SMTL ID : 3w2h.1

Crystal structure of oxidation intermediate (1min) of NADH-cytochrome b5 reductase from pig liver

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 21 residues within 4Å: Chain A: H.48, R.62, P.63, Y.64, T.65, V.79, I.80, K.81, Y.83, F.84, T.87, H.88, F.91, G.94, G.95, K.96, M.97, S.98, T.152, T.155 Ligands: NAD.2 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:P.63 Hydrogen bonds: A:P.63, A:T.65, A:T.65, A:V.79, A:K.81, A:F.84, A:K.96, A:M.97, A:S.98, A:T.152, A:T.155 Water bridges: A:R.62, A:V.79, A:Y.83, A:F.84, A:F.84, A:G.94 Salt bridges: A:R.62, A:R.62 pi-Stacking: A:Y.64

1 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.2: 21 residues within 4Å: Chain A: T.65, K.81, Y.83, G.150, G.151, T.152, G.153, T.155, A.179, N.180, Q.181, D.210, F.222, C.244, G.245, P.246, P.247, P.248, M.249, F.271 Ligands: FAD.1 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:T.152, A:G.153, A:Q.181, A:D.210, A:F.271 Water bridges: A:H.48, A:K.81, A:K.81, A:T.152, A:D.210, A:D.210, A:F.271 Salt bridges: A:K.81, A:K.81 pi-Stacking: A:F.222

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yamada, M. et al., Elucidations of the catalytic cycle of NADH-cytochrome b5 reductase by X-ray crystallography: new insights into regulation of efficient electron transfer. J.Mol.Biol. (2013)

Release Date

2013-07-17

Peptides

NADH-cytochrome b5 reductase 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

NADH-cytochrome b5 reductase 3

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