SACOL1062 SACOL1071c SACOL1071c SACOL1140 SACOL1164 SACOL1166 SACOL1168...”
- Influence of the two-component system SaeRS on global gene expression in two different Staphylococcus aureus strains
Rogasch, Journal of bacteriology 2006 - “...SACOL0842 SACOL1180 SACOL2117 SACOL1782 SACOL0838 SACOL0317 SACOL0962 57286825 57286570 57284860 57286563 57286673 57284318 57285784 57285609 57284304 57284465...”
- “...aureolysin aur SACOL2659 SACOL2291 SACOL1057 SACOL0507 SACOL0962 SACOL0078 SA1809 (N315) SA0042 (N315) SA1636 (N315) SACOL0199 SACOL0247 SACOL0769 SACOL1167...”
5t9cE / P37965 Crystal structure of b. Subtilis 168 glpq in complex with glycerol-3- phosphate (1 hour soak) (see paper)
33% identity, 81% coverage
- Ligands: calcium ion; sn-glycerol-3-phosphate; phosphate ion (5t9cE)
GLPQ_BACSU / P37965 Glycerophosphodiester phosphodiesterase; Glycerophosphoryl diester phosphodiesterase; Teichoicase; EC 3.1.4.46 from Bacillus subtilis (strain 168) (see paper)
NP_388095 secreted glycerophosphoryl diester phosphodiesterase from Bacillus subtilis subsp. subtilis str. 168
32% identity, 90% coverage
- function: Glycerophosphodiester phosphodiesterase hydrolyzes glycerophosphodiesters into glycerol-3-phosphate (G3P) and the corresponding alcohol (PubMed:27780866). Involved in wall teichoic acid (WTA) metabolism during phosphate starvation (PubMed:27780866). Catalyzes the degradation of WTA, enabling the utilization of WTA as a phosphate reserve under limiting conditions (PubMed:27780866). Is highly selective for the poly(gylcerol phosphate) WTA backbone and catalyzes exolytic cleavage of individual monomer units (PubMed:27780866). In vitro is active toward the WTA oligomer mimics glycerophosphoglycerol (GPG) and bis-glycerophosphoglycerol (bGPG) (PubMed:27780866).
catalytic activity: a sn-glycero-3-phosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate + H(+) (RHEA:12969)
cofactor: Ca(2+) (Binds 1 Ca(2+) ion per subunit.)
disruption phenotype: Deletion mutant retains WTA and ceases growth upon phosphate limitation (PubMed:27780866). Mutants show altered cell morphologies and effects on autolytic activity and antibiotic susceptibilities that, unexpectedly, also occur in phosphate-replete conditions (PubMed:27780866). - Identification of Two Phosphate Starvation-induced Wall Teichoic Acid Hydrolases Provides First Insights into the Degradative Pathway of a Key Bacterial Cell Wall Component.
Myers, The Journal of biological chemistry 2016 - GeneRIF: Characterization of GlpQ and PhoD enzymatic activities, in addition to X-ray crystal structures of GlpQ, revealed distinct mechanisms of WTA depolymerization for the two enzymes; GlpQ catalyzes exolytic cleavage of individual monomer units, and PhoD catalyzes endo-hydrolysis at nonspecific sites throughout the polymer.
- Genome of staphylococcal phage K: a new lineage of Myoviridae infecting gram-positive bacteria with a low G+C content
O'Flaherty, Journal of bacteriology 2004 - “...4e-32 32 (3) 49 (13) NP_047298 NP_765044 1e-41 38 (11) NP_388095 0.020 5e-06 45 (7) 24 (43) NP_456045 NP_782676 9e-33 0.021 27 (10) 29 (4) T17382 AAL82326 0.034...”
- WhyD tailors surface polymers to prevent premature bacteriolysis and direct cell elongation in Streptococcus pneumoniae
Flores-Kim, eLife 2022 - “...Escherichia coli GlpQ (strain K12, Uniprot entry P09394), Bacillus subtilis GlpQ (strain 168, Uniprot entry P37965), Mycobacterium tuberculosis GlpQ1 (strain ATCC 25618, Uniprot entry P9WMU3), Staphylococcus aureus GlpQ (strain USA300, Uniprot entry A0A0H2XHP4), and WhyD (SP_0880) lacking its transmembrane domain (1333). The conserved metal-binding residues required...”
- MIR16, a putative membrane glycerophosphodiester phosphodiesterase, interacts with RGS16
Zheng, Proceedings of the National Academy of Sciences of the United States of America 2000 - “...follows: rMIR16, AF212861; ecGLPQ, P09394; ecUGPQ, P10908; bsGLPQ, P37965; scYPL206C, CAA97920; hiGLPQ, Q06282. GlpQ and UGpQ are the two GP-PDEs in E. coli....”
GYA98_RS00270 glycerophosphodiester phosphodiesterase from Bacillus velezensis
A7Z0Y3 Glycerophosphodiester phosphodiesterase from Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / LMG 26770 / FZB42)
33% identity, 81% coverage
2oogD / A0A0H3K7S1 Crystal structure of glycerophosphoryl diester phosphodiesterase from staphylococcus aureus
33% identity, 82% coverage
SLIV_27875 glycerophosphodiester phosphodiesterase from Streptomyces lividans TK24
34% identity, 89% coverage
- Enhanced protein secretion in reduced genome strains of Streptomyces lividans
Hamed, Microbial cell factories 2024 - “...oversecreted in all RG strains examined [e.g. Amidase ( SLIV_06435 ), putative phosphodiesterase (IPR017946) ( SLIV_27875 ) and probable subtilinase-type protease inhibitor ( SLIV_34120 )] (RG1.4, 1.5, 1.9; Fig. 3 C and D and S4). Hydrolases, peptidases and proteases were mainly over-secreted in RG1.9. These include...”
Q93JJ3 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Streptomyces coelicolor (see paper)
SCO1968 secreted hydrolase from Streptomyces coelicolor A3(2)
34% identity, 89% coverage
- Effects of carbon ion beam-induced mutagenesis for the screening of RED production-deficient mutants of Streptomyces coelicolor JCM4020
Yanagisawa, PloS one 2022 - “...Gln185His M chitinase precursor JCM4020_26770 SCO2503 98.7 2,828,233 G>T UTR 2,240,012 783C>T S hydrolase JCM4020_21170 SCO1968 99.6 305,254 1303T>C Phe435Leu M membrane protein (putative) JCM4020_02940 SCO0308 99.8 272,610 91_92delCG Arg31>FS F hypothetical protein JCM4020_02670 SCO0281 100.0 6 Mt 204030 7,850,278 C>A UTR 5,940,690 19G>C Glu7Gln M...”
- Multi-omics Study of Planobispora rosea, Producer of the Thiopeptide Antibiotic GE2270A
Del, mSystems 2021 - “...(DUF47) SCO4137 ND C EV45_RS30455 Glycerophosphodiester phosphodiesterase glpQ1 SCO1565 Activation C EV45_RS19780 Glycerophosphodiester phosphodiesterase glpQ2 SCO1968 Activation C EV45_RS14425 Phospholipase D phoD SCO2068 Activation C EV45_RS22905 Alkaline phosphatase phoA SCO2286 Activation C EV45_RS14855 Alkaline phosphatase Activation C EV45_RS34915 TAT-secreted putative phosphatase (DUF839) SCO3790 Activation C EV45_RS33230...”
- New approaches to achieve high level enzyme production in Streptomyces lividans
Sevillano, Microbial cell factories 2016 - “...and the promoter xylA p of xylA (SCO1169, encoding xylose isomerase) and glpQp of glpQ (SCO1968, encoding a glycerophosphoryl diester phosphodiesterase) from S. coelicolor . The different promoter sequences were inserted upstream of the xylanase gene xysA , which was cloned in a multicopy derivative of...”
- “...( SCO1169 ); pNXHid, glpQp : promoter of a putative hydrolase from S. coelicolor ( SCO1968 ); pNErmX, ermE * p : promoter of the erythromycin resistance ermE gene; pNvsi, vsip : promoter of the subtilisin inhibitor SSI from S. venezuelae ( X98019 ); T1 and...”
- Deciphering the Transcriptional Response Mediated by the Redox-Sensing System HbpS-SenS-SenR from Streptomycetes
Busche, PloS one 2016 - “...protein, conbalt transport 1.66 3.19 SCO6124 hypothetical protein 1.75 3.36 SCO6045 hypothetical protein 1.59 3.01 SCO1968 hydrolase 1.59 3.01 SCO7549 unknown 1.51 2.85 SCO5485 small membrane protein 1.51 2.85 SCO1847 a cobD cobalamin biosyntheis protein 1.39 2.63 SCO1848 a cobQ cobyric acid synthase 1.42 2.67 SCO1849...”
- Identified members of the Streptomyces lividans AdpA regulon involved in differentiation and secondary metabolism
Guyet, BMC microbiology 2014 - “...5.69 -154 0.564 c. e. SCO1800 SLI2108 SGR5696 chpE cggccggacc 4.69 -65 0.256 c. e. SCO1968 SLI2284 SGR5556 glpQ2 cattcagcct 3.75 -92 0.537 m. m. SCO2792 SLI3139 SGR4742 adpA bldH gaaccggcca 8.09 -148 0.383 r. SCO3323 SLI3667 SGR4151 bldN, adsA gttccggtca 6.38 -469 0.389 r. SCO3579...”
- Synthetic promoter library for modulation of actinorhodin production in Streptomyces coelicolor A3(2)
Sohoni, PloS one 2014 - “...They include the alkaline phosphatase SCO2286, and the glycerophosphoryl diester phosphodiesterase ( glpQ ) homologs SCO1968 and SCO7750, as previously observed by Lian et al. , 2008 [44] . For nitrogen metabolism, glnA (SCO2198) that plays a key role in nitrogen assimilation at low ammonia concentration...”
- Identification of the first functional toxin-antitoxin system in Streptomyces
Sevillano, PloS one 2012 - “...Name Sequence 5-3 Use LS-001 TTTTTT GAATTC TGTGCGGCTGCCCTTCCGCC Forward oligonucleotide to amplify the promoter of SCO1968 . The sequence recognized by EcoRI is underlined. LS-002 TTTTTT CATATG CGTACTCCTCGCGTCGAACG Reverse oligonucleotide to amplify the promoter of SCO1968 . The sequence recognized by NdeI is underlined. LS-005 TTTTTT...”
- “...Different Streptomyces promoters unrelated to TA systems were used as controls: namely, the promoter of SCO1968 (a putative secreted hydrolase, amplified with primers LS-001 and LS-002, Table 1 ); SCO1715 (a putative homogentisate 1,2-dioxygenase, amplified with primers AY-147 and AY-148, Table 1 ), and SCO1480 a...”
- LAL regulators SCO0877 and SCO7173 as pleiotropic modulators of phosphate starvation response and actinorhodin biosynthesis in Streptomyces coelicolor
Guerra, PloS one 2012 - “...show increased transcription in the mutants. These, include two glycerophosphoryl diester phosphodiesterases ( SCO1419 and SCO1968 ), one of the nitrate reductases ( narH3 ), an acyl-CoA synthetase ( SCO5842 ), and acetate kinase ( ackA ). Although all these genes share the same transcription pattern...”
- “...and the phosphate transduction signal modulator phoU , glycerophosphoryl diester phosphodiesterase homologs ( SCO1419 and SCO1968 ), or the phosphate specific transporters pstSA . Other genes affected include neuAB , which are involved in putative phosphorous-free teichuronic acid biosynthesis as a substitute for phosphate-rich teichoic acids,...”
- More
EV45_RS19780 glycerophosphodiester phosphodiesterase from Planobispora rosea
34% identity, 83% coverage
- Multi-omics Study of Planobispora rosea, Producer of the Thiopeptide Antibiotic GE2270A
Del, mSystems 2021 - “...EV45_RS03185 Pit accessory protein (DUF47) SCO4137 ND C EV45_RS30455 Glycerophosphodiester phosphodiesterase glpQ1 SCO1565 Activation C EV45_RS19780 Glycerophosphodiester phosphodiesterase glpQ2 SCO1968 Activation C EV45_RS14425 Phospholipase D phoD SCO2068 Activation C EV45_RS22905 Alkaline phosphatase phoA SCO2286 Activation C EV45_RS14855 Alkaline phosphatase Activation C EV45_RS34915 TAT-secreted putative phosphatase (DUF839)...”
SCO7550 secreted hydrolase from Streptomyces coelicolor A3(2)
31% identity, 84% coverage
A2YNG3 glycerophosphodiester phosphodiesterase from Oryza sativa subsp. indica
31% identity, 84% coverage
- iTRAQ-Based Quantitative Proteomics Analysis on Rice Anther Responding to High Temperature
Mu, International journal of molecular sciences 2017 - “...1-epimerase 0.53 0.06 0.4 0.04 Metabolic A2XNH0 -expansin OsEXPA7 0.65 0.11 0.36 0.003 Cell wall A2YNG3 Similar to glycerophosphoryl diester phosphodiesterase 0.45 0.03 0.31 0.04 Metabolic A2ZDK1 Similar to - d -xylosidase 0.66 0.02 0.66 0.02 Metabolic A2ZFQ4 Protease inhibitor, lipid transfer protein (LTP), Postmeiotic anther...”
E6SMM5 Glycerophosphoryl diester phosphodiesterase from Thermaerobacter marianensis (strain ATCC 700841 / DSM 12885 / JCM 10246 / 7p75a)
32% identity, 53% coverage
MSMEG_6423 Glycerophosphoryl diester phosphodiesterase family protein from Mycobacterium smegmatis str. MC2 155
37% identity, 54% coverage
GDPD5_ARATH / Q9C907 Glycerophosphodiester phosphodiesterase GDPD5; Glycerophosphodiester phosphodiesterase 5; ATGDPD5; EC 3.1.4.46 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT1G74210 PLC-like phosphodiesterases superfamily protein from Arabidopsis thaliana
29% identity, 81% coverage
- catalytic activity: a sn-glycero-3-phosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate + H(+) (RHEA:12969)
- Making watercress (Nasturtium officinale) cropping sustainable: genomic insights into enhanced phosphorus use efficiency in an aquatic crop
Hibbert, Frontiers in plant science 2023 - “...1e-5 ( Supplementary 4 ). This list included a 0.55- and 1.7-fold upregulation in GDPD5 (AT1G74210) and GDPD1 (AT3G02040), involved in lipid remodeling during P deficiency ( Cheng etal., 2011 ). Genes involved in carbohydrate metabolism, such as CTIMC (AT3G55440) and the phosphoglucan phosphatase SEX4 (AT3G52180),...”
- The transcription factor PHR1 regulates lipid remodeling and triacylglycerol accumulation in Arabidopsis thaliana during phosphorus starvation
Pant, Journal of experimental botany 2015 - “...), PAH1 ( At3g09560 ), PAH2 ( At5g42870 ), PLA2A ( At2g26560 ), GDPD5 ( At1g74210 ), and GDPD6 ( At5g08030 ), involved in phospholipid degradation, and MGD2 ( At5g20410 ), MGD3 ( At2g11810 ), DGD1 ( At3g11670 ), DGD2 ( At4g00550 ), SQD1 ( At4g33030...”
- The paralogous R3 MYB proteins CAPRICE, TRIPTYCHON and ENHANCER OF TRY AND CPC1 play pleiotropic and partly non-redundant roles in the phosphate starvation response of Arabidopsis roots
Chen, Journal of experimental botany 2015 - “...Description Fold-change etc1 Pi-replete At2g35738 At2g35740 INOSITOL TRANSPORTER 3 (INT3) 0.52 etc1 low Pi At1g74205 At1g74210 GLYCEROPHOSPHODIESTER PHOSPHODIESTERASE 5 (GDPD5) 1.69 At4g26795 At4g26790 GDSL-like lipase/acylhydrolase superfamily protein 2.18 At1g60505 At1g60510 DYNAMIN RELATED PROTEIN 4D (DRP4D) 1.90 cpc Pi-replete At1g72852 At1g72850 Disease resistance protein 0.42 At1g67365 At1g67370...”
- Analysis of 4,664 high-quality sequence-finished poplar full-length cDNA clones and their utility for the discovery of genes responding to insect feeding
Ralph, BMC genomics 2008 - “...EF146403 FL/68 At1g27330, hypothetical protein, A. thaliana 103 3.5 <0.001 <0.001 WS0122_A01 WS01227_N20 EF147117 FL/399 At1g74210, glycerophosphodiester phosphodiesterase, A. thaliana 606 3.5 <0.001 <0.001 WS0144_K08 WS01119_H21 EF144889 FL/358 ABQ10199.1, cysteine protease, Actinidia deliciosa 594 3.5 <0.001 <0.001 WS0147_I02 WS0125_D08 EF147814 FL/444 AAS79603.1, prephenate dehydratase, Ipomoea trifida...”
GDPD6_ARATH / Q9SD81 Glycerophosphodiester phosphodiesterase GDPD6; Glycerophosphodiester phosphodiesterase 6; ATGDPD6; EC 3.1.4.46 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT5G08030 glycerophosphoryl diester phosphodiesterase family protein from Arabidopsis thaliana
27% identity, 90% coverage
- catalytic activity: a sn-glycero-3-phosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate + H(+) (RHEA:12969)
- Induction of PrMADS10 on the lower side of bent pine tree stems: potential role in modifying plant cell wall properties and wood anatomy
Cruz, Scientific reports 2019 - “...miRNA AT1G08310 3.748 alpha/beta-Hydrolases superfamily protein AT3G14790 3.628 rhamnose biosynthesis 3 AT2G34202 3.591 MIR399D; miRNA AT5G08030 3.577 PLC-like phosphodiesterases superfamily protein AT1G73220 3.515 organic cation/carnitine transporter1 AT2G04038 3.475 basic leucine-zipper 48 AT2G45135 3.473 RING/U-box superfamily protein AT2G45130 3.428 SPX domain gene 3 AT3G25240 3.409 Protein of...”
- Global Dynamic Transcriptome Programming of Rapeseed (Brassica napus L.) Anther at Different Development Stages
Li, PloS one 2016 (no snippet) - Identification of conserved drought-adaptive genes using a cross-species meta-analysis approach
Shaar-Moshe, BMC plant biology 2015 - “...protein), loc_os07g47820 (T3G06810, IBR3), loc_os11g39220 (AT5G65110, ACX2), loc_os10g04620 (AT5G16120, hydrolase), loc_os03g07180 (embryonic protein DC-8) loc_os03g40670 (AT5G08030, GDPD6) Desaturation, transfer loc_os11g24070 loc_os03g18070 (AT3G11170, FAD7) Secondary metabolism Isoprenoids loc_os02g07160 (AT1G06570, PDS1), loc_os01g02020 (AT5G47720, AACT1) loc_os02g04710 (AT2G07050, CAS1) Phenylpropanoids and misc. loc_os07g42250 (AT3G51420, SSL4) loc_os04g15920 (AT4G39330, CAD9), loc_os11g32650 (AT5G13930,...”
- The transcription factor PHR1 regulates lipid remodeling and triacylglycerol accumulation in Arabidopsis thaliana during phosphorus starvation
Pant, Journal of experimental botany 2015 - “...PAH2 ( At5g42870 ), PLA2A ( At2g26560 ), GDPD5 ( At1g74210 ), and GDPD6 ( At5g08030 ), involved in phospholipid degradation, and MGD2 ( At5g20410 ), MGD3 ( At2g11810 ), DGD1 ( At3g11670 ), DGD2 ( At4g00550 ), SQD1 ( At4g33030 ), and SQD2 ( At5g01220...”
- The WRKY transcription factor family and senescence in switchgrass
Rinerson, BMC genomics 2015 - “...superfamily Pavir.J38308 1 AT2G37770 NAD(P)-linked oxidoreductase superfamily Pavir.Eb02929 1 AT5G11670 NADP-malic enzyme 2 Pavir.Ib03917 4 AT5G08030 PLC-like phosphodiesterases superfamily Pavir.Ab01298 3 AT3G02040 senescence-related gene 3 Pavir.Da00281 3 AT2G20850 STRUBBELIG-receptor family 1 Pavir.Ba02108 2 AT2G01770 vacuolar iron transporter 1 Pavir.Cb01458 1 N/A N/A Pavir.J21234 1 N/A N/A...”
- The BnGRF2 gene (GRF2-like gene from Brassica napus) enhances seed oil production through regulating cell number and plant photosynthesis
Liu, Journal of experimental botany 2012 - “...Transferase activity Endomembrane system 2.62 At5g04530 beta-Ketoacyl-CoA synthase family protein Transferase activity Endomembrane system 3.81 At5g08030 Glycerophosphoryl diester phosphodiesterase family protein Glycerol metabolic process Endomembrane system 3.18 At5g38020 S -Adenosyl- L -methionine:carboxyl methyltransferase family protein Fatty acid biosynthetic process Cellular component 1.71 At5g56100 Glycine-rich protein/oleosin Lipid...”
- “...). In addition, some up-regulated genes such as KCS16 (At4g34250), GPAT (at4g01950), F4I10.40 (at4g33110), GDPD6 (at5g08030), SAMT (AT5G38020), SMO1-3 (AT4G22753), and oleosin proteins (at5g56100 and at5g61610) were classified as being involved in lipid and FA biosynthetic and storage processes by GO category ( Table 3 )....”
- Evidence for a Contribution of ALA Synthesis to Plastid-To-Nucleus Signaling
Czarnecki, Frontiers in plant science 2012 - “...vs. Col-0 P -value SUBA localization Description qRT-PCR performed (see Table S2 in Supplementary Material) At5g08030 0.247 0.000 0.249 0.000 Mito, Cp, ER, Nuc, Ex, Vac Glycerophosphoryl diester phosphodiesterase At1g13650 0.273 0.000 0.381 0.000 Mito, Perox Unknown protein At2g20570 0.300 0.000 0.351 0.000 Cyt GPRI1 (GBFS...”
NT01EI_3469 glycerophosphoryl diester phosphodiesterase from Edwardsiella ictaluri 93-146
29% identity, 92% coverage
BT0241B glycerophosphoryl diester phosphodiesterase from Borrelia turicatae 91E135
27% identity, 84% coverage
- The Diadenylate Cyclase CdaA Is Critical for Borrelia turicatae Virulence and Physiology
Jackson-Litteken, Infection and immunity 2021 - “...borrelial oligopeptide transport system ( 96 ). Additionally, nonsense mutations were found in bt0127 and bt0241B , which encode the 30S ribosomal protein S1 and a glycerophosphoryl diester phosphodiesterase (GlpQ), respectively. The 30S ribosomal protein S1 is a component of the prokaryotic 30S ribosomal subunit that...”
- “...30S ribosomal protein S1 Nonsense (GT) E(401)Stop bt0219 ZIP family metal transporter Missense (CT) P(104)S bt0241B GlpQ Nonsense (CT) W(235)Stop bt0747 OppB Missense (GA) G(186)R a MgtE, Mg 2+ transporter; GlpQ, glycerophosphoryl diester phosphodiesterase; OppB, oligopeptide transport system permease protein. cdaA is required for normal growth...”
Q45201 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Borrelia hermsii (see paper)
BH0241B glycerophosphoryl diester phosphodiesterase from Borrelia hermsii DAH
29% identity, 84% coverage
- Identification of conserved antigens for early serodiagnosis of relapsing fever Borrelia
Lopez, Microbiology (Reading, England) 2009 - “...Cell-division protein FtsZ 10 BH0299 43.6 67 GAPDH|| F1F4 BH0057 36.2 150571 GlpQ 24, 3133 BH0241B 39.0 78367 Ef-Tu 17, 23, 30 BH0476 43.4 41375 Fructose-bisphosphate aldolase 27 BH0445 40.0 3341 Triosephosphate isomerase 45 BH0055 27.7 211 Phosphoglycerate mutase 52, 53 BH0658 28.5 206323 Variable membrane...”
- “...division protein FtsZ, BH0299 91 97 98 98 GAPDH, BH0057 92 95 96 97 GlpQ, BH0241B - 81 82 89 Ef-Tu, BH0476 94 97 97 97 Fructose-bisphosphate aldolase, BH0445 88 93 93 96 Triosephosphate isomerase, BH0055 77 86 86 91 Phosphoglycerate mutase, BH0658 83 90 91...”
SE1397 glycerophosphoryl diester phosphodiesterase from Staphylococcus epidermidis ATCC 12228
36% identity, 46% coverage
ETAE_3117 glycerophosphoryl diester phosphodiesterase from Edwardsiella tarda EIB202
27% identity, 92% coverage
ESA_RS04410 glycerophosphodiester phosphodiesterase from Cronobacter sakazakii ATCC BAA-894
29% identity, 87% coverage
- The Global Response of Cronobacter sakazakii Cells to Amino Acid Deficiency
Chen, Frontiers in microbiology 2018 - “...-5.42 Membrane protein ESA_RS02285 sdaB -5.51 L -serine ammonia-lyase ESA_RS17695 lldP -5.55 L -lactate permease ESA_RS04410 glpQ -5.83 Glycerophosphoryl diester phosphodiesterase ESA_RS04990 mglC -5.98 Galactoside ABC transporter permease ESA_RS04980 mglB -5.99 Galactose ABC transporter substrate-binding protein ESA_RS04985 mglA -6.05 Galactose/methyl galactoside ABC transporter ATP-binding protein ESA_RS04405...”
D2TGZ0 glycerophosphodiester phosphodiesterase from Citrobacter rodentium (strain ICC168)
27% identity, 94% coverage
A1S_2661 Glycerophosphoryl diester phosphodiesterase from Acinetobacter baumannii ATCC 17978
28% identity, 81% coverage
Q8Z556 glycerophosphodiester phosphodiesterase from Salmonella typhi
27% identity, 92% coverage
SENTW_2410 glycerophosphodiester phosphodiesterase from Salmonella enterica subsp. enterica serovar Weltevreden str.
27% identity, 87% coverage
- Transcriptional profile of Salmonella enterica subsp. enterica serovar Weltevreden during alfalfa sprout colonization
Brankatschk, Microbial biotechnology 2014 - “...Glycerol kinase glpT SENTW_2411 12.82 Glycerol-3-phosphate transporter glpF SENTW_4176 7.58 Glycerol uptake facilitator protein glpQ SENTW_2410 6.15 Glycerophosphodiester phosphodiesterase cdh1 SENTW_4154 4.81 CDP-diacylglycerol pyrophosphatase yjfO SENTW_4482 13.03 Lipoprotein ybaY SENTW_0451 6.20 Uncharacterized lipoprotein Fatty acid metabolism fadB SENTW_4073 6.14 Enoyl-CoA hydratase fadA SENTW_4072 4.47 Small (beta)...”
- “...glycerol-3-phosphate for biosynthesis is to hydrolyse glycerophosphodiester in the periplasm, which is encoded by glpQ (SENTW_2410) and following transport into the cell by a permease encoded by glpT (SENTW_2411). Both genes were more transcribed in presence of sprouts. For fatty acid utilization as a carbon source,...”
BHE81_11130 glycerophosphodiester phosphodiesterase from Klebsiella sp. AqSCr
28% identity, 91% coverage
- Transcriptome Analysis Reveals Cr(VI) Adaptation Mechanisms in Klebsiella sp. Strain AqSCr
Lara, Frontiers in microbiology 2021 - “...respectively, were upregulated in Cr(VI)-adapted cells ( Supplementary Table 5 ), while pgsA (BHE81_03650), glpQ (BHE81_11130), and dhaKLM (BHE81_15670, BHE81_15675, and BHE81_15680) were downregulated with respect to the controls ( Supplementary Table 6 ). Ribosomal Functions There are some reports of increased synthesis of specific ribosomal...”
KPN_02645 glycerophosphodiester phosphodiesterase, periplasmic from Klebsiella pneumoniae subsp. pneumoniae MGH 78578
28% identity, 91% coverage
GLPQ1_MYCTU / P9WMU3 Probable glycerophosphodiester phosphodiesterase 1; Glycerophosphoryl diester phosphodiesterase 1; EC 3.1.4.46 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see paper)
Rv3842c PROBABLE GLYCEROPHOSPHORYL DIESTER PHOSPHODIESTERASE GLPQ1 (GLYCEROPHOSPHODIESTER PHOSPHODIESTERASE) from Mycobacterium tuberculosis H37Rv
34% identity, 52% coverage
- function: Glycerophosphodiester phosphodiesterase hydrolyzes glycerophosphodiesters into glycerol-3-phosphate (G3P) and the corresponding alcohol.
catalytic activity: a sn-glycero-3-phosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate + H(+) (RHEA:12969)
cofactor: Ca(2+) (Binds 1 Ca(2+) ion per subunit.) - WhyD tailors surface polymers to prevent premature bacteriolysis and direct cell elongation in Streptococcus pneumoniae
Flores-Kim, eLife 2022 - “...subtilis GlpQ (strain 168, Uniprot entry P37965), Mycobacterium tuberculosis GlpQ1 (strain ATCC 25618, Uniprot entry P9WMU3), Staphylococcus aureus GlpQ (strain USA300, Uniprot entry A0A0H2XHP4), and WhyD (SP_0880) lacking its transmembrane domain (1333). The conserved metal-binding residues required for the catalytic activity are indicated by black stars....”
- Loss of glycerol catabolism confers carbon-source-dependent artemisinin resistance in Mycobacterium tuberculosis
Martini, Antimicrobial agents and chemotherapy 2024 (secret) - Gene evolutionary trajectories in Mycobacterium tuberculosis reveal temporal signs of selection
Chiner-Oms, Proceedings of the National Academy of Sciences of the United States of America 2022 - “...phylogenetic variants in genes, such as fadD30 (Rv0404), nrdZ (Rv0570), Rv1825, ephB (Rv1938), and glpQ1 (Rv3842c), appear to be associated with drug-resistant phenotypes but are likely neutral markers, a previously reported phenomenon ( 44 ). The identification of previously uncharacterized genes represents the overall value of...”
- Comparative Analysis on Proteomics Profiles of Intracellular and Extracellular M.tb and BCG From Infected Human Macrophages
Liu, Frontiers in genetics 2022 - “...hypothetical proteins (Rv3046c, Rv0025, Rv1930c, Rv1262c, Rv0464c, and Rv0293c) and two less-information proteins (Rv0634c and Rv3842c) up-regulated in the group of intracellular BCG might be considered as candidate targets for vaccine research. Differential Proteins Only in Extracellular M.tb and BCG There are 10 proteins just significantly...”
- Structural Basis of Glycerophosphodiester Recognition by the Mycobacterium tuberculosis Substrate-Binding Protein UgpB
Fenn, ACS chemical biology 2019 - “...Mtb UgpB is consistent with the intracellular location of two putative Mtb glycerophosphodiesterase enzymes (GlpQ1, Rv3842c; GlpQ2, Rv03127c) that are predicted to degrade glyercophosphodiesters to produce G3P and the corresponding alcohol. 27 , 28 In direct contrast, E.coli secretes glycerophosphodiesterase enzymes to enable the extracellular production...”
- Understanding the role of interactions between host and Mycobacterium tuberculosis under hypoxic condition: an in silico approach
Bose, BMC genomics 2018 - “...response genes were observed to be associated to this process, namely, otsB1 (Rv2006) and glpQ1 (Rv3842c). OtsB1 has been suggested to act as a trehalose monomycolate phosphatase, which participates in the synthesis of a cell-wall component arabinogalactan-mycolate [ 25 ]. However, no role in Mtb metabolism...”
- Transcriptional Profiling of Mycobacterium tuberculosis Exposed to In Vitro Lysosomal Stress
Lin, Infection and immunity 2016 - “...0.7 0.2 MT3813 MT3950 Rv3710 Rv3842c leuA glpQ1 NAD-dependent epimerase/dehydratase family protein Methylmalonate-semialdehyde dehydrogenase Probable...”
- Discovery of a glycerol 3-phosphate phosphatase reveals glycerophospholipid polar head recycling in Mycobacterium tuberculosis
Larrouy-Maumus, Proceedings of the National Academy of Sciences of the United States of America 2013 - “...the M. tuberculosis genome, Rv0317c (glpQ2) and Rv3842c (glpQ1) are annotated as glycerophosphoryl diester phosphodiesterases that may degrade polar heads...”
- “...cleaved by glycerophosphoryl diester phosphodiesterases (Rv0317c and Rv3842c) generating G3P. G3P can then be acylated by Rv1551, followed by Rv2182c and...”
- An attenuated mutant of the Rv1747 ATP-binding cassette transporter of Mycobacterium tuberculosis and a mutant of its cognate kinase, PknF, show increased expression of the efflux pump-related iniBAC operon
Spivey, FEMS microbiology letters 2013 - “...oxidoreductase 1.5 up 0.008 Rv3728 Rv3728 Probable conserved two domain membrane protein 1.5 up 0.006 Rv3842c glpQ1 Probable glycerophosphoryl diester phosphodiesterase GlpQ1 1.8 up 0.006 Rv3850 Rv3850 Conserved hypothetical protein 1.7 up 0.002 Rv3854c ethA Monooxygenase EthA 1.7 up 0.006 Rv3864 espE Esx-1 secretion-associated protein EspE...”
- More
MT3950 glycerophosphoryl diester phosphodiesterase, putative from Mycobacterium tuberculosis CDC1551
34% identity, 52% coverage
SL1344_2251 glycerophosphodiester phosphodiesterase from Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344
STM2282 glycerophosphodiester phosphodiesterase, periplasmic from Salmonella typhimurium LT2
SEN2264 glycerophosphoryl diester phosphodiesterase periplasmic precursor from Salmonella enterica subsp. enterica serovar Enteritidis str. P125109
27% identity, 92% coverage
- A Highly Effective Component Vaccine against Nontyphoidal Salmonella enterica Infections
Ferreira, mBio 2015 - “...in buffer A (20mM Tris, 500mM NaCl, 2mM MgCl 2 ; pH8) for SL1344_1780 and SL1344_2251 or buffer B (40mM Tris, 150mM NaCl, 3mM MgCl 2 , 10mM imidazole, 0.02% NaN 3 ; pH8) for all proteins except for SL1780 and SL2251. Buffers A and B...”
- Genome-scale metabolic reconstructions of multiple Salmonella strains reveal serovar-specific metabolic traits
Seif, Nature communications 2018 - “...formaldehyde STM3671 ( yiaM ) l -xylulose transport in via proton symport (C-O2+/) l -Xylulose STM2282 ( glpQ ) Glycerophosphodiester phosphodiesterase (C-O2+/, P-O2+/) Sn-Glycero-3-phosphocholine STM2037 ( pduF ) (R)-Propane-1,2-diol facilitated transport (C-O2+) (R)-Propane-1,2-diol STM1620 Glycolate oxidase (C-O2+) Glycolate STM0154 ( lpdA ) Pyruvate dehydrogenase and 2-Oxogluterate...”
- Mass spectrometry-based quantitative proteomic analysis of Salmonella enterica serovar Enteritidis protein expression upon exposure to hydrogen peroxide
Kim, BMC microbiology 2010 - “...31% STM2203 Endonuclease IV nfo 31.2 5.17 45% STM2205 Fructose-1-phosphate kinase fruK 33.71 5.36 39% STM2282 Glycerophosphodiester phosphodiesterase glpQ 40.42 5.66 24% STM2337 Acetate kinase ackA 43.26 5.93 21% STM2347 Putative phosphoesterase yfcE 19.91 5.93 43% STM2362 Amidophosphoribosyltransferase purF 56.56 5.51 23% STM2501 Polyphosphate kinase ppk...”
- “...protein mglB 34 3% STM2203 Endonuclease IV nfo 0% STM2205 Fructose-1-phosphate kinase fruK 35 3% STM2282 Glycerophosphodiester phosphodiesterase glpQ 15 3% STM2337 Acetate kinase ackA 23 3% STM2347 Putative phosphoesterase yfcE 0% STM2362 Amidophosphoribosyltransferase purF 10 4% STM2501 Polyphosphate kinase ppk 7 3% STM2549 Anaerobic sulfide...”
- Development of a new molecular subtyping tool for Salmonella enterica serovar Enteritidis based on single nucleotide polymorphism genotyping using PCR
Ogunremi, Journal of clinical microbiology 2014 - “...9 SEN0177 SEN0844 IGS SEN1595 SEN1626 SEN1906 IGS SEN2264 SEN2396 SEN2447 IGS SEN2716 SEN3225 SEN3302 SEN3678 SEN3737 SEN3761 SEN3930 SEN3953 SEN4107 IGS...”
Q6AUZ6 glycerophosphodiester phosphodiesterase from Oryza sativa subsp. japonica
29% identity, 85% coverage
NSP_RS02895 phytase from Nodularia spumigena CCY9414
30% identity, 11% coverage
GDPD_CALS4 / Q8RB32 Glycerophosphodiester phosphodiesterase; GDPD; ttGDPD; EC 3.1.4.46 from Caldanaerobacter subterraneus subsp. tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) (Thermoanaerobacter tengcongensis) (see paper)
Q8RB32 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Caldanaerobacter subterraneus subsp. tengcongensis (see paper)
2pz0B / Q8RB32 Crystal structure of glycerophosphodiester phosphodiesterase (gdpd) from t. Tengcongensis (see paper)
29% identity, 83% coverage
- function: Glycerophosphodiester phosphodiesterase hydrolyzes glycerophosphodiesters into glycerol-3-phosphate (G3P) and the corresponding alcohol (PubMed:18214974). Can use glycerophosphocholine (PubMed:18214974).
catalytic activity: a sn-glycero-3-phosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate + H(+) (RHEA:12969)
catalytic activity: sn-glycerol 3-phosphocholine + H2O = sn-glycerol 3-phosphate + choline + H(+) (RHEA:16061)
cofactor: Mg(2+) Ca(2+) (Activity is higher with Mg(2+).)
subunit: Homodimer. - Ligands: calcium ion; glycerol (2pz0B)
- Molecular cloning, heterologous expression, and enzymatic characterization of lysoplasmalogen-specific phospholipase D from Thermocrispum sp
Matsumoto, FEBS open bio 2016 - “...nassauensis (snGDPD; UniProt accession no. D3Q1U5 ) 17 and Thermoanaerobacter tengcongensis (ttGDPD; UniProt accession no. Q8RB32 ) 18 , and showed high similarity with other GDPDs as well (Fig. 6 ). However, most of them remain to be biochemically and functionally characterized. The deduced aa sequence...”
- “...(D3F5R1); ttGDPD, GDPD from Caldanaerobacter subterraneus subsp. tengcongensis ( Thermoanaerobacter tengcongensis ) strain DSM 15242 (Q8RB32); ptGDPD, GDPD from Pelotomaculum thermopropionicum strain DSM 13744 ( A5D3P2 ); pmGDPD, GDPD from Pseudomonas mendocina strain ymp (A4XQ14); tmGDPD, GDPD from Thermaerobacter marianensis strain ATCC 700841 (E6SMM5). Highly conserved...”
SCAB_74351 putative glycerophosphoryl diester phosphodiesterase from Streptomyces scabiei 87.22
C9Z5Z2 glycerophosphodiester phosphodiesterase from Streptomyces scabiei (strain 87.22)
31% identity, 84% coverage
- Comparative secretome analysis of Streptomyces scabiei during growth in the presence or absence of potato suberin
Komeil, Proteome science 2014 - “...Lipid metabolism C9Z707 SCAB_28481 d Acetyl-CoA C-acetyltransferase FadA 0.040.03 0.020.03 nd 0.010.01 nd nd C9Z5Z2 SCAB_74351 Glycerophosphoryl diester phosphodiesterase 0.090.02 0.230.07 0.230.04 nd 0.050.05 0.030.05 C9ZCR0 SCAB_78851 Sphingolipid ceramide N-deacylase 0.240.07 0.120.05 0.030.03 nd 0.150.18 0.040.03 Carbohydrate metabolism C9ZBE6 SCAB_0631 -L-fucosidase 0.030.00 0.080.02 0.060.03 nd nd...”
- “...2.31.2 1.20.6 1.00.3 SCAB_70541 C9YYE5 Lipolytic enzyme 3.61.3 b 9.44.1 b 6.50.9 b 12.91.3 b SCAB_74351 C9Z5Z2 Glycerophosphoryl diester phosphodiesterase 2.00.5 b 3.60.9 b 1.20.5 1.20.1 SCAB_78851 C9ZCR0 Sphingolipid ceramide N-deacylase 1.20.4 4.61.7 b 1.80.2 b 1.30.3 SCAB_79261 C9ZE96 Feruloyl esterase 298.3184.3 b 298.681.0 b 301.073.6...”
- Physical, Chemical and Proteomic Evidence of Potato Suberin Degradation by the Plant Pathogenic Bacterium Streptomyces scabiei
Beaulieu, Microbes and environments 2016 - “...0.14 (3.99) 0.15 (4.10) C9ZCR8 Suberinase (Sub1) 0.00 (0.00) 0.14 (7.34) 0.26 (7.41) 0.37 (9.89) C9Z5Z2 Glycerophosphoryl diester phosphodiesterase 0.10 (7.30) 0.14 (7.04) 0.18 (5.13) 0.20 (5.35) C9ZG71 Esterase A 0.35 (25.55) 0.19 (9.55) 0.15 (4.27) 0.03 (0.80) C9Z4H0 3-Hydroxyacyl coA reductase 0.00 (0.00) 0.05 (2.52)...”
- Comparative secretome analysis of Streptomyces scabiei during growth in the presence or absence of potato suberin
Komeil, Proteome science 2014 - “...0.210.03 Lipid metabolism C9Z707 SCAB_28481 d Acetyl-CoA C-acetyltransferase FadA 0.040.03 0.020.03 nd 0.010.01 nd nd C9Z5Z2 SCAB_74351 Glycerophosphoryl diester phosphodiesterase 0.090.02 0.230.07 0.230.04 nd 0.050.05 0.030.05 C9ZCR0 SCAB_78851 Sphingolipid ceramide N-deacylase 0.240.07 0.120.05 0.030.03 nd 0.150.18 0.040.03 Carbohydrate metabolism C9ZBE6 SCAB_0631 -L-fucosidase 0.030.00 0.080.02 0.060.03 nd...”
- “...C9YY49, C9ZD66, C9ZGV4, C9Z6Y2, C9Z7Q3 and C9Z776) or were more abundant in this medium (C9ZCR0, C9Z5Z2 and C9Z707). Four of these proteins, a protein from the esterase-lipase family (C9YTK3), a lipolytic enzyme (C9YYE5), a glycerophosphoryl diester phosphodiesterase (C9Z5Z2) and a putative sphingolipid ceramide N-deacylase (C9ZCR0) have...”
B8A9U7 glycerophosphodiester phosphodiesterase from Oryza sativa subsp. indica
27% identity, 60% coverage
BRE_242 glycerophosphoryl diester phosphodiesterase, periplasmic precursor (glycerophosphodiester phosphodiesterase); lipoprotein from Borrelia recurrentis A1
27% identity, 93% coverage
- Novel approaches for the serodiagnosis of louse-borne relapsing fever
Röttgerding, Frontiers in cellular and infection microbiology 2022 - “...were PCR-amplified by using genomic DNA from B. recurrentis A17 as target and primers GlpQ BRE_242 Bam and GlpQ BRE_242 Sal ( Supplementary Table1 ). The amplified PCR product was inserted into the BamHI and SalI restriction sites of pQE-30 Xa and the ligation reactions transformed...”
- The genome of Borrelia recurrentis, the agent of deadly louse-borne relapsing fever, is a degraded subset of tick-borne Borrelia duttonii
Lescot, PLoS genetics 2008 - “...with similarity to a response regulator receiver (CheY) modulated serine phosphatase (BDU_523, BRE_526), glpQ (BDU_243, BRE_242), glp T (BDU_241, BRE_240), ma f protein (BDU_127, BRE_126), hsp 20 heat shock protein (BDU_444, BRE_447), purine salvage pathway genes including peptidyl-prolyl cis-trans isomerase (BDU_407, BRE_411), and the rec family...”
1t8qB / P09394 Structural genomics, crystal structure of glycerophosphoryl diester phosphodiesterase from e. Coli
27% identity, 84% coverage
- Ligand: magnesium ion (1t8qB)
PA14_04550 glycerophosphoryl diester phosphodiesterase, periplasmic from Pseudomonas aeruginosa UCBPP-PA14
38% identity, 48% coverage
PA0347 glycerophosphoryl diester phosphodiesterase, periplasmic from Pseudomonas aeruginosa PAO1
Q9I6E6 glycerophosphodiester phosphodiesterase from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
38% identity, 48% coverage
- Targeting the Pseudomonas aeruginosa Virulence Factor Phospholipase C With Engineered Liposomes
Wolfmeier, Frontiers in microbiology 2022 - “...Tag (PAO1 ortholog) Chaperonin GroEL groEL PALES_47641 57 PA4385 Glycerophosphoryl diester phosphodiesterase glpQ PALES_03441 42 PA0347 Hemolytic phospholipase C plcH PALES_44741 83 PA0844 Hypothetical protein n.a. PALES_48751 25 PA4495 Hypothetical protein n.a. PALES_12461 42 PA3734 Ketol-acid reductoisomerase ilvC PALES_50791 36 PA4694 Major intrinsic multiple antibiotic resistance...”
- Virulence Induction in Pseudomonas aeruginosa under Inorganic Phosphate Limitation: a Proteomics Perspective
Matilla, Microbiology spectrum 2022 - “...by Xcp secretion system) 5.10 PA1871 lasA Elastase A (secreted by Xcp secretion system) ON/OFF PA0347 glpQ Glycerophosphoryl diester phosphodiesterase (secreted by Xcp secretion system) 5.31 PA3910 eddA Extracelullar DNA degradation protein (secreted by Xcp secretion system) ON/OFF Type VI secretion systems PA0082 tssA1 Type VI...”
- Contribution of the Twin Arginine Translocation system to the exoproteome of Pseudomonas aeruginosa
Ball, Scientific reports 2016 (no snippet) - Within-Host Evolution of the Dutch High-Prevalent Pseudomonas aeruginosa Clone ST406 during Chronic Colonization of a Patient with Cystic Fibrosis
van, PloS one 2016 - “...domain-containing protein TGGTAGGTA > TGGTA (-4GGTA) PA3806 putative Fe-S-cluster redox enzyme TGCCGGCCG > TGCCG (-4GCCG) PA0347 downstream of glpQ glycerophosphoryl diester phosphodiesterase T > TG (+1G) PA1713 upstream of exsA AraC family of transcriptional regulators GT > G (-1T) PA2172 putative cellulase CT > C (-1T)...”
- Cross talk between the response regulators PhoB and TctD allows for the integration of diverse environmental signals in Pseudomonas aeruginosa
Bielecki, Nucleic acids research 2015 - “...PAO1 ID name log2FC P -value log2FC P -value log2FC P -value PhoB TctD PA14_04550 PA0347 glpQ 2.03 5.56E-03 2.01 8.3E-05 8.40 2.23E-272 + + PA14_13330 PA3910 4.55 7.17E-30 1.31 2.5E-03 5.70 1.13E-47 + + PA14_20491 PA3368 1.91 6.08E-03 1.61 1.2E-02 6.05 9.89E-66 + + PA14_21610...”
- Pseudomonas aeruginosa ceftolozane-tazobactam resistance development requires multiple mutations leading to overexpression and structural modification of AmpC
Cabot, Antimicrobial agents and chemotherapy 2014 - “...Product name Locus PA0123 PA0136 PA0201 Intergenic PA0347 Name Product name Probable transcriptional regulator Probable ATP-binding component of ABC transporter...”
- Phosphate starvation promotes swarming motility and cytotoxicity of Pseudomonas aeruginosa
Bains, Applied and environmental microbiology 2012 - “...PA0091 PA0173 PA0174 PA0175 PA0176 PA0177 PA0178 PA0179 PA0347 PA0426 PA0450 PA0677 PA0678 PA0679 PA0680 PA0681 PA0682 PA0683 PA0684 PA0685 PA0686 PA0687 PA0688...”
- New microbicidal functions of tracheal glands: defective anti-infectious response to Pseudomonas aeruginosa in cystic fibrosis
Bastonero, PloS one 2009 - “...phospholipase C precursor 77 ++ 7 PA2635 Hypothetical protein PhoX, predicted phosphatase 74 ++ 8 PA0347 GlpQ glycerophosphoryl diester phosphodiesterase, periplasmic 42 ++ 9 PA5369 PstS phosphate ABC transporter, periplasmic phosphate-binding protein, PstS 34 ++ 10 and 3 PA0572 hypothetical protein unknown function probable T2SS substrate...”
- More
- Genome Wide Analysis of the Potato Soft Rot Pathogen Pectobacterium carotovorum Strain ICMP 5702 to Predict Novel Insights into Its Genetic Features.
Mallick, The plant pathology journal 2022 - “...Peg.3957 375 pelB Q59419 Pectate lyase Peg.1161 187 VC_2298 Q9KPR8 Lipoprotein, putative Peg.4064 342 glpQ Q9I6E6 Glycerophosphoryl diester phosphodiesterase Peg.1487 247 pelH E0SG38 Pectate lyase Peg.4387 297 phoA2 phoA , pstS , PA0688 P35482 Alkaline phosphatase L. Peg.3112 167 cp1 C5J5F5 Haloprotease CP1 Peg.2990 141 lipA...”
GlpQ / b2239 glycerophosphoryl diester phosphodiesterase GlpQ (EC 3.1.4.46) from Escherichia coli K-12 substr. MG1655 (see 7 papers)
glpQ / P09394 glycerophosphoryl diester phosphodiesterase GlpQ (EC 3.1.4.46) from Escherichia coli (strain K12) (see 7 papers)
GLPQ_ECOLI / P09394 Glycerophosphodiester phosphodiesterase, periplasmic; Glycerophosphoryl diester phosphodiesterase, periplasmic; EC 3.1.4.46 from Escherichia coli (strain K12) (see paper)
P09394 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Escherichia coli (see 3 papers)
glpQ glycerophosphoryl diester phosphodiesterase GlpQ; EC 3.1.4.46 from Escherichia coli K12 (see 8 papers)
NP_416742 glycerophosphoryl diester phosphodiesterase GlpQ from Escherichia coli str. K-12 substr. MG1655
b2239 periplasmic glycerophosphodiester phosphodiesterase from Escherichia coli str. K-12 substr. MG1655
27% identity, 84% coverage
- function: Glycerophosphodiester phosphodiesterase hydrolyzes glycerophosphodiesters into glycerol-3-phosphate (G3P) and the corresponding alcohol.
catalytic activity: a sn-glycero-3-phosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate + H(+) (RHEA:12969)
cofactor: Ca(2+) (Binds 1 Ca(2+) ion per subunit.)
subunit: Homodimer. - Biodistribution of 89Zr-DFO-labeled avian pathogenic Escherichia coli outer membrane vesicles by PET imaging in chickens
Li, Poultry science 2023 - “...7 P32176 FDOG Energy production and conversion Periplasm 8 P0AEQ3 GLNH Function unknown Periplasm 9 P09394 GLPQ Energy production and conversion Periplasm 10 P0AAX3 YBIJ Function unknown Periplasm 11 P0AES9 HDEA Function unknown Periplasm 12 P02925 RBSB Carbohydrate transport and metabolism Periplasm 13 P0A862 TPX Posttranslational...”
- WhyD tailors surface polymers to prevent premature bacteriolysis and direct cell elongation in Streptococcus pneumoniae
Flores-Kim, eLife 2022 - “...influenza GlpQ (strain ATCC 51907, Uniprot entry Q06282), Escherichia coli GlpQ (strain K12, Uniprot entry P09394), Bacillus subtilis GlpQ (strain 168, Uniprot entry P37965), Mycobacterium tuberculosis GlpQ1 (strain ATCC 25618, Uniprot entry P9WMU3), Staphylococcus aureus GlpQ (strain USA300, Uniprot entry A0A0H2XHP4), and WhyD (SP_0880) lacking its...”
- Exploiting bacterial outer membrane vesicles as a cross-protective vaccine candidate against avian pathogenic Escherichia coli (APEC)
Hu, Microbial cell factories 2020 - “...Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex Cytoplasmic Energy production and conversion 66.095 5.45E+09 12 P09394 glpQ Glycerophosphodiester phosphodiesterase Periplasmic Energy production and conversion 40.843 4.41E+09 13 P13036 fecA Fe (3+) dicitrate transport protein FecA Outer membrane Inorganic ion transport and metabolism 85.321 4.02E+09 14 P0A940...”
- Comparative NanoUPLC-MSE analysis between magainin I-susceptible and -resistant Escherichia coli strains
Cardoso, Scientific reports 2017 - “...Uncharacterized protein P13033 GLPB_ECOLI Downregulated 483.13 2.03 0.36 Anaerobic glycerol-3-phosphate dehydrogenase subunit B 4535.7 Metabolism P09394 GLPQ_ECOLI Downregulated 2564.38 1.40 0.18 Glycerophosphoryl diester phosphodiesterase 4084.3 Metabolism P0A9C0 GLPA_ECOLI Downregulated 2024.03 1.28 0.18 Anaerobic glycerol-3-phosphate dehydrogenase subunit A 5895.8 Metabolism P0AB14 YCCJ_ECOLI Downregulated 42340.24 0.80 0.07 Uncharacterized...”
- Decoration of outer membrane vesicles with multiple antigens by using an autotransporter approach
Daleke-Schermerhorn, Applied and environmental microbiology 2014 - “...12, 2017 by University of California, Berkeley P07024 P09394 P05458 P33363 P23847 P0A6F5 P08331 P45523 P0ADS6 P31554 P0C0V0 P02930 P45464 P0A855 P0A940 P06959...”
- The Escherichia coli proteome: past, present, and future prospects
Han, Microbiology and molecular biology reviews : MMBR 2006 - “...Glycerol kinase 5.36/56,099.57 5.30/50,642 GlpQ P09394 Glycerophosphoryl diester phosphodiesterase 5.22/38,200 GlpR P0ACL0 5.82/28,047.84 5.82/28,724 GltA...”
- MIR16, a putative membrane glycerophosphodiester phosphodiesterase, interacts with RGS16
Zheng, Proceedings of the National Academy of Sciences of the United States of America 2000 - “...this analysis are as follows: rMIR16, AF212861; ecGLPQ, P09394; ecUGPQ, P10908; bsGLPQ, P37965; scYPL206C, CAA97920; hiGLPQ, Q06282. GlpQ and UGpQ are the two...”
- Characterization of two genes, glpQ and ugpQ, encoding glycerophosphoryl diester phosphodiesterases of Escherichia coli.
Tommassen, Molecular & general genetics : MGG 1991 (PubMed)- GeneRIF: N-terminus verified by Edman degradation on mature peptide
- Expression plasmids for use in Candida glabrata
Zordan, G3 (Bethesda, Md.) 2013 - “...pBM16.1 b2458 This work KF040388 45334 pCN-LYS21-GFP LYS21pr-GFP [Ap R , NAT R ] pBM16 b2239 This work KF040389 45335 Nutritionally regulated promoters pCU-MET3 MET3pr empty vector [Ap R , URA3 ] pGRB2.1 b2453 This work KF040390 45336 pCU-MET3-GFP MET3pr-GFP [Ap R , URA3 ] pGRB2.3...”
- Analysis of promoter targets for Escherichia coli transcription elongation factor GreA in vivo and in vitro
Stepanova, Journal of bacteriology 2007 - “...inducer Glycerophosphodiester phosphodiesterase, periplasmic pepN b2151 b2239 Continued on following page Downloaded from http://jb.asm.org/ on April 16, 2019...”
- Mapping of orthologous genes in the context of biological pathways: An application of integer programming
Mao, Proceedings of the National Academy of Sciences of the United States of America 2006 - “...(phoB), b3725 (pstB), b3726 (pstA), b3727 (pstC), b3728 (pstS), b2239 (glpQ), and b2240 (glpT). By using a BDBH approach with an e-value cutoff of 1030, only...”
- Lessons from Escherichia coli genes similarly regulated in response to nitrogen and sulfur limitation
Gyaneshwar, Proceedings of the National Academy of Sciences of the United States of America 2005 - “...the carbon source we used. The glpQ and F genes (b2239 and b3927, respectively) are in K-means cluster 1, and genes in operons with them, glpT (b2240) and glpK...”
- Global analysis of genes regulated by EvgA of the two-component regulatory system in Escherichia coli
Nishino, Journal of bacteriology 2003 - “...formyl-coenzyme A transferase b3708 b3707 b2239 Metabolism Metabolism Metabolism Tryptophan deaminase Tryptophanase leader peptide Glycerophosphodiester...”
- DNA microarray analyses of the long-term adaptive response of Escherichia coli to acetate and propionate
Polen, Applied and environmental microbiology 2003 - “...1 ORF, hypothetical protein 2.11* 2.93* 1.02 b2239 b2240 glpQ glpT 1 1 Glycerophosphodiester phosphodiesterase sn-Glycerol-3-phosphate permease 0.59* 0.49* 0.75...”
S2454 glycerophosphodiester phosphodiesterase from Shigella flexneri 2a str. 2457T
27% identity, 84% coverage
BDU_243 glycerophosphoryl diester phosphodiesterase, periplasmic precursor (glycerophosphodiester phosphodiesterase) from Borrelia duttonii Ly
27% identity, 93% coverage
- The genome of Borrelia recurrentis, the agent of deadly louse-borne relapsing fever, is a degraded subset of tick-borne Borrelia duttonii
Lescot, PLoS genetics 2008 - “...protein with similarity to a response regulator receiver (CheY) modulated serine phosphatase (BDU_523, BRE_526), glpQ (BDU_243, BRE_242), glp T (BDU_241, BRE_240), ma f protein (BDU_127, BRE_126), hsp 20 heat shock protein (BDU_444, BRE_447), purine salvage pathway genes including peptidyl-prolyl cis-trans isomerase (BDU_407, BRE_411), and the rec...”
EcolC_1412 glycerophosphoryl diester phosphodiesterase from Escherichia coli C str. ATCC 8739
27% identity, 84% coverage
KAR50_03090 glycerophosphodiester phosphodiesterase from Periweissella fabaria
33% identity, 53% coverage
- Probiotic Potential and Safety Assessment of Type Strains of Weissella and Periweissella Species
Fanelli, Microbiology spectrum 2023 - “...KAR50_07900 KAR53_09415 KAR63_04370 Multidrug Glycerophosphoryl diester phosphodiesterase (EC 3.1.4.46) gdpD KAK10_06615 KAR27_05880 KAR41_03685, KAR41_08810 KAR50_02600, KAR50_03090 KAR53_00095 KAR63_03110, KAR63_01630 Multidrug Zinc ABC transporter substrate-binding protein ZnuA NA KAR27_02765 NA NA NA KAR63_00515 Multidrug Periplasmic solute binding protein, ZnuA-like ZnuC KAK10_06935 KAR27_02770 KAR41_05160 KAR50_00880 KAR53_05015 KAR63_00520 Multidrug...”
CRC_01381 glycerophosphodiester phosphodiesterase from Cylindrospermopsis raciborskii CS-505
40% identity, 36% coverage
VpaChn25_2245 glycerophosphodiester phosphodiesterase from Vibrio parahaemolyticus
29% identity, 87% coverage
- Genomic and transcriptomic analyses reveal distinct biological functions for cold shock proteins (VpaCspA and VpaCspD) in Vibrio parahaemolyticus CHN25 during low-temperature survival
Zhu, BMC genomics 2017 - “...kinase VpaChn25A_0732 2.2688 Outer membrane phospholipase A VpaChn25_0642 0.4375 Phosphatidylglycerophosphatase A VpaChn25_0885 0.3795 Surfactin synthetase VpaChn25_2245 0.2175 Glycerophosphodiester phosphodiesterase VpaChn25_2251 0.2013 Glycerol-3-phosphate dehydrogenase VpacspD mutant PTS VpaChn25A_0230 0.2003 PTS system ascorbate-specific transporter subunit IIC VpaChn25A_0231 0.1886 Sugar phosphotransferase component II B VpaChn25A_0232 0.1253 Phosphotransferase enzyme II,...”
- “...and suppressed in VpacspAD (0.0337-fold). Similarly, the glpQ and glpD genes encode a glycerophosphodiester phosphodiesterase (VpaChn25_2245) and a glycerol-3-phosphate dehydrogenase (VpaChn25_2251), and they catalyse sn-glycero-3-phosphocholine to choline and sn-glycerol-3-phosphate (G3P) and G3P to dihydroxyacetone phosphate (DHAP), respectively. Expression of the glpQ and glpD genes was also...”
EV45_RS30455 glycerophosphodiester phosphodiesterase from Planobispora rosea
37% identity, 52% coverage
- Multi-omics Study of Planobispora rosea, Producer of the Thiopeptide Antibiotic GE2270A
Del, mSystems 2021 - “...Inorganic phosphate transporter pitH1 SCO4138 ND A EV45_RS03185 Pit accessory protein (DUF47) SCO4137 ND C EV45_RS30455 Glycerophosphodiester phosphodiesterase glpQ1 SCO1565 Activation C EV45_RS19780 Glycerophosphodiester phosphodiesterase glpQ2 SCO1968 Activation C EV45_RS14425 Phospholipase D phoD SCO2068 Activation C EV45_RS22905 Alkaline phosphatase phoA SCO2286 Activation C EV45_RS14855 Alkaline phosphatase...”
ECs3124 glycerophosphodiester phosphodiesterase from Escherichia coli O157:H7 str. Sakai
Z3497 glycerophosphodiester phosphodiesterase, periplasmic from Escherichia coli O157:H7 EDL933
27% identity, 84% coverage
Tery_2777 glycerophosphoryl diester phosphodiesterase from Trichodesmium erythraeum IMS101
32% identity, 19% coverage
XP_006528360 glycerophosphoinositol inositolphosphodiesterase GDPD2 isoform X2 from Mus musculus
48% identity, 24% coverage
GDPD2_MOUSE / Q9ESM6 Glycerophosphoinositol inositolphosphodiesterase GDPD2; Glycerophosphodiester phosphodiesterase 3; Glycerophosphodiester phosphodiesterase domain-containing protein 2; Osteoblast differentiation promoting factor; EC 3.1.4.43 from Mus musculus (Mouse) (see 3 papers)
48% identity, 17% coverage
- function: Has glycerophosphoinositol inositolphosphodiesterase activity and specifically hydrolyzes glycerophosphoinositol, with no activity for other substrates such as glycerophosphoinositol 4-phosphate, glycerophosphocholine, glycerophosphoethanolamine, and glycerophosphoserine. Accelerates the program of osteoblast differentiation and growth. May play a role in remodeling of the actin cytoskeleton.
catalytic activity: sn-glycero-3-phospho-1D-myo-inositol + H2O = 1D-myo-inositol 1-phosphate + glycerol + H(+) (RHEA:14033)
cofactor: Ca(2+) - Lectin-Based Immunophenotyping and Whole Proteomic Profiling of CT-26 Colon Carcinoma Murine Model.
Faragó, International journal of molecular sciences 2024 - “...Q8BV49 Pyrin and HIN domain-containing protein 1 21.74 Q99JY3 GTPase IMAP family member 4 20.41 Q9ESM6 Glycerophosphoinositol inositolphosphodiesterase GDPD2 20 P11032 Granzyme A 19.61 Q8VHB5 Carbonic anhydrase 9 26.16 P06837 Neuromodulin 27.13 P30204 Macrophage scavenger receptor types I and II 27.82 P22935 Cellular retinoic acid-binding protein...”
VM_18070 glycerophosphodiester phosphodiesterase from Vibrio mimicus
28% identity, 84% coverage
NP_001164663 glycerophosphoinositol inositolphosphodiesterase GDPD2 isoform 1 from Homo sapiens
48% identity, 15% coverage
Q9HCC8 glycerophosphodiester phosphodiesterase (EC 3.1.4.46); glycosylphosphatidylinositol diacylglycerol-lyase (EC 4.6.1.14) from Homo sapiens (see 2 papers)
48% identity, 17% coverage
- Comparative Bioinformatic Analysis of the Proteomes of Rabbit and Human Sex Chromosomes
Pinto-Pinho, Animals : an open access journal from MDPI 2024 - “...acid receptor subunit alpha-3 SP+TM PM Q9UN88 GABRQ Gamma-aminobutyric acid receptor subunit theta SP+TM PM Q9HCC8 GDPD2 Glycerophosphoinositol inositolphosphodiesterase TM PM P08034 GJB1 Gap junction beta-1 protein TM PM P23416 GLRA2 Glycine receptor subunit alpha-2 SP+TM PM, ICPM P51654 GPC3 Glypican-3 SP CS, PM, ACPM O75487...”
- “...Ectodysplasin-A Q16206 ENOX2 * Ecto-NOX disulfide-thiol exchanger 2 P34903 GABRA3 Gamma-aminobutyric acid receptor subunit alpha-3 Q9HCC8 GDPD2 * Glycerophosphoinositol inositolphosphodiesterase GDPD2 P51654 GPC3 * Glypican-3 O75487 GPC4 * Glypican-4 Q14627 IL13RA2 * Interleukin-13 receptor subunit alpha-2 Q9NZN1 IL1RAPL1 * Interleukin-1 receptor accessory protein-like 1 P51617 IRAK1...”
- Bioinformatic characterization of angiotensin-converting enzyme 2, the entry receptor for SARS-CoV-2.
Barker, PloS one 2020 - “...(PC00108) colon-transverse TMEM236 0.894 6.66E-143 23473 Q5W0B7 Transmembrane protein 236 colon-transverse GDPD2 0.8935 1.58E-142 25974 Q9HCC8 Glycerophosphoinositol inositolphosphodiesterase GDPD2 colon-transverse PLS1 0.8932 2.81E-142 9090 Q14651 Plastin-1 non-motor actin binding protein (PC00165) colon-transverse HHLA2 0.893 3.59E-142 4905 Q9UM44 HERV-H LTR-associating protein 2 immunoglobulin receptor superfamily (PC00124) colon-transverse...”
VCA0136 glycerophosphodiester phosphodiesterase from Vibrio cholerae O1 biovar eltor str. N16961
28% identity, 84% coverage
SCLAV_0790 glycerophosphodiester phosphodiesterase from Streptomyces clavuligerus
33% identity, 73% coverage
L1007 conserved hypothetical protein from Lactococcus lactis subsp. lactis Il1403
35% identity, 39% coverage
all1051 glycerophosphoryl diester phosphodiesterase from Nostoc sp. PCC 7120
28% identity, 85% coverage
NTHI0811 glycerophosphodiester phosphodiesterase from Haemophilus influenzae 86-028NP
27% identity, 93% coverage
- Haemophilus influenzae: using comparative genomics to accurately identify a highly recombinogenic human pathogen
Price, BMC genomics 2015 - “...( NTHI0870 in 86-028NP [ 18 ]), hap ( NTHI0354 [ 18 ]), hpd ( NTHI0811 [ 21 , 22 , 27 ]), iga ( NTHI1164 [ 17 ]), lgtC ( NTHI0365 [ 17 ]), ompP2 ( NTHI0225 [ 36 ]) and ompP6 ( NTHI0501 [...”
- Antisera Against Certain Conserved Surface-Exposed Peptides of Nontypeable Haemophilus influenzae Are Protective
Whitby, PloS one 2015 - “...tpsB HI0696 Two-partner secretion system protein -barrel NTHI0816 hel HI0693 Outer membrane protein P4 Amorphous NTHI0811 glpQ HI0689 Glycerophosphodiesterase Amorphous NTHI0782 hgpB HI0661 Hemoglobin-haptoglobin utilization protein B -barrel a Proteins were initially identified as putative members of the SEP complement using PSORT and PSORTb analysis of...”
- Elicitation of epithelial cell-derived immune effectors by outer membrane vesicles of nontypeable Haemophilus influenzae
Sharpe, Infection and immunity 2011 - “...NTHI0232 NTHI1983 NTHI0987 NTHI1208 NTHI0502 NTHI0266 NTHI0811 68056946 68057911 68057836 68058015 68058015 68057774 68057203 68057518 68057010 68057646...”
XP_011543578 glycerophosphodiester phosphodiesterase domain-containing protein 5 isoform X1 from Homo sapiens
39% identity, 20% coverage
- Loss of GDE2 leads to complex behavioral changes including memory impairment.
Daudelin, Behavioral and brain functions : BBF 2024 - GeneRIF: Loss of GDE2 leads to complex behavioral changes including memory impairment.
- The Six-Transmembrane Enzyme GDE2 Is Required for the Release of Molecularly Distinct Small Extracellular Vesicles from Neurons.
Shuler, Cells 2024 - GeneRIF: The Six-Transmembrane Enzyme GDE2 Is Required for the Release of Molecularly Distinct Small Extracellular Vesicles from Neurons.
- GDE2-RECK controls ADAM10 α-secretase-mediated cleavage of amyloid precursor protein.
Nakamura, Science translational medicine 2021 - GeneRIF: GDE2-RECK controls ADAM10 alpha-secretase-mediated cleavage of amyloid precursor protein.
- Circ_0007142 downregulates miR-874-3p-mediated GDPD5 on colorectal cancer cells.
Wang, European journal of clinical investigation 2021 (PubMed)- GeneRIF: Circ_0007142 downregulates miR-874-3p-mediated GDPD5 on colorectal cancer cells.
- Glycerophosphodiesterase GDE2/GDPD5 affects pancreas differentiation in zebrafish.
van, The international journal of biochemistry & cell biology 2018 (PubMed)- GeneRIF: Data suggest that GDE2/gdpd5 play roles in pancreatic organogenesis; gdpd5 knockdown leads to defects in differentiation of pancreas in zebrafish embryos; studies with recombinant fusion proteins suggest similar roles for homologous human GDE2 and zebrafish gdpd5.
- GDPD5, a target of miR-195-5p, is associated with metastasis and chemoresistance in colorectal cancer.
Feng, Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie 2018 (PubMed)- GeneRIF: miR-195-5p is a potent suppressor of GDPD5 and that, as such, it significantly increases chemosensitivity and apoptosis in chemoresistant colorectal cells.
- Glycerophosphodiesterase GDE2 Promotes Neuroblastoma Differentiation through Glypican Release and Is a Marker of Clinical Outcome.
Matas-Rico, Cancer cell 2016 (PubMed)- GeneRIF: GDPD5 expression is strongly associated with favorable outcome in neuroblastoma. GDE2 induces differentiation of neuroblastoma cells, suppresses cell motility, and opposes RhoA-driven neurite retraction.
- Glycerophosphodiester phosphodiesterase domain containing 5 (GDPD5) expression correlates with malignant choline phospholipid metabolite profiles in human breast cancer.
Cao, NMR in biomedicine 2012 - GeneRIF: Identification of GDPD5 as a glycerophosphocholine phosphodiesterase that probably participates in the regulation of choline phospholipid metabolism in breast cancer.
- More
Q8WTR4 phosphoinositide phospholipase C (EC 3.1.4.11); glycerophosphocholine phosphodiesterase (EC 3.1.4.2); glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Homo sapiens (see 5 papers)
39% identity, 20% coverage
A4XQ14 Glycerophosphodiester phosphodiesterase from Ectopseudomonas mendocina (strain ymp)
28% identity, 85% coverage
R2866_1787 glycerophosphodiester phosphodiesterase from Haemophilus influenzae R2866
26% identity, 91% coverage
GLPQ_HAEIN / Q06282 Glycerophosphodiester phosphodiesterase; Glycerophosphoryl diester phosphodiesterase; Immunoglobulin D-binding protein; IgD-binding protein; Surface-exposed lipoprotein D; Protein D; EC 3.1.4.46 from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (see paper)
Q06282 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Haemophilus influenzae (see paper)
HI0689 glycerophosphoryl diester phosphodiesterase (glpQ) from Haemophilus influenzae Rd KW20
27% identity, 93% coverage
- function: Glycerophosphodiester phosphodiesterase hydrolyzes glycerophosphodiesters into glycerol-3-phosphate (G3P) and the corresponding alcohol. Has a specific affinity for human immunoglobulin D myeloma protein.
catalytic activity: a sn-glycero-3-phosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate + H(+) (RHEA:12969)
cofactor: Ca(2+) (Binds 1 Ca(2+) ion per subunit.) - Haemophilus influenzae Protein D antibody suppression in a multi-component vaccine formulation
Michel, FEBS open bio 2022 - “...available from the corresponding author [ lvmsch@rit.edu ] upon reasonable request. Accession Codes: Protein D: Q06282. P6: P10324. OMP26: Q57483. References 1 Casey JR , Adlowitz DG , Pichichero ME . New patterns in the otopathogens causing acute otitis media six to eight years after introduction...”
- WhyD tailors surface polymers to prevent premature bacteriolysis and direct cell elongation in Streptococcus pneumoniae
Flores-Kim, eLife 2022 - “...et al., 2011 ). Sequences included are Haemophilus influenza GlpQ (strain ATCC 51907, Uniprot entry Q06282), Escherichia coli GlpQ (strain K12, Uniprot entry P09394), Bacillus subtilis GlpQ (strain 168, Uniprot entry P37965), Mycobacterium tuberculosis GlpQ1 (strain ATCC 25618, Uniprot entry P9WMU3), Staphylococcus aureus GlpQ (strain USA300,...”
- MIR16, a putative membrane glycerophosphodiester phosphodiesterase, interacts with RGS16
Zheng, Proceedings of the National Academy of Sciences of the United States of America 2000 - “...ecGLPQ, P09394; ecUGPQ, P10908; bsGLPQ, P37965; scYPL206C, CAA97920; hiGLPQ, Q06282. GlpQ and UGpQ are the two GP-PDEs in E. coli. that MIR16 was also able to...”
- Antisera Against Certain Conserved Surface-Exposed Peptides of Nontypeable Haemophilus influenzae Are Protective
Whitby, PloS one 2015 - “...Two-partner secretion system protein -barrel NTHI0816 hel HI0693 Outer membrane protein P4 Amorphous NTHI0811 glpQ HI0689 Glycerophosphodiesterase Amorphous NTHI0782 hgpB HI0661 Hemoglobin-haptoglobin utilization protein B -barrel a Proteins were initially identified as putative members of the SEP complement using PSORT and PSORTb analysis of cellular localization...”
- The iron/heme regulated genes of Haemophilus influenzae: comparative transcriptional profiling as a tool to define the species core modulon
Whitby, BMC genomics 2009 - “...-4.78 HI0623 2.51 8.29 2.07 3.76 1.62 2.75 HI0669 -2.08 1.02 -1.72 -1.98 -1.67 -2.18 HI0689 -4.96 -3.71 -1.85 -2.94 -1.53 -2.93 HI0691 -5.71 -3.95 -3.40 -7.87 -1.61 -1.98 HI0809 -6.41 -2.41 -3.16 -3.58 -2.87 -5.29 HI0863 -2.00 -1.66 -1.88 -1.57 -1.51 -1.39 HI0864 1.89 7.42...”
- Gene expression changes triggered by exposure of Haemophilus influenzae to novobiocin or ciprofloxacin: combined transcription and translation analysis
Gmuender, Genome research 2001 - “...hi1304 hi1740 hi1305 hi0881 hi1385 hi0927 hi0921 hi0718 hi0689 hi0768 hi0624 hi0600 hi0567 hi1220 hi0785 hi0516 hi0782 hi0779 hi0571 hi0150 36 Genome Research...”
Asuc_0592 glycerophosphoryl diester phosphodiesterase from Actinobacillus succinogenes 130Z
26% identity, 81% coverage
- Transcriptome analysis and anaerobic C4 -dicarboxylate transport in Actinobacillus succinogenes
Rhie, MicrobiologyOpen 2018 - “...Table S5 ). It contained several glycerolrelated genes, including glycerol3phosphate dehydrogenase (Asuc_02035), glycerophosphoryl diester phosphodiesterase (Asuc_0592), glycerol3phosphate transporter (Asuc_0593), glycerol uptake facilitator (Asuc_1603), and glycerol kinase (Asuc_1604). A few ironrelated transporter genes (Asuc_17158, Asuc_1014, and Asuc_18201) were also grouped in cluster 1, whereas fumarate related genes...”
GDPD5_MOUSE / Q640M6 Glycerophosphodiester phosphodiesterase domain-containing protein 5; Glycerophosphocholine phosphodiesterase GDPD5; Glycerophosphodiester phosphodiesterase 2; Phosphoinositide phospholipase C GDPD5; EC 3.1.4.2; EC 3.1.4.11 from Mus musculus (Mouse) (see 3 papers)
Q640M6 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Mus musculus (see 2 papers)
37% identity, 20% coverage
- function: Glycerophosphodiester phosphodiesterase that promotes neurite formation and drives spinal motor neuron differentiation (PubMed:17275818, PubMed:18667693). Mediates the cleavage of glycosylphosphatidylinositol (GPI) anchor of target proteins: removes the GPI-anchor of RECK, leading to release RECK from the plasma membrane (By similarity). May contribute to the osmotic regulation of cellular glycerophosphocholine (PubMed:18667693).
catalytic activity: a 1,2-diacyl-sn-glycero-3-phospho-(1D-myo-inositol-4,5- bisphosphate) + H2O = 1D-myo-inositol 1,4,5-trisphosphate + a 1,2- diacyl-sn-glycerol + H(+) (RHEA:33179)
catalytic activity: sn-glycerol 3-phosphocholine + H2O = sn-glycerol 3-phosphate + choline + H(+) (RHEA:16061)
subunit: Interacts with PRDX1; forms a mixed-disulfide with PRDX1, leading to disrupt intramolecular disulfide bond between Cys-25 and Cys-571. - Label-Free Proteomic Analysis of Protein Changes in the Striatum during Chronic Ethanol Use and Early Withdrawal.
Ayers-Ringler, Frontiers in behavioral neuroscience 2016 - “...voltage gated KQT-like subfamily Q, member 3 Q8K3F6 4.013 GDPD5 Glycerophosphodiester phosphodiesterase domain containing 5 Q640M6 3.503 ELFN1 Extracellular leucine-rich repeat and fibronectin type III domain containing 1 Q8C8T7 3.385 LAMP5 Lysosomal-associated membrane protein family, member 5 Q9D387 3.080 MCTP1 Multiple C2 domains, transmembrane 1 E9PW38...”
- “...ATP-binding cassette, sub-family B (MDR/TAP), member 11 J3QNY6 4.457 GDPD5 Glycerophosphodiester phosphodiesterase domain containing 5 Q640M6 3.613 LAMP5 Lysosomal-associated membrane protein family, member 5 Q9D387 3.531 KCNQ3 Potassium channel, voltage gated KQT-like subfamily Q, member 3 Q8K3F6 3.201 DOWN CAMK2A Calcium/calmodulin-dependent protein kinase II alpha F8WIS9...”
XP_011240040 glycerophosphodiester phosphodiesterase domain-containing protein 5 isoform X1 from Mus musculus
37% identity, 20% coverage
- Loss of GDE2 leads to complex behavioral changes including memory impairment.
Daudelin, Behavioral and brain functions : BBF 2024 - GeneRIF: Loss of GDE2 leads to complex behavioral changes including memory impairment.
- GDE2 expression in oligodendroglia regulates the pace of oligodendrocyte maturation.
Choi, Developmental dynamics : an official publication of the American Association of Anatomists 2021 - GeneRIF: GDE2 expression in oligodendroglia regulates the pace of oligodendrocyte maturation.
- GDE2-Dependent Activation of Canonical Wnt Signaling in Neurons Regulates Oligodendrocyte Maturation.
Choi, Cell reports 2020 - GeneRIF: GDE2-Dependent Activation of Canonical Wnt Signaling in Neurons Regulates Oligodendrocyte Maturation.
- GDE2 is essential for neuronal survival in the postnatal mammalian spinal cord.
Cave, Molecular neurodegeneration 2017 - GeneRIF: GDE2 is essential for neuronal survival in the postnatal mammalian spinal cord
- High NaCl- and urea-induced posttranslational modifications that increase glycerophosphocholine by inhibiting GDPD5 phosphodiesterase.
Topanurak, Proceedings of the National Academy of Sciences of the United States of America 2013 - GeneRIF: posttranslational modifications increase glycerophosphocholine by inhibiting GDPD5 phosphodiesterase.
- Gde2 regulates cortical neuronal identity by controlling the timing of cortical progenitor differentiation.
Rodriguez, Development (Cambridge, England) 2012 (PubMed)- GeneRIF: a key role for Gde2 in controlling cortical neuronal fates by regulating the timing of neurogenesis, and loss of Gde2 uncovers additional mechanisms that trigger remaining neuronal progenitors to differentiate at the end of the neurogenic period.
- GDE2 regulates subtype-specific motor neuron generation through inhibition of Notch signaling.
Sabharwal, Neuron 2011 - GeneRIF: Data suggest that neuronal GDE2 controls motor neuron subtype diversity through a non-cell-autonomous feedback mechanism that directly regulates progenitor cell differentiation.
- The antioxidant enzyme Prdx1 controls neuronal differentiation by thiol-redox-dependent activation of GDE2.
Yan, Cell 2009 - GeneRIF: Study identified the antioxidant enzyme Prdx1 as an interactor of GDE2 and uncover a developmental role for Prdx1 in regulating neuronal differentiation in the spinal cord.
- More
VC1554 glycerophosphoryl diester phosphodiesterase, putative from Vibrio cholerae O1 biovar eltor str. N16961
38% identity, 34% coverage
- Parallel quorum-sensing system in Vibrio cholerae prevents signal interference inside the host
Watve, PLoS pathogens 2020 - “...predicted to be catalyzed by two V . cholerae glycerophosphodiester phosphodiesterases VCA0136 (GlpQ homolog) and VC1554 (UgpQ homolog). We therefore deleted the genes encoding both phosophodiesterases in the 3 cqsR + strain. 1 H NMR was used to measure ethanolamine level in the cell-free supernatants derived...”
- “...while no additional ethanolamine was detected in the supernatants from the 3 cqsR + vca0136 vc1554 . Similarly, supernatants from 3 cqsR + grown in M9 + 1% casamino acids contained 40 M ethanolamine while the 3 cqsR + vca0136 vc1554 mutants contained no detectable ethanolamine....”
- Nonhemolysis of epidemic El Tor biotype strains of Vibrio cholerae is related to multiple functional deficiencies of hemolysin A
Fan, Gut pathogens 2019 - “...Hemolysis test Cytoplasmic hemolysis test Hemolysis test Cytoplasmic hemolysis test VC1627 + + ND 0.024 VC1554 + + ND 0.015 VC9 + + ND ND VC3 + + 1.284 VC136 + + 1.132 VC2177 + + 5.856 VC4835 + + 2.411 VC1301 + ND 0.228 VC4979...”
- “...the cultured bacterial cells (Table 2 and Fig. 5 ). Among them, three strains (VC1627, VC1554 and VC9) were previously non-hemolytic, but their cytoplasm and their hlyA overexpression transformants were hemolytic (Table 2 and Fig. 5 a), suggesting that, for these wildtype strains, HlyA expression was...”
XP_015136462 glycerophosphodiester phosphodiesterase domain-containing protein 5 isoform X1 from Gallus gallus
47% identity, 16% coverage
- Prdx4 is a compartment-specific H2O2 sensor that regulates neurogenesis by controlling surface expression of GDE2.
Yan, Nature communications 2015 - GeneRIF: Prdx4 dimers generated by hydrogen peroxide metabolism oxidize two cysteine residues within the GDE2 enzymatic domain, which blocks GDE2 trafficking to the plasma membrane and prevents GDE2 neurogeneic function.
- GDE2 promotes neurogenesis by glycosylphosphatidylinositol-anchor cleavage of RECK.
Park, Science (New York, N.Y.) 2013 - GeneRIF: This study identifies a previously unrecognized mechanism to initiate neurogenesis that involves GDE2-mediated surface cleavage of GPI-anchored targets to inhibit Dll1-Notch signaling.
- GDP-bound Galphai2 regulates spinal motor neuron differentiation through interaction with GDE2.
Periz, Developmental biology 2010 - GeneRIF: Study shows that Galphai2 function is mediated in part by its interaction with GDE2, a known regulator of motor neuron differentiation, and that disruption of the GDE2/Galphai2 complex in vivo causes motor neuron deficits analogous to Galphai2 ablation.
- The antioxidant enzyme Prdx1 controls neuronal differentiation by thiol-redox-dependent activation of GDE2.
Yan, Cell 2009 - GeneRIF: Study identified the antioxidant enzyme Prdx1 as an interactor of GDE2 and uncover a developmental role for Prdx1 in regulating neuronal differentiation in the spinal cord.
- Transmembrane protein GDE2 induces motor neuron differentiation in vivo.
Rao, Science (New York, N.Y.) 2005 (PubMed)- GeneRIF: a retinoid-inducible gene, GDE2 (glycerophosphodiester phosphodiesterase 2), encoding a six-transmembrane protein that is necessary and sufficient to drive spinal motor neuron differentiation in vivo was identified
GDPD5_CHICK / Q3KTM2 Glycerophosphodiester phosphodiesterase domain-containing protein 5; Glycerophosphocholine phosphodiesterase GDPD5; Glycerophosphodiester phosphodiesterase 2; Phosphoinositide phospholipase C GDPD5; EC 3.1.4.2; EC 3.1.4.11 from Gallus gallus (Chicken) (see 3 papers)
47% identity, 16% coverage
- function: Glycerophosphodiester phosphodiesterase that promotes cell cycle exit and drives spinal motor neuron differentiation (PubMed:16195461, PubMed:19766572, PubMed:23329048). Mediates the cleavage of glycosylphosphatidylinositol (GPI) anchor of target proteins: removes the GPI-anchor of RECK, leading to release RECK from the plasma membrane (PubMed:23329048). May contribute to the osmotic regulation of cellular glycerophosphocholine (By similarity).
catalytic activity: a 1,2-diacyl-sn-glycero-3-phospho-(1D-myo-inositol-4,5- bisphosphate) + H2O = 1D-myo-inositol 1,4,5-trisphosphate + a 1,2- diacyl-sn-glycerol + H(+) (RHEA:33179)
catalytic activity: sn-glycerol 3-phosphocholine + H2O = sn-glycerol 3-phosphate + choline + H(+) (RHEA:16061)
subunit: Interacts with PRDX1; forms a mixed-disulfide with PRDX1, leading to disrupt intramolecular disulfide bond between Cys-25 and Cys-576.
EHI_068320 glycerophosphoryl diester phosphodiesterase, putative from Entamoeba histolytica HM-1:IMSS
35% identity, 36% coverage
- Lipids in Entamoeba histolytica: Host-Dependence and Virulence Factors
Castellanos-Castro, Frontiers in cellular and infection microbiology 2020 - “...EHI_136400 2.3.1.43 Lysophospholipid acyltransferase EHI_086180 2.3.1.51 Lysophospholipase III EHI_020250 3.1.1.5 Glycerophosphoryl diester phosphodiesterase EHI_059880 EHI_113970 EHI_068320 EHI_199860 3.1.4.46 Phosphatidylethanolamine/phosphatidyl-N-methylethanolamine N-methyltransferase EHI_153710 2.1.1.71 Diacylglycerol diphosphate phosphatase/phosphatidate phosphatase EHI_165320 3.1.3.4 Diacylglycerol acyltransferase EHI_099180 2.3.1.158 Phospholipase D1/2 EHI_082560 EHI_146550 EHI_146400 3.1.4.4 Diacylglycerol kinase (ATP) EHI_045610 EHI_153440 2.7.1.107 Phosphatidate cytidylyltransferase...”
- Identification and Characterization of the Entamoeba Histolytica Rab8a Binding Protein: A Cdc50 Homolog
Hanadate, International journal of molecular sciences 2018 - “...band, six candidate proteins involved in lipid metabolism were identified: sphingomyelin phosphodiesterase (EHI_100080), glycerophosphodiester phosphodiesterase (EHI_068320), cytosolic tldc domain-containing protein (EHI_134660), C2 domain containing protein (EHI_069950), lysosomal vacuolar ATP synthase subunit (EHI_106350) and mitosome luminal protein sulfate adenylyltransferase (EHI_197160) ( Table 2 ). Among these candidates,...”
- “...of these proteins to EhRab8A remain elusive, because we failed to establish amoeba transformants expressing EHI_068320 despite our repeated attempts. 2.2. Confirmation of Binding of EhCdc50 and EhRab8A The interaction of EhCdc50 and EhRab8A was confirmed by reciprocal coimmunoprecipitation of EhRab8A from N -terminal HA-tagged-EhCdc50-expressing cells...”
8cwpA / Q06282 X-ray crystal structure of nthi protein d bound to a putative glycerol moiety (see paper)
27% identity, 81% coverage
SACOL1770 glycerophosphoryl diester phosphodiesterase, putative from Staphylococcus aureus subsp. aureus COL
SAUSA300_1667 putative glycerophosphoryl diester phosphodiesterase from Staphylococcus aureus subsp. aureus USA300_FPR3757
31% identity, 49% coverage
KAR41_08810 glycerophosphodiester phosphodiesterase from Periweissella fabalis
30% identity, 53% coverage
- Probiotic Potential and Safety Assessment of Type Strains of Weissella and Periweissella Species
Fanelli, Microbiology spectrum 2023 - “...KAR27_01760 KAR41_03120 KAR50_07900 KAR53_09415 KAR63_04370 Multidrug Glycerophosphoryl diester phosphodiesterase (EC 3.1.4.46) gdpD KAK10_06615 KAR27_05880 KAR41_03685, KAR41_08810 KAR50_02600, KAR50_03090 KAR53_00095 KAR63_03110, KAR63_01630 Multidrug Zinc ABC transporter substrate-binding protein ZnuA NA KAR27_02765 NA NA NA KAR63_00515 Multidrug Periplasmic solute binding protein, ZnuA-like ZnuC KAK10_06935 KAR27_02770 KAR41_05160 KAR50_00880 KAR53_05015...”
Q8CJI8 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Streptomyces coelicolor (see paper)
SCO1565 glycerophosphoryl diester phosphodiesterase from Streptomyces coelicolor A3(2)
30% identity, 79% coverage
- Multi-omics Study of Planobispora rosea, Producer of the Thiopeptide Antibiotic GE2270A
Del, mSystems 2021 - “...SCO4138 ND A EV45_RS03185 Pit accessory protein (DUF47) SCO4137 ND C EV45_RS30455 Glycerophosphodiester phosphodiesterase glpQ1 SCO1565 Activation C EV45_RS19780 Glycerophosphodiester phosphodiesterase glpQ2 SCO1968 Activation C EV45_RS14425 Phospholipase D phoD SCO2068 Activation C EV45_RS22905 Alkaline phosphatase phoA SCO2286 Activation C EV45_RS14855 Alkaline phosphatase Activation C EV45_RS34915 TAT-secreted...”
- Identified members of the Streptomyces lividans AdpA regulon involved in differentiation and secondary metabolism
Guyet, BMC microbiology 2014 - “...tgtcgcgcca 4.36 -28 0.615 s. m. SCO0929 SLI1160 SGR710 tggccggacg 5.19 -201 0.419 u. f. SCO1565 SLI1668 SGR5973 glpQ1 cggccggaac 6.75 -82 0.531 c. e. SCO1630 SLI1934 SGR1063 cvn9, rarA tgtcgggatc 6.71 -74 0.505 c. e. SCO1674 SLI1979 SGR5829 chpC cggcggaatc 5.69 -154 0.564 c. e....”
- Comparative proteomic analysis of Streptomyces lividans Wild-Type and ppk mutant strains reveals the importance of storage lipids for antibiotic biosynthesis
Le, Applied and environmental microbiology 2013 - “...(myoinositol catabolism protein IolB; putative 5-deoxy-glucuronate isomerase) SCO3051 SCO1565 Q7AKM9 Q8CJI8 42/5.3 39/6.2 103 225 26 44 Up Down 4 4 SCO6976...”
- “...reduction in the level of GlpQ1 (SCO1565), an enzyme hydrolyzing major glycerophospholipids of biological membranes (phosphatidylinositol and phosphatidylserine...”
- Diverse control of metabolism and other cellular processes in Streptomyces coelicolor by the PhoP transcription factor: genome-wide identification of in vivo targets
Allenby, Nucleic acids research 2012 - “...the recovery of inorganic phosphate (P i ) from organic sources ( 4 ) and SCO1565 and SCO1968 (encoding glycerophosphoryl diester phosphodiesterases involved in the hydrolysis of deacylated phospholipids) ( 5 ). The functions of several of the other known PhoP targets are not yet clear....”
- Metabolic switches and adaptations deduced from the proteomes of Streptomyces coelicolor wild type and phoP mutant grown in batch culture
Thomas, Molecular & cellular proteomics : MCP 2012 - “...or possible PhoP-regulated gene products (encoded by SCO1565, glpQ1; SCO1968, glpQ2; SCO4151; and SCO3790) and two alkaline phosphatase-like proteins (SCO2068...”
- Extracellular Streptomyces vesicles: amphorae for survival and defence
Schrempf, Microbial biotechnology 2011 - “...phosphate. To compensate, they frequently utilize a range of organic phosphorous compounds. The secreted proteins SCO1565 and SCO1968 from S. coelicolor M110 have a glycerophosphodiester phosphodiesterase domain; this is known to hydrolyse glycerophosphodiesters (derived by deacetylation of phospholipids) to glycerol3phosphate and the corresponding alcohol moiety. Previous...”
- “...showed that the presence of inorganic phosphate inhibited the expression of both the genes encoding SCO1565 and SCO1968. One encountered S. coelicolor M110 protein SCO3484 is related to an Escherichia coli protein, which is required for binding glycerol3phosphate. In contrast to E. coli , the S....”
- Genome-wide transcriptome analysis reveals that a pleiotropic antibiotic regulator, AfsS, modulates nutritional stress response in Streptomyces coelicolor A3(2)
Lian, BMC genomics 2008 - “...]. In addition, several genes encoding twin-arginine translocation (Tat) dependent exported proteins ( SCO1196 , SCO1565 , SCO1633 , SCO1906 , SCO2286 , SCO3790 , SCO6691 and SCO7631 ) identified in an earlier study [ 24 ] also belonged to this category. Several other genes encoding...”
- “...protein 0.36 SCO1290 Putative secreted alkaline phosphatase 0.19 SCO1564 Putative RNA polymerase sigma factor 0.10 SCO1565 Putative glycerophosphoryl diester phosphodiesterase 0.46 SCO1633 Tat dependent secreted protein ( tatA ) 0.23 SCO1906 Probable Tat dependent secreted protein 0.40 SCO1968 Glycerophosphoryl diester phosphodiesterase ( glpQ ) 0.52 SCO1969...”
- The twin-arginine translocation pathway is a major route of protein export in Streptomyces coelicolor
Widdick, Proceedings of the National Academy of Sciences of the United States of America 2006 - “...work Protein SCO0736 SCO1172 SCO1196 SCO1356* SCO1432 SCO1565 SCO1590 SCO1639 SCO1906 SCO2068 SCO2286 SCO2758 SCO2780 SCO2786 SCO3484 SCO3790 SCO4672 SCO6052...”
- Comparative proteomic analysis of Streptomyces lividans Wild-Type and ppk mutant strains reveals the importance of storage lipids for antibiotic biosynthesis
Le, Applied and environmental microbiology 2013 - “...protein IolB; putative 5-deoxy-glucuronate isomerase) SCO3051 SCO1565 Q7AKM9 Q8CJI8 42/5.3 39/6.2 103 225 26 44 Up Down 4 4 SCO6976 Q9KZH6 32/5.1 184 45...”
KAR41_03685 glycerophosphodiester phosphodiesterase family protein from Periweissella fabalis
32% identity, 50% coverage
- Probiotic Potential and Safety Assessment of Type Strains of Weissella and Periweissella Species
Fanelli, Microbiology spectrum 2023 - “...KAK10_05885 KAR27_01760 KAR41_03120 KAR50_07900 KAR53_09415 KAR63_04370 Multidrug Glycerophosphoryl diester phosphodiesterase (EC 3.1.4.46) gdpD KAK10_06615 KAR27_05880 KAR41_03685, KAR41_08810 KAR50_02600, KAR50_03090 KAR53_00095 KAR63_03110, KAR63_01630 Multidrug Zinc ABC transporter substrate-binding protein ZnuA NA KAR27_02765 NA NA NA KAR63_00515 Multidrug Periplasmic solute binding protein, ZnuA-like ZnuC KAK10_06935 KAR27_02770 KAR41_05160 KAR50_00880...”
B7HYD4 Glycerophosphoryl diester phosphodiesterase family protein from Bacillus cereus (strain AH187)
30% identity, 55% coverage
Atu4212 glycerophosphodiester phosphodiesterase from Agrobacterium tumefaciens str. C58 (Cereon)
40% identity, 34% coverage
Q79LP3 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Pasteurella multocida (see paper)
PM1444 GlpQ from Pasteurella multocida subsp. multocida str. Pm70
30% identity, 50% coverage
WP_005752028 glycerophosphodiester phosphodiesterase from Pasteurella multocida
30% identity, 50% coverage
FN1908 Glycerophosphoryl diester phosphodiesterase from Fusobacterium nucleatum subsp. nucleatum ATCC 25586
26% identity, 90% coverage
- Fusobacteriumnucleatum Adheres to Clostridioides difficile via the RadD Adhesin to Enhance Biofilm Formation in Intestinal Mucus
Engevik, Gastroenterology 2021 - “...difficile pathogenesis 25 , 37 . F. nucleatum encodes three glycerolphosphoryl diester phosphodiesterase proteins (FN1891, FN1908, and FN1954) that can generate ethanolamine 38 . While ethanolamine membrane diffusion in other microbial species is low, diffusion is amplified by F. nucleatums ethanolamine permease (FN0089) 39 . Similar...”
- Proteomics of Fusobacterium nucleatum within a model developing oral microbial community
Hendrickson, MicrobiologyOpen 2014 - “...to break down phosphatidylethanolamine directly, it does code for three glycerolphosphoryl diester phosphodiesterase proteins (FN1891, FN1908, and FN1954) that can provide ethanolamine from glycerophosphoethanolamine, a breakdown product of phosphatidylethanolamine. While ethanolamine can diffuse through the membrane under low pH conditions, diffusion has been amplified by ethanolamine...”
- “...seen in either of the two organism pellets. The two detected glycerophosphoryl diester phosphodiesterases (FN1891, FN1908) also showed a similar pattern. The cobalamin adenosyltransferase (FN0085) was undetected and cobalamin biosynthesis proteins were relatively unchanged, though cobalamin would also be utilized in other pathways. Fn in the...”
- Evolutionary relationships of Fusobacterium nucleatum based on phylogenetic analysis and comparative genomics
Mira, BMC evolutionary biology 2004 - “...stabilization Flanked by 3528 bp hypothet. protein with eukaryotic best-match followed by long spacer 2577 FN1908 to FN1911 Geobacter sulfurreducens 10 capsule biosynthesis Includes 2 short ORFs (possible HIPA pseudogenes) 2346 FN1997 to FN2003 Bordetella bronchiseptica Yersinia pestis 11 Slow porin homologous to OmpA ( Bacteroides...”
APL_0378 glycerophosphoryl diester phosphodiesterase from Actinobacillus pleuropneumoniae L20
30% identity, 51% coverage
- Microarray-based comparative genomic profiling of reference strains and selected Canadian field isolates of Actinobacillus pleuropneumoniae
Gouré, BMC genomics 2009 - “...A1 infections [ 66 ], thus suggesting PlpD may be a protective antigen. Another candidate, APL_0378, a glycerophosphodiester phosphodiesterase (GlpQ), showed 82% and 79.5% identity to GlpQ of Pasteurella multocida and protein D of Haemophilus influenzae , respectively. The role of GlpQ in A. pleuropneumoniae and...”
- “...APL_0332 hlpB lipoprotein HlpB APL_0356 APL_0356 hypothetical protein APL_0368 potD2 spermidine/putrescine-binding periplasmic protein 1 precursor APL_0378 glpQ glycerophosphoryl diester phosphodiesterase APL_0389 ompP4 lipoprotein E precursor APL_0428 smpA small protein A APL_0603 APL_0603 hypothetical protein APL_0611 APL_0611 putative lipoprotein APL_0642 mltB membrane-bound lytic murein transglycosylase B APL_0777...”
3qvqA The structure of an oleispira antarctica phosphodiesterase olei02445 in complex with the product sn-glycerol-3-phosphate
44% identity, 27% coverage
- Ligands: sn-glycerol-3-phosphate; magnesium ion (3qvqA)
BA_0477 GDPD, Glycerophosphoryl diester phosphodiesterase from Bacillus anthracis str. A2012
29% identity, 55% coverage
LP_RS06730 glycerophosphodiester phosphodiesterase from Lactiplantibacillus plantarum WCFS1
38% identity, 36% coverage
XP_682806 glycerophosphodiester phosphodiesterase domain-containing protein 5 isoform X2 from Danio rerio
35% identity, 26% coverage
MDG893_00180 glycerophosphoryl diester phosphodiesterase from Marinobacter algicola DG893
34% identity, 24% coverage
- Loss of Motility as a Non-Lethal Mechanism for Intercolony Inhibition ("Sibling Rivalry") in Marinobacter
Cruz-López, Microorganisms 2021 - “...Glycerophosphoryl diester phosphodiesterase MDG893_19429 Query EDM49251.1 FAD dependent oxidoreductase MDG893_07635 0.890 EDM47432.1 Glycerophosphoryl diester phosphodiesterase MDG893_00180 0.877 gpsA Glycerol-3-phosphate dehydrogenase (GPDH) MDG893_06880 0.807 EDM47089.1 Glycerol kinase MDG893_11889 0.756 EDM45841.1 Glycerol kinase MDG893_05159 0.756 EDM46512.1 Phosphodiesterase/alkaline phosphatase D MDG893_20089 0.754 EDM47357.1 Flagellar secretion chaperone protein FliS MDG893_01080...”
KAR63_01630 glycerophosphodiester phosphodiesterase family protein from Weissella uvarum
25% identity, 83% coverage
- Probiotic Potential and Safety Assessment of Type Strains of Weissella and Periweissella Species
Fanelli, Microbiology spectrum 2023 - “...Multidrug Glycerophosphoryl diester phosphodiesterase (EC 3.1.4.46) gdpD KAK10_06615 KAR27_05880 KAR41_03685, KAR41_08810 KAR50_02600, KAR50_03090 KAR53_00095 KAR63_03110, KAR63_01630 Multidrug Zinc ABC transporter substrate-binding protein ZnuA NA KAR27_02765 NA NA NA KAR63_00515 Multidrug Periplasmic solute binding protein, ZnuA-like ZnuC KAK10_06935 KAR27_02770 KAR41_05160 KAR50_00880 KAR53_05015 KAR63_00520 Multidrug ABC transporter, TroCD-like...”
XP_005157799 glycerophosphodiester phosphodiesterase domain-containing protein 5 isoform X1 from Danio rerio
34% identity, 24% coverage
GLPQ_TREPA / O30405 Glycerophosphodiester phosphodiesterase; Glycerophosphoryl diester phosphodiesterase; Gpd; EC 3.1.4.46 from Treponema pallidum (strain Nichols) (see 5 papers)
O30405 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Treponema pallidum (see paper)
TP0257 glycerophosphoryldiester phosphodiesterase (glpQ) from Treponema pallidum subsp. pallidum str. Nichols
38% identity, 34% coverage
- function: Glycerophosphoryl diester phosphodiesterase hydrolyzes deacylated phospholipids to G3P and the corresponding alcohols.
function: Binds human IgA, IgD and the Fc portion of IgG but not IgM, which may contribute to evasion of the human immune system.
catalytic activity: a sn-glycero-3-phosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate + H(+) (RHEA:12969) - A novel pan-proteome array for high-throughput profiling of the humoral response to Treponema pallidum
Campo, iScience 2024 - “...2.86/5.40 100/100 30/30 Tp0618 Hypothetical protein 3.31/4.43 100/100 30/40 Tp0100 TlpA/disulfide reductase 3.66/4.71 100/100 30/40 Tp0257 GpD/glycerophosphodiester phosphodiesterase 4.02/4.19 100/100 20/20 Tp0594 Hypothetical protein 3.83/4.29 100/100 30/40 Tp0737 Periplasmic binding protein ABC transporter 3.76/3.46 100/100 30/50 The line plot is selecting antigens by the means of...”
- Syphilis vaccine: challenges, controversies and opportunities
Ávila-Nieto, Frontiers in immunology 2023 - “...protection in the vaccinated animals that had high antigen-specific antibody titers ( 176 ). 5.3.2 Tp0257 Tp0257 (or GpD) was identified using a treponema genetic expression library and opsonized rabbit immune sera. This protein presents homology with H. influenzae GplQ protein, a glycerolphosphodiester phosphodiesterase protein, which...”
- “...Moreover, GpD was isolated from OM preparations ( 179 ). Interestingly, rabbits immunized with recombinant Tp0257 exhibited a reduction in lesions development and bacterial proliferation after TPA challenge ( 178 ). Contrarily, Shevchenko etal., showed that Tp0257 could be a periplasmic protein, since they did not...”
- Resurgence of syphilis: focusing on emerging clinical strategies and preclinical models
Xiong, Journal of translational medicine 2023 - “...and exhibits metalloprotease activity None None /41.8 ELISA 2003 [ 7 ] Putative periplasmic proteins tp0257 Gpd Glycerophosphodiester phosphodiesterase, binds Fc-fragment of human IgA, IgD, and IgG immunoglobulins 3.07.3 None All stages 91/93 ELISA 2003 [ 7 ] tp1038 TpF1 Bacterioferritin, homodecamer from 19-kDa subunits 0.82.2...”
- Advancements in the development of nucleic acid vaccines for syphilis prevention and control
Li, Human vaccines & immunotherapeutics 2023 - “...PUF PUF TP0136 Fibronectin-binding protein Adhesive to colonization,production of protective antibodies 90 , 91 Maybe TP0257 OMP (Gpd) highly conserved among different strains, producing strong partial protective immunity 92 , 93 Sure TP0326 OMP (Tp92) inflammatory response, inducing death of numerous immune response cells;highly conservative among...”
- Transcriptional and immunological analysis of the putative outer membrane protein and vaccine candidate TprL of Treponema pallidum
Haynes, PLoS neglected tropical diseases 2021 - “...tp0145 HEX-ACTTTTACCGCAGCGTGTTT TACCCCTCAAGCACTCTCAC 250 +1191 tp0179 NED-TGTCTGCACTGTCTTCCACA ATCTTCCTCTGTGCCGTGAA 238 -80 tp0216 FAM-GGCTCGATGTGAAGCGTATT ACGTGCATCAAAGTCATCGC 202 +60 tp0257 FAM-AAGGTAGGATCAGCGCTCAG GTTTCTTACTTTCGAGGCAAAGGTGTG 228 +29 tp0279 NED-TCCGTTTTCTGCCCTGTACT GTTTCTTTCAAGAGCGATGATCACGGT 162 +7 tp0347 FAM-GTTGGTCCCAGTGGTTGTTC GTTTCTTACGACAATGCCCAGAAACAC 169 +99 tp0379 HEX- AGCAGGGTTACACGTACGAA GTTTCTTAGCCAAAGATGAGCCTGAGT 193 -70 tp0381 HEX-CCAGCTCACATACATCCCCT GTTTCTTAAAAGACCCGTATCCGCCA 176 -7 tp0479 HEX-TGGCATACTCCTCTTCGCAA CAGCGAGCAAAGAACCTACG 180 +95...”
- “...while four appeared to be minimally variable or not variable at all ( tp0145 , tp0257 , tp216 , and tp0986 ) ( Fig 5 ). Poly-Gs of up to ten different lengths (e.g. for the tp0381 gene) could be detected. Assessment of tp1030 transcription using...”
- Novel Treponema pallidum Recombinant Antigens for Syphilis Diagnostics: Current Status and Future Prospects
Kubanov, BioMed research international 2017 - “...diagnostics [ 52 ]. Now Tp0453 together with conventional Tp15, Tp17, Tp47, TmpA, and novel Tp0257 (Gpd) antigens is included into the panel of commercially available WB kit Recom Blot Treponema IgG/IgM 2.0 (Mikrogen GmbH, Germany). 7. Novel Treponema pallidum Derived Recombinant Products: Adhesins and Periplasmic...”
- “...early latent syphilis [ 17 ]. Finally, in comparative studies Tp0751 revealed lower seroreactivity than Tp0257 (Gpd) and Tp1038 (TpF1) [ 55 ]. However, being limited for diagnostic use, the Tp0751 protein showed good immunoprotective properties, allowing it to be considered as a promising syphilis vaccine...”
- Transcription of TP0126, Treponema pallidum putative OmpW homolog, is regulated by the length of a homopolymeric guanosine repeat
Giacani, Infection and immunity 2015 - “...TP0084 TP0107 TP0127 TP0136 TP0193 TP0216 TP0230 TP0257 Flagellar motor switch protein Hypothetical proteins Hypothetical protein Conserved hypothetical protein...”
- Advances in the diagnosis of endemic treponematoses: yaws, bejel, and pinta
Mitjà, PLoS neglected tropical diseases 2013 - “...change/Eco47III digestion pattern) 759/191605 C/cut T/no cut T/no cut T/no cut 1998 [92] gpd , TP0257 (nt change/PleI digestion pattern) 579/269535 A/no cut G/cut G/cut G/cut 1999 [93] tprC , TP0117(nt change/BsrDI digestion pattern) 17261733/134662134669 CATTG/cut e TATTA/no cut CATTG/cut CATTG/cut 2006 [4] tprI , TP0620...”
- More
TPANIC_0257 glycerophosphodiester phosphodiesterase from Treponema pallidum subsp. pallidum str. Nichols
38% identity, 34% coverage
LIC13182 glycerophosphoryl diester phosphodiesterase from Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130
26% identity, 82% coverage
KAR50_02600 glycerophosphodiester phosphodiesterase from Periweissella fabaria
34% identity, 38% coverage
- Probiotic Potential and Safety Assessment of Type Strains of Weissella and Periweissella Species
Fanelli, Microbiology spectrum 2023 - “...KAR41_03120 KAR50_07900 KAR53_09415 KAR63_04370 Multidrug Glycerophosphoryl diester phosphodiesterase (EC 3.1.4.46) gdpD KAK10_06615 KAR27_05880 KAR41_03685, KAR41_08810 KAR50_02600, KAR50_03090 KAR53_00095 KAR63_03110, KAR63_01630 Multidrug Zinc ABC transporter substrate-binding protein ZnuA NA KAR27_02765 NA NA NA KAR63_00515 Multidrug Periplasmic solute binding protein, ZnuA-like ZnuC KAK10_06935 KAR27_02770 KAR41_05160 KAR50_00880 KAR53_05015 KAR63_00520...”
LIMLP_01550 glycerophosphodiester phosphodiesterase from Leptospira interrogans serovar Manilae
27% identity, 83% coverage
SA0969 hypothetical protein from Staphylococcus aureus subsp. aureus N315
40% identity, 30% coverage
all0275 glycerophosphoryl diester phosphodiesterase from Nostoc sp. PCC 7120
28% identity, 31% coverage
- The Anabaena sp. PCC 7120 Exoproteome: Taking a Peek outside the Box
Oliveira, Life (Basel, Switzerland) 2015 - “...+ Photosynthesis and respiration - All0268 All0268 protein NH 4 + Conserved hypothetical protein - All0275 Glycerophosphoryl diester phosphodiesterase NO 3 , NH 4 + Other categories Anabaena All0458 Uncharacterized low temperature-induced protein all0458 NH 4 + Conserved hypothetical protein Anabaena All0875 All0875 protein N 2...”
VF_A0958 glycerophosphoryl diester phosphodiesterase GlpQ (UgpQ) from Vibrio fischeri ES114
37% identity, 30% coverage
SAUSA300_1020 Glycerophosphoryl diester phosphodiesterase family protein from Staphylococcus aureus subsp. aureus USA300_FPR3757
CH51_RS05715 glycerophosphodiester phosphodiesterase from Staphylococcus aureus
40% identity, 30% coverage
- Lysophosphatidylglycerol (LPG) phospholipase D maintains membrane homeostasis in Staphylococcus aureus by converting LPG to lysophosphatidic acid
Subramanian, The Journal of biological chemistry 2023 - “...is detected in low abundance. Here, we used a mass spectrometry screen to identify locus SAUSA300_1020 as the gene responsible for maintaining low concentrations of 1-acyl-LPG in S.aureus . The SAUSA300_1020 gene encodes a protein with a predicted amino terminal transmembrane -helix attached to a globular...”
- “...had altered cellular concentrations of 16-LPG. However, strain NE1544 harboring a N insertion in the SAUSA300_1020 gene exhibited a clear, 15-fold increase in the cellular content of a17-LPG compared to the parent strain JE2 ( Fig.S1 A ). The SAUSA300_1020 gene is bioinformatically related to the...”
- Staphylococcus aureus PhoU Homologs Regulate Persister Formation and Virulence
Shang, Frontiers in microbiology 2020 - “...CH51_RS06600 3-Oxoacyl 2.4 ND CH51_RS04990 3-Oxoacyl-ACP synthase III 2.44 ND CH51_RS03140 Long-chain-fatty-acid-CoA ligase 3.85 ND CH51_RS05715 Glycerophosphodiester phosphodiesterase 2.04 ND CH51_RS07225 Cardiolipin synthase 2.19 ND CH51_RS03620 NAD(P)-dependent oxidoreductase 2.95 ND CH51_RS03940 LTA synthase family protein 2.01 ND Biotin metabolism CH51_RS13710 Hypothetical protein 14.6 ND CH51_RS13715 6-Carboxyhexanoate-CoA...”
XAC4367 glycerophosphoryl diester phosphodiesterase from Xanthomonas axonopodis pv. citri str. 306
32% identity, 56% coverage
8ghhA / A0A0D6HT57 Crystal structure of staphylococcus aureus lysophosphatidylglycerol phospholipase d (see paper)
40% identity, 30% coverage
- Ligands: dihydrogenphosphate ion; glycerol (8ghhA)
SE0819 glycerophosphoryl diester phosphodiesterase from Staphylococcus epidermidis ATCC 12228
32% identity, 44% coverage
FRAAL3448 Glycerophosphoryl diester phosphodiesteraseglycerophosphoryl diester phosphodiesterase from Frankia alni ACN14a
35% identity, 50% coverage
- Genomic Insights of Alnus-Infective Frankia Strains Reveal Unique Genetic Features and New Evidence on Their Host-Restricted Lifestyle
Kim, Genes 2023 - “...were, for example, recovered from the list of lost genes in Sp+ genomes, such as FRAAL3448 or FRAAL4787 encoding a putative Glycerophosphoryl diester phosphodiesterase (indicated as GlpQ in Table 5 ) and putative N-glycosyltransferase, respectively. GlpQ is a protein able to hydrolyze glycerophosphodiester bonds [ 70...”
- “...FRAAL5611 Single copy C Energy production and conversion FRAAL1457 Putative Xanthine dehydrogenase FRAAL4787 Putative N-glycosyltransferase FRAAL3448 glpQ Glycerophosphoryl diester phosphodiesterase SP D Cell cycle control, cell division, chromosome partitioning FRAAL2959 ATP/GTP binding protein TM E Amino acid transport and metabolism FRAAL5354 Hypothetical protein FRAAL4450 Putative Monomeric...”
EHI_059880 glycerophosphoryl diester phosphodiesterase, putative from Entamoeba histolytica HM-1:IMSS
37% identity, 28% coverage
- Lipids in Entamoeba histolytica: Host-Dependence and Virulence Factors
Castellanos-Castro, Frontiers in cellular and infection microbiology 2020 - “...acyltransferase EHI_031360 EHI_136400 2.3.1.43 Lysophospholipid acyltransferase EHI_086180 2.3.1.51 Lysophospholipase III EHI_020250 3.1.1.5 Glycerophosphoryl diester phosphodiesterase EHI_059880 EHI_113970 EHI_068320 EHI_199860 3.1.4.46 Phosphatidylethanolamine/phosphatidyl-N-methylethanolamine N-methyltransferase EHI_153710 2.1.1.71 Diacylglycerol diphosphate phosphatase/phosphatidate phosphatase EHI_165320 3.1.3.4 Diacylglycerol acyltransferase EHI_099180 2.3.1.158 Phospholipase D1/2 EHI_082560 EHI_146550 EHI_146400 3.1.4.4 Diacylglycerol kinase (ATP) EHI_045610 EHI_153440 2.7.1.107...”
- “...TA, and other phospholipases such as: lysophospholipid acyltransferase (EHI_086180), lysophospholipase III (EHI_020250), glycerophosphoryl diester phosphodiesterase (EHI_059880), phospholipase D1/2 (EHI_082560), phospholipid: diacylglycerol acyltransferase (EHI_099180) ( Table 3 ). Recycling of Glycerophospholipids in Host-Parasite Interactions Giardia is not able to de novo synthesize phospholipids, fatty acids or sterols....”
KAR53_00095 glycerophosphodiester phosphodiesterase family protein from Periweissella ghanensis
35% identity, 36% coverage
- Probiotic Potential and Safety Assessment of Type Strains of Weissella and Periweissella Species
Fanelli, Microbiology spectrum 2023 - “...KAR53_09415 KAR63_04370 Multidrug Glycerophosphoryl diester phosphodiesterase (EC 3.1.4.46) gdpD KAK10_06615 KAR27_05880 KAR41_03685, KAR41_08810 KAR50_02600, KAR50_03090 KAR53_00095 KAR63_03110, KAR63_01630 Multidrug Zinc ABC transporter substrate-binding protein ZnuA NA KAR27_02765 NA NA NA KAR63_00515 Multidrug Periplasmic solute binding protein, ZnuA-like ZnuC KAK10_06935 KAR27_02770 KAR41_05160 KAR50_00880 KAR53_05015 KAR63_00520 Multidrug ABC...”
GDPD4_MOUSE / Q3TT99 Glycerophosphodiester phosphodiesterase domain-containing protein 4; Glycerophosphodiester phosphodiesterase 6; EC 3.1.-.- from Mus musculus (Mouse) (see paper)
39% identity, 15% coverage
KAK10_06615 glycerophosphodiester phosphodiesterase family protein from Periweissella beninensis
33% identity, 37% coverage
- Probiotic Potential and Safety Assessment of Type Strains of Weissella and Periweissella Species
Fanelli, Microbiology spectrum 2023 - “...2.7.8.5) pgsA KAK10_05885 KAR27_01760 KAR41_03120 KAR50_07900 KAR53_09415 KAR63_04370 Multidrug Glycerophosphoryl diester phosphodiesterase (EC 3.1.4.46) gdpD KAK10_06615 KAR27_05880 KAR41_03685, KAR41_08810 KAR50_02600, KAR50_03090 KAR53_00095 KAR63_03110, KAR63_01630 Multidrug Zinc ABC transporter substrate-binding protein ZnuA NA KAR27_02765 NA NA NA KAR63_00515 Multidrug Periplasmic solute binding protein, ZnuA-like ZnuC KAK10_06935 KAR27_02770...”
SCO3976 phosphodiesterase from Streptomyces coelicolor A3(2)
28% identity, 84% coverage
SF5M90T_3374 glycerophosphodiester phosphodiesterase from Shigella flexneri 5a str. M90T
28% identity, 53% coverage
- RNA-seq analysis of the influence of anaerobiosis and FNR on Shigella flexneri
Vergara-Irigaray, BMC genomics 2014 - “...3.06 -3.87 SF5M90T_3333 pckA phosphoenolpyruvate carboxykinase 1.99 0.62 SF5M90T_3877 yiaK putative dehydrogenase 1.93 1.22 0.93 SF5M90T_3374 ugpQ glycerophosphodiester phosphodiesterase, cytosolic 1.89 SF5M90T_2534 hmpA dihydropteridine reductase, ferrisiderophore reductase activity 1.47 5.38 5.85 SF5M90T_33 caiB l-carnitine dehydratase 1.32 SF5M90T_3679 atpF membrane-bound ATP synthase, F0 sector, subunit b 1.04...”
ECs4295 glycerophosphodiester phosphodiesterase from Escherichia coli O157:H7 str. Sakai
28% identity, 53% coverage
ECP_3542 glycerophosphoryl diester phosphodiesterase from Escherichia coli 536
38% identity, 26% coverage
- Comprehensive analysis of PNA-based antisense antibiotics targeting various essential genes in uropathogenic Escherichia coli
Popella, Nucleic acids research 2022 - “.... (KFF) 3 K- acpP also specifically depleted gpmI (2,3-bisphosphoglycerate-independent phosphoglycerate mutase; 5.5-fold change) and ECP_3542 (glycerophosphoryl diester phosphodiesterase; 4.7-fold change). This is likely due to the presence of a fully complementary 9 base PNA binding site within the translation initiation sites of gpmI . Similarly,...”
- “...used here also depletes the mRNAs of three additional genes, i.e. fabF , gpmI and ECP_3542 ( ugpQ ), as part of its off-target activity. However, to the best of our knowledge, neither of the encoded proteins, i.e. 3-oxoacyl-[acyl carrier protein] synthase 2, 2,3-bisphosphoglycerate-independent phosphoglycerate mutase...”
MPHASIOC01_000377 glycerophosphodiester phosphodiesterase from Mangrovibacter phragmitis
42% identity, 25% coverage
GDPD_BACAB / A0A8F4N283 Glycerophosphodiester phosphodiesterase; GDPD; BaGDPD; EC 3.1.4.46 from Bacillus altitudinis (see paper)
29% identity, 50% coverage
- function: Glycerophosphodiester phosphodiesterase hydrolyzes glycerophosphodiesters into glycerol-3-phosphate (G3P) and the corresponding alcohol (Probable). Can hydrolyze the model substrate bis-(p-nitrophenyl phosphate) (bis(pNPP)) to p-nitrophenol (PubMed:33758739). Can also catalyze the degradation of diphenyl phosphate (DPHP) to phenyl phosphate (PHP) (PubMed:33758739). DPHP is an aryl phosphate ester used as a chemical additive and an industrial catalyst that can easily spread to the environment and exhibits toxicity toward organisms (PubMed:33758739).
catalytic activity: a sn-glycero-3-phosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate + H(+) (RHEA:12969)
cofactor: Ni(2+) Co(2+) Mn(2+) (Can also use Ca(2+) and Mg(2+), but not Fe(3+) and Zn(2+).)
lpg2274 glycerophosphoryl diester esterase from Legionella pneumophila subsp. pneumophila str. Philadelphia 1
30% identity, 52% coverage
CAC0430 Glycerophosphoryl diester phosphodiesterase from Clostridium acetobutylicum ATCC 824
35% identity, 29% coverage
- A proteomic and transcriptional view of acidogenic and solventogenic steady-state cells of Clostridium acetobutylicum in a chemostat culture
Janssen, Applied microbiology and biotechnology 2010 - “...3.9 G CAC0429 Glycerol-3-phosphate ABC transporter, periplasmic component 4.6 3.3 9.2 5.7 5.7 2.5 G CAC0430 Glycerophosphoryl diester phosphodiesterase 2.2 3.5 7.1 6.8 4.9 2.4 C CAC0742 Phosphatase domain-containing protein 2.2 1.8 6.3 3.1 3.3 2.0 I CAC0946 ComE-like protein 2.8 2.4 4.6 3.9 3.4 1.0...”
- “...transporter system which are organized in a common operon together with glycerophosphoryl diester phosphodiesterase ( cac0430 ; Karp et al. 2005 ). Additionally, ten chromosomal open reading frames (Table 3 ) encoding unknown hypothetical proteins revealed significant higher transcript levels of approximately threefold to ninefold. Genes...”
DRB0111 glycerophosphoryl diester phosphodiesterase from Deinococcus radiodurans R1
28% identity, 41% coverage
CG479_RS15270 glycerophosphodiester phosphodiesterase from Bacillus cytotoxicus
27% identity, 51% coverage
- Whole-genome-based phylogeny of Bacillus cytotoxicus reveals different clades within the species and provides clues on ecology and evolution
Stevens, Scientific reports 2019 - “...CG479_RS05515 CG479_RS05515 cytidyltransferase CG479_RS05535 CG479_RS05535 4-hydroxyphenylacetate isomerase CG479_RS05530 CG479_RS05530 2-hydroxyhepta-2,4-diene-1,7-dioate isomerase CG479_RS05525 CG479_RS05525 5-carboxymethyl-2-hydroxymuconate isomerase CG479_RS15270 CG479_RS15270 glycerophosphodiester phosphodiesterase G479_RS06185 G479_RS06185 LTA synthase family protein CG479_RS07295 CG479_RS07295 transcriptional regulator CG479_RS07395 CG479_RS07395 sporulation protein YjcZ CG479_RS07860 CG479_RS07860 TetR/AcrR family transcriptional regulator CG479_RS07990 CG479_RS07990 thiamine biosynthesis protein ThiF...”
FN1891 Glycerophosphoryl diester phosphodiesterase from Fusobacterium nucleatum subsp. nucleatum ATCC 25586
24% identity, 83% coverage
- Fusobacteriumnucleatum Adheres to Clostridioides difficile via the RadD Adhesin to Enhance Biofilm Formation in Intestinal Mucus
Engevik, Gastroenterology 2021 - “...C. difficile pathogenesis 25 , 37 . F. nucleatum encodes three glycerolphosphoryl diester phosphodiesterase proteins (FN1891, FN1908, and FN1954) that can generate ethanolamine 38 . While ethanolamine membrane diffusion in other microbial species is low, diffusion is amplified by F. nucleatums ethanolamine permease (FN0089) 39 ....”
- Proteomics of Fusobacterium nucleatum within a model developing oral microbial community
Hendrickson, MicrobiologyOpen 2014 - “...able to break down phosphatidylethanolamine directly, it does code for three glycerolphosphoryl diester phosphodiesterase proteins (FN1891, FN1908, and FN1954) that can provide ethanolamine from glycerophosphoethanolamine, a breakdown product of phosphatidylethanolamine. While ethanolamine can diffuse through the membrane under low pH conditions, diffusion has been amplified by...”
- “...not seen in either of the two organism pellets. The two detected glycerophosphoryl diester phosphodiesterases (FN1891, FN1908) also showed a similar pattern. The cobalamin adenosyltransferase (FN0085) was undetected and cobalamin biosynthesis proteins were relatively unchanged, though cobalamin would also be utilized in other pathways. Fn in...”
A5D3P2 Glycerophosphoryl diester phosphodiesterase from Pelotomaculum thermopropionicum (strain DSM 13744 / JCM 10971 / SI)
34% identity, 41% coverage
Q6W3E5 Glycerophosphodiester phosphodiesterase domain-containing protein 4 from Homo sapiens
40% identity, 14% coverage
MARIT_0258 glycerophosphodiester phosphodiesterase from Tenacibaculum maritimum NCIMB 2154
22% identity, 81% coverage
- Genetic diversity and population structure of Tenacibaculum maritimum, a serious bacterial pathogen of marine fish: from genome comparisons to high throughput MALDI-TOF typing
Bridel, Veterinary research 2020 - “...the other genomes examined (e.g., strain NCIMB 2154 T locus tags: MARIT_0127 , MARIT_0229 , MARIT_0258 , MARIT _0523 , MARIT _0991 , MARIT_1553 , MARIT_1615 , MARIT_1833 , MARIT_1972 , MARIT_2492 , MARIT_2635 and MARIT_2635 ). These observations performed on a limited number of genomes...”
SAV0039 glycerophosphoryl diester phosphodiesterase homolog from Staphylococcus aureus subsp. aureus Mu50
SA0036 hypothetical protein from Staphylococcus aureus subsp. aureus N315
MW0029 ORFID:MW0029~glycerophosphoryldiester phosphodiesterase homologue from Staphylococcus aureus subsp. aureus MW2
SACOL0031 glycerophosphoryl diester phosphodiesterase, putative from Staphylococcus aureus subsp. aureus COL
SERP2523 glycerophosphoryl diester phosphodiesterase UgpQ, putative from Staphylococcus epidermidis RP62A
SH0089 hypothetical protein from Staphylococcus haemolyticus JCSC1435
SAPIG0040 glycerophosphoryl diester phosphodiesterase from Staphylococcus aureus subsp. aureus ST398
29% identity, 52% coverage
- The SAV1322 gene from Staphylococcus aureus: genomic and proteomic approaches to identification and characterization of gene function
Kim, BMC microbiology 2016 - “...Enoyl-(acyl carrier protein) reductase 526 fabI SAV1011 Down A072 gi|15923029 Glycerophosphoryl diester phosphodiesterase-like protein 616 SAV0039 Down A089 gi|15925088 (3R)-hydroxymyristoyl-ACP dehydrogenase 125 fabZ SAV2098 Up Amino-acid biosynthesis/metabolism A039 gi|15923948 NAD-specific glutamate dehydrogenase 970 gudB SAV0958 Down A046 gi|15923947 Ornithine--oxo-acid transaminase 1027 rocD SAV0957 Down A045 gi|15925103...”
- Differentiation of clonal complex 59 community-associated methicillin-resistant Staphylococcus aureus in Western Australia
Coombs, Antimicrobial agents and chemotherapy 2010 - “...ugpQ (GenBank accession no. BA000018.3, locus tag SA0036), mecI (BA000018.3, SA0040), xylR (BA000018.3, SA0041), the dcs region (BA000018.3, SA0024 [EMBL...”
- Methicillin-resistant Staphylococcus saprophyticus isolates carrying staphylococcal cassette chromosome mec have emerged in urogenital tract infections
Higashide, Antimicrobial agents and chemotherapy 2008 - “...aureus N315 IV.5.1.1 II.1.1.1 SSP0026 SA0024 SSP1641 SA0035 SA0036 S. S. S. S. aureus aureus aureus aureus II.1.1.1 I.1.1.1 II.1.1.1 II.1.1.1 SA0037 SA0038...”
- An epidemic CC1-MRSA-IV clone yields false-negative test results in molecular MRSA identification assays: a note of caution, Austria, Germany, Ireland, 2020
Monecke, Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2020 - “...repeat units Truncated N/A RBVO01000003.1; nt 8351,273 nt 6,7517,148 ugpQ Glycerophosphoryl diester phosphodiesterase-like protein Forward MW0029 RBVO01000003.1; nt 1,4742,218 nt 7,3508,093 ydeM Acyl dehydratase MaoC Forward MW0030 RBVO01000003.1; nt 2,3142,743 nt 8,1908,618 mecA Encodes penicillin binding protein 2 prime, defining MRSA Reverse MW0031 RBVO01000003.1; nt 2,8124,795...”
- Methicillin-resistant Staphylococcus aureus emerged long before the introduction of methicillin into clinical practice
Harkins, Genome biology 2017 - “...within a 549-bp intergenic region between a hypothetical protein (SACOL0030) and a glycerophosphoryl diester phosphodiesterase (SACOL0031). Excluding these predicted recombination regions, 39 core variants sites across 28.6kb distinguished the 192 elements, with half of the isolates (n=96) carrying an identical element. The maximum SNP distance distinguishing...”
- Short term evolution of a highly transmissible methicillin-resistant Staphylococcus aureus clone (ST228) in a tertiary care hospital
Vogel, PloS one 2012 - “...1 36888 37016 x deletion of 120 bp NC in SCC mec between SACOL0030 and SACOL0031 2 242157 242238 x deletion of 82 bp C in coa 3 320106 320180 x insertion of 222 bp C in pathogenicity island SAPIn2 (SA0289) 4 528194 528198 x deletion...”
- A New Bioactive Compound From the Marine Sponge-Derived Streptomyces sp. SBT348 Inhibits Staphylococcal Growth and Biofilm Formation
Balasubramanian, Frontiers in microbiology 2018 - “...-2.8822 7.31E-15 SERP1001 DegV family protein -2.0926 2.95E-41 SERP2337 4-phosphopantetheinyl transferase family protein 2.9365 5.06E-42 SERP2523 Glycerophosphoryl diester phosphodiesterase UgpQ putative -2.4642 8.93E-19 Nucleotide and energy metabolism prsA Ribose-phosphate pyrophosphokinase -2.2578 1.40E-57 SERP0371 ExsD protein 6.0454 4.40E-29 SERP0372 6-pyruvoyl tetrahydrobiopterin synthase putative 5.8808 9.47E-31 SERP0373 exsB...”
- Novel staphylococcal cassette chromosome mec type, tentatively designated type VIII, harboring class A mec and type 4 ccr gene complexes in a Canadian epidemic strain of methicillin-resistant Staphylococcus aureus
Zhang, Antimicrobial agents and chemotherapy 2009 - “...4246-4989 231 744 76 247 100 100 SERP2524 (RP62A) SERP2523 (RP62A) CA007 mecA mecR1 mecI 5086-5514 5560-7566 7666-9423 9423-9794 429 2,007 1,758 372 142 668 585...”
- Comparative Genomic Analysis of Staphylococcus haemolyticus Reveals Key to Hospital Adaptation and Pathogenicity
Pain, Frontiers in microbiology 2019 - “...paaZ SH0090 Bifunctional protein PaaZ 85.4 13.0 mecA SH0091 Methicillin resistance gene 85.4 13.0 ugpQ SH0089 Glycerophosphodiester phosphodiesterase 82.1 13.0 blaR1 X SH1763 Regulatory protein BlaR1 84.6 19.6 tagE SH2252 Truncated glycosyltransferase 86.2 21.7 blaZ X SH1764 Beta-lactamase 78.1 15.2 blaI X SH1762 Penicillinase repressor 60.2...”
- Sequence Analysis of Novel Staphylococcus aureus Lineages from Wild and Captive Macaques
Monecke, International journal of molecular sciences 2022 - “...45,571 46,008 438 N/A ugpQ glycerophosphoryl diester phosphodiesterase Forward 48,537 49,280 744 46,210 46,953 744 SAPIG0040 ydeM putative dehydratase Forward 49,377 49,805 429 47,050 47,478 429 SAPIG0041 txbi_mecA bidirectional rho-independent terminator of mecA - 49,796 49,860 65 47,469 47,533 65 N/A mecA penicillin-binding protein 2a Reverse...”
UgpQ / b3449 glycerophosphodiester phosphodiesterase UgpQ (EC 3.1.4.46; EC 3.1.4.2) from Escherichia coli K-12 substr. MG1655 (see 7 papers)
ugpQ / P10908 glycerophosphodiester phosphodiesterase UgpQ (EC 3.1.4.46) from Escherichia coli (strain K12) (see 6 papers)
UGPQ_ECOLI / P10908 Glycerophosphodiester phosphodiesterase, cytoplasmic; Glycerophosphoryl diester phosphodiesterase, cytoplasmic; EC 3.1.4.46 from Escherichia coli (strain K12) (see paper)
P10908 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Escherichia coli (see 3 papers)
b3449 cytoplasmic glycerophosphodiester phosphodiesterase from Escherichia coli str. K-12 substr. MG1655
ECK3433, NP_417906 glycerophosphodiester phosphodiesterase UgpQ from Escherichia coli str. K-12 substr. MG1655
36% identity, 26% coverage
- function: Glycerophosphodiester phosphodiesterase hydrolyzes glycerophosphodiesters into glycerol-3-phosphate (G3P) and the corresponding alcohol.
catalytic activity: a sn-glycero-3-phosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate + H(+) (RHEA:12969)
cofactor: Mg(2+) Co(2+) Mn(2+) - Genome-wide analysis of the general stress response network in Escherichia coli: sigmaS-dependent genes, promoters, and sigma factor selectivity
Weber, Journal of bacteriology 2005 - “...b1619 b2720 b0186 b1469 b1467 b0871 b4051 b2464 b1519 b2465 b3449 b0485 ybaY ycaC yfcF ygjG yhfW yjcS yjgB yncG b0453 b0897 b2301 b3073 b3380 b4083 b4269 b1454...”
- Global regulation by the seven-component Pi signaling system
Hsieh, Current opinion in microbiology 2010 - “...component [ 1 ] ugpE ECK3435 glycerol-3-phosphate transporter subunit, membrane component [ 1 ] ugpQ ECK3433 glycerol-3-phosphate transporter subunit, membrane component [ 1 ] yibD ECK3605 predicted glycosyl transferase [ 7 ] ytfK ECK4213 conserved protein [ 7 ] a ECK numbers are in accordance with...”
- Escherichia coli cytosolic glycerophosphodiester phosphodiesterase (UgpQ) requires Mg2+, Co2+, or Mn2+ for its enzyme activity.
Ohshima, Journal of bacteriology 2008 - GeneRIF: Data show that UgpQ has broad substrate specificity toward various glycerophosphodiesters, producing sn-glycerol-3-phosphate and the corresponding alcohols.
- MIR16, a putative membrane glycerophosphodiester phosphodiesterase, interacts with RGS16
Zheng, Proceedings of the National Academy of Sciences of the United States of America 2000 - “...are as follows: rMIR16, AF212861; ecGLPQ, P09394; ecUGPQ, P10908; bsGLPQ, P37965; scYPL206C, CAA97920; hiGLPQ, Q06282. GlpQ and UGpQ are the two GP-PDEs in E....”
Q99387 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Staphylococcus aureus (see paper)
35% identity, 26% coverage
GDE1 / Q9NZC3 glycerophosphodiester phosphodiesterase 1 (EC 3.1.4.46; EC 3.1.4.44) from Homo sapiens (see 5 papers)
GDE1_HUMAN / Q9NZC3 Glycerophosphodiester phosphodiesterase 1; Glycerophosphoinositol glycerophosphodiesterase GDE1; Lysophospholipase D GDE1; Membrane-interacting protein of RGS16; RGS16-interacting membrane protein; EC 3.1.4.44; EC 3.1.4.- from Homo sapiens (Human) (see 2 papers)
Q9NZC3 glycerophosphoinositol glycerophosphodiesterase (EC 3.1.4.44) from Homo sapiens (see paper)
NP_057725 glycerophosphodiester phosphodiesterase 1 isoform 1 from Homo sapiens
32% identity, 38% coverage
- function: Hydrolyzes the phosphodiester bond of glycerophosphodiesters such as glycerophosphoinositol (GroPIns) and glycerophosphoethanolamine (GroPEth), to yield a glycerol phosphate and an alcohol (By similarity). Hydrolyzes glycerophospho-N-acylethanolamines to N- acylethanolamines in the brain and participates in bioactive N- acylethanolamine biosynthesis such as anandamide (an endocannabinoid), N-palmitoylethanolamine (an anti-inflammatory), and N- oleoylethanolamine (an anorexic). In addition, has a lysophospholipase D activity by hydrolyzing N-acyl-lysoplasmenylethanolamine (N-acyl- lysoPlsEt) to N-acylethanolamine. However lysophospholipase D activity is lower than glycerophosphodiester phosphodiesterase activity (By similarity). Has little or no activity towards glycerophosphocholine (By similarity).
catalytic activity: sn-glycero-3-phospho-1D-myo-inositol + H2O = myo-inositol + sn-glycerol 3-phosphate + H(+) (RHEA:16501)
catalytic activity: 1-O-(1Z-octadecenyl)-sn-glycero-3-phospho-(N-5Z,8Z,11Z,14Z- eicosatetraenoyl)-ethanolamine + H2O = 1-O-(1Z-octadecenyl)-sn- glycero-3-phosphate + N-(5Z,8Z,11Z,14Z-eicosatetraenoyl)-ethanolamine + H(+) (RHEA:53192)
catalytic activity: 1-O-(1Z-octadecenyl)-sn-glycero-3-phospho-(N-9Z-octadecenoyl)- ethanolamine + H2O = 1-O-(1Z-octadecenyl)-sn-glycero-3-phosphate + N- (9Z-octadecenoyl) ethanolamine + H(+) (RHEA:53188)
catalytic activity: 1-O-(1Z-octadecenyl)-sn-glycero-3-phospho-N-hexadecanoyl- ethanolamine + H2O = 1-O-(1Z-octadecenyl)-sn-glycero-3-phosphate + N- hexadecanoylethanolamine + H(+) (RHEA:53184)
catalytic activity: N-(4Z,7Z,10Z,13Z,16Z,19Z)-docosahexaenoyl-sn-glycero-3- phosphoethanolamine + H2O = N-(4Z,7Z,10Z,13Z,16Z,19Z)-docosahexaenoyl ethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45444)
catalytic activity: N-eicosanoyl-sn-glycero-3-phosphoethanolamine + H2O = N- eicosanoyl ethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45440)
catalytic activity: N-hexadecanoyl-sn-glycero-3-phosphoethanolamine + H2O = N- hexadecanoylethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45436)
catalytic activity: N-(9Z-octadecenoyl)-sn-glycero-3-phosphoethanolamine + H2O = N-(9Z-octadecenoyl) ethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45432)
catalytic activity: N-(5Z,8Z,11Z,14Z-eicosatetraenoyl)-sn-glycero-3- phosphoethanolamine + H2O = N-(5Z,8Z,11Z,14Z-eicosatetraenoyl)- ethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45428)
cofactor: Mg(2+)
subunit: Interacts with PRAF2 (PubMed:16472945). Interacts with RGS16 (By similarity). - Differential sperm proteomic profiles according to pregnancy achievement in intracytoplasmic sperm injection cycles: a pilot study
Rivera-Egea, Journal of assisted reproduction and genetics 2021 - “...B member 6 0.01669 0.04904 1.63 1.58 Q9NZC3 P63244 P13667 P63104 Q53QW1 GDE1 RACK1 PDIA4 1433Z TEX44 Glycerophosphodiester phosphodiesterase 1 Receptor...”
- “...3 SLCO6A1 IZUMO3 GDE1 KCNU1 LAMP1 Q86UG4 Q5VZ72 Q9NZC3 A8MYU2 P11279 Solute carrier organic anion transporter family member 6A1 Izumo sperm-egg fusion protein 3...”
- Shotgun label-free proteomic analysis for identification of proteins in HaCaT human skin keratinocytes regulated by the administration of collagen from soft-shelled turtle
Yamamoto, Journal of biomedical materials research. Part B, Applied biomaterials 2018 - “...molecule homolog 876 1.562 100 EXOC1_HUMAN Q9NV70 Exocyst complex component 1 894 1.562 101 GDE1_HUMAN Q9NZC3 Glycerophosphodiester phosphodiesterase 1 331 1.562 102 CAMP3_HUMAN Q9P1Y5 Calmodulinregulated spectrinassociated protein 3 1249 1.562 103 BCAS3_HUMAN Q9H6U6 Breast carcinomaamplified sequence 3 928 1.562 104 NXF2_HUMAN Q9GZY0 Nuclear RNA export factor...”
- Expression and Characterization of a Novel Glycerophosphodiester Phosphodiesterase from Pyrococcus furiosus DSM 3638 That Possesses Lysophospholipase D Activity
Wang, International journal of molecular sciences 2016 - “...( Bos taurus ), NP_534690.1 ( Agrobacterium tumefaciens str. C58), EFJ64212 ( Escherichia coli ), NP_057725 ( Homo sapiens ). NP_062526 ( Mus musculus ), WP_004082090 ( Thermotoga maritima MSB8), WP_011229158 ( Thermus thermophilus HB8), 2PZ0_A ( Thermoanaerobacter tengcongensis ), WP_011250348 ( Thermococcus kodakarensis KOD1) and...”
GDE1_RAT / Q9JL55 Glycerophosphodiester phosphodiesterase 1; Glycerophosphoinositol glycerophosphodiesterase GDE1; Lysophospholipase D GDE1; Membrane-interacting protein of RGS16; EC 3.1.4.44; EC 3.1.4.- from Rattus norvegicus (Rat) (see 2 papers)
NP_116004 glycerophosphodiester phosphodiesterase 1 from Rattus norvegicus
33% identity, 38% coverage
- function: Hydrolyzes the phosphodiester bond of glycerophosphodiesters such as glycerophosphoinositol (GroPIns) and glycerophosphoethanolamine (GroPEth), to yield a glycerol phosphate and an alcohol (PubMed:12576545). Hydrolyzes glycerophospho-N-acylethanolamines to N- acylethanolamines in the brain and participates in bioactive N- acylethanolamine biosynthesis such as anandamide (an endocannabinoid), N-palmitoylethanolamine (an anti-inflammatory), and N- oleoylethanolamine (an anorexic). In addition, has a lysophospholipase D activity by hydrolyzing N-acyl-lysoplasmenylethanolamine (N-acyl- lysoPlsEt) to N-acylethanolamine. However lysophospholipase D activity is lower than glycerophosphodiester phosphodiesterase activity (By similarity). Has little or no activity towards glycerophosphocholine (PubMed:12576545).
catalytic activity: sn-glycero-3-phospho-1D-myo-inositol + H2O = myo-inositol + sn-glycerol 3-phosphate + H(+) (RHEA:16501)
catalytic activity: 1-O-(1Z-octadecenyl)-sn-glycero-3-phospho-(N-5Z,8Z,11Z,14Z- eicosatetraenoyl)-ethanolamine + H2O = 1-O-(1Z-octadecenyl)-sn- glycero-3-phosphate + N-(5Z,8Z,11Z,14Z-eicosatetraenoyl)-ethanolamine + H(+) (RHEA:53192)
catalytic activity: 1-O-(1Z-octadecenyl)-sn-glycero-3-phospho-(N-9Z-octadecenoyl)- ethanolamine + H2O = 1-O-(1Z-octadecenyl)-sn-glycero-3-phosphate + N- (9Z-octadecenoyl) ethanolamine + H(+) (RHEA:53188)
catalytic activity: 1-O-(1Z-octadecenyl)-sn-glycero-3-phospho-N-hexadecanoyl- ethanolamine + H2O = 1-O-(1Z-octadecenyl)-sn-glycero-3-phosphate + N- hexadecanoylethanolamine + H(+) (RHEA:53184)
catalytic activity: N-(4Z,7Z,10Z,13Z,16Z,19Z)-docosahexaenoyl-sn-glycero-3- phosphoethanolamine + H2O = N-(4Z,7Z,10Z,13Z,16Z,19Z)-docosahexaenoyl ethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45444)
catalytic activity: N-eicosanoyl-sn-glycero-3-phosphoethanolamine + H2O = N- eicosanoyl ethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45440)
catalytic activity: N-hexadecanoyl-sn-glycero-3-phosphoethanolamine + H2O = N- hexadecanoylethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45436)
catalytic activity: N-(9Z-octadecenoyl)-sn-glycero-3-phosphoethanolamine + H2O = N-(9Z-octadecenoyl) ethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45432)
catalytic activity: N-(5Z,8Z,11Z,14Z-eicosatetraenoyl)-sn-glycero-3- phosphoethanolamine + H2O = N-(5Z,8Z,11Z,14Z-eicosatetraenoyl)- ethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45428)
cofactor: Mg(2+)
subunit: Interacts with PRAF2 (By similarity). Interacts with RGS16 (PubMed:10760272). - Expression and Characterization of a Novel Glycerophosphodiester Phosphodiesterase from Pyrococcus furiosus DSM 3638 That Possesses Lysophospholipase D Activity
Wang, International journal of molecular sciences 2016 - “...protein sequences that were used for this analysis are XP_536954.2 ( Canis lupus familiaris ), NP_116004 ( Rattus norvegicus ), NP_001032348.1 ( Gallus gallus ), NP_001094611.1 ( Bos taurus ), NP_534690.1 ( Agrobacterium tumefaciens str. C58), EFJ64212 ( Escherichia coli ), NP_057725 ( Homo sapiens )....”
ZMO0170 Glycerophosphoryl diester phosphodiesterase-like protein from Zymomonas mobilis subsp. mobilis ZM4
41% identity, 27% coverage
- Multiple Small RNAs Interact to Co-regulate Ethanol Tolerance in Zymomonas mobilis
Han, Frontiers in bioengineering and biotechnology 2020 - “...lysine exporter encoding gene ( ZMO1437 ) and a glycerophosphoryl diester phosphodiesterase encoding gene ( ZMO0170 ), which indicates Zms6 might affect the ethanol related pathways in an indirect manner through these genes. Notably, we also confirmed the binding between Zms4 and Zms6 as well as...”
- “...+53 600.0 Zms6 sRNA 99 117 42.8 Zms6 ZMO1934 N-6 DNA methylase 38 +26 20.9 ZMO0170 Glycerophosphoryl diester phosphodiesterase-like protein 3 +12 53.2 ZMO1437 Lysine exporter protein +28+75 132.0 Zms16 sRNA 303 318 27.7 To better quantify how strong these interactions are and to exclude the...”
- Complete genome sequence and the expression pattern of plasmids of the model ethanologen Zymomonas mobilis ZM4 and its xylose-utilizing derivatives 8b and 2032
Yang, Biotechnology for biofuels 2018 - “...codons) or frameshift mutations, including ZMO0171, ZMO0955, ZMO1535, and ZMO2036. Lastly, we merged ZMO0168 and ZMO0170 into a single annotation, ZMO0168, encoding a glycerophosphodiester phosphodiesterase (coordinates 151,491155,014). BLAST analysis revealed that the original ORFs ZMO0168 and ZMO0170 encoded the C-terminal and N-terminal regions of glycerophosphodiester phosphodiesterase,...”
GDE1_MOUSE / Q9JL56 Glycerophosphodiester phosphodiesterase 1; Glycerophosphoinositol glycerophosphodiesterase GDE1; Lysophospholipase D GDE1; Membrane-interacting protein of RGS16; EC 3.1.4.44; EC 3.1.4.- from Mus musculus (Mouse) (see 4 papers)
NP_062526 glycerophosphodiester phosphodiesterase 1 from Mus musculus
37% identity, 33% coverage
- function: Hydrolyzes the phosphodiester bond of glycerophosphodiesters such as glycerophosphoinositol (GroPIns) and glycerophosphoethanolamine (GroPEth), to yield a glycerol phosphate and an alcohol (PubMed:18227059, PubMed:21801852, PubMed:25596343). Hydrolyzes glycerophospho-N-acylethanolamines to N-acylethanolamines in the brain and participates in bioactive N-acylethanolamine biosynthesis such as anandamide (an endocannabinoid), N-palmitoylethanolamine (an anti- inflammatory), and N-oleoylethanolamine (an anorexic) (PubMed:18227059). In addition, has a lysophospholipase D activity by hydrolyzing N-acyl-lysoplasmenylethanolamine (N-acyl-lysoPlsEt) to N- acylethanolamine (PubMed:21801852, PubMed:25596343). However lysophospholipase D activity is lower than glycerophosphodiester phosphodiesterase activity (PubMed:21801852, PubMed:25596343). Has little or no activity towards glycerophosphocholine (By similarity).
catalytic activity: sn-glycero-3-phospho-1D-myo-inositol + H2O = myo-inositol + sn-glycerol 3-phosphate + H(+) (RHEA:16501)
catalytic activity: 1-O-(1Z-octadecenyl)-sn-glycero-3-phospho-(N-5Z,8Z,11Z,14Z- eicosatetraenoyl)-ethanolamine + H2O = 1-O-(1Z-octadecenyl)-sn- glycero-3-phosphate + N-(5Z,8Z,11Z,14Z-eicosatetraenoyl)-ethanolamine + H(+) (RHEA:53192)
catalytic activity: 1-O-(1Z-octadecenyl)-sn-glycero-3-phospho-(N-9Z-octadecenoyl)- ethanolamine + H2O = 1-O-(1Z-octadecenyl)-sn-glycero-3-phosphate + N- (9Z-octadecenoyl) ethanolamine + H(+) (RHEA:53188)
catalytic activity: 1-O-(1Z-octadecenyl)-sn-glycero-3-phospho-N-hexadecanoyl- ethanolamine + H2O = 1-O-(1Z-octadecenyl)-sn-glycero-3-phosphate + N- hexadecanoylethanolamine + H(+) (RHEA:53184)
catalytic activity: N-(4Z,7Z,10Z,13Z,16Z,19Z)-docosahexaenoyl-sn-glycero-3- phosphoethanolamine + H2O = N-(4Z,7Z,10Z,13Z,16Z,19Z)-docosahexaenoyl ethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45444)
catalytic activity: N-eicosanoyl-sn-glycero-3-phosphoethanolamine + H2O = N- eicosanoyl ethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45440)
catalytic activity: N-hexadecanoyl-sn-glycero-3-phosphoethanolamine + H2O = N- hexadecanoylethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45436)
catalytic activity: N-(9Z-octadecenoyl)-sn-glycero-3-phosphoethanolamine + H2O = N-(9Z-octadecenoyl) ethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45432)
catalytic activity: N-(5Z,8Z,11Z,14Z-eicosatetraenoyl)-sn-glycero-3- phosphoethanolamine + H2O = N-(5Z,8Z,11Z,14Z-eicosatetraenoyl)- ethanolamine + sn-glycerol 3-phosphate + H(+) (RHEA:45428)
cofactor: Mg(2+)
subunit: Interacts with PRAF2 (By similarity). Interacts with RGS16 (By similarity). - GDE5/Gpcpd1 activity determines phosphatidylcholine composition in skeletal muscle and regulates contractile force in mice.
Aisyah, Communications biology 2024 - GeneRIF: GDE5/Gpcpd1 activity determines phosphatidylcholine composition in skeletal muscle and regulates contractile force in mice.
- Expression and Characterization of a Novel Glycerophosphodiester Phosphodiesterase from Pyrococcus furiosus DSM 3638 That Possesses Lysophospholipase D Activity
Wang, International journal of molecular sciences 2016 - “...( Agrobacterium tumefaciens str. C58), EFJ64212 ( Escherichia coli ), NP_057725 ( Homo sapiens ). NP_062526 ( Mus musculus ), WP_004082090 ( Thermotoga maritima MSB8), WP_011229158 ( Thermus thermophilus HB8), 2PZ0_A ( Thermoanaerobacter tengcongensis ), WP_011250348 ( Thermococcus kodakarensis KOD1) and AAL82127.1 ( Pyrococcus furiosus DSM...”
- The genetic architecture of NAFLD among inbred strains of mice.
Hui, eLife 2015 - GeneRIF: The authors confirmed the role of Gde1 in NAFLD by in vivo hepatic over-expression and shRNA knockdown studies.
- Characterization of mice lacking candidate N-acyl ethanolamine biosynthetic enzymes provides evidence for multiple pathways that contribute to endocannabinoid production in vivo.
Simon, Molecular bioSystems 2010 - GeneRIF: Characterization of mice lacking N-acyl ethanolamine biosynthetic enzymes.
- The glycerophospho metabolome and its influence on amino acid homeostasis revealed by brain metabolomics of GDE1(-/-) mice.
Kopp, Chemistry & biology 2010 - GeneRIF: findings designate GroPSer as a previously unappreciated reservoir for free serine in the nervous system and suggest that GDE1, through recycling serine from GroPSer, may impact D-serine-dependent neural signaling processes in vivo
- Anandamide biosynthesis catalyzed by the phosphodiesterase GDE1 and detection of glycerophospho-N-acyl ethanolamine precursors in mouse brain.
Simon, The Journal of biological chemistry 2008 - GeneRIF: a multistep pathway for the production of anandamide in the nervous system by the sequential actions of Abh4 and GDE1.
- GDE1/MIR16 is a glycerophosphoinositol phosphodiesterase regulated by stimulation of G protein-coupled receptors.
Zheng, Proceedings of the National Academy of Sciences of the United States of America 2003 - GeneRIF: regulation by by stimulation of G protein-coupled receptors
BF4444 putative glycerophosphoryl diester phosphodiesterase from Bacteroides fragilis YCH46
36% identity, 27% coverage
P54527 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Bacillus subtilis (see paper)
25% identity, 83% coverage
NCgl2807 glycerophosphodiester phosphodiesterase from Corynebacterium glutamicum ATCC 13032
cg3215 putative glycerophosphoryl diester phosphodiesterase from Corynebacterium glutamicum ATCC 13032
31% identity, 39% coverage
PXO_RS20590 glycerophosphodiester phosphodiesterase family protein from Xanthomonas oryzae pv. oryzae PXO99A
36% identity, 30% coverage
- Melatonin Treatment Inhibits the Growth of Xanthomonas oryzae pv. oryzae
Chen, Frontiers in microbiology 2018 - “...protein 31 PXO_RS08315 -2.97 Bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase 32 PXO_RS21360 -2.23 Chorismate mutase 33 PXO_RS20590 -4.82 Glycerophosphodiester phosphodiesterase 34 PXO_RS00340 -2.69 Aldolase 35 PXO_RS00350 -2.69 Aldolase 36 PXO_RS23355 -1.69 Cellulase 37 PXO_RS05615 -3.88 Xylanase 38 PXO_RS01665 -2.32 Xylose isomerase 39 PXO_RS01605 -4.72 Beta-1,4-xylanase 40 PXO_RS19450...”
D2TLJ5 Glycerophosphoryl diester phosphodiesterase from Citrobacter rodentium (strain ICC168)
34% identity, 26% coverage
E2P69_RS16410 glycerophosphodiester phosphodiesterase family protein from Xanthomonas perforans
36% identity, 30% coverage
BTH_I3017 glycerophosphoryl diester phosphodiesterase from Burkholderia thailandensis E264
37% identity, 26% coverage
SPO0236 glycerophosphodiester phosphodiesterase from Ruegeria pomeroyi DSS-3
26% identity, 84% coverage
- Experimental Identification of Small Non-Coding RNAs in the Model Marine Bacterium Ruegeria pomeroyi DSS-3
Rivers, Frontiers in microbiology 2016 - “...SPO0201 Hypothetical protein 0.001 trans58 141 SPO3492 Hypothetical protein 0.000 SPO2182 Permease, putative Transport 0.001 SPO0236 Glycerophosphoryl diester phosphodiesterase putative Lipid metabolism 0.001 SPO0950 Uracil-DNA glycosylase, putative Nucleic acid metabolism 0.001 SPO3756 OmpA domain-containing protein Cell wall/membrane 0.004 SPO1732 Single-stranded-DNA-specific exonuclease RecJ Recombination and repair 0.005...”
P75367 glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Mycoplasma pneumoniae (see paper)
MPN420 glycerophosphoryl diester phosphodiesterase from Mycoplasma pneumoniae M129
28% identity, 52% coverage
- Determination of the Gene Regulatory Network of a Genome-Reduced Bacterium Highlights Alternative Regulation Independent of Transcription Factors
Yus, Cell systems 2019 - “...major transcriptome alterations (10 genes showing significant changes; see STAR Methods and Figure3 A). GlpQ (MPN420) catalyzes the hydrolysis of glycerophosphocholine (GPC) and leads to the production of glycerol-3-phosphate, a building block for lipids that enters into glycolysis, producing peroxide. The inactivation of glpQ affects the...”
- Potential Molecular Targets for Narrow-Spectrum Agents to Combat Mycoplasma pneumoniae Infection and Disease
Balish, Frontiers in microbiology 2016 - “...synthase Lipid synthesis Yes Low Anabolism MPN406 Acyl carrier protein Lipid synthesis Yes Low Anabolism MPN420 Glycerophosphocholine phosphodiesterase Lipid synthesis and hydrogen peroxide production Yes Mediumhigh Anabolism MPN350 G3P acyltransferase Lipid synthesis No Low Anabolism MPN299 1-acyl-G3P acyltransferase Lipid synthesis No Low Anabolism MPN483 Glycosyltransferase Polysaccharide...”
- “...presumably acting as a transporter ( Grosshennig et al., 2013 ), and GlpQ, encoded by MPN420, catalyzes removal of the choline from GPC, yielding G3P ( Schmidl et al., 2011 ). Mutants in either of these two genes exhibit greatly reduced cytotoxicity ex vivo , and...”
- Implication of glycerol and phospholipid transporters in Mycoplasma pneumoniae growth and virulence
Großhennig, Infection and immunity 2013 - “...from those reported for the glycerophosphodiesterase gene glpQ (mpn420) (17). The glpQ gene is located immediately downstream of glpU (Fig. 1A), thus leaving...”
- “...for the cytotoxic effects of M. pneumoniae. GlpQ (MPN420) encodes a glycerophosphodiesterase that is able to metabolize GPC to glycerol-3-phosphate and choline....”
- A trigger enzyme in Mycoplasma pneumoniae: impact of the glycerophosphodiesterase GlpQ on virulence and gene expression
Schmidl, PLoS pathogens 2011 - “...the cleavage of deacylated phospholipids to glycerol-3-phosphate and choline. M. pneumoniae possesses two potential glycerophosphodiesterases, MPN420 (GlpQ) and MPN566. In this work, the function of these proteins was analyzed by biochemical, genetic, and physiological studies. The results indicate that only GlpQ is an active glycerophosphodiesterase. MPN566...”
- “...peroxide formation by GlpD is crucial for the cytotoxic effects of M. pneumoniae . GlpQ (MPN420) and MPN566 encode two paralogous glycerophosphodiesterases that may be able to metabolize glycerophosphocholine to glycerol-3-phosphate and choline. The uptake system for glycerophosphocholine is so far unknown. Proteins highlighted in grey...”
- Strand-specific deep sequencing of the transcriptome
Vivancos, Genome research 2010 - “...at this position corresponds to open reading frame mpn420. (B) M129 interval 22,000-24,500 bp. Antisense transcription is detected on the reverse strand....”
- The phosphoproteome of the minimal bacterium Mycoplasma pneumoniae: analysis of the complete known Ser/Thr kinome suggests the existence of novel kinases
Schmidl, Molecular & cellular proteomics : MCP 2010 - “...MPN331 MPN349 MPN389 MPN390 MPN391 MPN392 MPN393 MPN394 MPN420 MPN425 MPN428 MPN429 MPN430 MPN434 MPN452b MPN470 MPN474b MPN495 Molecular & Cellular Proteomics...”
D3F5R1 Glycerophosphoryl diester phosphodiesterase from Conexibacter woesei (strain DSM 14684 / CCUG 47730 / CIP 108061 / JCM 11494 / NBRC 100937 / ID131577)
42% identity, 18% coverage
FTN_0637 glycerophosphoryl diester phosphodiesterase from Francisella tularensis subsp. novicida U112
27% identity, 50% coverage
MG_293 glycerophosphoryl diester phosphodiesterase family protein from Mycoplasma genitalium G37
32% identity, 39% coverage
- Mycoplasma genitalium adhesin P110 binds sialic-acid human receptors
Aparicio, Nature communications 2018 - “...However, we also identified minitransposon insertions in other genes such as MG_018, MG_238, MG_244, and MG_293 in other transformants. Of note, the location of the MG_192 mutant alleles in the same gene and genome context facilitates the phenotypical characterization and later comparison of the isolated mutants....”
- A trigger enzyme in Mycoplasma pneumoniae: impact of the glycerophosphodiesterase GlpQ on virulence and gene expression
Schmidl, PLoS pathogens 2011 - “...the aligned sequences are Y420_MYCPN (GlpQ, M. pneumoniae ), Y566_MYCPN (MPN566, M. pneumoniae ), Y293_MYCGE (MG_293, M. genitalium ), Y385_MYCGE (MG_385, M. genitalium ), D4XVJ7_9MOLU (MALL_0582, M. alligatoris ), D4XVF1_9MOLU (MALL_0631, M. alligatoris ), Q8XNB7_CLOPE (GlpQ, Clostridium perfringens ), Q8XJ84_CLOPE (GlpQ, C. perfringens ), YHDW_BACSU (YhdW,...”
3l12A / Q5LX22 Crystal structure of putative glycerophosphoryl diester phosphodiesterase (yp_165505.1) from silicibacter pomeroyi dss-3 at 1.60 a resolution
25% identity, 84% coverage
- Ligand: magnesium ion (3l12A)
BT_3162 glycerophosphoryl diester phosphodiesterase from Bacteroides thetaiotaomicron VPI-5482
38% identity, 20% coverage
FTT_0726c glycerophosphoryl diester phosphodiesterase family protein from Francisella tularensis subsp. tularensis SCHU S4
28% identity, 31% coverage
- Immunoproteomic analysis of the human antibody response to natural tularemia infection with Type A or Type B strains or LVS vaccination
Fulton, International journal of medical microbiology : IJMM 2011 - “...[40] FTT_0721c Peroxidase/catalase 4 5 5 6 7 [25], [29], [30], [38], [39], [40], [41] FTT_0726c Glycerophosphoryl diester phosphodiesterase family protein - 6 3 - - [29] FTT_0817 Threonyl-tRNA synthetase - 1 - - - [39], [40] FTT_0893 Phosphoribosylaminoimid azole synthetase - 5 2 - -...”
- The francisella tularensis proteome and its recognition by antibodies
Kilmury, Frontiers in microbiology 2010 - “...b FTT_0724 Part of pseudogene dacB1 Mouse Proteome microarray Eyles et al. ( 2007 ) FTT_0726c Glycerophosphoryl diester phosphodiesterase family protein Human, presumed type B 2D-Western blot Unknown Janovska et al. ( 2007a ) FTT_0756 Cation-efflux family protein Mouse Proteome microarray Cytoplasmic membrane Eyles et al....”
FTS_1476 glycerophosphodiester phosphodiesterase from Francisella tularensis subsp. holarctica FSC200
FTL_1511 glycerophosphoryl diester phosphodiesterase family protein from Francisella tularensis subsp. holarctica
FTH_1463 glycerophosphodiester phosphodiesterase from Francisella tularensis subsp. holarctica OSU18
28% identity, 31% coverage
- Early infection-induced natural antibody response
Kubelkova, Scientific reports 2021 - “...(FTS_1518), DNA-directed RNA polymerase subunit alpha (FTS_0258), transcription elongation factor GreA (FTS_1440), glycerophosphoryl diester phosphodiesterase (FTS_1476), 30S ribosomal protein S1 (FTS_1862), bacterioferritin (FTS_0617), and trigger factor (FTS_0882). Moreover, 2 proteins, namely OmpA family protein (FTS_1295) and glycerophosphoryl diester phosphodiesterase (FTS_1476), were annotated as outer membrane associated...”
- “...GTP-dependent nucleic acid-binding protein EngD (FTS_0935), Omp protein of unknown function (FTS_0008), glycerophosphoryl diester phosphodiesterase (FTS_1476), and hypothetical protein (FTS_0815). All the mentioned proteins are listed along with their characteristics in Supplementary Table S1 . All identified proteins reacting with the sera from Francisella -infected GF...”
- Structural Basis for Virulence Activation of Francisella tularensis
Travis, Molecular cell 2021 - “...manner by RNA-Seq revealed that all contained poor 35 elements with a few ( FTL_1012, FTL_1511 and FTL_0361 ) possibly also harboring poor matches to the 10 element; we note the 35 and 10 elements of these genes are predictions based on our annotated transcription start...”
- Multimethodological approach to identification of glycoproteins from the proteome of Francisella tularensis, an intracellular microorganism
Balonova, Journal of proteome research 2010 - “...namely hypothetical protein (FTH_0069), OmpA family protein (FTH_0323), outer membrane protein FopA (FTH_1293), glycerophosphodiester phosphodiesterase (FTH_1463), chaperonin GroEL (FTH_1651), succinate dehydrogenase (FTH_1722), acetyl-CoA carboxylase alpha subunit (FTH_0295), dihydrolipoyllysine-residue succinyltransferase (FTH_1719), DNA-binding protein HU-beta (FTH_0880), 17 kDa lipoprotein TUL4 precursor (FTH_0414), aconitate hydratase (FTH_1708), cell division protein...”
- “...4 - OM SPII 35 FTH_1721 MAA PNA 27.2 8.42 1 - cyt - 36 FTH_1463 MAA 39.1 5.39 1 DIN 61 MT ? SPI a the accesion number in the genome sequence of F. tularensis subsp. holarctica OSU18 b the number of eukaryotic N-glycosylation motifs...”
4oecA / Q5JGZ3 Crystal structure of glycerophosphodiester phosphodiesterase from thermococcus kodakarensis kod1
WP_011250348 glycerophosphodiester phosphodiesterase family protein from Thermococcus kodakarensis
34% identity, 32% coverage
CNAG_06614 glycerophosphodiesterase from Cryptococcus neoformans var. grubii H99
47% identity, 15% coverage
BT_RS23815 glycerophosphodiester phosphodiesterase family protein from Bacteroides thetaiotaomicron VPI-5482
38% identity, 21% coverage
BT4727, BT_4727 glycerophosphoryl diester phosphodiesterase from Bacteroides thetaiotaomicron VPI-5482
38% identity, 21% coverage
SCO1090 phosphodiesterase from Streptomyces coelicolor A3(2)
40% identity, 22% coverage
lmo1292 similar to glycerophosphodiester phosphodiesterase from Listeria monocytogenes EGD-e
28% identity, 38% coverage
- Survival of Listeria monocytogenes in Soil Requires AgrA-Mediated Regulation
Vivant, Applied and environmental microbiology 2015 - “...2386715 2395236 2395032 2594561 552313 787254 lmo0360 lmo1292 lmo1439 lmo2141 lmo0219 lmo2302 lmo2320 lmo2320 lmo2515 lmo0517 lmo0761 lmo0361 lmo1293 lmo1440...”
- Comparative transcriptomics of pathogenic and non-pathogenic Listeria species
Wurtzel, Molecular systems biology 2012 - “...both L. monocytogenes and L. innocua . Its transcription starts within the coding region of lmo1292 and terminates near the TSS of the same gene, generating a 350nt long product that is presumably processed to 300nt long product or terminated earlier, as observed by the northern...”
- OatA, a peptidoglycan O-acetyltransferase involved in Listeria monocytogenes immune escape, is critical for virulence
Aubry, The Journal of infectious diseases 2011 - “...The lmo1291 gene is surrounded by lmo1290 and lmo1292, which encode the internalin-like protein InlK (27) and a putative phosphodiesterase, respectively, and...”
- “...encoding a putative internalin (in white) and lmo1292 encoding a putative glycerophosphodiester phosphodiesterase (in gray). B, Map of putative domains of...”
- Identification of a new molecular target of class IIa bacteriocins in Listeria monocytogenes EGDe
Calvez, Folia microbiologica 2008 (PubMed)- “...of lpQ and pde genes might be lmo0052 and lmo1292 genes, respectively. Here, the role of lmo0052 and lmo1292 genes in resistance of Listeria monocytogenes EGDe...”
- “...monocytogenes EGDe was inactivated in lmo0052 and/or lmo1292 by homologous recombination. Listerial mutant strain EGDSC02 (inactivated in the putative glpQ...”
- Identification of a sigma B-dependent small noncoding RNA in Listeria monocytogenes
Nielsen, Journal of bacteriology 2008 - “...by TargetRNA (kdpA, lmo2421, lmo0397, lmo0698, lmo1602, and lmo1292) were selected for further analysis. In order to test whether the translation of these mRNAs...”
D9QCY4 Glycerophosphodiester phosphodiesterase from Corynebacterium pseudotuberculosis (strain C231)
CpC231_1959 glycerophosphodiester phosphodiesterase from Corynebacterium pseudotuberculosis C231
23% identity, 84% coverage
- Changes in protein abundance are observed in bacterial isolates from a natural host
Rees, Frontiers in cellular and infection microbiology 2015 - “...D9QCX4 cmtC CpC231_1949 Trehalose corynomycolyl transferase C 0.139 0.382 1.470 * General function prediction only D9QCY4 glpQ CpC231_1959 Glycerophosphoryl diester phosphodiesterase 0.412 2.820 * 2.898 * Energy production and conversion D9QD39 CpC231_2016 CpC231_2016 Cation transport protein 0.331 0.089 1.344 * Inorganic ion transport and metabolism D9QDE3...”
- Changes in protein abundance are observed in bacterial isolates from a natural host
Rees, Frontiers in cellular and infection microbiology 2015 - “...CpC231_1949 Trehalose corynomycolyl transferase C 0.139 0.382 1.470 * General function prediction only D9QCY4 glpQ CpC231_1959 Glycerophosphoryl diester phosphodiesterase 0.412 2.820 * 2.898 * Energy production and conversion D9QD39 CpC231_2016 CpC231_2016 Cation transport protein 0.331 0.089 1.344 * Inorganic ion transport and metabolism D9QDE3 trpC CpC231_2079...”
- The Corynebacterium pseudotuberculosis in silico predicted pan-exoproteome
Santos, BMC genomics 2012 - “...N CP001829 ADL11338 CpC231_1885 Membrane protein SEC CP001829 ADL11339 CpC231_1886 Hypothetical protein SEC CP001829 ADL11410 CpC231_1959 glpQ Glycerophosphoryl diester phosphodiesterase PSE E CP001829 The 35 proteins listed in this table were not found in the experimental main in vitro exoproteome [47; 48] but were found in...”
PMI0361 phosphodiesterase from Proteus mirabilis HI4320
33% identity, 37% coverage
SCO1419 phosphodiesterase from Streptomyces coelicolor A3(2)
47% identity, 16% coverage
- Identification of FadAB Complexes Involved in Fatty Acid β-Oxidation in Streptomyces coelicolor and Construction of a Triacylglycerol Overproducing strain
Menendez-Bravo, Frontiers in microbiology 2017 - “...Glycerophospholipid metabolism APH120 Acylphosphatase (C12:0) SCO5576 APH141 Acylphosphatase (C14:1) SCO5576 GPDDA3e Glycerophosphodiester phosphodiesterase (Glycerophosphoserine) SCO1090 SCO1419 SCO3976 SCO5661 ACACT2r Acetyl-CoA C-acyltransferase (butanoyl-CoA) (r) SCO6788 SCO1324 SCO4502 SCO6027 Fatty acid metabolism ACACT8r Acetyl-CoA acyltransferase (hexadecanoyl-CoA) (r) SCO6788 SCO1324 SCO4502 SCO6027 ACOAD6f Acyl-CoA dehydrogenase (tetradecanoyl-CoA) SCO1690 SCO2774 SCO6787...”
- LAL regulators SCO0877 and SCO7173 as pleiotropic modulators of phosphate starvation response and actinorhodin biosynthesis in Streptomyces coelicolor
Guerra, PloS one 2012 - “...production, and show increased transcription in the mutants. These, include two glycerophosphoryl diester phosphodiesterases ( SCO1419 and SCO1968 ), one of the nitrate reductases ( narH3 ), an acyl-CoA synthetase ( SCO5842 ), and acetate kinase ( ackA ). Although all these genes share the same...”
- “...two-component system and the phosphate transduction signal modulator phoU , glycerophosphoryl diester phosphodiesterase homologs ( SCO1419 and SCO1968 ), or the phosphate specific transporters pstSA . Other genes affected include neuAB , which are involved in putative phosphorous-free teichuronic acid biosynthesis as a substitute for phosphate-rich...”
YPO3232 putative exported protein from Yersinia pestis CO92
y0958 hypothetical from Yersinia pestis KIM
32% identity, 32% coverage
GDPD4_ARATH / F4I8H8 Glycerophosphodiester phosphodiesterase GDPD4; Glycerophosphodiester phosphodiesterase 4; ATGDPD4; EC 3.1.4.46 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT1G71340 glycerophosphoryl diester phosphodiesterase family protein from Arabidopsis thaliana
25% identity, 85% coverage
- catalytic activity: a sn-glycero-3-phosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate + H(+) (RHEA:12969)
- The m6A pathway protects the transcriptome integrity by restricting RNA chimera formation in plants
Pontier, Life science alliance 2019 - “...intergenic region as a possible result of defective RNA 3-end formation at upstream AT4G30580 and AT1G71340 genes (GENE1), respectively ( Fig S2A ). The specific accumulation of chimeric mRNA species in nerd -1 was validated by RTPCR assay using specific GENE1/2 (F1/R1 and F2/R1) primers and...”
- “...(AT4G30570 and AT1G71330) whose overexpression results from transcription readthrough of an upstream GENE1 (AT4G30580 and AT1G71340). Exons are shown with colored thick bars, UTRs with colored thin bars, introns with black dashed lines, and nerd -dependent cryptic intergenic introns with dashed diagonal red lines. The annotated...”
- Experimental Verification and Evolutionary Origin of 5'-UTR Polyadenylation Sites in Arabidopsis thaliana
Zhu, Frontiers in plant science 2018 - “.... Gene Outer primer Inner primer 1 AT5G22630 TGGTAGGTGAAGGATTTGACGG CGGAACTACCCTTCAAGACAC 2 AT4G34110 CGTAATTGTGCTTGTTTCGCC TTCATCTTCCCTCTCCTCTGAT 3 AT1G71340 TCTCCACCTGCGACATTCTG CTCTAGTGCCATGTGGGCTT 4 AT4G11830 TGTCTGCGGATGGAAACTTCT ATGGAAACTTCTAAAGGGTAACATC 5 AT5G20450 AATCCTCCGACTGGTTTCGT GTTTCTTAGCGGGTGGCTCT 6 AT2G37150 GGCCTAATTGCTTCCTGTTGG GCACGACGGCTTTATCACTT 7 AT1G13190 CCTCAATTTCACGAGGCAATC TCGATGTTCTTACTCTCTCGTTG 8 AT4G33300 GGCTTGCTCTTCCTCTCCAA ACTTCGTAATCTCCAAATTCATCAG 9 AT2G29290 GCCAAAGTCCATGTATCCGAC AGTGAGTGGTACAATCTGTGATG 10 AT5G06120 CTTATCTCTGCCAGTAGGCTTT CTCTTGCGCTTCTTTGTAGTATG...”
- Relationships between drought, heat and air humidity responses revealed by transcriptome-metabolome co-analysis
Georgii, BMC plant biology 2017 - “...catalyze a GDE1-type reaction (EC 3.1.4.44). Two of them, the glycerophosphodiester phosphodiesterases GDPD4 and GDPD3 (AT1G71340 and AT5G43300), are significantly positively correlated with m/z 333.0592 (0.827 and 0.708, respectively), indicating that a GDE1-like pathway potentially exists in Arabidopsis and is induced upon abiotic stresses, in contrast...”
- Phosphonate analogs of 2-oxoglutarate perturb metabolism and gene expression in illuminated Arabidopsis leaves
Araújo, Frontiers in plant science 2012 - “...Rpb4 262761_at At1g10720 0.66 BSD domain-containing protein 247783_at At5g58800 0.66 Quinone reductase family protein 259934_at At1g71340 0.66 ATGDPD4; glycerophosphoryl diester phosphodiesterase 4 Fully expanded leaves of 4-week-old were harvested at the middle of the light period, washed three times with 10mM MES-KOH (pH 6.5), and then...”
YPTB0895 putative exported protein from Yersinia pseudotuberculosis IP 32953
32% identity, 32% coverage
BT_0195 glycerophosphoryl diester phosphodiesterase from Bacteroides thetaiotaomicron VPI-5482
35% identity, 22% coverage
CAP0015 GLPQ related phosphodiesterase from Clostridium acetobutylicum ATCC 824
33% identity, 20% coverage
PA14_25400 putative phosphodiesterase from Pseudomonas aeruginosa UCBPP-PA14
44% identity, 14% coverage
- A novel small RNA is important for biofilm formation and pathogenicity in Pseudomonas aeruginosa
Taylor, PloS one 2017 - “...acetyltransferase -1.38 0.33 PA14_23090 Putative 2-Keto-3-deoxy-6-phosphogluconate aldolase -1.90 0.09 PA14_23270 serC 3-Phosphoserine aminotransferase -2.16 0.09 PA14_25400 Putative phosphodiesterase -3.25 0.15 PA14_37965 cynS Cyanate hydratase +1.06 0.33 PA14_38090 Putative pseudouridylate synthase +1.33 0.71 PA14_47100 ilvA2 Threonine dehydrastase +1.83 0.88 PA14_47670 cobT Cobalamin biosynthesis +2.58 1.85 PA14_48010 Putative...”
PA2990 probable phosphodiesterase from Pseudomonas aeruginosa PAO1
44% identity, 14% coverage
Q6ZFH9 glycerophosphodiester phosphodiesterase from Oryza sativa subsp. japonica
42% identity, 8% coverage
PA4792 hypothetical protein from Pseudomonas aeruginosa PAO1
31% identity, 50% coverage
- ECF Sigma Factor HxuI Is Critical for In Vivo Fitness of Pseudomonas aeruginosa during Infection
Cai, Microbiology spectrum 2022 - “...E1 component subunit alpha 2.69 5.91E-22 PA3582 glpK Glycerol kinase GlpR binding site 2.23 2.07E-06 PA4792 Putative glycerolphosphodiesterase 2.83 1.42E-41 PA5058 phaC2 Poly (3-hydroxyalkanoic acid) synthase; storage polymer polyhydroxyalkanoate (PHA) biosynthesis 2.25 6.21E-16 PA5352 glcG Hypothetical protein 2.02 0.000309 PA5353 glcF Glycolate oxidase iron-sulfur subunit 2.53...”
lmo0616 C-terminal domain similar to glycerophosphoryl diester phosphodiesterase from Listeria monocytogenes EGD-e
45% identity, 10% coverage
M1ICP4 Glycerophosphoryl diester phosphodiesterase from Paramecium bursaria Chlorella virus NE-JV-1
44% identity, 14% coverage
A0A0U4VTN7 glycerophosphocholine phosphodiesterase (EC 3.1.4.2); lysoplasmalogenase (EC 3.3.2.2) from Thermocrispum sp. RD004668 (see paper)
36% identity, 22% coverage
Q3K9F6 Putative glycerophosphoryl diester phosphodiesterase from Pseudomonas fluorescens (strain Pf0-1)
34% identity, 29% coverage
7ym0A / A0A0U4VTN7 Lysoplasmalogen-specific phospholipase d (lypls-pld) with ca2+ (see paper)
36% identity, 22% coverage
- Ligand: calcium ion (7ym0A)
VC83_08779 uncharacterized protein from Pseudogymnoascus destructans
44% identity, 15% coverage
Avin_14680 Glycerophosphoryl diester phosphodiesterase from Azotobacter vinelandii AvOP
40% identity, 22% coverage
D3Q1U5 Glycerophosphoryl diester phosphodiesterase from Stackebrandtia nassauensis (strain DSM 44728 / CIP 108903 / NRRL B-16338 / NBRC 102104 / LLR-40K-21)
36% identity, 22% coverage
- Molecular cloning, heterologous expression, and enzymatic characterization of lysoplasmalogen-specific phospholipase D from Thermocrispum sp
Matsumoto, FEBS open bio 2016 - “...LyPlsPLD shared 68% and 31% identity with GDPDs from Stackebrandtia nassauensis (snGDPD; UniProt accession no. D3Q1U5 ) 17 and Thermoanaerobacter tengcongensis (ttGDPD; UniProt accession no. Q8RB32 ) 18 , and showed high similarity with other GDPDs as well (Fig. 6 ). However, most of them remain...”
- “...(GENETYX Corp., Tokyo, Japan). snGDPD, GDPD from Stackebrandtia nassauensis strain DSM 44728 (UniprotKB accession number D3Q1U5); cwGDPD, GDPD from Conexibacter woesei strain DSM 14684 (D3F5R1); ttGDPD, GDPD from Caldanaerobacter subterraneus subsp. tengcongensis ( Thermoanaerobacter tengcongensis ) strain DSM 15242 (Q8RB32); ptGDPD, GDPD from Pelotomaculum thermopropionicum strain...”
MED193_07883 glycerophosphoryl diester phosphodiesterase, putative from Roseobacter sp. MED193
A3X9K3 Glycerophosphoryl diester phosphodiesterase, putative from Roseobacter sp. MED193
32% identity, 34% coverage
- Bacterial catabolism of membrane phospholipids links marine biogeochemical cycles
Westermann, Science advances 2023 - “...MED193_07818 A3X9L3 Putative G3P ABC transporter, periplasmic substrate binding protein ++ 3.43 0.01 N/D N/D MED193_07883 A3X9K3 GlpQ-2 Putative extracellular glycerophosphoryl diester phosphodiesterase ++ 2.56 0.01 N/D N/D MED193_07888 A3X9J7 UgpC Putative G3P ABC transporter, ATPase ++ 3.55 0.07 0.72 0.00 MED193_07903 A3X9J4 UgpB Putative G3P...”
- Bacterial catabolism of membrane phospholipids links marine biogeochemical cycles
Westermann, Science advances 2023 - “...A3X9L3 Putative G3P ABC transporter, periplasmic substrate binding protein ++ 3.43 0.01 N/D N/D MED193_07883 A3X9K3 GlpQ-2 Putative extracellular glycerophosphoryl diester phosphodiesterase ++ 2.56 0.01 N/D N/D MED193_07888 A3X9J7 UgpC Putative G3P ABC transporter, ATPase ++ 3.55 0.07 0.72 0.00 MED193_07903 A3X9J4 UgpB Putative G3P ABC...”
P9WLF1 Uncharacterized protein Rv2277c from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
Rv2277c Possible glycerolphosphodiesterase from Mycobacterium tuberculosis H37Rv
24% identity, 82% coverage
- Bacterial cytochrome P450s: a bioinformatics odyssey of substrate discovery
Schottlender, Frontiers in microbiology 2024 - “...genetic context shows that genes adjacent to MtCYP121 correspond to Uniprot IDs P9WPF9 (upstream) and P9WLF1 (downstream). The protein P9WPF9 is called Cyclo(L-tyrosyl-L-tyrosyl) synthase, which as the name suggests, synthesizes the mentioned CYP121 substrate from L-tyrosyl-tRNA(Tyr), while the tRNA(Tyr) part from L-tyrosyl-tRNA(Tyr) becomes separated after the...”
- A comparative study of antibiotic resistance patterns in Mycobacterium tuberculosis
Serajian, Scientific reports 2025 (no snippet) - Large genomic deletions delineate Mycobacterium tuberculosis L4 sublineages in South American countries
Baena, PloS one 2023 - “...In this sense, it is noteworthy to mention that genes like ppe24 , ppe8 , rv2277c , and accE5 , accumulated mutations in most lineages, following a non-vertically driven inheritance pattern. By contrast, some deletion events served as signatures for some lineages. For instance, a single...”
- “..., rv2271 , rv2272 , rv2273 , mazF8 , mazE8 , rv2275 , cyp121 , rv2277c , and rv2280 ( Fig 7 , panel A). Additionally, several strains of the sister clades 4.1.2.1Col1, 4.1.2.1Peru1, and 4.1.2.1cpb share a specific large deletion that spans 4,752 bases and...”
- Mycobacterium tuberculosis Gene Expression Associated With Fluoroquinolone Resistance and Efflux Pump Inhibition
van, The Journal of infectious diseases 2023 - “...Regulateda eQTL Adjusted P Valueb 2 P Valuec 2549993_A_T NS Rv2277c In gene CTT:CAT L16H Rv3756c -1 652 079 .02 .008 2549993_A_T NS Rv2277c In gene CTT:CAT L16H...”
- Genome-wide association studies of global Mycobacterium tuberculosis resistance to 13 antimicrobials in 10,228 genomes identify new resistance mechanisms
The, PLoS biology 2022 - “...(H), cpsY (I), lysA (J), mprB (K), mprA (L), Rv3228 (M), Rv1290c (N), pncA (O), Rv2277c : pitB R (P), Rv0726c (Q), cysA3/cysA2 (R), Rv0914c (S) New and repurposed Bedaquiline Rv0678 , rpoB (A), rrs (B), atpE (C), pgi (D), mmaA4 (E), rplC (F), Rv0078A (G),...”
- Whole genome sequencing, analyses of drug resistance-conferring mutations, and correlation with transmission of Mycobacterium tuberculosis carrying katG-S315T in Hanoi, Vietnam
Hang, Scientific reports 2019 - “...Yes No No No No mycP2, rpsL, Rv0012, Rv0219, Rv0893c, Rv1217c, Rv1443c, Rv1515c, Rv1516c, Rv2033c, Rv2277c, Rv2672, Rv2825c, Rv3177, Rv3618, yjcE 16 No No No No No Yes cysK1, espI, glmS, hsaA, lprQ, PE23, pks15, pks7, pmmB, rhlE, Rv0121c, Rv1073, Rv1639c, Rv2219, Rv3217c, Rv3254, Rv3660c, Rv3707c,...”
- Proteome analysis of the Mycobacterium tuberculosis Beijing B0/W148 cluster
Bespyatykh, Scientific reports 2016 - “...the 17 (47%) of Beijing B0/W148 specific proteins. In H37Rv the upstream region of the Rv2277c, Rv2475c, and Rv3323c genes carries the IS 6110 element, which is missing in the Beijing B0/W148 strains and is likely to affect gene expression. In addition, there are three CG...”
- “...protein lipid metabolic process (GO:0006629) fadD15 Rv2187 over Lipid metabolism long-chain-fatty-acidCoA ligase FadD15 0.64 0.049358831 Rv2277c over Intermediary metabolism and respiration glycerolphosphodiesterase agpS Rv3107c over Lipid metabolism alkyldihydroxyacetonephosphate synthase 3.5 0.022585521 hsaA Rv3570c over Intermediary metabolism and respiration flavin-dependent monooxygenase oxygenase subunit HsaA 1 0.043815093 rmlA...”
- Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study
Roetzer, PLoS medicine 2013 - “...Repeat 25321072532159 Repeat 25451972551675 Rv2270Rv2280 lppN a , cyp121 a , and others a 25500092551366 Rv2277c, Rv2278 IS 6110 transposases 26355792636929 Rv2353c, Rv2354 PPE39, transposase 27043072704806 Rv2406, Rv2407 Hypothetical protein, ribonuclease Z a 27846122785975 Rv2480c IS 6110 transposase 29721062973466 Rv2648 IS 6110 transposase 29905852990639 Rv2673 Membrane...”
- Analysis of the genetic variation in Mycobacterium tuberculosis strains by multiple genome alignments
Cubillos-Ruiz, BMC research notes 2008 - “...protein) Rv2273 (Probable conserved transmembrane protein) Rv2274c (Hypothetical protein) Rv2275 (Hypothetical protein) cyp121 (Cytochrome P450) Rv2277c (Probable glycerolphosphodiesterase) 2792261 170 PE-PGRS42 3117314 439 Repeat region (DR) Intergenic between Rv2813 and Rv2814 3192481 87 IS 1539 Transposase contained in repeat region 4033587 616 Rv3600c (Conserved hypothetical protein)...”
- More
AFUA_2G00990 glycerophosphoryl diester phosphodiesterase family protein from Aspergillus fumigatus Af293
37% identity, 22% coverage
- Conservation of nucleosome positions in duplicated and orthologous gene pairs
Nishida, TheScientificWorldJournal 2012 - “...AFUA_7G03690 0.150422383 YOL089C AFUA_6G01960 0.149731857 YGR193C AFUA_3G08270 0.14875632 YDR328C AFUA_5G06060 0.143711765 YPL254W AFUA_2G06060 0.143220591 YPL206C AFUA_2G00990 0.138505935 YEL021W AFUA_2G08360 0.13720587 YOL068C AFUA_4G12120 0.134069861 YJR160C AFUA_7G06390 0.131179873 YNL310C AFUA_6G08230 0.130305791 YIL061C AFUA_5G13480 0.126828721 YGL163C AFUA_6G12910 0.12597657 YGR173W AFUA_5G06770 0.123606414 YJL092W AFUA_2G03910 0.122708164 YJR065C AFUA_5G11560 0.121854722 YBR023C AFUA_8G05630...”
Mb2300c Possible glycerolphosphodiesterase from Mycobacterium bovis AF2122/97
24% identity, 82% coverage
Q8TZI9 lysophospholipase (EC 3.1.1.5); glycerophosphodiester phosphodiesterase (EC 3.1.4.46) from Pyrococcus furiosus (see 2 papers)
31% identity, 30% coverage
WP_014835518 glycerophosphodiester phosphodiesterase family protein from Pyrococcus furiosus DSM 3638
31% identity, 30% coverage
PFLU1570 putative glycerophosphoryl diester phosphodiesterase from Pseudomonas fluorescens SBW25
36% identity, 22% coverage
5vugA / P9WLF1 Crystal structure of glycerophosphoryl diester phosphodiesterase domain of uncharacterized protein rv2277c from mycobacterium tuberculosis
33% identity, 33% coverage
- Ligand: calcium ion (5vugA)
SCO5661 hypothetical protein from Streptomyces coelicolor A3(2)
49% identity, 14% coverage
For advice on how to use these tools together, see
Interactive tools for functional annotation of bacterial genomes.
The PaperBLAST database links 793,807 different protein sequences to 1,259,118 scientific articles. Searches against EuropePMC were last performed on March 13 2025.
PaperBLAST builds a database of protein sequences that are linked
to scientific articles. These links come from automated text searches
against the articles in EuropePMC
and from manually-curated information from GeneRIF, UniProtKB/Swiss-Prot,
BRENDA,
CAZy (as made available by dbCAN),
BioLiP,
CharProtDB,
MetaCyc,
EcoCyc,
TCDB,
REBASE,
the Fitness Browser,
and a subset of the European Nucleotide Archive with the /experiment tag.
Given this database and a protein sequence query,
PaperBLAST uses protein-protein BLAST
to find similar sequences with E < 0.001.
To build the database, we query EuropePMC with locus tags, with RefSeq protein
identifiers, and with UniProt
accessions. We obtain the locus tags from RefSeq or from MicrobesOnline. We use
queries of the form "locus_tag AND genus_name" to try to ensure that
the paper is actually discussing that gene. Because EuropePMC indexes
most recent biomedical papers, even if they are not open access, some
of the links may be to papers that you cannot read or that our
computers cannot read. We query each of these identifiers that
appears in the open access part of EuropePMC, as well as every locus
tag that appears in the 500 most-referenced genomes, so that a gene
may appear in the PaperBLAST results even though none of the papers
that mention it are open access. We also incorporate text-mined links
from EuropePMC that link open access articles to UniProt or RefSeq
identifiers. (This yields some additional links because EuropePMC
uses different heuristics for their text mining than we do.)
For every article that mentions a locus tag, a RefSeq protein
identifier, or a UniProt accession, we try to select one or two
snippets of text that refer to the protein. If we cannot get access to
the full text, we try to select a snippet from the abstract, but
unfortunately, unique identifiers such as locus tags are rarely
provided in abstracts.
PaperBLAST also incorporates manually-curated protein functions:
- Proteins from NCBI's RefSeq are included if a
GeneRIF
entry links the gene to an article in
PubMed®.
GeneRIF also provides a short summary of the article's claim about the
protein, which is shown instead of a snippet.
- Proteins from Swiss-Prot (the curated part of UniProt)
are included if the curators
identified experimental evidence for the protein's function (evidence
code ECO:0000269). For these proteins, the fields of the Swiss-Prot entry that
describe the protein's function are shown (with bold headings).
- Proteins from BRENDA,
a curated database of enzymes, are included if they are linked to a paper in PubMed
and their full sequence is known.
- Every protein from the non-redundant subset of
BioLiP,
a database
of ligand-binding sites and catalytic residues in protein structures, is included. Since BioLiP itself
does not include descriptions of the proteins, those are taken from the
Protein Data Bank.
Descriptions from PDB rely on the original submitter of the
structure and cannot be updated by others, so they may be less reliable.
(For SitesBLAST and Sites on a Tree, we use a larger subset of BioLiP so that every
ligand is represented among a group of structures with similar sequences, but for
PaperBLAST, we use the non-redundant set provided by BioLiP.)
- Every protein from EcoCyc, a curated
database of the proteins in Escherichia coli K-12, is included, regardless
of whether they are characterized or not.
- Proteins from the MetaCyc metabolic pathway database
are included if they are linked to a paper in PubMed and their full sequence is known.
- Proteins from the Transport Classification Database (TCDB)
are included if they have known substrate(s), have reference(s),
and are not described as uncharacterized or putative.
(Some of the references are not visible on the PaperBLAST web site.)
- Every protein from CharProtDB,
a database of experimentally characterized protein annotations, is included.
- Proteins from the CAZy database of carbohydrate-active enzymes
are included if they are associated with an Enzyme Classification number.
Even though CAZy does not provide links from individual protein sequences to papers,
these should all be experimentally-characterized proteins.
- Proteins from the REBASE database
of restriction enzymes are included if they have known specificity.
- Every protein with an evidence-based reannotation (based on mutant phenotypes)
in the Fitness Browser is included.
- Sequence-specific transcription factors (including sigma factors and DNA-binding response regulators)
with experimentally-determined DNA binding sites from the
PRODORIC database of gene regulation in prokaryotes.
- Putative transcription factors from RegPrecise
that have manually-curated predictions for their binding sites. These predictions are based on
conserved putative regulatory sites across genomes that contain similar transcription factors,
so PaperBLAST clusters the TFs at 70% identity and retains just one member of each cluster.
- Coding sequence (CDS) features from the
European Nucleotide Archive (ENA)
are included if the /experiment tag is set (implying that there is experimental evidence for the annotation),
the nucleotide entry links to paper(s) in PubMed,
and the nucleotide entry is from the STD data class
(implying that these are targeted annotated sequences, not from shotgun sequencing).
Also, to filter out genes whose transcription or translation was detected, but whose function
was not studied, nucleotide entries or papers with more than 25 such proteins are excluded.
Descriptions from ENA rely on the original submitter of the
sequence and cannot be updated by others, so they may be less reliable.
Except for GeneRIF and ENA,
the curated entries include a short curated
description of the protein's function.
For entries from BioLiP, the protein's function may not be known beyond binding to the ligand.
Many of these entries also link to articles in PubMed.
For more information see the
PaperBLAST paper (mSystems 2017)
or the code.
You can download PaperBLAST's database here.
Changes to PaperBLAST since the paper was written:
- November 2023: incorporated PRODORIC and RegPrecise. Many PRODORIC entries were not linked to a protein sequence (no UniProt identifier), so we added this information.
- February 2023: BioLiP changed their download format. PaperBLAST now includes their non-redundant subset. SitesBLAST and Sites on a Tree use a larger non-redundant subset that ensures that every ligand is represented within each cluster. This should ensure that every binding site is represented.
- June 2022: incorporated some coding sequences from ENA with the /experiment tag.
- March 2022: incorporated BioLiP.
- April 2020: incorporated TCDB.
- April 2019: EuropePMC now returns table entries in their search results. This has expanded PaperBLAST's database, but most of the new entries are of low relevance, and the resulting snippets are often just lists of locus tags with annotations.
- February 2018: the alignment page reports the conservation of the hit's functional sites (if available from from Swiss-Prot or UniProt)
- January 2018: incorporated BRENDA.
- December 2017: incorporated MetaCyc, CharProtDB, CAZy, REBASE, and the reannotations from the Fitness Browser.
- September 2017: EuropePMC no longer returns some table entries in their search results. This has shrunk PaperBLAST's database, but has also reduced the number of low-relevance hits.
Many of these changes are described in Interactive tools for functional annotation of bacterial genomes.
PaperBLAST cannot provide snippets for many of the papers that are
published in non-open-access journals. This limitation applies even if
the paper is marked as "free" on the publisher's web site and is
available in PubmedCentral or EuropePMC. If a journal that you publish
in is marked as "secret," please consider publishing elsewhere.
Many important articles are missing from PaperBLAST, either because
the article's full text is not in EuropePMC (as for many older
articles), or because the paper does not mention a protein identifier such as a locus tag, or because of PaperBLAST's heuristics. If you notice an
article that characterizes a protein's function but is missing from
PaperBLAST, please notify the curators at UniProt
or add an entry to GeneRIF.
Entries in either of these databases will eventually be incorporated
into PaperBLAST. Note that to add an entry to UniProt, you will need
to find the UniProt identifier for the protein. If the protein is not
already in UniProt, you can ask them to create an entry. To add an
entry to GeneRIF, you will need an NCBI Gene identifier, but
unfortunately many prokaryotic proteins in RefSeq do not have
corresponding Gene identifers.
References
PaperBLAST: Text-mining papers for information about homologs.
M. N. Price and A. P. Arkin (2017). mSystems, 10.1128/mSystems.00039-17.
Europe PMC in 2017.
M. Levchenko et al (2017). Nucleic Acids Research, 10.1093/nar/gkx1005.
Gene indexing: characterization and analysis of NLM's GeneRIFs.
J. A. Mitchell et al (2003). AMIA Annu Symp Proc 2003:460-464.
UniProt: the universal protein knowledgebase.
The UniProt Consortium (2016). Nucleic Acids Research, 10.1093/nar/gkw1099.
BRENDA in 2017: new perspectives and new tools in BRENDA.
S. Placzek et al (2017). Nucleic Acids Research, 10.1093/nar/gkw952.
The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.
I. M. Keeseler et al (2016). Nucleic Acids Research, 10.1093/nar/gkw1003.
The MetaCyc database of metabolic pathways and enzymes.
R. Caspi et al (2018). Nucleic Acids Research, 10.1093/nar/gkx935.
CharProtDB: a database of experimentally characterized protein annotations.
R. Madupu et al (2012). Nucleic Acids Research, 10.1093/nar/gkr1133.
The carbohydrate-active enzymes database (CAZy) in 2013.
V. Lombard et al (2014). Nucleic Acids Research, 10.1093/nar/gkt1178.
The Transporter Classification Database (TCDB): recent advances
M. H. Saier, Jr. et al (2016). Nucleic Acids Research, 10.1093/nar/gkv1103.
REBASE - a database for DNA restriction and modification: enzymes, genes and genomes.
R. J. Roberts et al (2015). Nucleic Acids Research, 10.1093/nar/gku1046.
Deep annotation of protein function across diverse bacteria from mutant phenotypes.
M. N. Price et al (2016). bioRxiv, 10.1101/072470.
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory