- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.50 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 1 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)
- 1 x OH: HYDROXIDE ION(Non-covalent)
- 2 x HEA: HEME-A(Non-covalent)
- 3 x DMU: DECYL-BETA-D-MALTOPYRANOSIDE(Non-covalent)
DMU.5: 2 residues within 4Å:- Chain A: W.451
- Ligands: TRD.8
No protein-ligand interaction detected (PLIP)DMU.6: 7 residues within 4Å:- Chain A: V.49, Q.61, F.62, P.82, F.502, F.505
- Ligands: TRD.9
6 PLIP interactions:6 interactions with chain A- Hydrophobic interactions: A:V.49, A:F.502, A:F.502, A:F.505
- Hydrogen bonds: A:Q.61
- Water bridges: A:Q.61
DMU.13: 4 residues within 4Å:- Chain B: P.96, F.99, N.100, E.103
No protein-ligand interaction detected (PLIP)- 5 x TRD: TRIDECANE(Non-covalent)
TRD.7: 5 residues within 4Å:- Chain A: A.65, L.68, P.90, Q.165
- Chain B: I.233
4 PLIP interactions:2 interactions with chain A, 2 interactions with chain B- Hydrophobic interactions: A:A.65, A:A.65, B:I.233, B:I.233
TRD.8: 7 residues within 4Å:- Chain A: W.451, L.509, F.510, G.513, V.514, Y.517
- Ligands: DMU.5
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:W.451, A:F.510, A:Y.517
TRD.9: 4 residues within 4Å:- Chain A: L.80, W.81, P.82
- Ligands: DMU.6
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:W.81, A:W.81, A:P.82
TRD.14: 8 residues within 4Å:- Chain A: T.397, F.469, H.472, F.473, R.476
- Chain B: T.16, G.17, L.37
5 PLIP interactions:4 interactions with chain A, 1 interactions with chain B- Hydrophobic interactions: A:F.469, A:F.469, A:H.472, A:F.473, B:L.37
TRD.15: 8 residues within 4Å:- Chain A: M.350, M.353, V.354
- Chain B: L.87, V.88, G.91, A.92, L.95
5 PLIP interactions:4 interactions with chain B, 1 interactions with chain A- Hydrophobic interactions: B:L.87, B:V.88, B:V.88, B:L.95, A:V.354
- 3 x CU: COPPER (II) ION(Non-covalent)
CU.10: 4 residues within 4Å:- Chain A: H.284, H.333, H.334
- Ligands: OH.2
5 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions, 1 Ligand-Ligand interactions- Metal complexes: A:H.284, A:H.333, A:H.334, H2O.1, OH.2
CU.16: 5 residues within 4Å:- Chain B: C.227, E.229, C.231, H.235
- Ligands: CU.17
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:C.227, B:E.229, B:C.231, B:H.235
CU.17: 5 residues within 4Å:- Chain B: H.192, C.227, C.231, M.238
- Ligands: CU.16
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:H.192, B:C.227, B:C.231
- 1 x MG: MAGNESIUM ION(Non-covalent)
- 1 x CA: CALCIUM ION(Non-covalent)
- 2 x CD: CADMIUM ION(Non-covalent)
CD.18: 3 residues within 4Å:- Chain B: E.255, H.258, H.260
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:E.255, B:E.255, B:H.258, B:H.260
CD.19: 2 residues within 4Å:- Chain B: H.71, E.76
4 PLIP interactions:2 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:E.76, B:E.76, H2O.6, H2O.7
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Berg, J. et al., Structural changes at the surface of cytochrome c oxidase alter the proton-pumping stoichiometry. Biochim Biophys Acta Bioenerg (2019)
- Release Date
- 2019-11-27
- Peptides
- Cytochrome c oxidase subunit 1: A
Cytochrome c oxidase subunit 2: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CB
D - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.50 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 1 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)
- 1 x OH: HYDROXIDE ION(Non-covalent)
- 2 x HEA: HEME-A(Non-covalent)
- 3 x DMU: DECYL-BETA-D-MALTOPYRANOSIDE(Non-covalent)
- 5 x TRD: TRIDECANE(Non-covalent)
- 3 x CU: COPPER (II) ION(Non-covalent)
- 1 x MG: MAGNESIUM ION(Non-covalent)
- 1 x CA: CALCIUM ION(Non-covalent)
- 2 x CD: CADMIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Berg, J. et al., Structural changes at the surface of cytochrome c oxidase alter the proton-pumping stoichiometry. Biochim Biophys Acta Bioenerg (2019)
- Release Date
- 2019-11-27
- Peptides
- Cytochrome c oxidase subunit 1: A
Cytochrome c oxidase subunit 2: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CB
D - Membrane
-
We predict this structure to be a membrane protein.