SMTL ID : 1jho.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x RMB: N1-(5'-PHOSPHO-ALPHA-RIBOSYL)-5-METHYLBENZIMIDAZOLE(Non-covalent)

RMB.1: 17 residues within 4Å: Chain A: A.78, S.80, V.84, Q.88, E.174, L.175, G.176, M.177, A.178, N.179, T.180, G.202, A.203, L.315, E.317 Chain B: P.32 Ligands: NIO.2 15 PLIP interactions: 14 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:V.84, A:Q.88, B:P.32 Hydrogen bonds: A:E.174, A:G.176, A:G.176, A:A.178, A:T.180, A:A.203 Water bridges: A:V.77, A:V.79, A:T.180, A:I.201, A:K.213 Salt bridges: A:K.213 RMB.3: 17 residues within 4Å: Chain A: P.32 Chain B: A.78, S.80, V.84, Q.88, E.174, L.175, G.176, M.177, A.178, N.179, T.180, G.202, A.203, L.315, E.317 Ligands: NIO.4 15 PLIP interactions: 14 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:V.84, B:Q.88, A:P.32 Hydrogen bonds: B:E.174, B:G.176, B:G.176, B:A.178, B:T.180, B:A.203 Water bridges: B:V.77, B:V.79, B:T.180, B:I.201, B:K.213 Salt bridges: B:K.213

2 x NIO: NICOTINIC ACID(Non-covalent)

NIO.2: 11 residues within 4Å: Chain A: T.180, G.202, G.264, F.265, L.266, S.291, E.293, R.314, L.315, G.316 Ligands: RMB.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:T.180, A:L.266, A:R.314 Hydrogen bonds: A:G.264, A:F.265, A:S.291 Water bridges: A:E.174, A:G.316, A:G.316 NIO.4: 11 residues within 4Å: Chain B: T.180, G.202, G.264, F.265, L.266, S.291, E.293, R.314, L.315, G.316 Ligands: RMB.3 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:T.180, B:L.266, B:R.314 Hydrogen bonds: B:G.264, B:F.265, B:S.291 Water bridges: B:E.174, B:G.316, B:G.316

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cheong, C.G. et al., Structural investigation of the biosynthesis of alternative lower ligands for cobamides by nicotinate mononucleotide: 5,6-dimethylbenzimidazole phosphoribosyltransferase from Salmonella enterica. J.Biol.Chem. (2001)

Release Date

2001-10-18

Peptides

Nicotinate Mononucleotide:5,6-Dimethylbenzimidazole Phosphoribosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Nicotinate Mononucleotide:5,6-Dimethylbenzimidazole Phosphoribosyltransferase

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