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Conserved domains on  [gi|447054083|ref|WP_001131339|]
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MULTISPECIES: VOC family metalloprotein YjdN [Enterobacteriaceae]

Protein Classification

VOC family protein( domain architecture ID 10793350)

vicinal oxygen chelate (VOC) family protein similar to Eschrichia PhnB, related to cleavage of carbon-phosphorus bonds.

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10148 PRK10148
VOC family metalloprotein YjdN;
1-147 1.65e-114

VOC family metalloprotein YjdN;


:

Pssm-ID: 236656  Cd Length: 147  Bit Score: 319.92  E-value: 1.65e-114
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447054083   1 MPLSPYLSFAGNCSDAIAYYQRTLGAELLYKISFGEMPKSAQDSAENCPSGMQFPDTAIAHANVRIAGSDIMMSDAMPSG 80
Cdd:PRK10148   1 MPLSPYLSFAGNCADAIAYYQQTLGAELLYKISFGEMPKSAQDSEEGCPSGMQFPDTAIAHANVRIAGSDIMMSDAIPSG 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 447054083  81 KASYSGFTLVLDSQQVEEGKRWFDNLAANGKIEMAWQETFWAHGFGKVTDKFGVPWMINVVKQQPTQ 147
Cdd:PRK10148  81 KAHYSGFTLVLDTQDVEEGKRWFDNLAANGKIEMAWQETFWAHGFGKVTDKFGVPWMINVVKQQPTQ 147
 
Name Accession Description Interval E-value
PRK10148 PRK10148
VOC family metalloprotein YjdN;
1-147 1.65e-114

VOC family metalloprotein YjdN;


Pssm-ID: 236656  Cd Length: 147  Bit Score: 319.92  E-value: 1.65e-114
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447054083   1 MPLSPYLSFAGNCSDAIAYYQRTLGAELLYKISFGEMPKSAQDSAENCPSGMQFPDTAIAHANVRIAGSDIMMSDAMPSG 80
Cdd:PRK10148   1 MPLSPYLSFAGNCADAIAYYQQTLGAELLYKISFGEMPKSAQDSEEGCPSGMQFPDTAIAHANVRIAGSDIMMSDAIPSG 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 447054083  81 KASYSGFTLVLDSQQVEEGKRWFDNLAANGKIEMAWQETFWAHGFGKVTDKFGVPWMINVVKQQPTQ 147
Cdd:PRK10148  81 KAHYSGFTLVLDTQDVEEGKRWFDNLAANGKIEMAWQETFWAHGFGKVTDKFGVPWMINVVKQQPTQ 147
PhnB_like cd06588
Escherichia coli PhnB and similar proteins; The Escherichia coli phnB gene is found next to an ...
 3-139 2.13e-41

Escherichia coli PhnB and similar proteins; The Escherichia coli phnB gene is found next to an operon of fourteen genes (phnC-to-phnP) related to the cleavage of carbon-phosphorus (C-P) bonds in unactivated alkylphosphonates, supporting bacterial growth on alkylphosphonates as the sole phosphorus source. It was originally considered part of that operon. PhnB appears to play no direct catalytic role in the usage of alkylphosphonate. Although many of the proteins in this family have been annotated as 3-demethylubiquinone-9 3-methyltransferase enzymes by automatic annotation programs, the experimental evidence for this assignment is lacking. In Escherichia coli, the gene coding 3-demethylubiquinone-9 3-methyltransferase enzyme is ubiG, which belongs to the AdoMet-MTase protein family. PhnB-like proteins adopt a structural fold similar to bleomycin resistance proteins, glyoxalase I, and type I extradiol dioxygenases.


Pssm-ID: 319899  Cd Length: 129  Bit Score: 134.32  E-value: 2.13e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447054083   3 LSPYLSFAGNCSDAIAYYQRTL-GAELLYKISFGEMPKSAQDSAENcpsgmqfpdtAIAHANVRIAGSDIMMSDAMPSGK 81
Cdd:cd06588    1 ITPYLWFNGNAEEALEFYAEVFpGGEILSLTRYGEGPPDFPEGDEG----------KVMHAEFTLGGQTLMASDDGPGFP 70

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 447054083  82 -ASYSGFTLVLDSQQVEEGKRWFDNLAANGKIEMAWQETFWAHGFGKVTDKFGVPWMIN 139
Cdd:cd06588   71 fTFGNAISLSVDCDSQEEADRLFEKLSEGGEVLMPLQETFWGARYGWVKDKFGVSWQIN 129
PhnB COG2764
Zn-dependent glyoxalase, PhnB family [Energy production and conversion];
3-139 8.91e-31

Zn-dependent glyoxalase, PhnB family [Energy production and conversion];


Pssm-ID: 442048 [Multi-domain]  Cd Length: 118  Bit Score: 106.86  E-value: 8.91e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447054083   3 LSPYLSFAgNCSDAIAYYQRTLGAELLYKisfgempksaqdsaencpsgMQFPDTAIAHANVRIAGSDIMMSDAMPSGKA 82
Cdd:COG2764    2 VTPYLVVD-DAEEALEFYEDVFGFEVVFR--------------------MTDPDGKIMHAELRIGGSVLMLSDAPPDSPA 60

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 447054083  83 -SYSGFTLVLdsqQVEEGKRWFDNL-AANGKIEMAWQETFWAHGFGKVTDKFGVPWMIN 139
Cdd:COG2764   61 aEGNGVSLSL---YVDDVDALFARLvAAGATVVMPLQDTFWGDRFGMVRDPFGVLWMIN 116
3-dmu-9_3-mt pfam06983
3-demethylubiquinone-9 3-methyltransferase; This family represents a conserved region ...
 3-138 5.27e-06

3-demethylubiquinone-9 3-methyltransferase; This family represents a conserved region approximately 100 residues long within a number of bacterial and archaeal 3-demethylubiquinone-9 3-methyltransferases (EC:2.1.1.64). Note that some family members contain more than one copy of this region, and that many members are hypothetical proteins.


Pssm-ID: 399756  Cd Length: 116  Bit Score: 43.06  E-value: 5.27e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447054083    3 LSPYLSFAGNCSDAIAYYQRTLgaellykisfgemPKSAQDSAENCPSGMQFPDTAIAHANVRIAGSDIMMSDAMPSGKA 82
Cdd:pfam06983   3 ITPCLWFDGQAEEAAEFYVSLF-------------PNSEIGSVNRYPEDGPGKPGSVLTVEFTLNGQPFIALNGGPNFKF 69

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 447054083   83 SYS-GFTLVLDSQqvEEGKRWFDNLAANGKIEMAwqetfwahgFGKVTDKFGVPWMI 138
Cdd:pfam06983  70 NEAvSFQVTCKDQ--EEVDRYWNALSENGGPESQ---------CGWLKDKFGVSWQI 115
 
Name Accession Description Interval E-value
PRK10148 PRK10148
VOC family metalloprotein YjdN;
1-147 1.65e-114

VOC family metalloprotein YjdN;


Pssm-ID: 236656  Cd Length: 147  Bit Score: 319.92  E-value: 1.65e-114
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447054083   1 MPLSPYLSFAGNCSDAIAYYQRTLGAELLYKISFGEMPKSAQDSAENCPSGMQFPDTAIAHANVRIAGSDIMMSDAMPSG 80
Cdd:PRK10148   1 MPLSPYLSFAGNCADAIAYYQQTLGAELLYKISFGEMPKSAQDSEEGCPSGMQFPDTAIAHANVRIAGSDIMMSDAIPSG 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 447054083  81 KASYSGFTLVLDSQQVEEGKRWFDNLAANGKIEMAWQETFWAHGFGKVTDKFGVPWMINVVKQQPTQ 147
Cdd:PRK10148  81 KAHYSGFTLVLDTQDVEEGKRWFDNLAANGKIEMAWQETFWAHGFGKVTDKFGVPWMINVVKQQPTQ 147
PhnB_like cd06588
Escherichia coli PhnB and similar proteins; The Escherichia coli phnB gene is found next to an ...
 3-139 2.13e-41

Escherichia coli PhnB and similar proteins; The Escherichia coli phnB gene is found next to an operon of fourteen genes (phnC-to-phnP) related to the cleavage of carbon-phosphorus (C-P) bonds in unactivated alkylphosphonates, supporting bacterial growth on alkylphosphonates as the sole phosphorus source. It was originally considered part of that operon. PhnB appears to play no direct catalytic role in the usage of alkylphosphonate. Although many of the proteins in this family have been annotated as 3-demethylubiquinone-9 3-methyltransferase enzymes by automatic annotation programs, the experimental evidence for this assignment is lacking. In Escherichia coli, the gene coding 3-demethylubiquinone-9 3-methyltransferase enzyme is ubiG, which belongs to the AdoMet-MTase protein family. PhnB-like proteins adopt a structural fold similar to bleomycin resistance proteins, glyoxalase I, and type I extradiol dioxygenases.


Pssm-ID: 319899  Cd Length: 129  Bit Score: 134.32  E-value: 2.13e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447054083   3 LSPYLSFAGNCSDAIAYYQRTL-GAELLYKISFGEMPKSAQDSAENcpsgmqfpdtAIAHANVRIAGSDIMMSDAMPSGK 81
Cdd:cd06588    1 ITPYLWFNGNAEEALEFYAEVFpGGEILSLTRYGEGPPDFPEGDEG----------KVMHAEFTLGGQTLMASDDGPGFP 70

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 447054083  82 -ASYSGFTLVLDSQQVEEGKRWFDNLAANGKIEMAWQETFWAHGFGKVTDKFGVPWMIN 139
Cdd:cd06588   71 fTFGNAISLSVDCDSQEEADRLFEKLSEGGEVLMPLQETFWGARYGWVKDKFGVSWQIN 129
PhnB COG2764
Zn-dependent glyoxalase, PhnB family [Energy production and conversion];
3-139 8.91e-31

Zn-dependent glyoxalase, PhnB family [Energy production and conversion];


Pssm-ID: 442048 [Multi-domain]  Cd Length: 118  Bit Score: 106.86  E-value: 8.91e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447054083   3 LSPYLSFAgNCSDAIAYYQRTLGAELLYKisfgempksaqdsaencpsgMQFPDTAIAHANVRIAGSDIMMSDAMPSGKA 82
Cdd:COG2764    2 VTPYLVVD-DAEEALEFYEDVFGFEVVFR--------------------MTDPDGKIMHAELRIGGSVLMLSDAPPDSPA 60

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 447054083  83 -SYSGFTLVLdsqQVEEGKRWFDNL-AANGKIEMAWQETFWAHGFGKVTDKFGVPWMIN 139
Cdd:COG2764   61 aEGNGVSLSL---YVDDVDALFARLvAAGATVVMPLQDTFWGDRFGMVRDPFGVLWMIN 116
VOC_like cd07246
uncharacterized subfamily of vicinal oxygen chelate (VOC) family; The vicinal oxygen chelate ...
 3-138 1.44e-11

uncharacterized subfamily of vicinal oxygen chelate (VOC) family; The vicinal oxygen chelate (VOC) superfamily is composed of structurally related proteins with paired beta.alpha.beta.beta.beta motifs that provide a metal coordination environment with two or three open or readily accessible coordination sites to promote direct electrophilic participation of the metal ion in catalysis. VOC domain is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping


Pssm-ID: 319910 [Multi-domain]  Cd Length: 124  Bit Score: 57.69  E-value: 1.44e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447054083   3 LSPYLsFAGNCSDAIAYYQRTLGAELLYKisfgempksaqdsaencpsgMQFPDTAIAHANVRIAGSDIMMSDAMP-SGK 81
Cdd:cd07246    3 VSPYL-VVEDAAAAIAFYKKAFGAEELGR--------------------TTQEDGRVGHAELRIGGTVVMVADENPeRGA 61

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 447054083  82 ASY-----SGFTLVLDSQQVEEgkrWFDN-LAANGKIEMAWQETFWAHGFGKVTDKFGVPWMI 138
Cdd:cd07246   62 LSPtklggTPVIFHLYVEDVDA---TFARaVAAGAVVVEPVEDQFWGDRVGKVKDPFGHVWWL 121
3-dmu-9_3-mt pfam06983
3-demethylubiquinone-9 3-methyltransferase; This family represents a conserved region ...
 3-138 5.27e-06

3-demethylubiquinone-9 3-methyltransferase; This family represents a conserved region approximately 100 residues long within a number of bacterial and archaeal 3-demethylubiquinone-9 3-methyltransferases (EC:2.1.1.64). Note that some family members contain more than one copy of this region, and that many members are hypothetical proteins.


Pssm-ID: 399756  Cd Length: 116  Bit Score: 43.06  E-value: 5.27e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447054083    3 LSPYLSFAGNCSDAIAYYQRTLgaellykisfgemPKSAQDSAENCPSGMQFPDTAIAHANVRIAGSDIMMSDAMPSGKA 82
Cdd:pfam06983   3 ITPCLWFDGQAEEAAEFYVSLF-------------PNSEIGSVNRYPEDGPGKPGSVLTVEFTLNGQPFIALNGGPNFKF 69

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 447054083   83 SYS-GFTLVLDSQqvEEGKRWFDNLAANGKIEMAwqetfwahgFGKVTDKFGVPWMI 138
Cdd:pfam06983  70 NEAvSFQVTCKDQ--EEVDRYWNALSENGGPESQ---------CGWLKDKFGVSWQI 115
Glyoxalase pfam00903
Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily;
9-138 9.24e-06

Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily;


Pssm-ID: 395724 [Multi-domain]  Cd Length: 121  Bit Score: 42.44  E-value: 9.24e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 447054083    9 FAGNCSDAIAYYQRTLGAELLYKISFGEMPKsaqdsaencPSGMQFPDTAIAHAnvriagsdIMMSDAMPSGKASYSGFT 88
Cdd:pfam00903   8 RVGDLEKSLDFYTDVLGFKLVEETDAGEEGG---------LRSAFFLAGGRVLE--------LLLNETPPPAAAGFGGHH 70

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 447054083   89 LVLDSQQVEEGKRWFDNLAANG-KIEMAWQETFWAHGFGKVTDKFGVPWMI 138
Cdd:pfam00903  71 IAFIAFSVDDVDAAYDRLKAAGvEIVREPGRHGWGGRYSYFRDPDGNLIEL 121
 
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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