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Conserved domains on  [gi|1233034514]
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Chain A, NS2

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CbiD super family cl00828
CbiD; CbiD is essential for cobalamin biosynthesis in both S. typhimurium and B. megaterium, ...
 38-91 2.38e-04

CbiD; CbiD is essential for cobalamin biosynthesis in both S. typhimurium and B. megaterium, no functional role has been ascribed to the protein. The CbiD protein has a putative S-AdoMet binding site. It is possible that CbiD might have the same role as CobF in undertaking the C-1 methylation and deacylation reactions required during the ring contraction process.


The actual alignment was detected with superfamily member PRK00075:

Pssm-ID: 469945  Cd Length: 361  Bit Score: 41.35  E-value: 2.38e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1233034514  38 NPKPRELIRHALKKkkrpevvyamgvlltLGGESGLTVEFPVPEGKTVKVKTLN 91
Cdd:PRK00075  121 NPVPRRMIEENVRE---------------VLPEGGAEVTISVPEGEELAKKTLN 159
 
Name Accession Description Interval E-value
cbiD PRK00075
cobalt-precorrin-6A synthase; Reviewed
 38-91 2.38e-04

cobalt-precorrin-6A synthase; Reviewed


Pssm-ID: 234615  Cd Length: 361  Bit Score: 41.35  E-value: 2.38e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1233034514  38 NPKPRELIRHALKKkkrpevvyamgvlltLGGESGLTVEFPVPEGKTVKVKTLN 91
Cdd:PRK00075  121 NPVPRRMIEENVRE---------------VLPEGGAEVTISVPEGEELAKKTLN 159
CbiD COG1903
Cobalamin biosynthesis protein CbiD (cobalt-precorrin-5B C-methyltransferase) [Coenzyme ...
 38-91 9.05e-04

Cobalamin biosynthesis protein CbiD (cobalt-precorrin-5B C-methyltransferase) [Coenzyme transport and metabolism]; Cobalamin biosynthesis protein CbiD (cobalt-precorrin-5B C-methyltransferase) is part of the Pathway/BioSystem: Cobalamine/B12 biosynthesis


Pssm-ID: 441507 [Multi-domain]  Cd Length: 368  Bit Score: 39.32  E-value: 9.05e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1233034514  38 NPKPRELIRHALKKkkrpevvyamgVLLTLGGESGLTVEFPVPEGKTVKVKTLN 91
Cdd:COG1903   125 NPVPRRMIEEAVRE-----------VLAELGYGGGVEVTISVPEGEELAKKTLN 167
CbiD pfam01888
CbiD; CbiD is essential for cobalamin biosynthesis in both S. typhimurium and B. megaterium, ...
 38-91 1.57e-03

CbiD; CbiD is essential for cobalamin biosynthesis in both S. typhimurium and B. megaterium, no functional role has been ascribed to the protein. The CbiD protein has a putative S-AdoMet binding site. It is possible that CbiD might have the same role as CobF in undertaking the C-1 methylation and deacylation reactions required during the ring contraction process.


Pssm-ID: 460373  Cd Length: 258  Bit Score: 38.53  E-value: 1.57e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1233034514  38 NPKPRELIRHALKKkkrpevvyamgvLLTLGGEsGLTVEFPVPEGKTVKVKTLN 91
Cdd:pfam01888 113 NPVPRRMIEENVRE------------VLPEYGE-GVEVTISVPEGEELAKKTFN 153
cbiD TIGR00312
cobalamin biosynthesis protein CbiD; This protein has been shown by cloning into E. coli to be ...
 38-91 3.90e-03

cobalamin biosynthesis protein CbiD; This protein has been shown by cloning into E. coli to be required for cobalamin biosynthesis. role_id [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]


Pssm-ID: 273008  Cd Length: 347  Bit Score: 37.55  E-value: 3.90e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1233034514  38 NPKPRELIRHALKKkkrpevvyamgvllTLGGESGLTVEFPVPEGKTVKVKTLN 91
Cdd:TIGR00312 107 NPYPRRMIRHNLQP--------------YLSDDETLMVTLSLPLGRTLATRTSN 146
 
Name Accession Description Interval E-value
cbiD PRK00075
cobalt-precorrin-6A synthase; Reviewed
 38-91 2.38e-04

cobalt-precorrin-6A synthase; Reviewed


Pssm-ID: 234615  Cd Length: 361  Bit Score: 41.35  E-value: 2.38e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1233034514  38 NPKPRELIRHALKKkkrpevvyamgvlltLGGESGLTVEFPVPEGKTVKVKTLN 91
Cdd:PRK00075  121 NPVPRRMIEENVRE---------------VLPEGGAEVTISVPEGEELAKKTLN 159
CbiD COG1903
Cobalamin biosynthesis protein CbiD (cobalt-precorrin-5B C-methyltransferase) [Coenzyme ...
 38-91 9.05e-04

Cobalamin biosynthesis protein CbiD (cobalt-precorrin-5B C-methyltransferase) [Coenzyme transport and metabolism]; Cobalamin biosynthesis protein CbiD (cobalt-precorrin-5B C-methyltransferase) is part of the Pathway/BioSystem: Cobalamine/B12 biosynthesis


Pssm-ID: 441507 [Multi-domain]  Cd Length: 368  Bit Score: 39.32  E-value: 9.05e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1233034514  38 NPKPRELIRHALKKkkrpevvyamgVLLTLGGESGLTVEFPVPEGKTVKVKTLN 91
Cdd:COG1903   125 NPVPRRMIEEAVRE-----------VLAELGYGGGVEVTISVPEGEELAKKTLN 167
CbiD pfam01888
CbiD; CbiD is essential for cobalamin biosynthesis in both S. typhimurium and B. megaterium, ...
 38-91 1.57e-03

CbiD; CbiD is essential for cobalamin biosynthesis in both S. typhimurium and B. megaterium, no functional role has been ascribed to the protein. The CbiD protein has a putative S-AdoMet binding site. It is possible that CbiD might have the same role as CobF in undertaking the C-1 methylation and deacylation reactions required during the ring contraction process.


Pssm-ID: 460373  Cd Length: 258  Bit Score: 38.53  E-value: 1.57e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1233034514  38 NPKPRELIRHALKKkkrpevvyamgvLLTLGGEsGLTVEFPVPEGKTVKVKTLN 91
Cdd:pfam01888 113 NPVPRRMIEENVRE------------VLPEYGE-GVEVTISVPEGEELAKKTFN 153
cbiD TIGR00312
cobalamin biosynthesis protein CbiD; This protein has been shown by cloning into E. coli to be ...
 38-91 3.90e-03

cobalamin biosynthesis protein CbiD; This protein has been shown by cloning into E. coli to be required for cobalamin biosynthesis. role_id [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]


Pssm-ID: 273008  Cd Length: 347  Bit Score: 37.55  E-value: 3.90e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1233034514  38 NPKPRELIRHALKKkkrpevvyamgvllTLGGESGLTVEFPVPEGKTVKVKTLN 91
Cdd:TIGR00312 107 NPYPRRMIRHNLQP--------------YLSDDETLMVTLSLPLGRTLATRTSN 146
 
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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