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Conserved domains on  [gi|1622868370|ref|XP_028690075|]
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COBW domain-containing protein 5 isoform X5 [Macaca mulatta]

Protein Classification

GTP-binding protein( domain architecture ID 10542307)

GTP-binding protein such as GTPase YjiA, a GTP dependent regulatory protein, and CobW, which is involved in the synthesis of cobalamin

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CobW_C pfam07683
Cobalamin synthesis protein cobW C-terminal domain; This is a large and diverse family of ...
 57-156 1.30e-20

Cobalamin synthesis protein cobW C-terminal domain; This is a large and diverse family of putative metal chaperones that can be separated into up to 15 subgroups. In addition to known roles in cobalamin biosynthesis and the activation of the Fe-type nitrile hydratase, this family is also known to be involved in the response to zinc limitation. The CobW subgroup involved in cobalamin synthesis represents only a small sub-fraction of the family.


:

Pssm-ID: 462228 [Multi-domain]  Cd Length: 93  Bit Score: 81.13  E-value: 1.30e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622868370  57 IVTITFEVPGNAKEEHLNIFIQNLLWEKNVrnkdnhcmevIRLKGLVSIKDKPQQVIVQGVHELYDLEETPVSWKDDtER 136
Cdd:pfam07683   1 ISSFVFRADRPFDPERLEAWLEDLLLPEGI----------LRAKGILWLAGRPRPLVFQGVGGRLSLEPAGRWWPDE-DR 69

                          90       100
                  ....*....|....*....|
gi 1622868370 137 TNRLVLIGRNLDKDILKQLF 156
Cdd:pfam07683  70 RSRLVFIGRDLDREALRAAL 89
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
 2-29 4.71e-03

P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.


The actual alignment was detected with superfamily member cd03112:

Pssm-ID: 476819  Cd Length: 198  Bit Score: 36.35  E-value: 4.71e-03
                          10        20
                  ....*....|....*....|....*...
gi 1622868370   2 TIRSINGLGQILETQRSRVDLSNVLDLH 29
Cdd:cd03112   171 RIRALNPGAKIVETTYGRVDLEELLGTG 198
 
Name Accession Description Interval E-value
CobW_C pfam07683
Cobalamin synthesis protein cobW C-terminal domain; This is a large and diverse family of ...
 57-156 1.30e-20

Cobalamin synthesis protein cobW C-terminal domain; This is a large and diverse family of putative metal chaperones that can be separated into up to 15 subgroups. In addition to known roles in cobalamin biosynthesis and the activation of the Fe-type nitrile hydratase, this family is also known to be involved in the response to zinc limitation. The CobW subgroup involved in cobalamin synthesis represents only a small sub-fraction of the family.


Pssm-ID: 462228 [Multi-domain]  Cd Length: 93  Bit Score: 81.13  E-value: 1.30e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622868370  57 IVTITFEVPGNAKEEHLNIFIQNLLWEKNVrnkdnhcmevIRLKGLVSIKDKPQQVIVQGVHELYDLEETPVSWKDDtER 136
Cdd:pfam07683   1 ISSFVFRADRPFDPERLEAWLEDLLLPEGI----------LRAKGILWLAGRPRPLVFQGVGGRLSLEPAGRWWPDE-DR 69

                          90       100
                  ....*....|....*....|
gi 1622868370 137 TNRLVLIGRNLDKDILKQLF 156
Cdd:pfam07683  70 RSRLVFIGRDLDREALRAAL 89
YejR COG0523
Zinc metallochaperone YeiR/ZagA and related GTPases, G3E family [General function prediction ...
 3-156 7.53e-20

Zinc metallochaperone YeiR/ZagA and related GTPases, G3E family [General function prediction only];


Pssm-ID: 440289 [Multi-domain]  Cd Length: 318  Bit Score: 84.45  E-value: 7.53e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622868370   3 IRSINGLGQILETQRSRVDLSNVLDLHAFDSLSGISLQKKLQhvPGTQPHLDQSIVTITFEVPGNAKEEHLNIFIqnllw 82
Cdd:COG0523   173 LRALNPGAPIVRTSHGEVDPALLLDLGLFDLEAALARPGWLE--ELRDHEHDDGIRSFVFRSDRPFDPERLADFL----- 245

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1622868370  83 eknvrnkDNHCMEVIRLKGLVSIKDKPQQVIVQGVHELYDLEETPvSWKDDtERTNRLVLIGRNLDKDILKQLF 156
Cdd:COG0523   246 -------EELGPGVLRAKGFLWLAGRPRRLVFQGVGGRLSLEPLG-PWPAD-DRRSRLVFIGRDLDEAALEAAL 310
CobW_C smart00833
Cobalamin synthesis protein cobW C-terminal domain; CobW proteins are generally found proximal ...
 96-156 3.81e-09

Cobalamin synthesis protein cobW C-terminal domain; CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents the C-terminal domain found in CobW, as well as in P47K, a Pseudomonas chlororaphis protein needed for nitrile hydratase expression.


Pssm-ID: 214844 [Multi-domain]  Cd Length: 92  Bit Score: 51.44  E-value: 3.81e-09
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1622868370   96 VIRLKGLVSIKDKPQQVIV-QGVHELYDLEETPVsWKDDTERTNRLVLIGRNLDKDILKQLF 156
Cdd:smart00833  28 VLRAKGFFWLASRPDLPGVlSQAGGRLRIEPAGA-WPAAGDRRTRLVFIGRDLDEEAIRAAL 88
CobW-like cd03112
cobalamin synthesis protein CobW; The function of this protein family is unknown. The amino ...
 2-29 4.71e-03

cobalamin synthesis protein CobW; The function of this protein family is unknown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.


Pssm-ID: 349766  Cd Length: 198  Bit Score: 36.35  E-value: 4.71e-03
                          10        20
                  ....*....|....*....|....*...
gi 1622868370   2 TIRSINGLGQILETQRSRVDLSNVLDLH 29
Cdd:cd03112   171 RIRALNPGAKIVETTYGRVDLEELLGTG 198
 
Name Accession Description Interval E-value
CobW_C pfam07683
Cobalamin synthesis protein cobW C-terminal domain; This is a large and diverse family of ...
 57-156 1.30e-20

Cobalamin synthesis protein cobW C-terminal domain; This is a large and diverse family of putative metal chaperones that can be separated into up to 15 subgroups. In addition to known roles in cobalamin biosynthesis and the activation of the Fe-type nitrile hydratase, this family is also known to be involved in the response to zinc limitation. The CobW subgroup involved in cobalamin synthesis represents only a small sub-fraction of the family.


Pssm-ID: 462228 [Multi-domain]  Cd Length: 93  Bit Score: 81.13  E-value: 1.30e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622868370  57 IVTITFEVPGNAKEEHLNIFIQNLLWEKNVrnkdnhcmevIRLKGLVSIKDKPQQVIVQGVHELYDLEETPVSWKDDtER 136
Cdd:pfam07683   1 ISSFVFRADRPFDPERLEAWLEDLLLPEGI----------LRAKGILWLAGRPRPLVFQGVGGRLSLEPAGRWWPDE-DR 69

                          90       100
                  ....*....|....*....|
gi 1622868370 137 TNRLVLIGRNLDKDILKQLF 156
Cdd:pfam07683  70 RSRLVFIGRDLDREALRAAL 89
YejR COG0523
Zinc metallochaperone YeiR/ZagA and related GTPases, G3E family [General function prediction ...
 3-156 7.53e-20

Zinc metallochaperone YeiR/ZagA and related GTPases, G3E family [General function prediction only];


Pssm-ID: 440289 [Multi-domain]  Cd Length: 318  Bit Score: 84.45  E-value: 7.53e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622868370   3 IRSINGLGQILETQRSRVDLSNVLDLHAFDSLSGISLQKKLQhvPGTQPHLDQSIVTITFEVPGNAKEEHLNIFIqnllw 82
Cdd:COG0523   173 LRALNPGAPIVRTSHGEVDPALLLDLGLFDLEAALARPGWLE--ELRDHEHDDGIRSFVFRSDRPFDPERLADFL----- 245

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1622868370  83 eknvrnkDNHCMEVIRLKGLVSIKDKPQQVIVQGVHELYDLEETPvSWKDDtERTNRLVLIGRNLDKDILKQLF 156
Cdd:COG0523   246 -------EELGPGVLRAKGFLWLAGRPRRLVFQGVGGRLSLEPLG-PWPAD-DRRSRLVFIGRDLDEAALEAAL 310
CobW_C smart00833
Cobalamin synthesis protein cobW C-terminal domain; CobW proteins are generally found proximal ...
 96-156 3.81e-09

Cobalamin synthesis protein cobW C-terminal domain; CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents the C-terminal domain found in CobW, as well as in P47K, a Pseudomonas chlororaphis protein needed for nitrile hydratase expression.


Pssm-ID: 214844 [Multi-domain]  Cd Length: 92  Bit Score: 51.44  E-value: 3.81e-09
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1622868370   96 VIRLKGLVSIKDKPQQVIV-QGVHELYDLEETPVsWKDDTERTNRLVLIGRNLDKDILKQLF 156
Cdd:smart00833  28 VLRAKGFFWLASRPDLPGVlSQAGGRLRIEPAGA-WPAAGDRRTRLVFIGRDLDEEAIRAAL 88
CobW-like cd03112
cobalamin synthesis protein CobW; The function of this protein family is unknown. The amino ...
 2-29 4.71e-03

cobalamin synthesis protein CobW; The function of this protein family is unknown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.


Pssm-ID: 349766  Cd Length: 198  Bit Score: 36.35  E-value: 4.71e-03
                          10        20
                  ....*....|....*....|....*...
gi 1622868370   2 TIRSINGLGQILETQRSRVDLSNVLDLH 29
Cdd:cd03112   171 RIRALNPGAKIVETTYGRVDLEELLGTG 198
 
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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