SMTL ID : 3ex8.1

Complex structure of bacillus subtilis RibG reduction mechanism in riboflavin biosynthesis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.56 Å

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: H.61, C.86, C.95 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.61, A:C.86, A:C.95 ZN.2: 4 residues within 4Å: Chain B: H.61, E.63, C.86, C.95 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.61, B:C.86, B:C.95, H2O.90 ZN.3: 3 residues within 4Å: Chain C: H.61, C.86, C.95 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.61, C:C.86, C:C.95, H2O.103 ZN.5: 3 residues within 4Å: Chain D: H.61, C.86, C.95 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:H.61, D:C.86, D:C.95

1 x AIF: [(2R,3S,4R,5E)-5-[(5-AMINO-2,6-DIOXO-3H-PYRIMIDIN-4-YL)IMINO]-2,3,4-TRIHYDROXY-PENTYL] DIHYDROGEN PHOSPHATE(Non-covalent)

AIF.4: 16 residues within 4Å: Chain C: K.163, A.165, S.179, W.181, I.182, T.183, R.188, R.195, T.207, D.211, P.213, S.214, L.215, T.216, R.218, E.302 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:K.163, C:S.179, C:I.182, C:T.183, C:T.183, C:T.183, C:R.195, C:D.211, C:D.211, C:S.214, C:L.215, C:T.216 Salt bridges: C:R.195, C:R.218

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, S.C. et al., Complex structure of Bacillus subtilis RibG: the reduction mechanism during riboflavin biosynthesis. J.Biol.Chem. (2009)

Release Date

2008-11-04

Peptides

Riboflavin biosynthesis protein ribD: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Riboflavin biosynthesis protein ribD

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