SMTL ID : 6kob.2 (1 other biounit)

X-ray Structure of the proton-pumping cytochrome aa3-600 menaquinol oxidase from Bacillus subtilis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.60 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

2 x HEA: HEME-A(Covalent)

HEA.1: 30 residues within 4Å: Chain D: L.68, F.69, G.72, V.73, L.76, M.78, R.79, Y.95, F.99, T.100, H.102, G.103, M.106, I.107, G.165, W.166, Y.410, V.413, F.416, H.417, L.420, I.421, V.425, Q.467, R.477, R.478, A.499, M.502, G.503, F.506 25 PLIP interactions: 25 interactions with chain D, Hydrophobic interactions: D:L.68, D:F.69, D:V.73, D:L.76, D:M.106, D:I.107, D:W.166, D:V.413, D:F.416, D:L.420, D:I.421, D:I.421, D:V.425, D:A.499, D:F.506, D:F.506 Hydrogen bonds: D:F.99, D:W.166, D:R.478, D:I.479 Salt bridges: D:R.477, D:R.478 pi-Cation interactions: D:H.417 Metal complexes: D:H.102, D:H.417 HEA.2: 29 residues within 4Å: Chain C: L.29, V.32, F.36, W.71, P.75 Chain D: W.166, W.276, V.283, Y.284, I.287, H.329, H.330, T.348, S.352, T.355, G.356, I.359, G.391, G.394, L.397, A.398, D.403, H.407, L.412, H.415, F.416, V.419, L.420, R.477 25 PLIP interactions: 21 interactions with chain D, 4 interactions with chain C, Hydrophobic interactions: D:W.276, D:V.283, D:V.283, D:Y.284, D:I.287, D:I.287, D:T.348, D:T.355, D:I.359, D:L.397, D:L.397, D:F.416, D:F.416, D:V.419, D:L.420, C:L.29, C:F.36, C:W.71, C:P.75 Hydrogen bonds: D:W.166, D:T.167, D:Y.284 Salt bridges: D:H.407, D:R.477 Metal complexes: D:H.415

1 x CU: COPPER (II) ION(Non-covalent)

CU.3: 3 residues within 4Å: Chain D: H.280, H.329, H.330 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:H.280, D:H.329, D:H.330

1 x MQ7: MENAQUINONE-7(Non-covalent)

MQ7.4: 6 residues within 4Å: Chain D: I.23, I.31, I.66, R.70, V.73, F.146 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:I.23, D:I.31, D:I.66, D:I.66, D:R.70, D:V.73

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, J. et al., Structure of the cytochromeaa3-600 heme-copper menaquinol oxidase bound to inhibitor HQNO shows TM0 is part of the quinol binding site. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2020-01-15

Peptides

AA3-600 quinol oxidase subunit IIII: A
AA3-600 quinol oxidase subunit IV,Quinol oxidase subunit 4: B
Quinol oxidase subunit 2: C
AA3-600 quinol oxidase subunit I: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

C
F

D
E

Membrane

We predict this structure to be a membrane protein.
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AA3-600 quinol oxidase subunit IIII

AA3-600 quinol oxidase subunit IV,Quinol oxidase subunit 4

Quinol oxidase subunit 2

AA3-600 quinol oxidase subunit I

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