SMTL ID : 3bm1.1

Crystal structure of a minimal nitroreductase ydjA from Escherichia coli K12 with and without FMN cofactor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 13 residues within 4Å: Chain A: R.10, R.11, S.12, I.130, W.131, R.132, S.133, G.134 Chain B: R.35, P.37, D.38, H.39, E.106 23 PLIP interactions: 13 interactions with chain A, 10 interactions with chain B Hydrophobic interactions: A:W.131, A:W.131, B:P.37, B:H.39 Hydrogen bonds: A:S.12, A:S.12, A:S.12, A:S.12, A:W.131, A:W.131, A:S.133, B:D.38 Water bridges: A:R.132, A:R.132, B:R.35, B:R.35, B:D.38, B:H.39 Salt bridges: A:R.10, B:R.35 pi-Stacking: A:W.131, B:H.39, B:H.39 FMN.2: 14 residues within 4Å: Chain A: R.35, P.37, D.38, H.39, E.106, M.109, S.110 Chain B: R.10, R.11, S.12, W.131, R.132, S.133, G.134 22 PLIP interactions: 11 interactions with chain B, 11 interactions with chain A Hydrophobic interactions: B:W.131, A:P.37, A:H.39, A:E.106, A:M.109 Hydrogen bonds: B:S.12, B:S.12, B:S.12, B:W.131, B:W.131, B:S.133, A:D.38 Water bridges: B:S.12, B:R.132, A:R.35, A:H.39, A:K.40 Salt bridges: B:R.10, A:R.35 pi-Stacking: B:W.131, A:H.39, A:H.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Choi, J.-W. et al., Crystal structure of a minimal nitroreductase, ydjA, from Escherichia coli K12 with and without FMN cofactor. J.Mol.Biol. (2008)

Release Date

2008-01-01

Peptides

Protein ydjA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein ydjA