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CAZyme Information: MGYG000002613_00492
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Basic Information |
Genomic context |
Full Sequence |
Enzyme annotations |
CAZy signature domains |
CDD domains |
CAZyme hits |
PDB hits |
Swiss-Prot hits |
SignalP and Lipop annotations |
TMHMM annotations
Basic Information help
| Species | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Lineage | Bacteria; Bacteroidota; Bacteroidia; Bacteroidales; Bacteroidaceae; Prevotella; | |||||||||||
| CAZyme ID | MGYG000002613_00492 | |||||||||||
| CAZy Family | GH28 | |||||||||||
| CAZyme Description | hypothetical protein | |||||||||||
| CAZyme Property |
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| Genome Property |
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| Gene Location | Start: 17718; End: 20567 Strand: + | |||||||||||
CAZyme Signature Domains help
| Family | Start | End | Evalue | family coverage |
|---|---|---|---|---|
| GH28 | 515 | 870 | 6.2e-52 | 0.9261538461538461 |
CDD Domains download full data without filtering help
| Cdd ID | Domain | E-Value | qStart | qEnd | sStart | sEnd | Domain Description |
|---|---|---|---|---|---|---|---|
| cd08566 | GDPD_AtGDE_like | 3.54e-50 | 244 | 465 | 2 | 240 | Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Agrobacterium tumefaciens glycerophosphodiester phosphodiesterase (AtGDE, EC 3.1.4.46) and its uncharacterized eukaryotic homolgoues. Members in this family shows high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. AtGDE exists as a hexamer that is a trimer of dimers, which is unique among current known GDPD family members. However, it remains unclear if the hexamer plays a physiological role in AtGDE enzymatic function. |
| COG5434 | Pgu1 | 4.32e-49 | 498 | 846 | 93 | 450 | Polygalacturonase [Carbohydrate transport and metabolism]. |
| cd08562 | GDPD_EcUgpQ_like | 1.76e-37 | 244 | 439 | 1 | 204 | Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase (GP-GDE, EC 3.1.4.46), UgpQ, and similar proteins. GP-GDE plays an essential role in the metabolic pathway of E. coli. It catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols, which are major sources of carbon and phosphate. E. coli possesses two major G3P uptake systems: Glp and Ugp, which contain genes coding for two distinct GP-GDEs. UgpQ gene from the E. coli ugp operon codes for a cytosolic phosphodiesterase GlpQ, which is the prototype of this family. Various glycerophosphodiesters, such as glycerophosphocholine (GPC), glycerophosphoethanolanmine (GPE), glycerophosphoglycerol (GPG), glycerophosphoinositol (GPI), and glycerophosphoserine (GPS), can only be hydrolyzed by UgpQ during transport at the inner side of the cytoplasmic membrane to alcohols and G3P, which is a source of phosphate. In contrast to Ca2+-dependent periplasmic phosphodiesterase GlpQ, cytosolic phosphodiesterase UgpQ requires divalent cations, such as Mg2+, Co2+, or Mn2+, for its enzyme activity. |
| cd08563 | GDPD_TtGDE_like | 1.07e-33 | 247 | 437 | 6 | 203 | Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Thermoanaerobacter tengcongensis glycerophosphodiester phosphodiesterase (TtGDE, EC 3.1.4.46) and its uncharacterized homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. Despite the fact that most of GDPD family members exist as the monomer, TtGDE can function as a dimeric unit. Its catalytic mechanism is based on the general base-acid catalysis, which is similar to that of phosphoinositide-specific phospholipases C (PI-PLCs, EC 3.1.4.11). A divalent metal cation is required for the enzyme activity of TtGDE. |
| cd08561 | GDPD_cytoplasmic_ScUgpQ2_like | 2.42e-32 | 247 | 437 | 4 | 215 | Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized cytoplasmic phosphodiesterases which predominantly exist in bacteria. The prototype of this family is a putative cytoplasmic phosphodiesterase encoded by gene ulpQ2 (SCO1419) in the Streptomyces coelicolor genome. It is distantly related to the Escherichia coli cytoplasmic phosphodiesterases UgpQ that catalyzes the hydrolysis of glycerophosphodiesters at the inner side of the cytoplasmic membrane to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. |
CAZyme Hits help
| Hit ID | E-Value | Query Start | Query End | Hit Start | Hit End |
|---|---|---|---|---|---|
| ADE81493.1 | 3.75e-201 | 487 | 937 | 25 | 474 |
| QVJ82239.1 | 1.50e-200 | 487 | 937 | 25 | 474 |
| BCS85562.1 | 7.50e-193 | 488 | 945 | 11 | 467 |
| AGB28891.1 | 5.53e-176 | 491 | 945 | 52 | 506 |
| QOG01239.1 | 5.74e-170 | 498 | 946 | 46 | 495 |
PDB Hits download full data without filtering help
| Hit ID | E-Value | Query Start | Query End | Hit Start | Hit End | Description |
|---|---|---|---|---|---|---|
| 1ZCC_A | 1.14e-41 | 243 | 468 | 3 | 228 | Crystalstructure of glycerophosphodiester phosphodiesterase from Agrobacterium tumefaciens str.C58 [Agrobacterium fabrum str. C58],1ZCC_B Crystal structure of glycerophosphodiester phosphodiesterase from Agrobacterium tumefaciens str.C58 [Agrobacterium fabrum str. C58],1ZCC_C Crystal structure of glycerophosphodiester phosphodiesterase from Agrobacterium tumefaciens str.C58 [Agrobacterium fabrum str. C58],1ZCC_D Crystal structure of glycerophosphodiester phosphodiesterase from Agrobacterium tumefaciens str.C58 [Agrobacterium fabrum str. C58],1ZCC_E Crystal structure of glycerophosphodiester phosphodiesterase from Agrobacterium tumefaciens str.C58 [Agrobacterium fabrum str. C58],1ZCC_F Crystal structure of glycerophosphodiester phosphodiesterase from Agrobacterium tumefaciens str.C58 [Agrobacterium fabrum str. C58] |
| 2PZ0_A | 1.45e-24 | 244 | 459 | 14 | 225 | ChainA, Glycerophosphoryl diester phosphodiesterase [Caldanaerobacter subterraneus subsp. tengcongensis MB4],2PZ0_B Chain B, Glycerophosphoryl diester phosphodiesterase [Caldanaerobacter subterraneus subsp. tengcongensis MB4] |
| 5T91_A | 3.61e-22 | 242 | 350 | 13 | 129 | Crystalstructure of B. subtilis 168 GlpQ in complex with bicine [Bacillus subtilis subsp. subtilis str. 168],5T9B_G Crystal structure of B. subtilis 168 GlpQ in complex with glycerol-3-phosphate (5 minute soak) [Bacillus subtilis subsp. subtilis str. 168],5T9C_E Crystal structure of B. subtilis 168 GlpQ in complex with glycerol-3-phosphate (1 hour soak) [Bacillus subtilis subsp. subtilis str. 168] |
| 5OLP_A | 1.21e-20 | 499 | 750 | 56 | 320 | Galacturonidase[Bacteroides thetaiotaomicron VPI-5482],5OLP_B Galacturonidase [Bacteroides thetaiotaomicron VPI-5482] |
| 2OTD_A | 4.65e-19 | 244 | 391 | 9 | 163 | Thecrystal structure of the glycerophosphodiester phosphodiesterase from Shigella flexneri 2a [Shigella flexneri],2OTD_B The crystal structure of the glycerophosphodiester phosphodiesterase from Shigella flexneri 2a [Shigella flexneri],2OTD_C The crystal structure of the glycerophosphodiester phosphodiesterase from Shigella flexneri 2a [Shigella flexneri],2OTD_D The crystal structure of the glycerophosphodiester phosphodiesterase from Shigella flexneri 2a [Shigella flexneri] |
Swiss-Prot Hits download full data without filtering help
| Hit ID | E-Value | Query Start | Query End | Hit Start | Hit End | Description |
|---|---|---|---|---|---|---|
| P37965 | 3.23e-21 | 242 | 350 | 38 | 154 | Glycerophosphodiester phosphodiesterase OS=Bacillus subtilis (strain 168) OX=224308 GN=glpQ PE=1 SV=1 |
| P10908 | 5.57e-19 | 244 | 391 | 9 | 163 | Glycerophosphodiester phosphodiesterase, cytoplasmic OS=Escherichia coli (strain K12) OX=83333 GN=ugpQ PE=1 SV=1 |
| O07592 | 3.18e-18 | 244 | 350 | 3 | 109 | Putative glycerophosphodiester phosphodiesterase YhdW OS=Bacillus subtilis (strain 168) OX=224308 GN=yhdW PE=3 SV=1 |
| Q9JL56 | 7.05e-15 | 242 | 350 | 65 | 176 | Glycerophosphodiester phosphodiesterase 1 OS=Mus musculus OX=10090 GN=Gde1 PE=1 SV=1 |
| Q9NZC3 | 7.05e-15 | 242 | 350 | 65 | 176 | Glycerophosphodiester phosphodiesterase 1 OS=Homo sapiens OX=9606 GN=GDE1 PE=1 SV=1 |
SignalP and Lipop Annotations help
This protein is predicted as SP
| Other | SP_Sec_SPI | LIPO_Sec_SPII | TAT_Tat_SPI | TATLIP_Sec_SPII | PILIN_Sec_SPIII |
|---|---|---|---|---|---|
| 0.000198 | 0.999175 | 0.000169 | 0.000144 | 0.000140 | 0.000130 |