- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.75 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: 25 residues within 4Å:- Chain C: Q.45, I.46, G.49, L.50, L.52, A.53, Y.56, V.67, R.81, H.84, A.85, A.88, L.124, T.127, A.128, G.131, Y.132, L.134, P.135, F.180, H.183, F.184, P.187, I.190, Y.274
19 PLIP interactions:19 interactions with chain C,- Hydrophobic interactions: C:Q.45, C:I.46, C:L.50, C:L.52, C:Y.56, C:V.67, C:A.85, C:A.88, C:L.124, C:T.127, C:L.134, C:L.134, C:F.180, C:F.184, C:I.190
- Salt bridges: C:R.81, C:R.81
- Metal complexes: C:H.84, C:H.183
HEM.3: 24 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, I.190, 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:L.120, C:L.121, C:I.190, C:T.194, C:L.198, C:L.201, C:L.201
- Hydrogen bonds: C:G.35, C:S.206, C:N.207
- Water bridges: C:W.32, C:F.34
- Salt bridges: C:H.98, C:R.101, C:R.101
- Metal complexes: C:H.98, C:H.197
HEM.16: 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
18 PLIP interactions:18 interactions with chain M,- Hydrophobic interactions: M:Q.45, M:I.46, M:L.50, M:L.52, M:Y.56, M:V.67, 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.183
- Metal complexes: M:H.84, M:H.183
HEM.17: 24 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, I.190, T.194, H.197, L.198, L.201, S.206, N.207
- Ligands: UQ.20
27 PLIP interactions:27 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:I.190, M:T.194, M:L.198, M:L.201, M:L.201
- Hydrogen bonds: M:W.32, M:G.35, M:S.206, M:N.207
- Water bridges: M:F.34, M:S.36
- Salt bridges: M:H.98, M:R.101, M:R.101
- Metal complexes: M:H.98, M:H.197
- 2 x JZV: methyl (2E)-(methoxyimino)(2-{[({(1Z)-1-[3-(trifluoromethyl)phenyl]ethylidene}amino)oxy]methyl}phenyl)ethanoate(Non-covalent)
JZV.4: 18 residues within 4Å:- Chain C: M.125, A.126, A.128, F.129, Y.132, V.133, S.140, G.143, A.144, I.147, K.270, P.271, E.272, Y.274, F.275, A.278, Y.279, L.295
9 PLIP interactions:9 interactions with chain C- Hydrophobic interactions: C:I.147, C:I.147, C:P.271, C:A.278, C:Y.279, C:L.295
- Hydrogen bonds: C:E.272
- pi-Stacking: C:F.275
- Halogen bonds: C:M.125
JZV.19: 18 residues within 4Å:- Chain M: M.125, A.126, A.128, F.129, Y.132, V.133, S.140, G.143, A.144, I.147, K.270, P.271, E.272, Y.274, F.275, A.278, Y.279, L.295
8 PLIP interactions:8 interactions with chain M- Hydrophobic interactions: M:I.147, M:I.147, M:P.271, M:A.278, M:Y.279, M:L.295
- Hydrogen bonds: M:E.272
- pi-Stacking: M:F.275
- 2 x UQ: Coenzyme Q10, (2Z,6E,10Z,14E,18E,22E,26Z)-isomer(Non-covalent)
UQ.5: 12 residues within 4Å:- Chain C: S.18, L.22, I.28, S.36, A.39, L.198, L.201, 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, C:F.221
- Hydrogen bonds: C:S.206
UQ.20: 15 residues within 4Å:- Chain M: S.18, L.19, 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.17
5 PLIP interactions:5 interactions with chain M- Hydrophobic interactions: M:L.19, M:A.39, M:L.198, M:F.221
- Hydrogen bonds: M:S.206
- 4 x CDL: CARDIOLIPIN(Non-covalent)
CDL.6: 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.7, CDL.10
7 PLIP interactions:1 interactions with chain F, 4 interactions with chain G, 2 interactions with chain C- Salt bridges: F:H.72, G:R.40, G:R.40, G:R.40
- Hydrophobic interactions: G:F.41, C:W.31
- Hydrogen bonds: C:A.30
CDL.10: 15 residues within 4Å:- Chain C: A.30, N.33, G.232, L.235
- 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.6
12 PLIP interactions:3 interactions with chain C, 6 interactions with chain D, 2 interactions with chain G, 1 interactions with chain F- Hydrophobic interactions: C:A.30, D:Y.220, D:Y.220, G:I.26
- Salt bridges: C:K.228, C:K.228, D:K.223, D:R.224, D:K.231, F:R.73
- Hydrogen bonds: D:R.224, G:R.40
CDL.21: 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.22, CDL.25
8 PLIP interactions:1 interactions with chain P, 3 interactions with chain M, 4 interactions with chain Q- Salt bridges: P:H.72, Q:R.40, Q:R.40, Q:R.40
- Hydrophobic interactions: M:W.31, Q:Q.44
- Hydrogen bonds: M:A.30, M:Y.105
CDL.25: 15 residues within 4Å:- Chain M: A.30, N.33, 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.21
14 PLIP interactions:3 interactions with chain Q, 3 interactions with chain M, 7 interactions with chain N, 1 interactions with chain P- Hydrophobic interactions: Q:I.26, Q:I.29, M:A.30, N:Y.220, N:Y.220
- Hydrogen bonds: Q:R.40, N:Y.220, N:R.224
- Salt bridges: M:K.228, M:K.228, N:K.223, N:R.224, N:K.231, P:R.73
- 2 x GOL: GLYCEROL(Non-functional Binders)
GOL.8: 7 residues within 4Å:- Chain C: F.64, V.67, R.81, P.135, N.256, F.257
- Chain D: Y.115
4 PLIP interactions:1 interactions with chain D, 3 interactions with chain C- Hydrogen bonds: D:Y.115, C:R.81, C:R.81, C:N.256
GOL.23: 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.9: 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
13 PLIP interactions:13 interactions with chain D,- Hydrophobic interactions: D:V.36, D:N.105, D:A.108, D:P.110, 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.24: 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
15 PLIP interactions:15 interactions with chain N,- Hydrophobic interactions: N:N.105, N:A.108, N:P.110, 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, N:H.41, N:H.41
- Metal complexes: N:H.41
- 5 x BOG: octyl beta-D-glucopyranoside(Non-covalent)
BOG.11: 11 residues within 4Å:- Chain C: Y.76
- Chain D: Q.200, R.203, M.204, K.207, I.211
- Chain E: Y.49, A.50, N.53, Q.57
- Ligands: BOG.12
9 PLIP interactions:1 interactions with chain J, 4 interactions with chain D, 2 interactions with chain E, 2 interactions with chain C- Hydrogen bonds: J:D.37, D:Q.200, E:N.53, C:Y.76, C:Y.76
- Hydrophobic interactions: D:K.207, D:I.211, E:Y.49
- Salt bridges: D:K.207
BOG.12: 3 residues within 4Å:- Chain D: Q.200, R.203
- Ligands: BOG.11
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:Q.200, D:R.203
BOG.18: 4 residues within 4Å:- Chain M: M.14, L.198, T.199, H.202
1 PLIP interactions:1 interactions with chain M- Salt bridges: M:H.202
BOG.26: 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:1 interactions with chain O, 3 interactions with chain N, 1 interactions with chain M- Hydrogen bonds: O:N.53, N:Q.200
- Hydrophobic interactions: N:K.207, M:L.241
- Salt bridges: N:K.207
BOG.27: 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.13: 10 residues within 4Å:- Chain E: 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 E,- Metal complexes: E:C.139, E:H.141, E:C.158, E:H.161
FES.28: 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 Rieske, 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 2.75 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 JZV: methyl (2E)-(methoxyimino)(2-{[({(1Z)-1-[3-(trifluoromethyl)phenyl]ethylidene}amino)oxy]methyl}phenyl)ethanoate(Non-covalent)
- 2 x UQ: Coenzyme Q10, (2Z,6E,10Z,14E,18E,22E,26Z)-isomer(Non-covalent)
- 4 x CDL: CARDIOLIPIN(Non-covalent)
- 2 x GOL: GLYCEROL(Non-functional Binders)
- 2 x HEC: HEME C(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 Rieske, 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.