- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.04 Å
- Oligo State
- hetero-2-2-2-2-2-2-2-2-2-2-mer
- Ligands
- 6 x PEE: 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine(Non-covalent)
- 4 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)
HEM.2: 22 residues within 4Å:- Chain C: Q.45, I.46, G.49, L.50, L.52, A.53, Y.56, R.81, H.84, A.85, L.124, T.127, A.128, G.131, Y.132, L.134, P.135, H.183, F.184, P.187, I.190, Y.274
20 PLIP interactions:20 interactions with chain C,- Hydrophobic interactions: C:Q.45, C:I.46, C:L.50, C:L.52, C:L.52, C:A.53, C:Y.56, C:A.85, C:L.124, C:T.127, C:L.134, C:L.134, C:F.184, C:I.190
- Salt bridges: C:R.81, C:R.81
- pi-Stacking: C:H.84, C:H.183
- Metal complexes: C:H.84, C:H.183
HEM.3: 23 residues within 4Å:- Chain C: W.32, G.35, S.36, L.38, A.39, F.91, H.98, I.99, R.101, S.107, T.113, W.114, G.117, V.118, L.120, L.121, T.194, H.197, L.198, L.201, S.206, N.207
- Ligands: UQ.5
24 PLIP interactions:24 interactions with chain C,- Hydrophobic interactions: C:L.38, C:L.38, C:F.91, C:T.113, C:W.114, C:W.114, C:W.114, C:V.118, C:L.120, C:L.121, C:T.194, C:L.198, C:L.201, C:L.201
- Hydrogen bonds: C:G.35, C:N.207
- Water bridges: C:W.32, C:S.206
- Salt bridges: C:H.98, C:R.101, C:R.101
- pi-Stacking: C:H.197
- Metal complexes: C:H.98, C:H.197
HEM.15: 23 residues within 4Å:- Chain M: Q.45, I.46, G.49, L.50, L.52, A.53, Y.56, V.67, R.81, H.84, A.85, L.124, T.127, A.128, G.131, Y.132, L.134, P.135, H.183, F.184, P.187, I.190, Y.274
20 PLIP interactions:20 interactions with chain M,- Hydrophobic interactions: M:Q.45, M:I.46, M:L.50, M:L.52, M:L.52, M:A.53, M:Y.56, M:A.85, M:L.124, M:T.127, M:L.134, M:L.134, M:F.184, M:I.190
- Salt bridges: M:R.81, M:R.81
- pi-Stacking: M:H.84, M:H.183
- Metal complexes: M:H.84, M:H.183
HEM.16: 23 residues within 4Å:- Chain M: W.32, G.35, S.36, L.38, A.39, F.91, H.98, I.99, R.101, S.107, T.113, W.114, G.117, V.118, L.120, L.121, T.194, H.197, L.198, L.201, S.206, N.207
- Ligands: UQ.19
25 PLIP interactions:25 interactions with chain M,- Hydrophobic interactions: M:L.38, M:L.38, M:F.91, M:I.99, M:T.113, M:W.114, M:W.114, M:W.114, M:V.118, M:L.120, M:L.121, M:T.194, M:L.198, M:L.201, M:L.201
- Hydrogen bonds: M:G.35, M:N.207
- Water bridges: M:W.32, M:S.36, M:S.206
- Salt bridges: M:H.98, M:R.101, M:R.101
- Metal complexes: M:H.98, M:H.197
- 2 x JZZ: 4-[7-(3,3-dimethylbut-1-yn-1-yl)naphthalen-1-yl]-5-methoxy-2-methyl-2,4-dihydro-3H-1,2,4-triazol-3-one(Non-covalent)
JZZ.4: 18 residues within 4Å:- Chain C: M.125, A.128, F.129, Y.132, V.133, M.139, S.140, G.143, A.144, I.147, I.269, K.270, P.271, E.272, Y.274, F.275, Y.279, L.295
12 PLIP interactions:12 interactions with chain C- Hydrophobic interactions: C:F.129, C:Y.132, C:I.147, C:I.147, C:I.269, C:P.271, C:F.275, C:F.275, C:F.275, C:Y.279, C:L.295
- Hydrogen bonds: C:E.272
JZZ.18: 16 residues within 4Å:- Chain M: M.125, F.129, Y.132, V.133, M.139, G.143, A.144, I.147, I.269, K.270, P.271, E.272, Y.274, F.275, Y.279, L.295
12 PLIP interactions:12 interactions with chain M- Hydrophobic interactions: M:F.129, M:Y.132, M:I.147, M:I.147, M:I.269, M:P.271, M:F.275, M:F.275, M:F.275, M:L.295
- Hydrogen bonds: M:E.272
- pi-Stacking: M:Y.279
- 2 x UQ: Coenzyme Q10, (2Z,6E,10Z,14E,18E,22E,26Z)-isomer(Non-covalent)
UQ.5: 11 residues within 4Å:- Chain C: S.18, L.22, I.28, S.36, A.39, L.198, H.202, S.206, F.221, D.229
- Ligands: HEM.3
4 PLIP interactions:4 interactions with chain C- Hydrophobic interactions: C:A.39, C:L.198
- Hydrogen bonds: C:S.206
- pi-Stacking: C:F.221
UQ.19: 14 residues within 4Å:- Chain M: S.18, L.22, A.24, I.28, S.36, A.39, M.43, L.198, L.201, H.202, S.206, F.221, D.229
- Ligands: HEM.16
5 PLIP interactions:5 interactions with chain M- Hydrophobic interactions: M:A.39, M:L.198, M:F.221, M:F.221
- Hydrogen bonds: M:S.206
- 2 x GOL: GLYCEROL(Non-functional Binders)
GOL.7: 7 residues within 4Å:- Chain C: F.64, V.67, A.68, R.81, N.256, F.257
- Chain D: Y.115
3 PLIP interactions:2 interactions with chain C, 1 interactions with chain D- Hydrogen bonds: C:R.81, C:N.256, D:Y.115
GOL.22: 6 residues within 4Å:- Chain M: F.64, R.81, P.135, N.256, F.257
- Chain N: Y.115
4 PLIP interactions:3 interactions with chain M, 1 interactions with chain N- Hydrogen bonds: M:R.81, M:R.81, M:N.256, N:Y.115
- 2 x HEC: HEME C(Covalent)
HEC.8: 18 residues within 4Å:- Chain D: V.36, C.37, C.40, H.41, N.105, A.108, L.109, P.110, P.111, I.116, R.120, Y.126, F.153, I.158, G.159, M.160, P.163, I.164
10 PLIP interactions:10 interactions with chain D,- Hydrophobic interactions: D:A.108, D:I.116, D:I.158, D:M.160, D:P.163, D:I.164
- Hydrogen bonds: D:G.159
- Salt bridges: D:R.120
- pi-Stacking: D:H.41
- Metal complexes: D:H.41
HEC.23: 18 residues within 4Å:- Chain N: V.36, C.37, C.40, H.41, N.105, A.108, L.109, P.110, P.111, I.116, R.120, Y.126, F.153, I.158, G.159, M.160, P.163, I.164
12 PLIP interactions:12 interactions with chain N,- Hydrophobic interactions: N:N.105, N:A.108, N:I.116, N:I.158, N:M.160, N:P.163, N:I.164
- Hydrogen bonds: N:Y.126, N:G.159
- Salt bridges: N:R.120
- pi-Stacking: N:H.41
- Metal complexes: N:H.41
- 4 x CDL: CARDIOLIPIN(Non-covalent)
CDL.9: 14 residues within 4Å:- Chain C: A.30, N.33, G.232
- Chain D: Y.220, K.223, R.224
- Chain F: H.72, R.73
- Chain G: I.26, I.29, A.33, L.34, R.40
- Ligands: CDL.14
11 PLIP interactions:6 interactions with chain D, 2 interactions with chain G, 1 interactions with chain F, 2 interactions with chain C- Hydrophobic interactions: D:Y.220, D:Y.220, G:I.26, C:A.30
- Hydrogen bonds: D:R.224, G:R.40
- Salt bridges: D:K.223, D:R.224, D:K.231, F:R.73, C:K.228
CDL.14: 11 residues within 4Å:- Chain C: S.29, A.30, W.31, Y.105
- Chain F: H.72
- Chain G: V.37, R.40, F.41, Q.44
- Ligands: PEE.6, CDL.9
6 PLIP interactions:2 interactions with chain C, 3 interactions with chain G, 1 interactions with chain F- Hydrophobic interactions: C:W.31
- Hydrogen bonds: C:A.30
- Salt bridges: G:R.40, G:R.40, G:R.40, F:H.72
CDL.24: 16 residues within 4Å:- Chain M: A.30, N.33, L.231, G.232, L.235
- Chain N: Y.220, K.223, R.224
- Chain P: H.72, R.73
- Chain Q: I.26, I.29, A.33, L.34, R.40
- Ligands: CDL.29
13 PLIP interactions:7 interactions with chain N, 2 interactions with chain Q, 3 interactions with chain M, 1 interactions with chain P- Hydrophobic interactions: N:Y.220, N:Y.220, Q:I.26, M:A.30
- Hydrogen bonds: N:Y.220, N:R.224, Q:R.40
- Salt bridges: N:K.223, N:R.224, N:K.231, M:K.228, M:K.228, P:R.73
CDL.29: 11 residues within 4Å:- Chain M: S.29, A.30, W.31, Y.105
- Chain P: H.72
- Chain Q: V.37, R.40, F.41, Q.44
- Ligands: PEE.20, CDL.24
8 PLIP interactions:4 interactions with chain Q, 3 interactions with chain M, 1 interactions with chain P- Hydrophobic interactions: Q:Q.44, M:W.31
- Salt bridges: Q:R.40, Q:R.40, Q:R.40, P:H.72
- Hydrogen bonds: M:A.30, M:Y.105
- 5 x BOG: octyl beta-D-glucopyranoside(Non-covalent)
BOG.10: 10 residues within 4Å:- Chain C: Y.76
- Chain D: Q.200, R.203, M.204, K.207, I.211
- Chain E: A.50, N.53, Q.57
- Ligands: BOG.11
6 PLIP interactions:2 interactions with chain C, 3 interactions with chain D, 1 interactions with chain E- Hydrogen bonds: C:Y.76, C:Y.76, D:Q.200, E:N.53
- Hydrophobic interactions: D:I.211
- Salt bridges: D:K.207
BOG.11: 3 residues within 4Å:- Chain D: Q.200, R.203
- Ligands: BOG.10
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:Q.200, D:R.203, D:R.203
BOG.17: 5 residues within 4Å:- Chain C: M.14
- Chain M: M.14, L.198, T.199, H.202
3 PLIP interactions:3 interactions with chain M- Hydrogen bonds: M:L.198, M:T.199
- Salt bridges: M:H.202
BOG.25: 10 residues within 4Å:- Chain M: Y.76, L.241
- Chain N: Q.200, R.203, M.204, K.207, M.208
- Chain O: A.50, N.53, Q.57
5 PLIP interactions:2 interactions with chain N, 1 interactions with chain M, 2 interactions with chain O- Hydrogen bonds: N:Q.200, O:N.53
- Salt bridges: N:K.207
- Hydrophobic interactions: M:L.241, O:A.50
BOG.26: 2 residues within 4Å:- Chain M: Y.76
- Chain N: Q.200
1 PLIP interactions:1 interactions with chain N- Hydrogen bonds: N:Q.200
- 2 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
FES.12: 9 residues within 4Å:- Chain E: C.139, H.141, L.142, C.144, C.158, C.160, H.161, G.162, S.163
4 PLIP interactions:4 interactions with chain E,- Metal complexes: E:C.139, E:H.141, E:C.158, E:H.161
FES.27: 10 residues within 4Å:- Chain O: C.139, H.141, L.142, C.144, C.158, C.160, H.161, G.162, S.163, P.175
4 PLIP interactions:4 interactions with chain O,- Metal complexes: O:C.139, O:H.141, O:C.158, O:H.161
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Huang, L. et al., Famoxadone and related inhibitors bind like methoxy acrylate inhibitors in the Qo site of the BC1 compl and fix the rieske iron-sulfur protein in a positio close to but distinct from that seen with stigmatellin and other "DISTAL" Qo inhibitors. To be Published
- Release Date
- 2010-02-02
- Peptides
- MITOCHONDRIAL UBIQUINOL-CYTOCHROME-C REDUCTASE COMPLEX CORE PROTEIN I: AK
MITOCHONDRIAL UBIQUINOL-CYTOCHROME-C REDUCTASE COMPLEX CORE PROTEIN 2: BL
CYTOCHROME B: CM
MITOCHONDRIAL CYTOCHROME C1, HEME PROTEIN: DN
CYTOCHROME B-C1 COMPLEX SUBUNIT 5, RIESKE IRONSULFUR PROTEIN, MITOCHONDRIAL: EO
MITOCHONDRIAL UBIQUINOL-CYTOCHROME C REDUCTASE 14 KDA PROTEIN: FP
MITOCHONDRIAL UBIQUINOL-CYTOCHROME C REDUCTASE UBIQUINONE-BINDING PROTEIN QP-C: GQ
MITOCHONDRIAL UBIQUINOL-CYTOCHROME C REDUCTASE 11 KDA PROTEIN, COMPLEX III SUBUNIT VIII: HR
CYTOCHROME B-C1 COMPLEX SUBUNIT RIESKE, MITOCHONDRIAL: IS
MITOCHONDRIAL UBIQUINOL-CYTOCHROME C REDUCTASE 7.2 KDA PROTEIN: JT - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AK
NB
BL
OC
CM
PD
DN
QE
EO
RF
FP
SG
GQ
TH
HR
UI
IS
VJ
JT
W - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.04 Å
- Oligo State
- hetero-2-2-2-2-2-2-2-2-2-2-mer
- Ligands
- 6 x PEE: 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine(Non-covalent)
- 4 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)
- 2 x JZZ: 4-[7-(3,3-dimethylbut-1-yn-1-yl)naphthalen-1-yl]-5-methoxy-2-methyl-2,4-dihydro-3H-1,2,4-triazol-3-one(Non-covalent)
- 2 x UQ: Coenzyme Q10, (2Z,6E,10Z,14E,18E,22E,26Z)-isomer(Non-covalent)
- 2 x GOL: GLYCEROL(Non-functional Binders)
- 2 x HEC: HEME C(Covalent)
- 4 x CDL: CARDIOLIPIN(Non-covalent)
- 5 x BOG: octyl beta-D-glucopyranoside(Non-covalent)
- 2 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Huang, L. et al., Famoxadone and related inhibitors bind like methoxy acrylate inhibitors in the Qo site of the BC1 compl and fix the rieske iron-sulfur protein in a positio close to but distinct from that seen with stigmatellin and other "DISTAL" Qo inhibitors. To be Published
- Release Date
- 2010-02-02
- Peptides
- MITOCHONDRIAL UBIQUINOL-CYTOCHROME-C REDUCTASE COMPLEX CORE PROTEIN I: AK
MITOCHONDRIAL UBIQUINOL-CYTOCHROME-C REDUCTASE COMPLEX CORE PROTEIN 2: BL
CYTOCHROME B: CM
MITOCHONDRIAL CYTOCHROME C1, HEME PROTEIN: DN
CYTOCHROME B-C1 COMPLEX SUBUNIT 5, RIESKE IRONSULFUR PROTEIN, MITOCHONDRIAL: EO
MITOCHONDRIAL UBIQUINOL-CYTOCHROME C REDUCTASE 14 KDA PROTEIN: FP
MITOCHONDRIAL UBIQUINOL-CYTOCHROME C REDUCTASE UBIQUINONE-BINDING PROTEIN QP-C: GQ
MITOCHONDRIAL UBIQUINOL-CYTOCHROME C REDUCTASE 11 KDA PROTEIN, COMPLEX III SUBUNIT VIII: HR
CYTOCHROME B-C1 COMPLEX SUBUNIT RIESKE, MITOCHONDRIAL: IS
MITOCHONDRIAL UBIQUINOL-CYTOCHROME C REDUCTASE 7.2 KDA PROTEIN: JT - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AK
NB
BL
OC
CM
PD
DN
QE
EO
RF
FP
SG
GQ
TH
HR
UI
IS
VJ
JT
W - Membrane
-
We predict this structure to be a membrane protein.