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Conserved domains on  [gi|15598451|ref|NP_251945|]
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hypothetical protein PA3255 [Pseudomonas aeruginosa PAO1]

Protein Classification

HAD family hydrolase( domain architecture ID 10001729)

haloacid dehalogenase (HAD) family hydrolase uses a nucleophilic aspartate in the phosphoryl transfer reaction; the HAD family includes phosphoesterases, ATPases, phosphonatases, dehalogenases, and sugar phosphomutases acting on a remarkably diverse set of substrates

CATH:  3.30.1240.10
EC:  3.-.-.-
Gene Ontology:  GO:0016787
PubMed:  16889794|15337123|33940035|37786806
SCOP:  3001890

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SerB COG0560
Phosphoserine phosphatase [Amino acid transport and metabolism]; Phosphoserine phosphatase is ...
 5-192 5.43e-53

Phosphoserine phosphatase [Amino acid transport and metabolism]; Phosphoserine phosphatase is part of the Pathway/BioSystem: Serine biosynthesis


:

Pssm-ID: 440326 [Multi-domain]  Cd Length: 221  Bit Score: 168.48  E-value: 5.43e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451   5 GWVD-ESFVRRDAELMEQYAEGKLSMDLYMDYTLQPLIGRSVEEVEREVEAYVEEViePLIYSDACACLARHRSANDRVL 83
Cdd:COG0560  31 GLVDrREVLEEVAAITERAMAGELDFEESLRFRVALLAGLPEEELEELAERLFEEV--PRLYPGARELIAEHRAAGHKVA 108

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451  84 IVSASGVHLVKPIAARIGVDEVLAIDLEVLDGHYTGRTLGTLTYREGKVLRLLDLLEGDDRQLADAWFYSDSRNDLPLLK 163
Cdd:COG0560 109 IVSGGFTFFVEPIAERLGIDHVIANELEVEDGRLTGEVVGPIVDGEGKAEALRELAAELGIDLEQSYAYGDSANDLPMLE 188

                       170       180       190
                ....*....|....*....|....*....|
gi 15598451 164 LVGHPNTVNPDPTLLAYAKEM-GWPVNAWR 192
Cdd:COG0560 189 AAGLPVAVNPDPALREAADRErGWPVLDLL 218
 
Name Accession Description Interval E-value
SerB COG0560
Phosphoserine phosphatase [Amino acid transport and metabolism]; Phosphoserine phosphatase is ...
 5-192 5.43e-53

Phosphoserine phosphatase [Amino acid transport and metabolism]; Phosphoserine phosphatase is part of the Pathway/BioSystem: Serine biosynthesis


Pssm-ID: 440326 [Multi-domain]  Cd Length: 221  Bit Score: 168.48  E-value: 5.43e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451   5 GWVD-ESFVRRDAELMEQYAEGKLSMDLYMDYTLQPLIGRSVEEVEREVEAYVEEViePLIYSDACACLARHRSANDRVL 83
Cdd:COG0560  31 GLVDrREVLEEVAAITERAMAGELDFEESLRFRVALLAGLPEEELEELAERLFEEV--PRLYPGARELIAEHRAAGHKVA 108

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451  84 IVSASGVHLVKPIAARIGVDEVLAIDLEVLDGHYTGRTLGTLTYREGKVLRLLDLLEGDDRQLADAWFYSDSRNDLPLLK 163
Cdd:COG0560 109 IVSGGFTFFVEPIAERLGIDHVIANELEVEDGRLTGEVVGPIVDGEGKAEALRELAAELGIDLEQSYAYGDSANDLPMLE 188

                       170       180       190
                ....*....|....*....|....*....|
gi 15598451 164 LVGHPNTVNPDPTLLAYAKEM-GWPVNAWR 192
Cdd:COG0560 189 AAGLPVAVNPDPALREAADRErGWPVLDLL 218
HAD_PGPPase cd02612
phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 ...
 12-174 4.18e-43

phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C; This family includes Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C, PgpC (previously named yfhB) which catalyzes the dephosphorylation of phosphatidylglycerol-phosphate (PGP) to phosphatidylglycerol (PG). This family belongs to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.


Pssm-ID: 319796 [Multi-domain]  Cd Length: 195  Bit Score: 142.44  E-value: 4.18e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451  12 VRRDAELMEQYAEGKLSMdLYMDYTLQPLIGRSVEEVEREVEAYVEEVIEPLIYSDACACLARHRSANDRVLIVSASGVH 91
Cdd:cd02612  34 ELLLLRLMALYALGRLDG-AGMEALLGFATAGLAGELAALVEEFVEEYILRVLYPEARELIAWHKAAGHDVVLISASPEE 112

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451  92 LVKPIAARIGVDEVLAIDLEVLDGHYTGRTLGTLTYREGKVLRLLDLLEGDDRQLADAWFYSDSRNDLPLLKLVGHPNTV 171
Cdd:cd02612 113 LVAPIARKLGIDNVLGTQLETEDGRYTGRIIGPPCYGEGKVKRLREWLAEEGIDLKDSYAYSDSINDLPMLEAVGHPVAV 192


                ...
gi 15598451 172 NPD 174
Cdd:cd02612 193 NPD 195
HAD-SF-IB-hyp1 TIGR01490
HAD-superfamily subfamily IB hydrolase, TIGR01490; This hypothetical equivalog is a member of ...
 16-177 2.58e-35

HAD-superfamily subfamily IB hydrolase, TIGR01490; This hypothetical equivalog is a member of the IB subfamily (TIGR01488) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The sequences modelled here are all bacterial. The IB subfamily includes the enzyme phosphoserine phosphatase (TIGR00338). Due to this relationship, several of these sequences have been annotated as "phosphoserine phosphatase related proteins," or "Phosphoserine phosphatase-family enzymes." There is presently no evidence that any of the enzymes in this model possess PSPase activity. OMNI|NTL01ML1250 is annotated as a "possible transferase," however this is due to the C-terminal domain found on this sequence which is homologous to a group of glycerol-phosphate acyltransferases (between trusted and noise to TIGR00530). A subset of these sequences including OMNI|CC1962, the Caulobacter crescentus CicA protein cluster together and may represent a separate equivalog. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273654 [Multi-domain]  Cd Length: 202  Bit Score: 122.83  E-value: 2.58e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451    16 AELMEQYAEGKLSMDLYMDYTLQPLIGRSVEEVEREVEAYVEEVIEPLIYSDACACLARHRSANDRVLIVSASGVHLVKP 95
Cdd:TIGR01490  40 ARFEFFLNRGLDYMAYYRAFALDALAGLLEEDVRAIVEEFVNQKIESILYPEARDLIRWHKAEGHTIVLVSASLTILVKP 119

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451    96 IAARIGVDEVLAIDLEVL-DGHYTGRTLGTLTYREGKVLRLLDLLEGDDRQLADAWFYSDSRNDLPLLKLVGHPNTVNPD 174
Cdd:TIGR01490 120 LARILGIDNAIGTRLEESeDGIYTGNIDGNNCKGEGKVHALAELLAEEQIDLKDSYAYGDSISDLPLLSLVGHPYVVNPD 199


                  ...
gi 15598451   175 PTL 177
Cdd:TIGR01490 200 KKL 202
HAD pfam12710
haloacid dehalogenase-like hydrolase;
62-163 1.70e-21

haloacid dehalogenase-like hydrolase;


Pssm-ID: 432733 [Multi-domain]  Cd Length: 188  Bit Score: 86.82  E-value: 1.70e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451    62 PLIYSDACACLARHRSANDRVLIVSASGVHLVKPIAARIGVDEVLAIDLEVLDGHYTGRT--LGTLTYREGKVLRLLDLL 139
Cdd:pfam12710  83 PRLHPGALELLAAHRAAGDRVVVVTGGLRPLVEPVLAELGFDEVLATELEVDDGRFTGELrlIGPPCAGEGKVRRLRAWL 162

                          90       100
                  ....*....|....*....|....*.
gi 15598451   140 --EGDDRQLADAWFYSDSRNDLPLLK 163
Cdd:pfam12710 163 aaRGLGLDLADSVAYGDSPSDLPMLR 188
 
Name Accession Description Interval E-value
SerB COG0560
Phosphoserine phosphatase [Amino acid transport and metabolism]; Phosphoserine phosphatase is ...
 5-192 5.43e-53

Phosphoserine phosphatase [Amino acid transport and metabolism]; Phosphoserine phosphatase is part of the Pathway/BioSystem: Serine biosynthesis


Pssm-ID: 440326 [Multi-domain]  Cd Length: 221  Bit Score: 168.48  E-value: 5.43e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451   5 GWVD-ESFVRRDAELMEQYAEGKLSMDLYMDYTLQPLIGRSVEEVEREVEAYVEEViePLIYSDACACLARHRSANDRVL 83
Cdd:COG0560  31 GLVDrREVLEEVAAITERAMAGELDFEESLRFRVALLAGLPEEELEELAERLFEEV--PRLYPGARELIAEHRAAGHKVA 108

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451  84 IVSASGVHLVKPIAARIGVDEVLAIDLEVLDGHYTGRTLGTLTYREGKVLRLLDLLEGDDRQLADAWFYSDSRNDLPLLK 163
Cdd:COG0560 109 IVSGGFTFFVEPIAERLGIDHVIANELEVEDGRLTGEVVGPIVDGEGKAEALRELAAELGIDLEQSYAYGDSANDLPMLE 188

                       170       180       190
                ....*....|....*....|....*....|
gi 15598451 164 LVGHPNTVNPDPTLLAYAKEM-GWPVNAWR 192
Cdd:COG0560 189 AAGLPVAVNPDPALREAADRErGWPVLDLL 218
HAD_PGPPase cd02612
phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 ...
 12-174 4.18e-43

phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C; This family includes Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C, PgpC (previously named yfhB) which catalyzes the dephosphorylation of phosphatidylglycerol-phosphate (PGP) to phosphatidylglycerol (PG). This family belongs to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.


Pssm-ID: 319796 [Multi-domain]  Cd Length: 195  Bit Score: 142.44  E-value: 4.18e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451  12 VRRDAELMEQYAEGKLSMdLYMDYTLQPLIGRSVEEVEREVEAYVEEVIEPLIYSDACACLARHRSANDRVLIVSASGVH 91
Cdd:cd02612  34 ELLLLRLMALYALGRLDG-AGMEALLGFATAGLAGELAALVEEFVEEYILRVLYPEARELIAWHKAAGHDVVLISASPEE 112

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451  92 LVKPIAARIGVDEVLAIDLEVLDGHYTGRTLGTLTYREGKVLRLLDLLEGDDRQLADAWFYSDSRNDLPLLKLVGHPNTV 171
Cdd:cd02612 113 LVAPIARKLGIDNVLGTQLETEDGRYTGRIIGPPCYGEGKVKRLREWLAEEGIDLKDSYAYSDSINDLPMLEAVGHPVAV 192


                ...
gi 15598451 172 NPD 174
Cdd:cd02612 193 NPD 195
HAD-SF-IB-hyp1 TIGR01490
HAD-superfamily subfamily IB hydrolase, TIGR01490; This hypothetical equivalog is a member of ...
 16-177 2.58e-35

HAD-superfamily subfamily IB hydrolase, TIGR01490; This hypothetical equivalog is a member of the IB subfamily (TIGR01488) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The sequences modelled here are all bacterial. The IB subfamily includes the enzyme phosphoserine phosphatase (TIGR00338). Due to this relationship, several of these sequences have been annotated as "phosphoserine phosphatase related proteins," or "Phosphoserine phosphatase-family enzymes." There is presently no evidence that any of the enzymes in this model possess PSPase activity. OMNI|NTL01ML1250 is annotated as a "possible transferase," however this is due to the C-terminal domain found on this sequence which is homologous to a group of glycerol-phosphate acyltransferases (between trusted and noise to TIGR00530). A subset of these sequences including OMNI|CC1962, the Caulobacter crescentus CicA protein cluster together and may represent a separate equivalog. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273654 [Multi-domain]  Cd Length: 202  Bit Score: 122.83  E-value: 2.58e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451    16 AELMEQYAEGKLSMDLYMDYTLQPLIGRSVEEVEREVEAYVEEVIEPLIYSDACACLARHRSANDRVLIVSASGVHLVKP 95
Cdd:TIGR01490  40 ARFEFFLNRGLDYMAYYRAFALDALAGLLEEDVRAIVEEFVNQKIESILYPEARDLIRWHKAEGHTIVLVSASLTILVKP 119

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451    96 IAARIGVDEVLAIDLEVL-DGHYTGRTLGTLTYREGKVLRLLDLLEGDDRQLADAWFYSDSRNDLPLLKLVGHPNTVNPD 174
Cdd:TIGR01490 120 LARILGIDNAIGTRLEESeDGIYTGNIDGNNCKGEGKVHALAELLAEEQIDLKDSYAYGDSISDLPLLSLVGHPYVVNPD 199


                  ...
gi 15598451   175 PTL 177
Cdd:TIGR01490 200 KKL 202
HAD pfam12710
haloacid dehalogenase-like hydrolase;
62-163 1.70e-21

haloacid dehalogenase-like hydrolase;


Pssm-ID: 432733 [Multi-domain]  Cd Length: 188  Bit Score: 86.82  E-value: 1.70e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451    62 PLIYSDACACLARHRSANDRVLIVSASGVHLVKPIAARIGVDEVLAIDLEVLDGHYTGRT--LGTLTYREGKVLRLLDLL 139
Cdd:pfam12710  83 PRLHPGALELLAAHRAAGDRVVVVTGGLRPLVEPVLAELGFDEVLATELEVDDGRFTGELrlIGPPCAGEGKVRRLRAWL 162

                          90       100
                  ....*....|....*....|....*.
gi 15598451   140 --EGDDRQLADAWFYSDSRNDLPLLK 163
Cdd:pfam12710 163 aaRGLGLDLADSVAYGDSPSDLPMLR 188
HAD-SF-IB TIGR01488
Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like; This model ...
 67-165 3.97e-21

Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like; This model represents a subfamily of the Haloacid Dehalogenase superfamily of aspartate-nucleophile hydrolases. Subfamily IA, B, C and D are distinguished from the rest of the superfamily by the presence of a variable domain between the first and second conserved catalytic motifs. In subfamilies IA and IB, this domain consists of an alpha-helical bundle. It was necessary to model these two subfamilies separately, breaking them at a an apparent phylogenetic bifurcation, so that the resulting model(s) are not so broadly defined that members of subfamily III (which lack the variable domain) are included. Subfamily IA includes the enzyme phosphoserine phosphatase (TIGR00338) as well as three hypothetical equivalogs. Many members of these hypothetical equivalogs have been annotated as PSPase-like or PSPase-family proteins. In particular, the hypothetical equivalog which appears to be most closely related to PSPase contains only Archaea (while TIGR00338 contains only eukaryotes and bacteria) of which some are annotated as PSPases. Although this is a reasonable conjecture, none of these sequences has sufficient evidence for this assignment. If such should be found, this model should be retired while the PSPase model should be broadened to include these sequences. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 273653 [Multi-domain]  Cd Length: 177  Bit Score: 85.48  E-value: 3.97e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451    67 DACACLARHRSANDRVLIVSASGVHLVKPIAARIGVDEVLAIDLEVLD-GHYTGRTLG-TLTYREGKVLRLLDLLEGDDR 144
Cdd:TIGR01488  77 GARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFANRLEFDDnGLLTGPIEGqVNPEGECKGKVLKELLEESKI 156

                          90       100
                  ....*....|....*....|.
gi 15598451   145 QLADAWFYSDSRNDLPLLKLV 165
Cdd:TIGR01488 157 TLKKIIAVGDSVNDLPMLKLA 177
HAD_PSP cd07500
phosphoserine phosphatase (PSP), similar to Methanococcus Jannaschii PSP and Saccharomyces ...
 69-166 7.25e-07

phosphoserine phosphatase (PSP), similar to Methanococcus Jannaschii PSP and Saccharomyces cerevisiae SER2p; This family includes Methanococcus jannaschii PSP, and Saccharomyces cerevisiae phosphoserine phosphatase SER2p, EC 3.1.3.3, which participates in a pathway whereby serine and glycine are synthesized from the glycolytic intermediate 3-phosphoglycerate; phosphoserine phosphatase catalyzes the hydrolysis of phospho-L-serine to L-serine and inorganic phosphate, the third reaction in this pathway. This family belongs to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.


Pssm-ID: 319803 [Multi-domain]  Cd Length: 180  Bit Score: 47.16  E-value: 7.25e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598451  69 CACLARHrsaNDRVLIVSASGVHLVKPIAARIGVDEVLAIDLEVLDGHYTGRTLGTLTYREGKVLRLLDLLEGDDRQLAD 148
Cdd:cd07500  79 IQTLKAK---GYKTAVVSGGFTYFTDRLAEELGLDYAFANELEIKDGKLTGKVLGPIVDAQRKAETLQELAARLGIPLEQ 155

                        90
                ....*....|....*...
gi 15598451 149 AWFYSDSRNDLPLLKLVG 166
Cdd:cd07500 156 TVAVGDGANDLPMLKAAG 173
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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