SMTL ID : 4h9l.1

Bacterial Photosynthetic Reaction Center from Rhodobacter sphaeroides with ILE M265 replaced with SER

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.77 Å

Oligo State

hetero-1-1-1-mer

Ligands

4 x BCL: BACTERIOCHLOROPHYLL A(Non-covalent)

BCL.1: 27 residues within 4Å: Chain A: F.97, A.124, I.125, A.127, Y.128, L.131, W.156, V.157, S.158, 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.7 14 PLIP interactions: 13 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:F.97, A:F.97, A:A.124, A:A.127, A:V.157, 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: 17 residues within 4Å: Chain A: Y.128, L.131, F.146, I.150, 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.7 12 PLIP interactions: 6 interactions with chain A, 6 interactions with chain B, Hydrophobic interactions: A:Y.128, A:L.131, A:F.146, A:L.154, A:V.157, B:F.197, B:I.206, B:I.206, B:Y.210, B:L.214 Metal complexes: A:H.153 pi-Stacking: B:Y.210 BCL.5: 17 residues within 4Å: Chain A: H.168, M.174, I.177, S.178, F.181, T.182 Chain B: M.122, W.157, L.160, I.179, H.182, L.183, T.186 Ligands: BCL.1, BCL.7, BPH.8, SPO.10 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A, Hydrophobic interactions: B:L.160, B:L.183, A:I.177 Metal complexes: B:H.182 Hydrogen bonds: A:T.182 pi-Stacking: A:F.181 BCL.7: 28 residues within 4Å: Chain A: V.157, Y.162, H.168, F.181 Chain B: W.66, V.126, 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, G.280, I.284 Ligands: BCL.1, BCL.2, BCL.5, BPH.8 15 PLIP interactions: 14 interactions with chain B, 1 interactions with chain A, Hydrophobic interactions: B:W.66, B:V.126, B:L.156, B:W.157, B:W.157, B:T.186, B:F.189, B:L.196, B:F.197, B:I.206, B:L.209, B:Y.210, B:V.276, A:V.157 Metal complexes: B:H.202

2 x BPH: BACTERIOPHEOPHYTIN A(Non-covalent)

BPH.3: 29 residues within 4Å: Chain A: A.42, C.92, A.93, A.96, F.97, W.100, E.104, I.117, A.120, F.121, F.123, A.124, Y.128, Y.148, G.149, I.150, H.153, L.238, V.241 Chain B: Y.210, A.213, L.214, M.218, W.252, T.255, M.256 Ligands: BCL.1, BCL.2, U10.9 18 PLIP interactions: 15 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:A.42, A:A.96, A:A.120, A:F.121, A:F.121, A:F.121, A:F.121, A:F.123, A:A.124, A:Y.128, A:Y.148, A:Y.148, A:L.238, A:V.241, A:V.241, B:Y.210, B:A.213, B:L.214 BPH.8: 17 residues within 4Å: Chain A: F.181, A.184, L.185, L.189, L.219 Chain B: A.125, V.126, W.129, T.133, T.146, A.149, F.150, A.153, A.273, T.277 Ligands: BCL.5, BCL.7 9 PLIP interactions: 7 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:A.149, B:F.150, B:F.150, B:A.153, B:T.277, A:F.181, A:A.184 Hydrogen bonds: B:T.133 pi-Stacking: B:F.150

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

U10.4: 10 residues within 4Å: Chain A: L.189, H.190, L.193, D.213, F.216, S.223, I.224, G.225, T.226, I.229 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.216, A:F.216, A:I.224, A:I.224 Hydrogen bonds: A:I.224, A:G.225 pi-Stacking: A:F.216 U10.9: 18 residues within 4Å: Chain A: G.35, W.100 Chain B: M.218, H.219, T.222, A.248, A.249, W.252, M.256, F.258, N.259, A.260, T.261, M.262, S.265, W.268, M.272 Ligands: BPH.3 12 PLIP interactions: 9 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:M.218, B:W.252, B:M.256, B:F.258, B:A.260, B:W.268, B:W.268, A:W.100, A:W.100, A:W.100 Hydrogen bonds: B:T.222, B:A.260

1 x FE: FE (III) ION(Non-covalent)

FE.6: 5 residues within 4Å: Chain A: H.190, H.230 Chain B: H.219, E.234, H.266 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Metal complexes: A:H.190, A:H.230, B:H.219, B:E.234, B:H.266

1 x SPO: SPHEROIDENE(Non-covalent)

SPO.10: 16 residues within 4Å: Chain B: F.67, I.70, G.71, W.75, S.119, M.122, W.157, L.160, G.161, F.162, V.175, Y.177, G.178, I.179, H.182 Ligands: BCL.5 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:F.67, B:F.67, B:I.70, B:W.75, B:W.157, B:L.160, B:F.162, B:F.162, B:V.175, B:Y.177, B:Y.177, B:I.179

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mattis, A.J. et al., Bacterial Photosynthetic Reaction Center from Rhodobacter sphaeroides. To be Published

Release Date

2013-01-23

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
L

B
M

C
H

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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