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Three-dimensional Structure of CobT in Complex with the Reaction Products of 5-methylbenzimidazole and NaMN

Source organism: Salmonella enterica
Biochemical function: glycosyltransferase activity
Biological process: cobalamin biosynthetic process
Cellular component: not assigned

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EC 2.4.2.21: Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase

Reaction catalysed:
Beta-nicotinate D-ribonucleotide + 5,6-dimethylbenzimidazole = nicotinate + alpha-ribazole 5'-phosphate
Systematic name:
Nicotinate-nucleotide:5,6-dimethylbenzimidazole phospho-D-ribosyltransferase
Alternative Name(s):
  • CobT
  • N(1)-alpha-phosphoribosyltransferase
  • Nicotinate mononucleotide (NaMN):5,6-dimethylbenzimidazole phosphoribosyltransferase
  • Nicotinate mononucleotide-dimethylbenzimidazole phosphoribosyltransferase
  • Nicotinate ribonucleotide:benzimidazole (adenine) phosphoribosyltransferase
  • Nicotinate-nucleotide:dimethylbenzimidazole phospho-D-ribosyltransferase

GO terms

Sequence family

Pfam Protein family (Pfam)
PF02277
Domain description: Phosphoribosyltransferase
Occurring in:
  1. Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase
The deposited structure of PDB entry 1jho contains 1 copy of Pfam domain PF02277 (Phosphoribosyltransferase) in Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR003200
Domain description: Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase
Occurring in:
  1. Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase
IPR017846
Domain description: Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase, bacterial type
Occurring in:
  1. Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase
IPR036087
Domain description: Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase-like superfamily
Occurring in:
  1. Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase
IPR023195
Domain description: Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase, N-terminal
Occurring in:
  1. Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase

Structure domains

CATH CATH domains
1.10.1610.10
Class: Mainly Alpha
Architecture: Orthogonal Bundle
Topology: 5,6-Dimethylbenzimidazole Phosphoribosyltransferase; Chain: A; domain 1
Homology: 5,6-Dimethylbenzimidazole Phosphoribosyltransferase; Chain: A; domain 1
Occurring in:
  1. Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase
The deposited structure of PDB entry 1jho contains 1 copy of CATH domain 1.10.1610.10 (5,6-Dimethylbenzimidazole Phosphoribosyltransferase; Chain: A; domain 1) in Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase. Showing 1 copy in chain A.
3.40.50.10210
Class: Alpha Beta
Architecture: 3-Layer(aba) Sandwich
Topology: Rossmann fold
Homology: Rossmann fold
Occurring in:
  1. Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase
The deposited structure of PDB entry 1jho contains 1 copy of CATH domain 3.40.50.10210 (Rossmann fold) in Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase. Showing 1 copy in chain A.
SCOP SCOP annotation
52734
Class: Alpha and beta proteins (a/b)
Fold: Nicotinate mononucleotide:5,6-dimethylbenzimidazole phosphoribosyltransferase (CobT)
Superfamily: Nicotinate mononucleotide:5,6-dimethylbenzimidazole phosphoribosyltransferase (CobT)
Occurring in:
  1. Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase
The deposited structure of PDB entry 1jho contains 1 copy of SCOP domain 52734 (Nicotinate mononucleotide:5,6-dimethylbenzimidazole phosphoribosyltransferase (CobT)) in Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase. Showing 1 copy in chain A.

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