- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- hetero-2-2-2-2-mer
- Ligands
- 8 x HEC: HEME C(Covalent)
- 14 x SO4: SULFATE ION(Non-functional Binders)
SO4.5: 6 residues within 4Å:- Chain B: R.33, R.37, Y.41, L.43, E.61
- Chain D: R.251
7 PLIP interactions:5 interactions with chain B, 2 interactions with chain D- Hydrogen bonds: B:R.33, B:Y.41, B:E.61
- Water bridges: B:R.37, D:R.251
- Salt bridges: B:R.37, D:R.251
SO4.6: 5 residues within 4Å:- Chain B: Y.117, E.119, E.122, R.233, K.237
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:Y.117
- Salt bridges: B:R.233, B:K.237
SO4.7: 5 residues within 4Å:- Chain B: R.34
- Chain F: L.30, R.34
- Ligands: LDA.9, SO4.34
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain F- Salt bridges: B:R.34, F:R.34
SO4.17: 3 residues within 4Å:- Chain C: N.199
- Chain D: H.143, R.265
5 PLIP interactions:3 interactions with chain B, 2 interactions with chain D- Water bridges: B:Y.31, B:K.66, B:K.66
- Salt bridges: D:H.143, D:R.265
SO4.18: 3 residues within 4Å:- Chain B: L.246
- Chain D: A.1, R.226
6 PLIP interactions:1 interactions with chain B, 5 interactions with chain D- Water bridges: B:T.211, D:D.2, D:R.226
- Hydrogen bonds: D:A.1, D:A.1
- Salt bridges: D:R.226
SO4.19: 8 residues within 4Å:- Chain D: W.23, Y.50, G.52, A.53, S.54, I.129, S.133
- Ligands: LDA.26
8 PLIP interactions:8 interactions with chain D- Hydrogen bonds: D:Y.50, D:A.53, D:S.54, D:S.54, D:S.54, D:S.133
- Water bridges: D:G.55, D:R.134
SO4.20: 3 residues within 4Å:- Chain D: S.35, Y.36, W.37
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:Y.36, D:W.37
SO4.32: 6 residues within 4Å:- Chain F: R.33, R.37, Y.41, L.43, E.61
- Chain H: R.251
6 PLIP interactions:4 interactions with chain F, 2 interactions with chain H- Hydrogen bonds: F:R.33, F:E.61
- Water bridges: F:R.37, H:R.251
- Salt bridges: F:R.37, H:R.251
SO4.33: 5 residues within 4Å:- Chain F: Y.117, E.119, E.122, R.233, K.237
3 PLIP interactions:3 interactions with chain F- Hydrogen bonds: F:E.122
- Salt bridges: F:R.233, F:K.237
SO4.34: 5 residues within 4Å:- Chain B: L.30, R.34
- Chain F: R.34
- Ligands: SO4.7, LDA.36
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain F- Salt bridges: B:R.34, F:R.34
SO4.44: 3 residues within 4Å:- Chain G: N.199
- Chain H: H.143, R.265
4 PLIP interactions:2 interactions with chain H, 2 interactions with chain F- Salt bridges: H:H.143, H:R.265
- Water bridges: F:K.66, F:K.66
SO4.45: 3 residues within 4Å:- Chain F: L.246
- Chain H: A.1, R.226
6 PLIP interactions:6 interactions with chain H- Hydrogen bonds: H:A.1, H:A.1
- Water bridges: H:D.2, H:R.226, H:R.226
- Salt bridges: H:R.226
SO4.46: 8 residues within 4Å:- Chain H: W.23, Y.50, G.52, A.53, S.54, I.129, S.133
- Ligands: LDA.53
7 PLIP interactions:7 interactions with chain H- Hydrogen bonds: H:A.53, H:S.54, H:S.54, H:S.54, H:S.133
- Water bridges: H:G.55, H:R.134
SO4.47: 3 residues within 4Å:- Chain H: S.35, Y.36, W.37
2 PLIP interactions:2 interactions with chain H- Hydrogen bonds: H:Y.36, H:W.37
- 12 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)
LDA.8: 8 residues within 4Å:- Chain B: L.29, R.33
- Chain D: G.205, F.206, F.256, F.270
- Chain F: D.56
- Ligands: MQ9.24
6 PLIP interactions:4 interactions with chain D, 2 interactions with chain F- Hydrophobic interactions: D:F.206, D:F.256, D:F.270
- pi-Cation interactions: D:F.256
- Hydrogen bonds: F:D.56
- Salt bridges: F:D.56
LDA.9: 10 residues within 4Å:- Chain B: V.59, Y.60, L.62, P.63, Y.64, P.79, R.80, R.81
- Chain F: L.30
- Ligands: SO4.7
6 PLIP interactions:6 interactions with chain B- Hydrophobic interactions: B:V.59, B:Y.64, B:P.79, B:R.80, B:R.81
- pi-Cation interactions: B:Y.64
LDA.14: 12 residues within 4Å:- Chain B: W.17
- Chain C: D.60, F.62, L.151
- Chain D: Y.195, C.197, P.198, W.295, C.296, H.299, G.300, A.301
8 PLIP interactions:4 interactions with chain D, 1 interactions with chain B, 3 interactions with chain C- Hydrophobic interactions: D:P.198, D:W.295, D:H.299, D:A.301, B:W.17, C:L.151
- Hydrogen bonds: C:D.60
- Salt bridges: C:D.60
LDA.15: 5 residues within 4Å:- Chain C: Y.29
- Chain D: I.254, F.256
- Ligands: BCB.11, MQ9.24
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:Y.29
LDA.26: 6 residues within 4Å:- Chain D: W.23, S.54, A.57, G.125, S.126
- Ligands: SO4.19
1 PLIP interactions:1 interactions with chain D- Hydrophobic interactions: D:A.57
LDA.27: 4 residues within 4Å:- Chain D: F.71, N.72, H.108, W.112
2 PLIP interactions:2 interactions with chain D- Hydrophobic interactions: D:W.112, D:W.112
LDA.35: 8 residues within 4Å:- Chain B: D.56
- Chain F: L.29, R.33
- Chain H: G.205, F.206, F.256, F.270
- Ligands: MQ9.51
6 PLIP interactions:4 interactions with chain H, 2 interactions with chain B- Hydrophobic interactions: H:F.206, H:F.256, H:F.270
- pi-Cation interactions: H:F.256
- Hydrogen bonds: B:D.56
- Salt bridges: B:D.56
LDA.36: 10 residues within 4Å:- Chain B: L.30
- Chain F: V.59, Y.60, L.62, P.63, Y.64, P.79, R.80, R.81
- Ligands: SO4.34
6 PLIP interactions:6 interactions with chain F- Hydrophobic interactions: F:V.59, F:Y.64, F:P.79, F:R.80, F:R.81
- pi-Cation interactions: F:Y.64
LDA.41: 12 residues within 4Å:- Chain F: W.17
- Chain G: D.60, F.62, L.151
- Chain H: Y.195, C.197, P.198, W.295, C.296, H.299, G.300, A.301
8 PLIP interactions:4 interactions with chain H, 1 interactions with chain F, 3 interactions with chain G- Hydrophobic interactions: H:P.198, H:W.295, H:H.299, H:A.301, F:W.17, G:L.151
- Hydrogen bonds: G:D.60
- Salt bridges: G:D.60
LDA.42: 5 residues within 4Å:- Chain G: Y.29
- Chain H: I.254, F.256
- Ligands: BCB.38, MQ9.51
2 PLIP interactions:2 interactions with chain G- Hydrogen bonds: G:Y.29, G:Y.29
LDA.53: 6 residues within 4Å:- Chain H: W.23, S.54, A.57, G.125, S.126
- Ligands: SO4.46
1 PLIP interactions:1 interactions with chain H- Hydrophobic interactions: H:A.57
LDA.54: 4 residues within 4Å:- Chain H: F.71, N.72, H.108, W.112
2 PLIP interactions:2 interactions with chain H- Hydrophobic interactions: H:W.112, H:W.112
- 8 x BCB: BACTERIOCHLOROPHYLL B(Non-covalent)
BCB.10: 33 residues within 4Å:- Chain C: F.97, F.121, P.124, I.125, M.127, F.128, L.131, V.157, N.158, F.160, G.161, Y.162, W.167, H.168, G.172, H.173, S.176, V.177, L.180, F.181, I.240, F.241, G.244, G.247, T.248
- Chain D: L.184, Y.195, Y.208
- Ligands: BCB.11, BPB.12, BCB.21, BCB.22, MQ9.24
18 PLIP interactions:18 interactions with chain C,- Hydrophobic interactions: C:F.97, C:F.121, C:P.124, C:F.128, C:F.160, C:Y.162, C:W.167, C:W.167, C:W.167, C:V.177, C:L.180, C:F.181, C:I.240, C:F.241, C:F.241
- Hydrogen bonds: C:S.176
- pi-Stacking: C:W.167
- Metal complexes: C:H.173
BCB.11: 20 residues within 4Å:- Chain C: I.49, F.128, F.146, I.150, L.151, H.153, L.154, V.157
- Chain D: Y.195, G.201, I.204, G.205, Y.208, L.212, F.270
- Ligands: BCB.10, BPB.12, LDA.15, BCB.22, MQ9.24
13 PLIP interactions:7 interactions with chain D, 6 interactions with chain C,- Hydrophobic interactions: D:Y.195, D:I.204, D:I.204, D:Y.208, D:L.212, D:F.270, C:I.49, C:F.128, C:F.146, C:L.154, C:V.157
- pi-Stacking: D:Y.208
- Metal complexes: C:H.153
BCB.21: 23 residues within 4Å:- Chain C: H.168, M.174, V.177, S.178, F.181, V.182, M.185, V.220
- Chain D: M.120, F.154, V.155, I.158, I.177, W.178, H.180, I.181, W.183, L.184
- Ligands: BCB.10, UQ7.13, BCB.22, BPB.23, NS5.25
13 PLIP interactions:5 interactions with chain C, 8 interactions with chain D,- Hydrophobic interactions: C:V.177, C:F.181, C:M.185, C:V.220, D:F.154, D:V.155, D:I.158, D:I.177, D:I.181, D:W.183, D:L.184
- pi-Stacking: C:F.181
- Metal complexes: D:H.180
BCB.22: 33 residues within 4Å:- Chain C: V.157, Y.162, F.181
- Chain D: G.62, I.66, I.69, M.120, L.124, F.148, A.151, F.154, V.155, I.158, 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, G.281, I.282
- Ligands: BCB.10, BCB.11, BCB.21, BPB.23
20 PLIP interactions:20 interactions with chain D,- Hydrophobic interactions: D:I.66, D:I.69, D:L.124, D:F.148, D:A.151, D:F.154, D:F.154, D:V.155, D:W.183, D:L.184, D:F.187, D:F.194, D:Y.195, D:Y.195, D:I.204, D:A.207, D:Y.208
- Hydrogen bonds: D:S.203
- Salt bridges: D:H.200
- Metal complexes: D:H.200
BCB.37: 33 residues within 4Å:- Chain G: F.97, F.121, P.124, I.125, M.127, F.128, L.131, V.157, N.158, F.160, G.161, Y.162, W.167, H.168, G.172, H.173, S.176, V.177, L.180, F.181, I.240, F.241, G.244, G.247, T.248
- Chain H: L.184, Y.195, Y.208
- Ligands: BCB.38, BPB.39, BCB.48, BCB.49, MQ9.51
19 PLIP interactions:19 interactions with chain G,- Hydrophobic interactions: G:F.97, G:F.121, G:P.124, G:F.128, G:F.160, G:Y.162, G:W.167, G:W.167, G:W.167, G:V.177, G:L.180, G:F.181, G:I.240, G:F.241, G:F.241
- Hydrogen bonds: G:S.176, G:T.248
- pi-Stacking: G:W.167
- Metal complexes: G:H.173
BCB.38: 20 residues within 4Å:- Chain G: I.49, F.128, F.146, I.150, L.151, H.153, L.154, V.157
- Chain H: Y.195, G.201, I.204, G.205, Y.208, L.212, F.270
- Ligands: BCB.37, BPB.39, LDA.42, BCB.49, MQ9.51
13 PLIP interactions:6 interactions with chain G, 7 interactions with chain H,- Hydrophobic interactions: G:I.49, G:F.128, G:F.146, G:L.154, G:V.157, H:Y.195, H:I.204, H:I.204, H:Y.208, H:L.212, H:F.270
- Metal complexes: G:H.153
- pi-Stacking: H:Y.208
BCB.48: 23 residues within 4Å:- Chain G: H.168, M.174, V.177, S.178, F.181, V.182, M.185, V.220
- Chain H: M.120, F.154, V.155, I.158, I.177, W.178, H.180, I.181, W.183, L.184
- Ligands: BCB.37, UQ7.40, BCB.49, BPB.50, NS5.52
13 PLIP interactions:5 interactions with chain G, 8 interactions with chain H,- Hydrophobic interactions: G:V.177, G:F.181, G:M.185, G:V.220, H:F.154, H:V.155, H:I.158, H:I.177, H:I.181, H:W.183, H:L.184
- pi-Stacking: G:F.181
- Metal complexes: H:H.180
BCB.49: 33 residues within 4Å:- Chain G: V.157, Y.162, F.181
- Chain H: G.62, I.66, I.69, M.120, L.124, F.148, A.151, F.154, V.155, I.158, 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, G.281, I.282
- Ligands: BCB.37, BCB.38, BCB.48, BPB.50
21 PLIP interactions:21 interactions with chain H,- Hydrophobic interactions: H:I.66, H:I.69, H:L.124, H:F.148, H:A.151, H:F.154, H:F.154, H:V.155, H:W.183, H:L.184, H:F.187, H:F.194, H:Y.195, H:Y.195, H:I.204, H:A.207, H:Y.208
- Hydrogen bonds: H:Y.195, H:S.203
- Salt bridges: H:H.200
- Metal complexes: H:H.200
- 4 x BPB: BACTERIOPHEOPHYTIN B(Non-covalent)
BPB.12: 29 residues within 4Å:- Chain C: F.41, I.42, G.45, I.49, A.93, A.96, F.97, W.100, E.104, V.117, A.120, F.121, V.123, P.124, F.128, Y.148, G.149, I.150, H.153, A.237, F.241
- Chain D: Y.208, G.211, L.212, W.250, I.254
- Ligands: BCB.10, BCB.11, MQ9.24
16 PLIP interactions:15 interactions with chain C, 1 interactions with chain D- Hydrophobic interactions: C:I.42, C:I.42, C:I.49, C:A.96, C:A.120, C:F.121, C:F.121, C:F.121, C:V.123, C:P.124, C:F.128, C:Y.148, C:Y.148, C:F.241, C:F.241, D:Y.208
BPB.23: 23 residues within 4Å:- Chain C: F.181, M.185, L.189, F.216, V.220
- Chain D: A.58, F.59, G.62, S.63, I.66, S.123, L.124, W.127, V.131, I.144, N.147, F.148, A.151, S.271, V.274, M.275
- Ligands: BCB.21, BCB.22
12 PLIP interactions:2 interactions with chain C, 10 interactions with chain D- Hydrophobic interactions: C:F.181, C:L.189, D:F.59, D:F.59, D:I.66, D:W.127, D:N.147, D:F.148, D:F.148, D:F.148, D:F.148, D:V.274
BPB.39: 29 residues within 4Å:- Chain G: F.41, I.42, G.45, I.49, A.93, A.96, F.97, W.100, E.104, V.117, A.120, F.121, V.123, P.124, F.128, Y.148, G.149, I.150, H.153, A.237, F.241
- Chain H: Y.208, G.211, L.212, W.250, I.254
- Ligands: BCB.37, BCB.38, MQ9.51
17 PLIP interactions:16 interactions with chain G, 1 interactions with chain H- Hydrophobic interactions: G:I.42, G:I.42, G:I.49, G:A.96, G:A.120, G:F.121, G:F.121, G:F.121, G:V.123, G:P.124, G:F.128, G:Y.148, G:Y.148, G:F.241, G:F.241, H:Y.208
- Hydrogen bonds: G:E.104
BPB.50: 23 residues within 4Å:- Chain G: F.181, M.185, L.189, F.216, V.220
- Chain H: A.58, F.59, G.62, S.63, I.66, S.123, L.124, W.127, V.131, I.144, N.147, F.148, A.151, S.271, V.274, M.275
- Ligands: BCB.48, BCB.49
12 PLIP interactions:10 interactions with chain H, 2 interactions with chain G- Hydrophobic interactions: H:F.59, H:F.59, H:I.66, H:W.127, H:N.147, H:F.148, H:F.148, H:F.148, H:F.148, H:V.274, G:F.181, G:L.189
- 2 x UQ7: UBIQUINONE-7(Non-covalent)
UQ7.13: 23 residues within 4Å:- Chain C: S.175, S.178, F.179, V.182, L.189, H.190, L.193, I.194, E.212, N.213, F.216, V.220, Y.222, S.223, I.224, G.225, A.226, I.229, L.232, L.236, T.243, F.246
- Ligands: BCB.21
20 PLIP interactions:20 interactions with chain C- Hydrophobic interactions: C:F.179, C:F.179, C:F.179, C:V.182, C:V.182, C:L.189, C:F.216, C:F.216, C:V.220, C:I.224, C:I.224, C:I.229, C:I.229, C:L.232, C:L.236, C:F.246
- Hydrogen bonds: C:H.190, C:E.212, C:I.224, C:G.225
UQ7.40: 23 residues within 4Å:- Chain G: S.175, S.178, F.179, V.182, L.189, H.190, L.193, I.194, E.212, N.213, F.216, V.220, Y.222, S.223, I.224, G.225, A.226, I.229, L.232, L.236, T.243, F.246
- Ligands: BCB.48
18 PLIP interactions:18 interactions with chain G- Hydrophobic interactions: G:F.179, G:F.179, G:F.179, G:V.182, G:V.182, G:L.189, G:F.216, G:F.216, G:V.220, G:I.224, G:I.224, G:I.229, G:I.229, G:L.232, G:L.236, G:F.246
- Hydrogen bonds: G:I.224, G:G.225
- 2 x FE2: FE (II) ION(Non-covalent)
FE2.16: 5 residues within 4Å:- Chain C: H.190, H.230
- Chain D: H.217, E.232, H.264
5 PLIP interactions:3 interactions with chain D, 2 interactions with chain C- Metal complexes: D:H.217, D:E.232, D:H.264, C:H.190, C:H.230
FE2.43: 5 residues within 4Å:- Chain G: H.190, H.230
- Chain H: H.217, E.232, H.264
5 PLIP interactions:2 interactions with chain G, 3 interactions with chain H- Metal complexes: G:H.190, G:H.230, H:H.217, H:E.232, H:H.264
- 2 x MQ9: MENAQUINONE-9(Non-covalent)
MQ9.24: 33 residues within 4Å:- Chain C: Y.29, F.30, G.35, I.42, F.43, V.46, W.100, R.103
- Chain D: L.212, L.213, A.216, H.217, T.220, V.243, A.246, A.247, W.250, I.254, F.256, N.257, A.258, T.259, I.260, V.263, W.266, F.270
- Chain F: V.50, K.51
- Ligands: LDA.8, BCB.10, BCB.11, BPB.12, LDA.15
27 PLIP interactions:11 interactions with chain C, 16 interactions with chain D- Hydrophobic interactions: C:Y.29, C:Y.29, C:Y.29, C:I.42, C:I.42, C:F.43, C:V.46, C:V.46, C:W.100, C:W.100, C:W.100, D:L.212, D:L.213, D:A.246, D:W.250, D:I.254, D:I.254, D:F.256, D:F.256, D:A.258, D:I.260, D:V.263, D:W.266, D:W.266, D:F.270
- Hydrogen bonds: D:T.220, D:A.258
MQ9.51: 33 residues within 4Å:- Chain B: V.50, K.51
- Chain G: Y.29, F.30, G.35, I.42, F.43, V.46, W.100, R.103
- Chain H: L.212, L.213, A.216, H.217, T.220, V.243, A.246, A.247, W.250, I.254, F.256, N.257, A.258, T.259, I.260, V.263, W.266, F.270
- Ligands: LDA.35, BCB.37, BCB.38, BPB.39, LDA.42
27 PLIP interactions:16 interactions with chain H, 11 interactions with chain G- Hydrophobic interactions: H:L.212, H:L.213, H:A.246, H:W.250, H:I.254, H:I.254, H:F.256, H:F.256, H:A.258, H:I.260, H:V.263, H:W.266, H:W.266, H:F.270, G:Y.29, G:Y.29, G:Y.29, G:I.42, G:I.42, G:F.43, G:V.46, G:V.46, G:W.100, G:W.100, G:W.100
- Hydrogen bonds: H:H.217, H:A.258
- 2 x NS5: 15-cis-1,2-dihydroneurosporene(Non-covalent)
NS5.25: 21 residues within 4Å:- Chain D: I.66, I.69, L.70, M.73, F.88, L.114, G.117, L.118, M.120, T.121, V.155, G.159, C.160, W.169, V.173, P.174, F.175, G.176, I.177, H.180
- Ligands: BCB.21
13 PLIP interactions:13 interactions with chain D- Hydrophobic interactions: D:I.66, D:I.66, D:I.69, D:L.114, D:L.114, D:W.169, D:V.173, D:V.173, D:F.175, D:F.175, D:F.175, D:I.177, D:H.180
NS5.52: 21 residues within 4Å:- Chain H: I.66, I.69, L.70, M.73, F.88, L.114, G.117, L.118, M.120, T.121, V.155, G.159, C.160, W.169, V.173, P.174, F.175, G.176, I.177, H.180
- Ligands: BCB.48
13 PLIP interactions:13 interactions with chain H- Hydrophobic interactions: H:I.66, H:I.66, H:I.69, H:L.114, H:L.114, H:W.169, H:V.173, H:V.173, H:F.175, H:F.175, H:F.175, H:I.177, H:H.180
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Baxter, R.H. et al., Cryogenic structure of the photosynthetic reaction center of Blastochloris viridis in the light and dark. Acta Crystallogr.,Sect.D (2005)
- Release Date
- 2005-03-22
- Peptides
- Photosynthetic reaction center cytochrome c subunit: AE
Reaction center protein H chain: BF
Reaction center protein L chain: CG
Reaction center protein M chain: DH - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CE
CB
HF
HC
LG
LD
MH
M - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- hetero-2-2-2-2-mer
- Ligands
- 8 x HEC: HEME C(Covalent)
- 14 x SO4: SULFATE ION(Non-functional Binders)
- 12 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)
- 8 x BCB: BACTERIOCHLOROPHYLL B(Non-covalent)
- 4 x BPB: BACTERIOPHEOPHYTIN B(Non-covalent)
- 2 x UQ7: UBIQUINONE-7(Non-covalent)
- 2 x FE2: FE (II) ION(Non-covalent)
- 2 x MQ9: MENAQUINONE-9(Non-covalent)
- 2 x NS5: 15-cis-1,2-dihydroneurosporene(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Baxter, R.H. et al., Cryogenic structure of the photosynthetic reaction center of Blastochloris viridis in the light and dark. Acta Crystallogr.,Sect.D (2005)
- Release Date
- 2005-03-22
- Peptides
- Photosynthetic reaction center cytochrome c subunit: AE
Reaction center protein H chain: BF
Reaction center protein L chain: CG
Reaction center protein M chain: DH - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CE
CB
HF
HC
LG
LD
MH
M - Membrane
-
We predict this structure to be a membrane protein.