SMTL ID : 2wzw.1

CRYSTAL STRUCTURE OF THE FMN-DEPENDENT NITROREDUCTASE NFNB FROM MYCOBACTERIUM SMEGMATIS IN COMPLEX WITH NADPH

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 22 residues within 4Å: Chain A: R.26, R.27, A.28, R.30, F.109, Y.130, Y.138, P.180, Q.181, A.182, L.183, I.222, R.224 Chain B: P.53, S.54, N.55, S.56, N.57, D.159, I.162 Ligands: NDP.2, PO4.6 20 PLIP interactions: 17 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:P.180, A:A.182, B:I.162 Hydrogen bonds: A:A.28, A:R.30, A:Y.138, A:A.182, A:L.183, B:S.54, B:S.56 Salt bridges: A:R.26, A:R.224 Water bridges: A:A.28, A:S.134, A:Y.138, A:Y.138, A:Y.138, A:Q.181, A:I.222, A:I.222 FMN.5: 21 residues within 4Å: Chain A: P.53, S.54, N.55, S.56, N.57, D.159, I.162 Chain B: R.26, R.27, A.28, R.30, F.109, Y.130, Y.138, P.180, Q.181, A.182, L.183, I.222, R.224 Ligands: PO4.3 17 PLIP interactions: 3 interactions with chain A, 14 interactions with chain B Hydrophobic interactions: A:I.162, B:P.180 Hydrogen bonds: A:S.54, A:S.56, B:A.28, B:R.30, B:Y.138, B:A.182, B:L.183 Salt bridges: B:R.26, B:R.224 Water bridges: B:A.28, B:S.134, B:Y.138, B:Q.181, B:I.222, B:R.224

1 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.2: 14 residues within 4Å: Chain A: Y.93, R.106, A.107, G.110, S.111, Y.114, I.119, A.120, R.121, L.183, F.186 Chain B: S.56 Ligands: FMN.1, PO4.6 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:Y.93 Hydrogen bonds: A:R.106, A:I.119, A:N.131 Salt bridges: A:R.106, A:R.106 Water bridges: A:Y.93, A:R.106, A:R.106, A:R.121, A:R.121, A:R.121, A:N.131 pi-Stacking: A:Y.114, A:F.186

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 4 residues within 4Å: Chain A: N.55, S.56 Chain B: F.109 Ligands: FMN.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.56 PO4.4: 3 residues within 4Å: Chain A: H.62, E.64 Chain B: R.232 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Salt bridges: A:H.62, B:R.232 Water bridges: A:H.62 PO4.6: 5 residues within 4Å: Chain A: F.109 Chain B: N.55, S.56 Ligands: FMN.1, NDP.2 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.56

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Manina, G. et al., Biological and Structural Characterization of the Mycobacterium Smegmatis Nitroreductase Nfnb, and its Role in Benzothiazinone Resistance. Mol.Microbiol. (2010)

Release Date

2010-07-14

Peptides

NFNB PROTEIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

NFNB PROTEIN

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