SMTL ID : 2bns.1

Lipidic cubic phase grown reaction centre from Rhodobacter sphaeroides, excited state

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-1-mer

Ligands

4 x BCL: BACTERIOCHLOROPHYLL A(Non-covalent)

BCL.1: 28 residues within 4Å: Chain A: F.97, A.124, I.125, A.127, Y.128, L.131, V.157, S.158, T.160, G.161, Y.162, N.166, F.167, H.168, H.173, A.176, I.177, F.180, S.244, A.245, C.247, M.248 Chain B: Y.210 Ligands: BCL.2, BPH.3, BCL.5, BCL.6, U10.9 15 PLIP interactions: 14 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:F.97, A:F.97, A:F.97, A:F.97, A:A.127, A:T.160, A:Y.162, A:F.167, A:A.176, A:I.177, A:F.180, A:F.180, B:Y.210 Hydrogen bonds: A:S.244 Metal complexes: A:H.173 BCL.2: 21 residues within 4Å: Chain A: I.46, I.49, Y.128, L.131, F.146, I.150, W.151, H.153, L.154, V.157 Chain B: F.197, G.203, I.206, A.207, Y.210, G.211, L.214 Ligands: BCL.1, BPH.3, BCL.6, U10.9 18 PLIP interactions: 11 interactions with chain A, 7 interactions with chain B, Hydrophobic interactions: A:I.46, A:I.49, A:Y.128, A:L.131, A:F.146, A:F.146, A:L.154, A:V.157, B:F.197, B:I.206, B:I.206, B:Y.210, B:L.214 pi-Stacking: A:H.153, B:Y.210, B:Y.210 pi-Cation interactions: A:H.153 Metal complexes: A:H.153 BCL.5: 16 residues within 4Å: Chain A: H.168, M.174, I.177, S.178, T.182, L.185 Chain B: W.157, L.160, V.175, I.179, H.182, L.183, T.186 Ligands: BCL.1, BCL.6, BPH.7 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A, Hydrophobic interactions: B:L.160, B:V.175, B:L.183, A:I.177, A:I.177, A:L.185 Metal complexes: B:H.182 pi-Stacking: A:F.181 BCL.6: 28 residues within 4Å: Chain A: V.157, Y.162, H.168, F.181 Chain B: W.66, A.153, L.156, W.157, L.160, T.186, N.187, F.189, S.190, L.196, F.197, H.202, S.205, I.206, L.209, Y.210, V.276, T.277, G.280, I.284 Ligands: BCL.1, BCL.2, BCL.5, BPH.7 15 PLIP interactions: 14 interactions with chain B, 1 interactions with chain A, Hydrophobic interactions: B:W.66, B:A.153, B:L.156, B:T.186, B:N.187, B:F.189, B:L.196, B:F.197, B:I.206, B:L.209, B:Y.210, B:V.276, A:V.157 Hydrogen bonds: B:Y.210 Metal complexes: B:H.202

2 x BPH: BACTERIOPHEOPHYTIN A(Non-covalent)

BPH.3: 30 residues within 4Å: Chain A: T.38, F.41, I.49, A.93, A.96, F.97, W.100, E.104, I.117, A.120, F.121, F.123, A.124, Y.128, F.146, Y.148, G.149, I.150, H.153, V.241 Chain B: Y.210, A.213, L.214, A.217, M.218, W.252, M.256 Ligands: BCL.1, BCL.2, U10.9 17 PLIP interactions: 15 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:I.49, A:A.96, A:A.120, A:F.121, A:F.121, A:F.123, A:A.124, A:Y.128, A:F.146, A:Y.148, A:Y.148, A:V.241, A:V.241, B:A.213, B:L.214 Hydrogen bonds: A:E.104 pi-Stacking: A:F.121 BPH.7: 19 residues within 4Å: Chain A: F.181, A.184, L.185, L.189, L.219 Chain B: G.63, A.125, V.126, W.129, T.133, T.146, A.149, F.150, A.153, A.273, V.274, T.277 Ligands: BCL.5, BCL.6 9 PLIP interactions: 3 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:A.184, A:L.185, A:L.189, B:W.129, B:A.149, B:F.150, B:F.150, B:T.277 pi-Stacking: B:F.150

1 x MST: 2-T-BUTYLAMINO-4-ETHYLAMINO-6-METHYLTHIO-S-TRIAZINE(Non-covalent)

MST.4: 14 residues within 4Å: Chain A: A.186, L.189, H.190, L.193, E.212, D.213, F.216, Y.222, S.223, I.224, G.225, T.226, I.229, L.232 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.193, A:E.212, A:F.216, A:Y.222, A:L.232 Hydrogen bonds: A:D.213, A:Y.222, A:S.223, A:I.224, A:G.225 pi-Stacking: A:F.216

1 x FE2: FE (II) ION(Non-covalent)

FE2.8: 5 residues within 4Å: Chain A: H.190, H.230 Chain B: H.219, E.234, H.266 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Metal complexes: B:H.219, B:E.234, B:H.266, A:H.190, A:H.230

1 x U10: UBIQUINONE-10(Non-covalent)

U10.9: 22 residues within 4Å: Chain A: W.100 Chain B: L.214, M.218, H.219, T.222, I.223, A.245, A.248, A.249, W.252, M.256, F.258, N.259, A.260, T.261, M.262, I.265, W.268, M.272 Ligands: BCL.1, BCL.2, BPH.3 12 PLIP interactions: 11 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.214, B:W.252, B:F.258, B:A.260, B:I.265, B:I.265, B:W.268, B:W.268, B:W.268, A:W.100 Hydrogen bonds: B:T.222, B:A.260

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.10: 4 residues within 4Å: Chain B: G.53, G.56, R.132, R.136 Ligand excluded by PLIP

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.11: 4 residues within 4Å: Chain A: N.199 Chain B: H.145, R.267 Ligands: PO4.12 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Salt bridges: B:H.145, B:R.267 Hydrogen bonds: A:N.199 PO4.12: 4 residues within 4Å: Chain B: G.143, K.144, W.148 Ligands: PO4.11 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.144 Salt bridges: B:K.144, B:H.145

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Katona, G. et al., Conformational Regulation of Charge Recombination Reactions in a Photosynthetic Bacterial Reaction Centre. Nat.Struct.Mol.Biol. (2005)

Release Date

2005-05-27

Peptides

Reaction center protein L chain: A
Reaction center protein M chain: B
Reaction center protein H chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Membrane

We predict this structure to be a membrane protein.
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Reaction center protein L chain

Reaction center protein M chain

Reaction center protein H chain

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