- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.60 Å
- Oligo State
- hetero-2-2-2-mer
- Ligands
- 2 x BGL: 2-O-octyl-beta-D-glucopyranose(Non-covalent)
- 4 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
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:V.9, B:E.14, B:E.129
SR.12: 1 residues within 4Å:- Chain D: D.309
No protein-ligand interaction detected (PLIP)SR.18: 4 residues within 4Å:- Chain E: D.8, V.9, E.14, E.129
2 PLIP interactions:2 interactions with chain E- Metal complexes: E:V.9, E:E.14
- 6 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)(Covalent)
HEM.3: 23 residues within 4Å:- Chain A: W.43, G.46, L.49, A.50, H.109, I.110, R.112, S.118, R.123, T.126, W.127, G.130, M.131, I.133, Y.134, I.203, V.207, H.210, F.214, G.218, N.219, N.220
- Ligands: ANJ.7
21 PLIP interactions:21 interactions with chain A,- Hydrophobic interactions: A:L.49, A:L.49, A:I.110, A:T.126, A:I.133, A:Y.134, A:I.203, A:F.214, A:F.214, A:F.214, A:F.214
- Hydrogen bonds: A:W.43, A:G.46, A:N.220
- Water bridges: A:R.123, A:T.217
- Salt bridges: A:H.109, A:R.112, A:R.123
- Metal complexes: A:H.109, A:H.210
HEM.4: 25 residues within 4Å:- Chain A: Q.56, I.57, G.60, I.61, L.63, A.64, Y.67, V.78, R.92, H.95, A.96, A.99, F.102, T.140, A.141, G.144, Y.145, L.147, P.148, F.193, H.196, Y.197, P.200, I.203, Y.295
20 PLIP interactions:20 interactions with chain A,- Hydrophobic interactions: A:Q.56, A:Q.56, A:I.61, A:A.64, A:Y.67, A:A.99, A:F.102, A:T.140, A:L.147, A:L.147, A:F.193, A:Y.197, A:Y.197, A:I.203
- Salt bridges: A:R.92, A:R.92
- pi-Stacking: A:H.95, A:H.196
- Metal complexes: A:H.95, A:H.196
HEM.9: 19 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.186, P.188, L.189
16 PLIP interactions:16 interactions with chain B,- Hydrophobic interactions: B:V.35, B:L.135, B:A.184, B:M.185, B:P.186, B:P.188, B:L.189
- Hydrogen bonds: B:Y.130, B:Y.130, B:A.184, B:M.185
- Salt bridges: B:R.107
- pi-Stacking: B:H.40, B:H.40, B:H.40
- Metal complexes: B:H.40
HEM.13: 25 residues within 4Å:- Chain D: W.43, G.46, L.49, A.50, F.102, V.106, H.109, I.110, R.112, S.118, R.123, T.126, W.127, G.130, M.131, I.133, Y.134, V.207, H.210, F.214, T.217, G.218, N.219, N.220
- Ligands: ANJ.17
23 PLIP interactions:23 interactions with chain D,- Hydrophobic interactions: D:L.49, D:L.49, D:F.102, D:V.106, D:I.110, D:T.126, D:W.127, D:W.127, D:I.133, D:Y.134, D:F.214, D:F.214, D:F.214, D:F.214
- Hydrogen bonds: D:G.46, D:T.217, D:T.217, D:N.220
- Salt bridges: D:H.109, D:R.112, D:R.123
- Metal complexes: D:H.109, D:H.210
HEM.14: 23 residues within 4Å:- Chain D: Q.56, I.57, G.60, I.61, L.63, A.64, Y.67, R.92, H.95, A.96, A.99, T.140, A.141, G.144, Y.145, L.147, P.148, F.193, H.196, Y.197, P.200, I.203, Y.295
18 PLIP interactions:18 interactions with chain D,- Hydrophobic interactions: D:Q.56, D:A.64, D:Y.67, D:A.99, D:T.140, D:L.147, D:L.147, D:F.193, D:Y.197, D:Y.197, D:I.203
- Salt bridges: D:R.92, D:R.92
- pi-Stacking: D:H.95, D:H.95, D:H.196
- Metal complexes: D:H.95, D:H.196
HEM.19: 20 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, I.131, L.135, F.160, I.183, A.184, M.185, P.186, P.188, L.189
14 PLIP interactions:14 interactions with chain E,- Hydrophobic interactions: E:V.35, E:I.131, E:L.135, E:L.135, E:I.183, E:M.185, E:P.186, E:P.188, E:L.189
- 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: 23 residues within 4Å:- Chain A: L.135, M.138, A.139, F.142, M.143, M.152, G.156, V.159, I.160, F.164, L.178, F.192, L.195, I.290, P.292, E.293, F.296, Y.300, M.334, F.335, I.338
- Chain F: C.143, H.144
13 PLIP interactions:13 interactions with chain A- Hydrophobic interactions: A:F.142, A:F.142, A:V.159, A:I.160, A:F.164, A:L.178, A:F.192, A:L.195, A:P.292, A:F.296, A:F.296, A:Y.300
- Hydrogen bonds: A:E.293
SMA.15: 22 residues within 4Å:- Chain C: C.143, H.144
- Chain D: M.138, A.139, F.142, M.143, M.152, G.156, V.159, I.160, L.178, F.192, L.195, I.290, P.292, E.293, F.296, F.299, Y.300, M.334, F.335, I.338
16 PLIP interactions:16 interactions with chain D- Hydrophobic interactions: D:F.142, D:F.142, D:F.142, D:V.159, D:I.160, D:I.160, D:L.178, D:F.192, D:L.195, D:P.292, D:F.296, D:F.296, D:F.299, D:Y.300
- Hydrogen bonds: D:E.293, D:E.293
- 2 x LOP: (1R)-2-{[(R)-(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(DODECANOYLOXY)METHYL]ETHYL (9Z)-OCTADEC-9-ENOATE(Non-covalent)
LOP.6: 13 residues within 4Å:- Chain A: M.42, W.45, L.101, I.104, F.111, Y.115, Y.116, F.261, L.272, R.356, F.365, W.366, F.372
13 PLIP interactions:13 interactions with chain A- Hydrophobic interactions: A:W.45, A:L.101, A:L.101, A:I.104, A:F.111, A:F.111, A:F.261, A:L.272, A:F.365, A:F.372
- Hydrogen bonds: A:Y.115, A:Y.116
- Salt bridges: A:R.356
LOP.16: 14 residues within 4Å:- Chain D: N.40, M.42, W.45, L.101, F.111, R.112, Y.115, Y.116, F.261, I.264, L.272, W.294, R.356, W.366
13 PLIP interactions:13 interactions with chain D- Hydrophobic interactions: D:W.45, D:L.101, D:F.261, D:I.264, D:L.272, D:W.294, D:W.366
- Hydrogen bonds: D:N.40, D:Y.115, D:Y.116, D:Y.116, D:R.356
- Salt bridges: D:R.356
- 2 x ANJ: (2R,3S,6S,7R,8R)-3-{[3-(FORMYLAMINO)-2-HYDROXYBENZOYL]AMINO}-8-HEXYL-2,6-DIMETHYL-4,9-DIOXO-1,5-DIOXONAN-7-YL (2S)-2-METHYLBUTANOATE(Non-covalent)
ANJ.7: 17 residues within 4Å:- Chain A: A.27, T.30, L.39, W.43, I.44, G.46, V.47, A.50, A.204, V.207, I.211, F.214, N.219, F.242, F.246, D.250
- Ligands: HEM.3
8 PLIP interactions:8 interactions with chain A- Hydrophobic interactions: A:A.27, A:L.39, A:A.50, A:I.211, A:F.242, A:F.242
- Hydrogen bonds: A:D.250, A:D.250
ANJ.17: 17 residues within 4Å:- Chain D: A.27, T.30, L.39, W.43, I.44, G.46, V.47, A.50, V.54, V.207, I.211, F.214, N.219, F.242, F.246, D.250
- Ligands: HEM.13
10 PLIP interactions:10 interactions with chain D- Hydrophobic interactions: D:A.27, D:L.39, D:A.50, D:V.54, D:V.207, D:I.211, D:F.242, D:F.242
- Hydrogen bonds: D:D.250, D:D.250
- 2 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
FES.10: 10 residues within 4Å:- Chain C: C.121, H.123, L.124, G.125, C.126, C.141, C.143, H.144, G.145, S.146
4 PLIP interactions:4 interactions with chain C,- Metal complexes: C:C.121, C:H.123, C:C.141, C:H.144
FES.20: 10 residues within 4Å:- Chain F: C.121, H.123, L.124, G.125, C.126, C.141, C.143, H.144, G.145, S.146
4 PLIP interactions:4 interactions with chain F,- Metal complexes: F:C.121, F:H.123, F:C.141, F:H.144
- 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 2.60 Å
- Oligo State
- hetero-2-2-2-mer
- Ligands
- 2 x BGL: 2-O-octyl-beta-D-glucopyranose(Non-covalent)
- 4 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 ANJ: (2R,3S,6S,7R,8R)-3-{[3-(FORMYLAMINO)-2-HYDROXYBENZOYL]AMINO}-8-HEXYL-2,6-DIMETHYL-4,9-DIOXO-1,5-DIOXONAN-7-YL (2S)-2-METHYLBUTANOATE(Non-covalent)
- 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.