- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- hetero-1-1-1-1-mer
- Ligands
- 4 x HEC: HEME C(Covalent)
- 6 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)
LDA.5: 5 residues within 4Å:- Chain B: L.29, R.33
- Chain D: F.256, W.266
- Ligands: LDA.20
3 PLIP interactions:3 interactions with chain D- Hydrophobic interactions: D:F.256, D:W.266
- pi-Cation interactions: D:F.256
LDA.6: 11 residues within 4Å:- Chain B: R.34, P.42, V.59, Y.60, L.62, P.63, Y.64, P.65, P.79, R.80, R.81
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:L.62, B:Y.64, B:P.65, B:R.81
- pi-Cation interactions: B:Y.64
LDA.14: 11 residues within 4Å:- Chain B: W.17
- Chain C: D.60, F.62, L.151
- Chain D: Y.195, C.197, W.295, C.296, H.299, G.300, A.301
8 PLIP interactions:2 interactions with chain B, 3 interactions with chain C, 3 interactions with chain D- Hydrophobic interactions: B:W.17, B:W.17, C:L.151, D:W.295, D:H.299, D:A.301
- Hydrogen bonds: C:D.60
- Salt bridges: C:D.60
LDA.19: 10 residues within 4Å:- Chain D: W.23, A.53, S.54, A.57, L.122, G.125, S.126, I.129, S.133
- Ligands: SO4.24
3 PLIP interactions:3 interactions with chain D- Hydrophobic interactions: D:A.53, D:A.57, D:I.129
LDA.20: 5 residues within 4Å:- Chain C: Y.29
- Chain D: I.254, F.256
- Ligands: LDA.5, BCB.9
No protein-ligand interaction detected (PLIP)LDA.21: 5 residues within 4Å:- Chain D: I.68, F.71, N.72, A.75, W.112
4 PLIP interactions:4 interactions with chain D- Hydrophobic interactions: D:F.71, D:F.71, D:W.112, D:W.112
- 4 x SO4: SULFATE ION(Non-functional Binders)
SO4.7: 6 residues within 4Å:- Chain B: R.33, R.37, Y.41, L.43, E.61
- Chain D: R.251
5 PLIP interactions:2 interactions with chain D, 3 interactions with chain B- Water bridges: D:R.251
- Salt bridges: D:R.251, B:R.37
- Hydrogen bonds: B:R.33, B:Y.41
SO4.22: 3 residues within 4Å:- Chain C: N.199
- Chain D: H.143, R.265
5 PLIP interactions:3 interactions with chain D, 2 interactions with chain B- Water bridges: D:R.265, B:K.66, B:K.66
- Salt bridges: D:H.143, D:R.265
SO4.23: 3 residues within 4Å:- Chain B: L.246
- Chain D: A.1, R.226
9 PLIP interactions:7 interactions with chain D, 1 interactions with chain C, 1 interactions with chain B- Hydrogen bonds: D:A.1
- Water bridges: D:A.1, D:D.2, D:R.226, D:R.226, D:R.226, C:W.115, B:T.211
- Salt bridges: D:R.226
SO4.24: 7 residues within 4Å:- Chain D: W.23, Y.50, G.52, A.53, S.54, S.133
- Ligands: LDA.19
6 PLIP interactions:6 interactions with chain D- Hydrogen bonds: D:Y.50, D:A.53, D:S.54, D:S.133
- Water bridges: D:G.55, D:R.134
- 4 x BCB: BACTERIOCHLOROPHYLL B(Non-covalent)
BCB.8: 29 residues within 4Å:- Chain C: F.97, P.124, M.127, F.128, L.131, V.157, N.158, F.160, G.161, Y.162, W.167, F.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: Y.195, Y.208
- Ligands: BCB.9, BPB.10, BCB.15, BCB.16
21 PLIP interactions:21 interactions with chain C,- Hydrophobic interactions: C:F.97, C:F.97, C:P.124, C:M.127, C:F.160, C:Y.162, C:W.167, C:W.167, C:F.168, C:F.168, C:L.180, C:F.181, C:F.181, C:I.240, C:F.241, C:F.241, C:F.241
- Hydrogen bonds: C:S.176, C:T.248
- pi-Stacking: C:W.167
- Metal complexes: C:H.173
BCB.9: 20 residues within 4Å:- Chain C: I.49, F.128, F.146, I.150, H.153, L.154, V.157
- Chain D: Y.195, G.201, I.204, G.205, Y.208, G.209, L.212, F.270
- Ligands: BCB.8, BPB.10, MQ9.12, BCB.16, LDA.20
12 PLIP interactions:6 interactions with chain D, 6 interactions with chain C,- Hydrophobic interactions: D:Y.195, D:I.204, D:I.204, D:L.212, D:F.270, C:I.49, C:F.146, C:F.146, C:L.154, C:V.157
- pi-Stacking: D:Y.208
- Metal complexes: C:H.153
BCB.15: 22 residues within 4Å:- Chain C: F.168, M.174, V.177, S.178, F.181, V.182, M.185, V.220, Y.222
- Chain D: M.120, F.154, V.155, I.158, I.177, W.178, H.180, I.181, L.184
- Ligands: BCB.8, BCB.16, BPB.17, NS5.18
14 PLIP interactions:7 interactions with chain D, 7 interactions with chain C,- Hydrophobic interactions: D:F.154, D:V.155, D:I.158, D:I.177, D:I.181, D:L.184, C:F.168, C:V.177, C:F.181, C:V.182, C:V.182, C:Y.222
- Metal complexes: D:H.180
- pi-Stacking: C:F.181
BCB.16: 30 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, F.187, S.188, F.194, Y.195, H.200, S.203, I.204, Y.208, M.275, A.278, I.282
- Ligands: BCB.8, BCB.9, BCB.15, BPB.17
18 PLIP interactions:18 interactions with chain D,- Hydrophobic interactions: D:I.69, D:L.124, D:F.148, D:A.151, 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:Y.208
- Hydrogen bonds: D:Y.195, D:S.203
- Salt bridges: D:H.200
- Metal complexes: D:H.200
- 2 x BPB: BACTERIOPHEOPHYTIN B(Non-covalent)
BPB.10: 27 residues within 4Å:- Chain C: F.41, I.42, I.49, C.92, A.93, F.97, W.100, E.104, V.117, A.120, F.121, P.124, F.146, 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.8, BCB.9, MQ9.12
15 PLIP interactions:14 interactions with chain C, 1 interactions with chain D- Hydrophobic interactions: C:I.42, C:I.49, C:A.120, C:F.121, C:F.121, C:F.121, C:P.124, C:F.146, C:Y.148, C:Y.148, C:H.153, C:F.241, C:F.241, D:Y.208
- Hydrogen bonds: C:E.104
BPB.17: 21 residues within 4Å:- Chain C: F.181, M.185, L.189, 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, S.271, V.274, M.275
- Ligands: BCB.15, BCB.16
8 PLIP interactions:7 interactions with chain D, 1 interactions with chain C- Hydrophobic interactions: D:I.66, D:W.127, D:N.147, D:F.148, D:F.148, D:F.148, D:V.274, C:F.181
- 1 x FE2: FE (II) ION(Non-covalent)
- 1 x MQ9: MENAQUINONE-9(Non-covalent)
MQ9.12: 24 residues within 4Å:- Chain C: Y.29, G.35, I.39, I.42, F.43, V.46, W.100
- Chain D: A.216, H.217, T.220, 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: BCB.9, BPB.10
23 PLIP interactions:11 interactions with chain D, 12 interactions with chain C- Hydrophobic interactions: D:A.216, D:A.246, D:W.250, D:I.254, D:F.256, D:F.256, D:I.260, D:V.263, D:W.266, D:F.270, C:Y.29, C:Y.29, C:Y.29, C:I.39, C:I.39, C:I.42, C:F.43, C:F.43, C:V.46, C:W.100, C:W.100, C:W.100
- Hydrogen bonds: D:A.258
- 1 x MST: 2-T-BUTYLAMINO-4-ETHYLAMINO-6-METHYLTHIO-S-TRIAZINE(Non-covalent)
- 1 x NS5: 15-cis-1,2-dihydroneurosporene(Non-covalent)
NS5.18: 14 residues within 4Å:- Chain D: I.66, L.70, F.88, W.113, G.117, T.121, G.159, C.160, W.169, V.173, F.175, G.176, H.180
- Ligands: BCB.15
12 PLIP interactions:12 interactions with chain D- Hydrophobic interactions: D:I.66, D:L.70, D:F.88, D:W.113, D:W.169, D:W.169, D:V.173, D:V.173, D:F.175, D:F.175, D:F.175, D:H.180
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Lancaster, C.R. et al., Structural basis of the drastically increased initial electron transfer rate in the reaction center from a Rhodopseudomonas viridis mutant described at 2.00-A resolution. J. Biol. Chem. (2000)
- Release Date
- 2001-01-12
- Peptides
- PHOTOSYNTHETIC REACTION CENTER CYTOCHROME C SUBUNIT: A
PHOTOSYNTHETIC REACTION CENTER H SUBUNIT: B
PHOTOSYNTHETIC REACTION CENTER L SUBUNIT: C
PHOTOSYNTHETIC REACTION CENTER M SUBUNIT: D - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CB
HC
LD
M - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- hetero-1-1-1-1-mer
- Ligands
- 4 x HEC: HEME C(Covalent)
- 6 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)
- 4 x SO4: SULFATE ION(Non-functional Binders)
- 4 x BCB: BACTERIOCHLOROPHYLL B(Non-covalent)
- 2 x BPB: BACTERIOPHEOPHYTIN B(Non-covalent)
- 1 x FE2: FE (II) ION(Non-covalent)
- 1 x MQ9: MENAQUINONE-9(Non-covalent)
- 1 x MST: 2-T-BUTYLAMINO-4-ETHYLAMINO-6-METHYLTHIO-S-TRIAZINE(Non-covalent)
- 1 x NS5: 15-cis-1,2-dihydroneurosporene(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Lancaster, C.R. et al., Structural basis of the drastically increased initial electron transfer rate in the reaction center from a Rhodopseudomonas viridis mutant described at 2.00-A resolution. J. Biol. Chem. (2000)
- Release Date
- 2001-01-12
- Peptides
- PHOTOSYNTHETIC REACTION CENTER CYTOCHROME C SUBUNIT: A
PHOTOSYNTHETIC REACTION CENTER H SUBUNIT: B
PHOTOSYNTHETIC REACTION CENTER L SUBUNIT: C
PHOTOSYNTHETIC REACTION CENTER M SUBUNIT: D - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CB
HC
LD
M - Membrane
-
We predict this structure to be a membrane protein.