- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.00 Å
- Oligo State
- hetero-2-2-2-2-2-2-2-2-mer
- Ligands
- 8 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)
- 6 x UMQ: UNDECYL-MALTOSIDE(Non-covalent)
UMQ.4: 15 residues within 4Å:- Chain A: N.74, E.75, V.76, N.77, F.78, W.80, L.81
- Chain B: F.48, V.52
- Chain C: N.253, R.254, W.257, F.261
- Chain D: G.33, A.34
13 PLIP interactions:5 interactions with chain C, 6 interactions with chain A, 2 interactions with chain B- Hydrophobic interactions: C:R.254, C:W.257, C:F.261, C:F.261, A:F.78, A:L.81, B:F.48, B:V.52
- Hydrogen bonds: C:D.251, A:E.75, A:N.77, A:F.78, A:W.80
UMQ.5: 7 residues within 4Å:- Chain A: N.3, Y.5, I.14, I.17, A.18
- Ligands: UMQ.6, SQD.9
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:I.14, A:I.17
- Hydrogen bonds: A:N.3
UMQ.6: 9 residues within 4Å:- Chain A: Q.15, A.18, E.19, V.21, T.22
- Chain B: W.32
- Chain C: N.288
- Ligands: UMQ.5, SQD.9
7 PLIP interactions:2 interactions with chain C, 2 interactions with chain B, 3 interactions with chain A- Hydrogen bonds: C:N.288, C:N.288, A:Q.15, A:E.19
- Hydrophobic interactions: B:W.32, B:W.32, A:V.21
UMQ.17: 15 residues within 4Å:- Chain I: N.74, E.75, V.76, N.77, F.78, W.80, L.81
- Chain J: F.48, V.52
- Chain K: N.253, R.254, W.257, F.261
- Chain L: G.33, A.34
12 PLIP interactions:4 interactions with chain K, 2 interactions with chain J, 6 interactions with chain I- Hydrophobic interactions: K:R.254, K:W.257, K:F.261, K:F.261, J:F.48, J:V.52, I:F.78, I:L.81
- Hydrogen bonds: I:E.75, I:N.77, I:F.78, I:W.80
UMQ.18: 7 residues within 4Å:- Chain I: N.3, Y.5, I.14, I.17, A.18
- Ligands: UMQ.19, SQD.22
3 PLIP interactions:3 interactions with chain I- Hydrophobic interactions: I:I.14, I:I.17
- Hydrogen bonds: I:N.3
UMQ.19: 9 residues within 4Å:- Chain I: Q.15, A.18, E.19, V.21, T.22
- Chain J: W.32
- Chain K: N.288
- Ligands: UMQ.18, SQD.22
9 PLIP interactions:2 interactions with chain K, 2 interactions with chain J, 5 interactions with chain I- Hydrogen bonds: K:N.288, K:N.288, I:Q.15, I:E.19, I:E.19, I:T.22
- Hydrophobic interactions: J:W.32, J:W.32, I:V.21
- 2 x CLA: CHLOROPHYLL A(Non-covalent)
CLA.7: 19 residues within 4Å:- Chain A: I.98, F.102, Y.105, A.125, V.129
- Chain B: Y.80, P.83, V.84, I.87, M.101, V.104, L.108, I.109, V.132, F.133, G.136, V.139, T.140
- Ligands: OPC.8
15 PLIP interactions:5 interactions with chain A, 9 interactions with chain B, 1 Ligand-Water interactions,- Hydrophobic interactions: A:I.98, A:F.102, A:Y.105, A:Y.105, A:V.129, B:V.84, B:I.87, B:V.104, B:V.104, B:I.109, B:V.132, B:F.133, B:V.139
- Hydrogen bonds: B:V.84
- Metal complexes: H2O.1
CLA.20: 19 residues within 4Å:- Chain I: I.98, F.102, Y.105, A.125, V.129
- Chain J: Y.80, P.83, V.84, I.87, M.101, V.104, L.108, I.109, V.132, F.133, G.136, V.139, T.140
- Ligands: OPC.21
15 PLIP interactions:5 interactions with chain I, 9 interactions with chain J, 1 Ligand-Water interactions,- Hydrophobic interactions: I:I.98, I:F.102, I:Y.105, I:Y.105, I:V.129, J:V.84, J:I.87, J:V.104, J:V.104, J:I.109, J:V.132, J:F.133, J:V.139
- Hydrogen bonds: J:V.84
- Metal complexes: H2O.1
- 4 x OPC: (7R,17E)-4-HYDROXY-N,N,N,7-TETRAMETHYL-7-[(8E)-OCTADEC-8-ENOYLOXY]-10-OXO-3,5,9-TRIOXA-4-PHOSPHAHEPTACOS-17-EN-1-AMINIUM 4-OXIDE(Non-covalent)
OPC.8: 15 residues within 4Å:- Chain B: I.87, S.103, V.104, L.108, V.111, I.114, E.115, N.118, R.125, R.126, P.127, V.128, A.129, V.132
- Ligands: CLA.7
8 PLIP interactions:8 interactions with chain B- Hydrophobic interactions: B:I.87, B:V.111, B:I.114, B:V.132
- Hydrogen bonds: B:E.115, B:N.118, B:V.128, B:A.129
OPC.13: 21 residues within 4Å:- Chain A: M.92, M.96
- Chain B: S.47, C.50
- Chain C: P.37, Q.38
- Chain E: A.3, Y.7, I.8
- Chain F: E.4, L.11, S.12
- Chain G: L.5, I.9
- Chain H: M.1, T.5, W.8, L.11, L.12, F.15
- Ligands: BCR.12
17 PLIP interactions:7 interactions with chain H, 1 interactions with chain C, 2 interactions with chain G, 3 interactions with chain F, 1 interactions with chain A, 3 interactions with chain E- Hydrophobic interactions: H:W.8, H:W.8, H:L.11, H:L.12, H:L.12, H:F.15, H:F.15, G:L.5, G:I.9, F:L.11, F:L.11, A:M.92, E:A.3, E:Y.7, E:Y.7
- Hydrogen bonds: C:Q.38, F:E.4
OPC.21: 15 residues within 4Å:- Chain J: I.87, S.103, V.104, L.108, V.111, I.114, E.115, N.118, R.125, R.126, P.127, V.128, A.129, V.132
- Ligands: CLA.20
7 PLIP interactions:7 interactions with chain J- Hydrophobic interactions: J:I.87, J:V.111, J:I.114, J:V.132
- Hydrogen bonds: J:N.118, J:V.128, J:A.129
OPC.26: 21 residues within 4Å:- Chain I: M.92, M.96
- Chain J: S.47, C.50
- Chain K: P.37, Q.38
- Chain M: A.3, Y.7, I.8
- Chain N: E.4, L.11, S.12
- Chain O: L.5, I.9
- Chain P: M.1, T.5, W.8, L.11, L.12, F.15
- Ligands: BCR.25
16 PLIP interactions:7 interactions with chain P, 2 interactions with chain O, 1 interactions with chain I, 2 interactions with chain N, 3 interactions with chain M, 1 interactions with chain K- Hydrophobic interactions: P:W.8, P:W.8, P:L.11, P:L.12, P:L.12, P:F.15, P:F.15, O:L.5, O:I.9, I:M.92, N:L.11, N:L.11, M:A.3, M:Y.7, M:Y.7
- Hydrogen bonds: K:Q.38
- 2 x SQD: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL(Non-covalent)
SQD.9: 11 residues within 4Å:- Chain B: W.32, P.33, Y.38
- Chain C: K.275, V.279
- Chain D: R.16, N.20, F.24, T.28
- Ligands: UMQ.5, UMQ.6
6 PLIP interactions:3 interactions with chain D, 2 interactions with chain B, 1 interactions with chain C- Hydrophobic interactions: D:F.24
- Hydrogen bonds: D:N.20, B:W.32, B:Y.38
- Salt bridges: D:R.16, C:K.275
SQD.22: 11 residues within 4Å:- Chain J: W.32, P.33, Y.38
- Chain K: K.275, V.279
- Chain L: R.16, N.20, F.24, T.28
- Ligands: UMQ.18, UMQ.19
6 PLIP interactions:1 interactions with chain K, 3 interactions with chain L, 2 interactions with chain J- Salt bridges: K:K.275, L:R.16
- Hydrophobic interactions: L:F.24
- Hydrogen bonds: L:N.20, J:W.32, J:Y.38
- 2 x FES: FE2/S2 (INORGANIC) CLUSTER(Covalent)
FES.11: 10 residues within 4Å:- Chain D: C.108, H.110, L.111, C.113, C.126, C.128, H.129, G.130, S.131, P.143
4 PLIP interactions:4 interactions with chain D,- Metal complexes: D:C.108, D:H.110, D:C.126, D:H.129
FES.24: 10 residues within 4Å:- Chain L: C.108, H.110, L.111, C.113, C.126, C.128, H.129, G.130, S.131, P.143
4 PLIP interactions:4 interactions with chain L,- Metal complexes: L:C.108, L:H.110, L:C.126, L:H.129
- 2 x BCR: BETA-CAROTENE(Non-covalent)
BCR.12: 18 residues within 4Å:- Chain A: I.32, F.33, I.39, L.99
- Chain B: V.43
- Chain F: I.16, F.17, W.20
- Chain G: L.13, V.16, T.17, A.19, G.20, Y.23
- Chain H: F.15, S.18, I.19
- Ligands: OPC.13
20 PLIP interactions:3 interactions with chain H, 6 interactions with chain A, 5 interactions with chain F, 5 interactions with chain G, 1 interactions with chain B- Hydrophobic interactions: H:F.15, H:I.19, H:I.19, A:I.32, A:I.32, A:F.33, A:F.33, A:I.39, A:L.99, F:I.16, F:I.16, F:F.17, F:F.17, F:W.20, G:L.13, G:A.19, G:Y.23, G:Y.23, G:Y.23, B:V.43
BCR.25: 18 residues within 4Å:- Chain I: I.32, F.33, I.39, L.99
- Chain J: V.43
- Chain N: I.16, F.17, W.20
- Chain O: L.13, V.16, T.17, A.19, G.20, Y.23
- Chain P: F.15, S.18, I.19
- Ligands: OPC.26
20 PLIP interactions:6 interactions with chain I, 5 interactions with chain O, 5 interactions with chain N, 3 interactions with chain P, 1 interactions with chain J- Hydrophobic interactions: I:I.32, I:I.32, I:F.33, I:F.33, I:I.39, I:L.99, O:L.13, O:A.19, O:Y.23, O:Y.23, O:Y.23, N:I.16, N:I.16, N:F.17, N:F.17, N:W.20, P:F.15, P:I.19, P:I.19, J:V.43
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Baniulis, D. et al., Structure-Function, Stability, and Chemical Modification of the Cyanobacterial Cytochrome b6f Complex from Nostoc sp. PCC 7120. J.Biol.Chem. (2009)
- Release Date
- 2009-02-10
- Peptides
- Cytochrome b6: AI
Cytochrome b6-f complex subunit 4: BJ
Apocytochrome f: CK
Cytochrome b6-f complex iron-sulfur subunit 1: DL
Cytochrome b6-f complex subunit 6: EM
Cytochrome b6-f complex subunit 7: FN
Cytochrome b6-f complex subunit 5: GO
Cytochrome b6-f complex subunit 8: HP - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AI
AB
BJ
BC
CK
CD
DL
DE
EM
EF
FN
FG
GO
GH
HP
H - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.00 Å
- Oligo State
- hetero-2-2-2-2-2-2-2-2-mer
- Ligands
- 8 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)
- 6 x UMQ: UNDECYL-MALTOSIDE(Non-covalent)
- 2 x CLA: CHLOROPHYLL A(Non-covalent)
- 4 x OPC: (7R,17E)-4-HYDROXY-N,N,N,7-TETRAMETHYL-7-[(8E)-OCTADEC-8-ENOYLOXY]-10-OXO-3,5,9-TRIOXA-4-PHOSPHAHEPTACOS-17-EN-1-AMINIUM 4-OXIDE(Non-covalent)
- 2 x SQD: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL(Non-covalent)
- 2 x FES: FE2/S2 (INORGANIC) CLUSTER(Covalent)
- 2 x BCR: BETA-CAROTENE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Baniulis, D. et al., Structure-Function, Stability, and Chemical Modification of the Cyanobacterial Cytochrome b6f Complex from Nostoc sp. PCC 7120. J.Biol.Chem. (2009)
- Release Date
- 2009-02-10
- Peptides
- Cytochrome b6: AI
Cytochrome b6-f complex subunit 4: BJ
Apocytochrome f: CK
Cytochrome b6-f complex iron-sulfur subunit 1: DL
Cytochrome b6-f complex subunit 6: EM
Cytochrome b6-f complex subunit 7: FN
Cytochrome b6-f complex subunit 5: GO
Cytochrome b6-f complex subunit 8: HP - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AI
AB
BJ
BC
CK
CD
DL
DE
EM
EF
FN
FG
GO
GH
HP
H - Membrane
-
We predict this structure to be a membrane protein.