SMTL ID : 1e6d.1

PHOTOSYNTHETIC REACTION CENTER MUTANT WITH TRP M115 REPLACED WITH PHE (CHAIN M, WM115F) PHE M197 REPLACED WITH ARG (CHAIN M, FM197R)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

LDA.1: 6 residues within 4Å: Chain A: F.23, L.27, Y.30 Ligands: LDA.2, LDA.15, PO4.18 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:F.23, A:L.27 Water bridges: C:R.267 LDA.2: 5 residues within 4Å: Chain A: S.19, F.20 Chain C: L.278, I.282 Ligands: LDA.1 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:F.20, C:L.278, C:I.282 LDA.13: 8 residues within 4Å: Chain B: W.151 Chain C: P.200, G.203, L.204, W.268, M.272 Ligands: BCL.4, LDA.14 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:W.268 LDA.14: 9 residues within 4Å: Chain A: Q.32, Y.40, L.42, Q.53, F.56 Chain C: R.253, G.257, F.258 Ligands: LDA.13 7 PLIP interactions: 2 interactions with chain A, 5 interactions with chain C Hydrophobic interactions: A:F.56, C:F.258, C:F.258, C:F.258, C:F.258 Water bridges: A:Y.40 Hydrogen bonds: C:R.253 LDA.15: 6 residues within 4Å: Chain C: W.148, I.270, W.271 Ligands: LDA.1, PO4.18, PO4.19 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:I.270, C:W.271, C:W.271 pi-Cation interactions: C:H.145 LDA.16: 3 residues within 4Å: Chain C: L.38, L.39, W.41 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:L.39 pi-Cation interactions: C:W.41, C:W.41 LDA.17: 4 residues within 4Å: Chain C: S.30, I.50, W.129 Ligands: BCL.8 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:I.50, C:W.129

4 x BCL: BACTERIOCHLOROPHYLL A(Non-covalent)

BCL.3: 28 residues within 4Å: Chain B: F.97, A.124, I.125, A.127, Y.128, L.131, W.156, 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 C: Y.210 Ligands: BCL.4, BPH.5, BCL.7, BCL.8 16 PLIP interactions: 15 interactions with chain B, 1 interactions with chain C, Hydrophobic interactions: B:F.97, B:F.97, B:A.124, B:A.127, B:V.157, B:T.160, B:Y.162, 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.4: 20 residues within 4Å: Chain B: I.46, Y.128, L.131, F.146, I.150, W.151, H.153, L.154, V.157 Chain C: G.203, I.206, A.207, Y.210, G.211, L.214 Ligands: BCL.3, BPH.5, BCL.8, U10.11, LDA.13 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:I.206, C:I.206, C:L.214 Metal complexes: B:H.153 pi-Stacking: C:Y.210 BCL.7: 18 residues within 4Å: Chain B: H.168, M.174, I.177, S.178, F.181, T.182 Chain C: M.122, W.157, L.160, I.179, H.182, L.183, T.186 Ligands: BCL.3, U10.6, BCL.8, BPH.9, SPN.12 6 PLIP interactions: 3 interactions with chain C, 3 interactions with chain B, Hydrophobic interactions: C:L.160, C:L.183, B:I.177, B:I.177 Metal complexes: C:H.182 pi-Stacking: B:F.181 BCL.8: 25 residues within 4Å: Chain B: V.157, Y.162, F.181 Chain C: M.122, A.153, L.156, W.157, L.160, T.186, N.187, F.189, S.190, L.196, H.202, S.205, I.206, Y.210, V.276, G.280, I.284 Ligands: BCL.3, BCL.4, BCL.7, BPH.9, LDA.17 10 PLIP interactions: 10 interactions with chain C, Hydrophobic interactions: C:A.153, C:L.156, C:W.157, C:T.186, C:F.189, C:L.196, C:I.206, C:Y.210, C:V.276 Metal complexes: C:H.202

2 x BPH: BACTERIOPHEOPHYTIN A(Non-covalent)

BPH.5: 26 residues within 4Å: Chain B: F.41, A.93, A.96, F.97, W.100, E.104, I.117, A.120, F.121, F.123, A.124, Y.148, G.149, I.150, H.153, V.241 Chain C: Y.210, A.213, L.214, A.217, M.218, W.252, M.256 Ligands: BCL.3, BCL.4, U10.11 15 PLIP interactions: 11 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: B:A.96, B:A.120, B:F.121, B:F.121, B:F.121, B:F.123, B:Y.148, B:I.150, B:V.241, B:V.241, C:Y.210, C:A.213, C:L.214, C:A.217 Hydrogen bonds: B:E.104 BPH.9: 19 residues within 4Å: Chain B: F.181, A.184, L.185, L.189, L.219 Chain C: S.59, L.60, G.63, F.67, V.126, W.129, T.146, A.149, F.150, A.153, A.273, T.277 Ligands: BCL.7, BCL.8 11 PLIP interactions: 8 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:L.60, C:F.67, C:A.149, C:F.150, C:F.150, C:A.153, C:T.277, B:F.181, B:A.184, B:L.189 pi-Stacking: C:F.150

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

U10.6: 13 residues within 4Å: Chain B: P.171, S.178, F.179, L.189, H.190, L.193, F.216, Y.222, S.223, I.224, G.225, I.229 Ligands: BCL.7 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:P.171, B:F.179, B:L.189 Hydrogen bonds: B:I.224 Water bridges: B:G.225 pi-Stacking: B:F.216 U10.11: 21 residues within 4Å: Chain B: G.35, 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, M.262, I.265, W.268, M.272 Ligands: BCL.4, BPH.5 12 PLIP interactions: 4 interactions with chain B, 8 interactions with chain C Hydrophobic interactions: B:T.38, B:W.100, B:W.100, B:W.100, C:M.218, C:W.252, C:M.256, C:F.258, C:F.258, C:W.268, C:W.268 Hydrogen bonds: C:A.260

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

FE.10: 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.12: 21 residues within 4Å: Chain C: F.67, F.68, I.70, G.71, F.74, W.75, F.85, S.119, F.120, M.122, W.157, L.160, G.161, F.162, W.171, V.175, Y.177, G.178, I.179, H.182 Ligands: BCL.7 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:F.67, C:F.67, C:F.67, C:I.70, C:F.74, C:F.85, C:F.120, C:W.157, C:L.160, C:F.162, C:F.162, C:W.171, C:V.175, C:V.175, C:I.179

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

PO4.18: 6 residues within 4Å: Chain B: N.199 Chain C: H.145, R.267 Ligands: LDA.1, LDA.15, PO4.19 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:N.199 Salt bridges: C:H.145, C:R.267 PO4.19: 6 residues within 4Å: Chain C: G.143, K.144, H.145, W.148 Ligands: LDA.15, PO4.18 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:K.144, C:W.148 Water bridges: C:K.144, C:K.144 Salt bridges: C:H.145

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ridge, J.P. et al., An Examination of How Structural Changes Can Affect the Rate of Electron Transfer in a Mutated Bacterial Photoreaction Centre. Biochem.J. (2000)

Release Date

2000-10-30

Peptides

PHOTOSYNTHETIC REACTION CENTER H SUBUNIT: A
PHOTOSYNTHETIC REACTION CENTER L SUBUNIT: B
PHOTOSYNTHETIC REACTION CENTER M SUBUNIT: 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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PHOTOSYNTHETIC REACTION CENTER H SUBUNIT

PHOTOSYNTHETIC REACTION CENTER L SUBUNIT

PHOTOSYNTHETIC REACTION CENTER M SUBUNIT

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