- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.40 Å
- Oligo State
- hetero-2-2-2-mer
- Ligands
- 2 x BGL: 2-O-octyl-beta-D-glucopyranose(Non-covalent)
- 3 x SR: STRONTIUM ION(Non-functional Binders)
SR.2: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)SR.8: 4 residues within 4Å:- Chain B: D.8, V.9, E.14, E.129
2 PLIP interactions:2 interactions with chain B- Metal complexes: B:V.9, B:E.14
SR.18: 4 residues within 4Å:- Chain E: D.8, V.9, E.14, E.129
3 PLIP interactions:3 interactions with chain E- Metal complexes: E:D.8, E:V.9, E:E.14
- 6 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)(Covalent)
HEM.3: 24 residues within 4Å:- Chain A: W.45, G.48, L.51, A.52, F.104, H.111, I.112, R.114, S.120, R.125, T.128, W.129, G.132, M.133, I.135, Y.136, V.209, H.212, F.216, T.219, G.220, N.221, N.222
- Ligands: UQ2.7
25 PLIP interactions:25 interactions with chain A,- Hydrophobic interactions: A:L.51, A:L.51, A:F.104, A:F.104, A:I.112, A:T.128, A:W.129, A:W.129, A:I.135, A:Y.136, A:V.209, A:F.216, A:F.216
- Hydrogen bonds: A:G.48, A:T.219, A:T.219, A:N.222
- Water bridges: A:W.47, A:N.221
- Salt bridges: A:H.111, A:R.114, A:R.125
- pi-Stacking: A:H.111
- Metal complexes: A:H.111, A:H.212
HEM.4: 22 residues within 4Å:- Chain A: Q.58, I.59, G.62, I.63, L.65, A.66, Y.69, R.94, H.97, A.98, A.101, T.142, A.143, G.146, Y.147, L.149, P.150, H.198, Y.199, P.202, I.205, Y.297
19 PLIP interactions:19 interactions with chain A,- Hydrophobic interactions: A:Q.58, A:I.59, A:L.65, A:A.66, A:Y.69, A:A.98, A:A.101, A:T.142, A:L.149, A:L.149, A:Y.199, A:I.205
- Salt bridges: A:R.94, A:R.94
- pi-Stacking: A:H.97, A:H.198, A:H.198
- Metal complexes: A:H.97, A:H.198
HEM.9: 18 residues within 4Å:- Chain B: V.35, C.36, C.39, H.40, L.94, N.96, A.97, P.98, M.103, R.107, Y.130, L.135, F.160, I.183, A.184, M.185, P.188, L.215
12 PLIP interactions:12 interactions with chain B,- Hydrophobic interactions: B:P.98, B:L.135, B:I.183, B:M.185, B:P.188, B:L.215
- Hydrogen bonds: B:Y.130, B:Y.130, B:A.184
- Salt bridges: B:R.107
- pi-Stacking: B:H.40
- Metal complexes: B:H.40
HEM.12: 26 residues within 4Å:- Chain D: W.45, G.48, V.49, L.51, A.52, F.104, V.108, H.111, I.112, R.114, S.120, R.125, T.128, W.129, G.132, M.133, I.135, Y.136, V.209, H.212, F.216, T.219, G.220, N.221, N.222
- Ligands: UQ2.16
23 PLIP interactions:23 interactions with chain D,- Hydrophobic interactions: D:L.51, D:L.51, D:F.104, D:V.108, D:I.112, D:T.128, D:W.129, D:I.135, D:Y.136, D:V.209, D:F.216, D:F.216, D:F.216
- Hydrogen bonds: D:G.48, D:T.219, D:T.219, D:N.222
- Salt bridges: D:H.111, D:R.114, D:R.125
- pi-Stacking: D:H.111
- Metal complexes: D:H.111, D:H.212
HEM.13: 24 residues within 4Å:- Chain D: Q.58, I.59, G.62, I.63, L.65, A.66, Y.69, R.94, H.97, A.98, A.101, F.104, T.142, A.143, G.146, Y.147, L.149, P.150, F.195, H.198, Y.199, P.202, I.205, Y.297
19 PLIP interactions:19 interactions with chain D,- Hydrophobic interactions: D:Q.58, D:I.59, D:Y.69, D:A.98, D:A.101, D:F.104, D:T.142, D:L.149, D:L.149, D:F.195, D:Y.199, D:I.205
- Salt bridges: D:R.94, D:R.94
- pi-Stacking: D:H.97, D:H.198, D:H.198
- Metal complexes: D:H.97, D:H.198
HEM.19: 17 residues within 4Å:- Chain E: V.35, C.36, C.39, H.40, L.94, N.96, A.97, P.98, M.103, R.107, Y.130, L.135, F.160, I.183, A.184, M.185, P.188
11 PLIP interactions:11 interactions with chain E,- Hydrophobic interactions: E:L.94, E:P.98, E:L.135, E:I.183, E:M.185, E:P.188
- Hydrogen bonds: E:Y.130, E:A.184
- Salt bridges: E:R.107
- pi-Stacking: E:H.40
- Metal complexes: E:H.40
- 2 x SMA: STIGMATELLIN A(Non-covalent)
SMA.5: 22 residues within 4Å:- Chain A: L.137, M.140, A.141, F.144, M.145, M.154, G.158, V.161, I.162, L.180, F.194, L.197, I.292, P.294, E.295, F.298, Y.302, M.336, F.337, I.340
- Chain F: C.151, H.152
13 PLIP interactions:13 interactions with chain A- Hydrophobic interactions: A:A.141, A:F.144, A:F.144, A:F.144, A:V.161, A:I.162, A:L.180, A:F.194, A:L.197, A:F.298, A:F.298
- Hydrogen bonds: A:E.295
- Water bridges: A:E.295
SMA.14: 24 residues within 4Å:- Chain C: C.151, H.152
- Chain D: L.137, M.140, A.141, F.144, M.145, M.154, G.158, V.161, I.162, F.166, L.180, F.194, I.292, V.293, P.294, E.295, F.298, F.301, Y.302, M.336, F.337, I.340
12 PLIP interactions:12 interactions with chain D- Hydrophobic interactions: D:F.144, D:F.144, D:F.144, D:I.162, D:F.166, D:L.180, D:F.194, D:F.298, D:F.298, D:F.301, D:Y.302
- Hydrogen bonds: D:E.295
- 2 x LOP: (1R)-2-{[(R)-(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(DODECANOYLOXY)METHYL]ETHYL (9Z)-OCTADEC-9-ENOATE(Non-covalent)
LOP.6: 14 residues within 4Å:- Chain A: M.44, L.103, I.106, F.113, Y.117, Y.118, V.262, L.274, W.296, R.358, F.367, W.368, F.374, V.375
12 PLIP interactions:12 interactions with chain A- Hydrophobic interactions: A:L.103, A:L.103, A:F.113, A:V.262, A:L.274, A:W.296, A:F.374, A:V.375
- Hydrogen bonds: A:Y.117, A:Y.118, A:Y.118
- Salt bridges: A:R.358
LOP.15: 15 residues within 4Å:- Chain D: L.103, I.106, F.113, R.114, Y.117, Y.118, V.262, F.263, I.266, W.296, R.358, K.364, W.368, F.374, V.375
15 PLIP interactions:15 interactions with chain D- Hydrophobic interactions: D:L.103, D:I.106, D:F.113, D:F.113, D:V.262, D:I.266, D:W.296, D:W.368, D:F.374, D:F.374, D:V.375
- Hydrogen bonds: D:Y.118, D:Y.118
- Salt bridges: D:R.358, D:K.364
- 2 x UQ2: UBIQUINONE-2(Non-covalent)
UQ2.7: 12 residues within 4Å:- Chain A: T.32, V.49, A.52, A.206, V.209, I.213, F.216, H.217, N.221, F.244, D.252
- Ligands: HEM.3
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:A.52, A:V.209
- pi-Stacking: A:F.244
UQ2.16: 9 residues within 4Å:- Chain D: T.32, V.49, A.206, I.213, F.216, H.217, F.244, D.252
- Ligands: HEM.12
2 PLIP interactions:2 interactions with chain D- Hydrophobic interactions: D:T.32, D:A.206
- 1 x CL: CHLORIDE ION(Non-functional Binders)
- 2 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
FES.11: 10 residues within 4Å:- Chain C: C.129, H.131, L.132, G.133, C.134, C.149, C.151, H.152, G.153, S.154
4 PLIP interactions:4 interactions with chain C,- Metal complexes: C:C.129, C:H.131, C:C.149, C:H.152
FES.20: 10 residues within 4Å:- Chain F: C.129, H.131, L.132, G.133, C.134, C.149, C.151, H.152, G.153, S.154
4 PLIP interactions:4 interactions with chain F,- Metal complexes: F:C.129, F:H.131, F:C.149, F:H.152
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Esser, L. et al., Inhibitor-complexed Structures of the Cytochrome bc1 from the Photosynthetic Bacterium Rhodobacter sphaeroides. J.Biol.Chem. (2008)
- Release Date
- 2007-12-25
- Peptides
- Cytochrome b: AD
Cytochrome c1: BE
Ubiquinol-cytochrome c reductase iron-sulfur subunit: CF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
GD
JB
HE
KC
IF
L - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.40 Å
- Oligo State
- hetero-2-2-2-mer
- Ligands
- 2 x BGL: 2-O-octyl-beta-D-glucopyranose(Non-covalent)
- 3 x SR: STRONTIUM ION(Non-functional Binders)
- 6 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)(Covalent)
- 2 x SMA: STIGMATELLIN A(Non-covalent)
- 2 x LOP: (1R)-2-{[(R)-(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(DODECANOYLOXY)METHYL]ETHYL (9Z)-OCTADEC-9-ENOATE(Non-covalent)
- 2 x UQ2: UBIQUINONE-2(Non-covalent)
- 1 x CL: CHLORIDE ION(Non-functional Binders)
- 2 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Esser, L. et al., Inhibitor-complexed Structures of the Cytochrome bc1 from the Photosynthetic Bacterium Rhodobacter sphaeroides. J.Biol.Chem. (2008)
- Release Date
- 2007-12-25
- Peptides
- Cytochrome b: AD
Cytochrome c1: BE
Ubiquinol-cytochrome c reductase iron-sulfur subunit: CF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
GD
JB
HE
KC
IF
L - Membrane
-
We predict this structure to be a membrane protein.