SMTL ID : 1umx.1

PHOTOSYNTHETIC REACTION CENTER MUTANT WITH ARG M267 REPLACED WITH LEU (CHAIN M, R267L)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)

LDA.1: 7 residues within 4Å: Chain A: I.28, Q.32, M.36, Y.40, F.56 Chain C: F.258 Ligands: LDA.7 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:F.258, A:I.28 LDA.7: 7 residues within 4Å: Chain B: W.151 Chain C: P.200, L.204, W.268, M.272 Ligands: LDA.1, BCL.3 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:L.204, C:W.268

4 x BCL: BACTERIOCHLOROPHYLL A(Non-covalent)

BCL.2: 27 residues within 4Å: Chain B: F.97, A.124, I.125, A.127, Y.128, L.131, W.156, V.157, T.160, Y.162, N.166, F.167, H.168, H.173, A.176, I.177, F.180, V.241, S.244, A.245, C.247, M.248 Chain C: Y.210 Ligands: BCL.3, BPB.4, BCL.5, BCL.6 15 PLIP interactions: 14 interactions with chain B, 1 interactions with chain C, Hydrophobic interactions: B:F.97, B:F.97, B:A.127, B:V.157, B:Y.162, B:F.167, B:F.167, B:A.176, B:I.177, B:I.177, B:F.180, B:F.180, C:Y.210 Hydrogen bonds: B:S.244 Metal complexes: B:H.173 BCL.3: 19 residues within 4Å: Chain B: I.46, Y.128, L.131, F.146, I.150, H.153, L.154, V.157 Chain C: F.197, G.203, I.206, A.207, Y.210, L.214 Ligands: BCL.2, BPB.4, BCL.6, LDA.7, U10.11 10 PLIP interactions: 6 interactions with chain B, 4 interactions with chain C, Hydrophobic interactions: B:I.46, B:Y.128, B:L.131, B:F.146, B:L.154, C:F.197, C:I.206, C:L.214 Metal complexes: B:H.153 pi-Stacking: C:Y.210 BCL.5: 15 residues within 4Å: Chain B: H.168, M.174, I.177, S.178, T.182 Chain C: F.67, L.160, I.179, H.182, L.183, T.186 Ligands: BCL.2, BCL.6, BPB.9, SPN.10 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain B, Hydrophobic interactions: C:F.67, C:L.160, C:L.183, B:I.177, B:I.177 Metal complexes: C:H.182 BCL.6: 26 residues within 4Å: Chain B: V.157, F.181 Chain C: M.122, 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.2, BCL.3, BCL.5, BPB.9 12 PLIP interactions: 12 interactions with chain C, Hydrophobic interactions: C:V.126, C:L.156, C:W.157, C:T.186, C:F.189, C:L.196, C:I.206, C:L.209, C:Y.210, C:V.276, C:I.284 Metal complexes: C:H.202

2 x BPB: BACTERIOPHEOPHYTIN B(Non-covalent)

BPB.4: 24 residues within 4Å: Chain B: F.41, A.96, F.97, W.100, E.104, I.117, A.120, F.121, A.124, Y.148, G.149, I.150, H.153, L.238, V.241 Chain C: Y.210, A.213, L.214, M.218, W.252, M.256 Ligands: BCL.2, BCL.3, U10.11 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:F.97, B:A.120, B:F.121, B:F.121, B:F.121, B:A.124, B:Y.148, B:Y.148, B:I.150, B:L.238, C:Y.210, C:A.213 Hydrogen bonds: B:E.104 BPB.9: 21 residues within 4Å: Chain B: F.181, A.184, L.185, A.188, L.189, L.219, V.220 Chain C: G.63, W.66, F.67, A.125, V.126, W.129, T.146, A.149, F.150, A.153, A.273, T.277 Ligands: BCL.5, BCL.6 12 PLIP interactions: 4 interactions with chain B, 8 interactions with chain C Hydrophobic interactions: B:F.181, B:A.184, B:A.188, B:L.189, C:W.66, C:F.67, C:A.149, C:F.150, C:F.150, C:A.153, C:T.277 pi-Stacking: C:F.150

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

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

1 x SPN: SPEROIDENONE(Non-covalent)

SPN.10: 21 residues within 4Å: Chain C: F.67, F.68, I.70, G.71, F.74, W.75, F.85, L.89, F.105, W.115, S.119, F.120, W.157, G.161, F.162, W.171, V.175, Y.177, I.179, H.182 Ligands: BCL.5 16 PLIP interactions: 16 interactions with chain C Hydrophobic interactions: C:F.67, C:I.70, C:F.74, C:F.74, C:F.85, C:L.89, C:F.105, C:W.115, C:W.157, C:F.162, C:F.162, C:W.171, C:V.175, C:Y.177, C:Y.177, C:I.179

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

U10.11: 19 residues within 4Å: Chain B: T.38, W.100, R.103 Chain C: M.218, H.219, T.222, A.248, A.249, W.252, M.256, F.258, N.259, A.260, T.261, I.265, W.268, M.272 Ligands: BCL.3, BPB.4 10 PLIP interactions: 8 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:M.218, C:W.252, C:M.256, C:F.258, C:A.260, C:W.268, C:W.268, B:W.100, B:W.100 Hydrogen bonds: C:A.260

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

PO4.12: 4 residues within 4Å: Chain A: Y.30 Chain C: H.145, L.267, W.271 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:Y.30, A:Y.30, C:H.145

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fyfe, P.K. et al., Disruption of a specific molecular interaction with a bound lipid affects the thermal stability of the purple bacterial reaction centre. Biochim.Biophys.Acta (2004)

Release Date

2004-06-29

Peptides

REACTION CENTER PROTEIN H CHAIN: A
REACTION CENTER PROTEIN L CHAIN: B
REACTION CENTER PROTEIN M CHAIN: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
M

Membrane

We predict this structure to be a membrane protein.
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REACTION CENTER PROTEIN H CHAIN

REACTION CENTER PROTEIN L CHAIN

REACTION CENTER PROTEIN M CHAIN

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