SMTL ID : 3m5k.1

Crystal structure of Putative NADH dehydrogenase/NAD(P)H nitroreductase (BDI_1728) from Parabacteroides distasonis ATCC 8503 at 1.86 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.86 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 19 residues within 4Å: Chain A: R.15, K.16, S.17, R.19, F.70, M.73, V.117, W.118, T.119, A.120, R.127, K.159, K.161 Chain B: P.42, S.43, S.44, D.46, D.97 Ligands: UNL.4 24 PLIP interactions: 21 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:W.118, A:W.118, A:A.120, B:P.42 Hydrogen bonds: A:S.17, A:S.17, A:S.17, A:R.19, A:R.19, A:F.70, A:A.120, A:R.127, B:S.43, B:D.46 Water bridges: A:R.15, A:R.15, A:R.19, A:F.70, A:K.159, A:K.161 Salt bridges: A:R.15, A:K.159, A:K.161 pi-Stacking: A:W.118 FMN.3: 19 residues within 4Å: Chain A: P.42, S.43, S.44, D.46, L.96, D.97 Chain B: R.15, K.16, S.17, R.19, F.70, M.73, V.117, W.118, T.119, A.120, K.159, K.161 Ligands: UNL.2 26 PLIP interactions: 23 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:W.118, B:W.118, B:W.118, B:A.120, A:P.42, A:L.96 Hydrogen bonds: B:S.17, B:S.17, B:S.17, B:R.19, B:R.19, B:F.70, B:A.120, A:S.43 Water bridges: B:R.15, B:R.19, B:R.127, B:K.159, B:K.159, B:K.159, B:K.159, B:K.161 Salt bridges: B:R.15, B:K.159, B:K.161 pi-Stacking: B:W.118

2 x UNL: UNKNOWN LIGAND

UNL.2: 5 residues within 4Å: Chain A: R.45, D.46 Chain B: R.19, F.70 Ligands: FMN.3 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Water bridges: B:R.19 Hydrogen bonds: A:R.45, A:R.45 UNL.4: 9 residues within 4Å: Chain A: R.19, F.70, A.120, Y.124, R.127 Chain B: S.44, R.45, A.93 Ligands: FMN.1 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:S.44, B:S.44, B:S.44, B:R.45, B:R.45, A:Y.124, A:R.127, A:R.127

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 2 residues within 4Å: Chain B: E.27, K.28 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of Putative NADH dehydrogenase/NAD(P)H nitroreductase (BDI_1728) from Parabacteroides distasonis ATCC 8503 at 1.86 A resolution. To be Published

Release Date

2010-05-05

Peptides

Putative NADH dehydrogenase/NAD(P)H nitroreductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Putative NADH dehydrogenase/NAD(P)H nitroreductase