SMTL ID : 7nb9.1

E. coli NfsA with nitrofurantoin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.09 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 21 residues within 4Å: Chain A: S.38, S.39, S.40, F.42, V.106, D.107, M.110 Chain B: H.11, R.12, S.13, R.15, Q.67, H.69, V.127, Y.128, I.129, G.130, G.131, K.167, R.169 Ligands: U6Z.2 23 PLIP interactions: 19 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:Y.128, B:Y.128, A:V.106 Hydrogen bonds: B:S.13, B:S.13, B:S.13, B:R.15, B:Q.67, B:Q.67, B:G.130, B:G.131, B:K.167, A:S.38, A:S.39 Water bridges: B:H.11, B:R.15, B:R.15, B:R.169, B:R.225, A:S.38 Salt bridges: B:H.11, B:K.167, B:R.169 FMN.4: 21 residues within 4Å: Chain A: H.11, R.12, S.13, R.15, Q.67, H.69, V.127, Y.128, I.129, G.130, G.131, K.167, R.169 Chain B: S.38, S.39, S.40, F.42, V.106, D.107, M.110 Ligands: U6Z.5 23 PLIP interactions: 19 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:Y.128, A:Y.128, B:V.106 Hydrogen bonds: A:S.13, A:S.13, A:S.13, A:R.15, A:Q.67, A:Q.67, A:G.130, A:G.131, A:K.167, B:S.38, B:S.39 Water bridges: A:H.11, A:R.15, A:R.15, A:R.169, A:R.225, B:S.38 Salt bridges: A:H.11, A:K.167, A:R.169

2 x U6Z: 1-[(~{E})-(5-nitrofuran-2-yl)methylideneamino]imidazolidine-2,4-dione(Non-covalent)

U6Z.2: 7 residues within 4Å: Chain A: S.40, S.41 Chain B: R.15, G.131, K.167, R.225 Ligands: FMN.1 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:S.41, B:R.225 Water bridges: B:Q.67, B:R.225 pi-Cation interactions: B:R.15 U6Z.5: 7 residues within 4Å: Chain A: R.15, G.131, K.167, R.225 Chain B: S.40, S.41 Ligands: FMN.4 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.225, B:S.41 Water bridges: A:Q.67, A:R.225 pi-Cation interactions: A:R.15

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 5 residues within 4Å: Chain A: N.134, N.135, I.136, E.137, F.227 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.137 Water bridges: A:A.138 pi-Cation interactions: A:F.227 DMS.6: 5 residues within 4Å: Chain B: N.134, N.135, I.136, E.137, F.227 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.137 Water bridges: B:A.138 pi-Cation interactions: B:F.227

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Day, M.A. et al., The structures of E. coli NfsA bound to the antibiotic nitrofurantoin; to 1,4-benzoquinone and to FMN. Biochem.J. (2021)

Release Date

2021-07-21

Peptides

Oxygen-insensitive NADPH nitroreductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Oxygen-insensitive NADPH nitroreductase

Related Entries With Identical Sequence