SMTL ID : 8dil.2 (2 other biounits)

Crystal structure of putative nitroreductase from Salmonella enterica

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 14 residues within 4Å: Chain A: R.10, R.11, S.12, I.130, W.131, R.132, S.133, G.134 Chain B: P.37, D.38, H.39, E.106 Ligands: CIT.2, PGE.5 22 PLIP interactions: 14 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:W.131, A:W.131, B:P.37, B:H.39, B:E.106 Hydrogen bonds: A:S.12, A:W.131, A:W.131, A:S.133, A:G.134, B:D.38 Water bridges: A:R.10, A:R.11, A:S.12, A:S.12, A:S.12, B:V.36, B:K.40 Salt bridges: A:R.10 pi-Stacking: A:W.131, B:H.39, B:H.39 FMN.8: 14 residues within 4Å: Chain A: P.37, D.38, H.39, E.106 Chain B: R.10, R.11, S.12, I.130, W.131, R.132, S.133, G.134 Ligands: CIT.9, PEG.11 22 PLIP interactions: 15 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:W.131, B:W.131, A:P.37, A:H.39, A:E.106 Hydrogen bonds: B:S.12, B:S.12, B:W.131, B:W.131, B:S.133, B:G.134, A:D.38 Water bridges: B:R.10, B:R.10, B:S.12, B:S.12, B:R.132, A:K.40 Salt bridges: B:R.10 pi-Stacking: B:W.131, A:H.39, A:H.39

2 x CIT: CITRIC ACID(Non-functional Binders)

CIT.2: 8 residues within 4Å: Chain A: K.78, R.85, R.132, G.134 Chain B: H.39, K.40 Ligands: FMN.1, PGE.5 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Water bridges: A:S.133, B:H.39 Salt bridges: A:K.78, A:K.78, A:R.85, A:R.132, B:H.39, B:K.40 CIT.9: 8 residues within 4Å: Chain A: H.39, K.40 Chain B: K.78, R.85, R.132, G.134 Ligands: FMN.8, PEG.11 7 PLIP interactions: 2 interactions with chain A, 5 interactions with chain B Salt bridges: A:H.39, A:K.40, B:K.78, B:K.78, B:R.85, B:R.132 Water bridges: B:R.132

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 3 residues within 4Å: Chain A: Y.182, F.183 Chain B: R.57 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.183 PEG.4: 3 residues within 4Å: Chain A: E.18, A.20, V.22 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.20, A:A.20 PEG.11: 5 residues within 4Å: Chain B: K.78, R.85, R.132 Ligands: FMN.8, CIT.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.78, B:R.85, B:R.132

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.5: 7 residues within 4Å: Chain A: K.78, R.85, R.132 Chain B: H.39, K.40 Ligands: FMN.1, CIT.2 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.78, A:R.85 Water bridges: B:K.40 PGE.10: 3 residues within 4Å: Chain A: R.57 Chain B: Y.182, F.183 No protein-ligand interaction detected (PLIP)

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 1 residues within 4Å: Chain A: E.144 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.144 EDO.7: 1 residues within 4Å: Chain A: E.18 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.18 EDO.12: 1 residues within 4Å: Chain B: Q.164 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chang, C. et al., Crystal structure of putative nitroreductase from Salmonella enterica. to be published

Release Date

2022-07-13

Peptides

Putative NAD(P)H nitroreductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Putative NAD(P)H nitroreductase

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