SMTL ID : 8f68.1

E. coli cytochrome bo3 ubiquinol oxidase monomer

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 21 residues within 4Å: Chain A: F.73, A.76, M.79, R.80, Q.83, F.103, H.106, G.107, M.110, I.111, G.169, W.170, L.414, I.417, F.420, H.421, I.424, W.460, F.468, R.481, R.482 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:F.73, A:A.76, A:M.110, A:I.111, A:I.111, A:W.170, A:I.417, A:F.420, A:I.424, A:W.460, A:F.468 Hydrogen bonds: A:Q.83, A:W.170, A:R.482 Salt bridges: A:R.481, A:R.482 pi-Stacking: A:F.420 Metal complexes: A:H.106

1 x HEO: HEME O(Non-covalent)

HEO.2: 31 residues within 4Å: Chain A: W.170, W.280, V.287, Y.288, I.291, H.333, H.334, I.355, A.356, T.359, G.360, I.363, F.391, G.395, G.398, V.399, L.401, A.402, D.407, H.411, L.416, H.419, F.420, V.423, I.424, V.428, R.481 Chain B: M.28, V.31, I.77 Ligands: CU.3 24 PLIP interactions: 22 interactions with chain A, 2 interactions with chain B, Hydrophobic interactions: A:W.280, A:V.287, A:V.287, A:I.291, A:I.291, A:A.356, A:I.363, A:F.391, A:F.391, A:V.399, A:L.401, A:L.401, A:L.416, A:F.420, A:I.424, A:V.428, B:V.31, B:I.77 Hydrogen bonds: A:Y.288, A:H.333 Salt bridges: A:H.411, A:R.481 pi-Stacking: A:H.333 Metal complexes: A:H.419

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

CU.3: 4 residues within 4Å: Chain A: H.284, H.333, H.334 Ligands: HEO.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.284, A:H.333, A:H.334

3 x 3PE: 1,2-Distearoyl-sn-glycerophosphoethanolamine(Non-covalent)

3PE.4: 18 residues within 4Å: Chain A: F.138, P.139, F.140, L.141, L.144, Q.195, I.199, F.602, M.621, W.625, K.628, V.634 Chain C: K.5, G.8, F.9, Y.12 Ligands: 3PE.5, 3PE.6 14 PLIP interactions: 10 interactions with chain A, 4 interactions with chain C Hydrophobic interactions: A:F.138, A:F.140, A:L.141, A:L.144, A:F.602, A:W.625, A:W.625, A:W.625, A:W.625, C:F.9, C:Y.12, C:Y.12 Hydrogen bonds: A:F.140 Salt bridges: C:K.5 3PE.5: 7 residues within 4Å: Chain A: A.251, T.254, Y.258, F.602, W.611, I.615 Ligands: 3PE.4 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:A.251, A:T.254, A:Y.258, A:F.602, A:W.611, A:W.611, A:W.611, A:I.615 3PE.6: 17 residues within 4Å: Chain A: A.251, F.618, I.622, W.625, I.626, S.629 Chain C: K.5, F.9, Y.12, T.125, H.129, S.132, W.136, V.139, T.152, R.156 Ligands: 3PE.4 14 PLIP interactions: 6 interactions with chain C, 8 interactions with chain A Hydrophobic interactions: C:F.9, C:W.136, C:V.139, A:A.251, A:F.618, A:I.622, A:W.625, A:W.625, A:W.625, A:I.626 Salt bridges: C:K.5, C:R.156, C:R.156 Hydrogen bonds: A:W.625

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guo, Y. et al., Monomer and dimer structures of cytochrome bo 3 ubiquinol oxidase from Escherichia coli. Protein Sci. (2023)

Release Date

2022-11-30

Peptides

Cytochrome bo(3) ubiquinol oxidase subunit 1: A
Cytochrome bo(3) ubiquinol oxidase subunit 2: B
Cytochrome bo(3) ubiquinol oxidase subunit 3: C
Cytochrome bo(3) ubiquinol oxidase subunit 4: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Cytochrome bo(3) ubiquinol oxidase subunit 1

Cytochrome bo(3) ubiquinol oxidase subunit 2

Cytochrome bo(3) ubiquinol oxidase subunit 3

Cytochrome bo(3) ubiquinol oxidase subunit 4

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