› 1l5o

X-ray diffraction
1.6Å resolution

Crystal Structure of CobT complexed with 3,4-dimethylphenol and nicotinate mononucleotide

Released:
DOI: 10.2210/pdb1l5o/pdb
PDB entry 1l5o coloured by chain, front view.
PDB entry 1l5o coloured by chain, side view.
PDB entry 1l5o coloured by chain, top view.
Source organism: Salmonella enterica
Primary publication:
Capture of a labile substrate by expulsion of water molecules from the active site of nicotinate mononucleotide:5,6-dimethylbenzimidazole phosphoribosyltransferase (CobT) from Salmonella enterica.
Cheong CG, Escalante-Semerena JC, Rayment I
J Biol Chem 277 41120-7 (2002)
PMID: 12101181

Function and Biology Details

Reaction catalysed: 
Beta-nicotinate D-ribonucleotide + 5,6-dimethylbenzimidazole = nicotinate + alpha-ribazole 5'-phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-170230 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase Chain: A
Molecule details ›
Chain: A
Length: 356 amino acids
Theoretical weight: 36.68 KDa
Source organism: Salmonella enterica
Expression system: Salmonella enterica
UniProt:
  • Canonical: Q05603 (Residues: 1-356; Coverage: 100%)
Gene names: STM2016, cobT
Sequence domains: Phosphoribosyltransferase
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand 2MP 1 x 2MP
Ligand NCN 1 x NCN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P21212
Unit cell:
a: 71.85Å b: 90.04Å c: 47.5Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.174 0.174 0.199
Expression system: Salmonella enterica

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Citations

2 review citations

Conversion of cobinamide into adenosylcobamide in bacteria and archaea.
Escalante-Semerena JC. (2007)
1 more

2 mentions without citation

Using neural networks and evolutionary information in decoy discrimination for protein tertiary structure prediction.
Tan et al. (2008)
1 more