SMTL ID : 5wed.1 (1 other biounit)

Structure of bacterial type II NADH dehydrogenase from Caldalkalibacillus thermarum at 2.15A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

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

FAD.1: 32 residues within 4Å: Chain A: G.10, A.11, G.12, Y.13, G.14, N.37, K.38, N.39, Y.43, T.45, T.46, H.49, D.79, T.80, V.81, G.106, L.107, G.108, I.126, F.165, T.166, E.169, N.265, I.267, G.298, D.299, P.314, T.315, A.316, Q.317, A.319, K.376 27 PLIP interactions: 27 interactions with chain A Hydrophobic interactions: A:H.49, A:T.166 Hydrogen bonds: A:A.11, A:A.11, A:Y.13, A:G.14, A:N.37, A:K.38, A:N.39, A:Y.43, A:Y.43, A:T.45, A:V.81, A:V.81, A:N.265, A:D.299, A:P.314, A:A.316, A:Q.317, A:K.376 Water bridges: A:G.15, A:T.45, A:S.109, A:S.109, A:C.300, A:A.319 pi-Cation interactions: A:K.38 FAD.2: 32 residues within 4Å: Chain B: G.10, A.11, G.12, Y.13, G.14, N.37, K.38, Y.43, T.45, T.46, H.49, D.79, T.80, V.81, G.106, L.107, G.108, I.126, F.165, T.166, E.169, N.265, I.267, G.298, D.299, P.314, T.315, A.316, Q.317, A.319, T.349, K.376 30 PLIP interactions: 30 interactions with chain B Hydrophobic interactions: B:H.49, B:T.166 Hydrogen bonds: B:A.11, B:A.11, B:Y.13, B:G.14, B:N.37, B:K.38, B:N.39, B:Y.43, B:T.45, B:V.81, B:V.81, B:N.265, B:D.299, B:P.314, B:A.316, B:Q.317, B:K.376 Water bridges: B:G.12, B:G.15, B:Y.43, B:Y.43, B:T.45, B:T.45, B:S.109, B:D.299, B:C.300, B:T.349 pi-Cation interactions: B:K.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakatani, Y. et al., Crystal structure of type II NADH:quinone oxidoreductase from Caldalkalibacillus thermarum with an improved resolution of 2.15 angstrom. Acta Crystallogr F Struct Biol Commun (2017)

Release Date

2017-10-18

Peptides

FAD-dependent pyridine nucleotide-disulfide oxidoreductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

FAD-dependent pyridine nucleotide-disulfide oxidoreductase

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