- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- hetero-2-2-2-2-mer
- Ligands
- 8 x HEC: HEME C(Covalent)
- 8 x BCB: BACTERIOCHLOROPHYLL B(Non-covalent)(Covalent)
BCB.5: 28 residues within 4Å:- Chain B: F.97, F.121, P.124, I.125, M.127, F.128, V.157, F.160, G.161, Y.162, W.167, H.168, H.173, S.176, V.177, L.180, F.181, I.240, F.241, G.244, T.248
- Chain C: Y.195, Y.208
- Ligands: BCB.6, BPB.7, BCB.14, BCB.15, MQ7.17
22 PLIP interactions:22 interactions with chain B,- Hydrophobic interactions: B:F.97, B:F.97, B:F.121, B:P.124, B:V.157, B:F.160, B:Y.162, B:W.167, B:W.167, B:V.177, B:L.180, B:F.181, B:I.240, B:F.241, B:F.241, B:F.241
- Hydrogen bonds: B:S.176, B:T.248
- pi-Stacking: B:W.167, B:H.168
- pi-Cation interactions: B:H.173
- Metal complexes: B:H.173
BCB.6: 20 residues within 4Å:- Chain B: I.49, F.128, F.146, I.150, H.153, L.154, V.157
- Chain C: Y.195, G.201, I.204, G.205, Y.208, G.209, L.212
- Chain H: V.50
- Ligands: BCB.5, BPB.7, BCB.15, MQ7.17, LDA.23
12 PLIP interactions:5 interactions with chain C, 6 interactions with chain B, 1 interactions with chain H,- Hydrophobic interactions: C:Y.195, C:I.204, C:I.204, C:L.212, B:I.49, B:F.128, B:F.146, B:L.154, B:V.157, H:V.50
- pi-Stacking: C:Y.208
- Metal complexes: B:H.153
BCB.14: 21 residues within 4Å:- Chain B: H.168, M.174, V.177, S.178, F.181, V.182, M.185, V.220
- Chain C: I.49, M.120, F.154, V.155, I.177, W.178, H.180, I.181, L.184
- Ligands: BCB.5, BCB.15, BPB.16, NS1.18
12 PLIP interactions:8 interactions with chain C, 4 interactions with chain B,- Hydrophobic interactions: C:I.49, C:F.154, C:V.155, C:I.177, C:I.181, C:L.184, C:L.184, B:V.177, B:F.181, B:V.182
- Metal complexes: C:H.180
- pi-Stacking: B:F.181
BCB.15: 28 residues within 4Å:- Chain B: Y.162, F.181
- Chain C: I.69, M.120, L.124, F.148, A.151, F.154, V.155, W.183, L.184, T.185, F.187, S.188, F.194, Y.195, H.200, S.203, I.204, A.207, Y.208, M.275, A.278, I.282
- Ligands: BCB.5, BCB.6, BCB.14, BPB.16
24 PLIP interactions:23 interactions with chain C, 1 interactions with chain B,- Hydrophobic interactions: C:I.69, C:L.124, C:F.148, C:A.151, C:F.154, C:F.154, C:F.154, C:V.155, C:W.183, C:L.184, C:F.187, C:F.194, C:Y.195, C:Y.195, C:I.204, C:I.204, C:A.207, C:Y.208
- Hydrogen bonds: C:Y.195, C:S.203
- Salt bridges: C:H.200
- pi-Stacking: C:Y.195
- Metal complexes: C:H.200
- pi-Cation interactions: B:H.168
BCB.28: 28 residues within 4Å:- Chain F: F.97, F.121, P.124, I.125, M.127, F.128, V.157, F.160, G.161, Y.162, W.167, H.168, H.173, S.176, V.177, L.180, F.181, I.240, F.241, G.244, T.248
- Chain G: Y.195, Y.208
- Ligands: BCB.29, BPB.30, BCB.37, BCB.38, MQ7.40
21 PLIP interactions:21 interactions with chain F,- Hydrophobic interactions: F:F.97, F:F.97, F:F.121, F:P.124, F:V.157, F:F.160, F:Y.162, F:W.167, F:W.167, F:V.177, F:L.180, F:F.181, F:I.240, F:F.241, F:F.241, F:F.241
- Hydrogen bonds: F:S.176
- pi-Stacking: F:W.167, F:H.168
- pi-Cation interactions: F:H.173
- Metal complexes: F:H.173
BCB.29: 20 residues within 4Å:- Chain D: V.50
- Chain F: I.49, F.128, F.146, I.150, H.153, L.154, V.157
- Chain G: Y.195, G.201, I.204, G.205, Y.208, G.209, L.212
- Ligands: BCB.28, BPB.30, BCB.38, MQ7.40, LDA.46
12 PLIP interactions:6 interactions with chain F, 5 interactions with chain G, 1 interactions with chain D,- Hydrophobic interactions: F:I.49, F:F.128, F:F.146, F:L.154, F:V.157, G:Y.195, G:I.204, G:I.204, G:L.212, D:V.50
- Metal complexes: F:H.153
- pi-Stacking: G:Y.208
BCB.37: 21 residues within 4Å:- Chain F: H.168, M.174, V.177, S.178, F.181, V.182, M.185, V.220
- Chain G: I.49, M.120, F.154, V.155, I.177, W.178, H.180, I.181, L.184
- Ligands: BCB.28, BCB.38, BPB.39, NS1.41
12 PLIP interactions:4 interactions with chain F, 8 interactions with chain G,- Hydrophobic interactions: F:V.177, F:F.181, F:V.182, G:I.49, G:F.154, G:V.155, G:I.177, G:I.181, G:L.184, G:L.184
- pi-Stacking: F:F.181
- Metal complexes: G:H.180
BCB.38: 28 residues within 4Å:- Chain F: Y.162, F.181
- Chain G: I.69, M.120, L.124, F.148, A.151, F.154, V.155, W.183, L.184, T.185, F.187, S.188, F.194, Y.195, H.200, S.203, I.204, A.207, Y.208, M.275, A.278, I.282
- Ligands: BCB.28, BCB.29, BCB.37, BPB.39
23 PLIP interactions:22 interactions with chain G, 1 interactions with chain F,- Hydrophobic interactions: G:I.69, G:L.124, G:F.148, G:A.151, G:F.154, G:F.154, G:F.154, G:V.155, G:W.183, G:L.184, G:F.187, G:F.194, G:Y.195, G:Y.195, G:I.204, G:I.204, G:A.207, G:Y.208
- Hydrogen bonds: G:S.203
- Salt bridges: G:H.200
- pi-Stacking: G:Y.195
- Metal complexes: G:H.200
- pi-Cation interactions: F:H.168
- 4 x BPB: BACTERIOPHEOPHYTIN B(Non-covalent)
BPB.7: 25 residues within 4Å:- Chain B: I.49, A.93, A.96, F.97, W.100, E.104, V.117, A.120, F.121, V.123, P.124, Y.148, G.149, H.153, A.237, S.238, F.241
- Chain C: Y.208, G.211, L.212, A.216, W.250, I.254
- Ligands: BCB.5, BCB.6
12 PLIP interactions:11 interactions with chain B, 1 interactions with chain C- Hydrophobic interactions: B:I.49, B:A.96, B:A.120, B:F.121, B:F.121, B:V.123, B:P.124, B:Y.148, B:Y.148, B:F.241, C:Y.208
- Hydrogen bonds: B:E.104
BPB.16: 20 residues within 4Å:- Chain B: F.181, M.185, L.189, V.220
- Chain C: F.59, G.62, S.63, I.66, S.123, L.124, W.127, V.131, I.144, N.147, F.148, S.271, M.275
- Ligands: BCB.14, BCB.15, NS1.18
9 PLIP interactions:2 interactions with chain B, 7 interactions with chain C- Hydrophobic interactions: B:F.181, B:L.189, C:F.59, C:I.66, C:N.147, C:F.148, C:F.148, C:F.148, C:F.148
BPB.30: 25 residues within 4Å:- Chain F: I.49, A.93, A.96, F.97, W.100, E.104, V.117, A.120, F.121, V.123, P.124, Y.148, G.149, H.153, A.237, S.238, F.241
- Chain G: Y.208, G.211, L.212, A.216, W.250, I.254
- Ligands: BCB.28, BCB.29
11 PLIP interactions:10 interactions with chain F, 1 interactions with chain G- Hydrophobic interactions: F:I.49, F:A.96, F:A.120, F:F.121, F:F.121, F:V.123, F:P.124, F:Y.148, F:Y.148, F:F.241, G:Y.208
BPB.39: 20 residues within 4Å:- Chain F: F.181, M.185, L.189, V.220
- Chain G: F.59, G.62, S.63, I.66, S.123, L.124, W.127, V.131, I.144, N.147, F.148, S.271, M.275
- Ligands: BCB.37, BCB.38, NS1.41
9 PLIP interactions:2 interactions with chain F, 7 interactions with chain G- Hydrophobic interactions: F:F.181, F:L.189, G:F.59, G:I.66, G:N.147, G:F.148, G:F.148, G:F.148, G:F.148
- 2 x UQ1: UBIQUINONE-1(Non-covalent)
UQ1.8: 13 residues within 4Å:- Chain B: L.189, H.190, L.193, I.194, E.212, N.213, F.216, Y.222, S.223, I.224, G.225, A.226, I.229
6 PLIP interactions:6 interactions with chain B- Hydrophobic interactions: B:L.189, B:F.216, B:F.216, B:I.224
- Hydrogen bonds: B:I.224, B:G.225
UQ1.31: 13 residues within 4Å:- Chain F: L.189, H.190, L.193, I.194, E.212, N.213, F.216, Y.222, S.223, I.224, G.225, A.226, I.229
7 PLIP interactions:7 interactions with chain F- Hydrophobic interactions: F:L.189, F:F.216, F:F.216, F:I.224
- Hydrogen bonds: F:E.212, F:I.224, F:G.225
- 2 x FE: FE (III) ION(Non-covalent)
FE.9: 5 residues within 4Å:- Chain B: H.190, H.230
- Chain C: H.217, E.232, H.264
5 PLIP interactions:3 interactions with chain C, 2 interactions with chain B- Metal complexes: C:H.217, C:E.232, C:H.264, B:H.190, B:H.230
FE.32: 5 residues within 4Å:- Chain F: H.190, H.230
- Chain G: H.217, E.232, H.264
5 PLIP interactions:3 interactions with chain G, 2 interactions with chain F- Metal complexes: G:H.217, G:E.232, G:H.264, F:H.190, F:H.230
- 14 x SO4: SULFATE ION(Non-functional Binders)
SO4.10: 3 residues within 4Å:- Chain B: N.199
- Chain C: H.143, R.265
3 PLIP interactions:2 interactions with chain C, 1 interactions with chain D- Salt bridges: C:H.143, C:R.265
- Water bridges: D:K.66
SO4.11: 4 residues within 4Å:- Chain C: A.1, R.226
- Chain D: T.211, L.246
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:A.1, C:A.1
- Water bridges: C:D.2, C:R.226
- Salt bridges: C:R.226
SO4.12: 7 residues within 4Å:- Chain C: W.23, Y.50, L.51, G.52, A.53, S.54, S.133
7 PLIP interactions:7 interactions with chain C- Hydrogen bonds: C:Y.50, C:A.53, C:S.54, C:S.54, C:S.133
- Water bridges: C:Y.50, C:G.55
SO4.13: 3 residues within 4Å:- Chain C: S.35, Y.36, W.37
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:Y.36, C:W.37
SO4.20: 4 residues within 4Å:- Chain C: R.251
- Chain D: R.33, R.37, Y.41
5 PLIP interactions:1 interactions with chain C, 4 interactions with chain D- Salt bridges: C:R.251, D:R.37
- Hydrogen bonds: D:R.33, D:Y.41
- Water bridges: D:Y.41
SO4.21: 3 residues within 4Å:- Chain D: Y.117, R.233, K.237
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:Y.117
- Salt bridges: D:R.233, D:K.237
SO4.22: 3 residues within 4Å:- Chain D: R.34
- Chain H: R.34
- Ligands: SO4.45
2 PLIP interactions:1 interactions with chain H, 1 interactions with chain D- Salt bridges: H:R.34, D:R.34
SO4.33: 3 residues within 4Å:- Chain F: N.199
- Chain G: H.143, R.265
3 PLIP interactions:2 interactions with chain G, 1 interactions with chain H- Salt bridges: G:H.143, G:R.265
- Water bridges: H:K.66
SO4.34: 4 residues within 4Å:- Chain G: A.1, R.226
- Chain H: T.211, L.246
5 PLIP interactions:4 interactions with chain G, 1 interactions with chain H- Hydrogen bonds: G:A.1, H:T.211
- Water bridges: G:D.2, G:R.226
- Salt bridges: G:R.226
SO4.35: 7 residues within 4Å:- Chain G: W.23, Y.50, L.51, G.52, A.53, S.54, S.133
7 PLIP interactions:7 interactions with chain G- Hydrogen bonds: G:Y.50, G:Y.50, G:A.53, G:S.54, G:S.54, G:S.133
- Water bridges: G:G.55
SO4.36: 3 residues within 4Å:- Chain G: S.35, Y.36, W.37
2 PLIP interactions:2 interactions with chain G- Hydrogen bonds: G:Y.36, G:W.37
SO4.43: 4 residues within 4Å:- Chain G: R.251
- Chain H: R.33, R.37, Y.41
5 PLIP interactions:4 interactions with chain H, 1 interactions with chain G- Hydrogen bonds: H:R.33, H:Y.41, H:Y.41
- Salt bridges: H:R.37, G:R.251
SO4.44: 3 residues within 4Å:- Chain H: Y.117, R.233, K.237
4 PLIP interactions:4 interactions with chain H- Hydrogen bonds: H:Y.117, H:Y.117
- Salt bridges: H:R.233, H:K.237
SO4.45: 3 residues within 4Å:- Chain D: R.34
- Chain H: R.34
- Ligands: SO4.22
2 PLIP interactions:1 interactions with chain H, 1 interactions with chain D- Salt bridges: H:R.34, D:R.34
- 2 x MQ7: MENAQUINONE-7(Non-covalent)
MQ7.17: 20 residues within 4Å:- Chain B: V.26, Y.29, V.31, W.100, R.103
- Chain C: A.216, H.217, T.220, W.250, I.254, F.256, N.257, A.258, T.259, I.260, V.263, W.266, F.270
- Ligands: BCB.5, BCB.6
19 PLIP interactions:13 interactions with chain C, 6 interactions with chain B- Hydrophobic interactions: C:A.216, C:T.220, C:W.250, C:W.250, C:F.256, C:F.256, C:I.260, C:V.263, C:W.266, C:W.266, C:F.270, B:Y.29, B:Y.29, B:Y.29, B:V.31, B:W.100, B:W.100
- Hydrogen bonds: C:H.217, C:A.258
MQ7.40: 20 residues within 4Å:- Chain F: V.26, Y.29, V.31, W.100, R.103
- Chain G: A.216, H.217, T.220, W.250, I.254, F.256, N.257, A.258, T.259, I.260, V.263, W.266, F.270
- Ligands: BCB.28, BCB.29
19 PLIP interactions:13 interactions with chain G, 6 interactions with chain F- Hydrophobic interactions: G:A.216, G:T.220, G:W.250, G:W.250, G:F.256, G:F.256, G:I.260, G:V.263, G:W.266, G:W.266, G:F.270, F:Y.29, F:Y.29, F:Y.29, F:V.31, F:W.100, F:W.100
- Hydrogen bonds: G:T.220, G:A.258
- 2 x NS1: 15-trans-1,2-dihydroneurosporene(Non-covalent)
NS1.18: 18 residues within 4Å:- Chain C: I.66, L.70, M.73, F.88, G.117, L.118, T.121, V.155, G.159, C.160, V.173, P.174, F.175, G.176, I.177, H.180
- Ligands: BCB.14, BPB.16
12 PLIP interactions:12 interactions with chain C- Hydrophobic interactions: C:I.66, C:I.66, C:L.70, C:L.70, C:F.88, C:L.118, C:V.155, C:V.173, C:V.173, C:F.175, C:I.177, C:H.180
NS1.41: 18 residues within 4Å:- Chain G: I.66, L.70, M.73, F.88, G.117, L.118, T.121, V.155, G.159, C.160, V.173, P.174, F.175, G.176, I.177, H.180
- Ligands: BCB.37, BPB.39
12 PLIP interactions:12 interactions with chain G- Hydrophobic interactions: G:I.66, G:I.66, G:L.70, G:L.70, G:F.88, G:L.118, G:V.155, G:V.173, G:V.173, G:F.175, G:I.177, G:H.180
- 4 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)
LDA.19: 7 residues within 4Å:- Chain C: F.202, G.205, F.206, F.256
- Chain D: R.33
- Chain H: P.54, D.56
5 PLIP interactions:2 interactions with chain H, 3 interactions with chain C- Hydrogen bonds: H:D.56
- Salt bridges: H:D.56
- Hydrophobic interactions: C:F.206, C:F.256
- pi-Cation interactions: C:F.256
LDA.23: 11 residues within 4Å:- Chain B: L.151
- Chain C: Y.195, C.197, P.198, G.201, W.295, H.299
- Chain D: Q.14, W.17, Y.18
- Ligands: BCB.6
6 PLIP interactions:3 interactions with chain C, 1 interactions with chain B, 2 interactions with chain D- Hydrophobic interactions: C:P.198, C:P.198, C:W.295, B:L.151, D:W.17, D:W.17
LDA.42: 7 residues within 4Å:- Chain D: P.54, D.56
- Chain G: F.202, G.205, F.206, F.256
- Chain H: R.33
5 PLIP interactions:3 interactions with chain G, 2 interactions with chain D- Hydrophobic interactions: G:F.206, G:F.256
- pi-Cation interactions: G:F.256
- Hydrogen bonds: D:D.56
- Salt bridges: D:D.56
LDA.46: 11 residues within 4Å:- Chain F: L.151
- Chain G: Y.195, C.197, P.198, G.201, W.295, H.299
- Chain H: Q.14, W.17, Y.18
- Ligands: BCB.29
7 PLIP interactions:1 interactions with chain F, 3 interactions with chain H, 3 interactions with chain G- Hydrophobic interactions: F:L.151, H:W.17, H:W.17, G:P.198, G:P.198, G:W.295
- Hydrogen bonds: H:Y.18
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Deisenhofer, J. et al., Crystallographic refinement at 2.3 A resolution and refined model of the photosynthetic reaction centre from Rhodopseudomonas viridis. J.Mol.Biol. (1995)
- Release Date
- 1989-01-09
- Peptides
- PHOTOSYNTHETIC REACTION CENTER: AE
PHOTOSYNTHETIC REACTION CENTER: BF
PHOTOSYNTHETIC REACTION CENTER: CG
PHOTOSYNTHETIC REACTION CENTER: DH - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CE
CB
LF
LC
MG
MD
HH
H - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- hetero-2-2-2-2-mer
- Ligands
- 8 x HEC: HEME C(Covalent)
- 8 x BCB: BACTERIOCHLOROPHYLL B(Non-covalent)(Covalent)
- 4 x BPB: BACTERIOPHEOPHYTIN B(Non-covalent)
- 2 x UQ1: UBIQUINONE-1(Non-covalent)
- 2 x FE: FE (III) ION(Non-covalent)
- 14 x SO4: SULFATE ION(Non-functional Binders)
- 2 x MQ7: MENAQUINONE-7(Non-covalent)
- 2 x NS1: 15-trans-1,2-dihydroneurosporene(Non-covalent)
- 4 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Deisenhofer, J. et al., Crystallographic refinement at 2.3 A resolution and refined model of the photosynthetic reaction centre from Rhodopseudomonas viridis. J.Mol.Biol. (1995)
- Release Date
- 1989-01-09
- Peptides
- PHOTOSYNTHETIC REACTION CENTER: AE
PHOTOSYNTHETIC REACTION CENTER: BF
PHOTOSYNTHETIC REACTION CENTER: CG
PHOTOSYNTHETIC REACTION CENTER: DH - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CE
CB
LF
LC
MG
MD
HH
H - Membrane
-
We predict this structure to be a membrane protein.