SMTL ID : 1e14.1

PHOTOSYNTHETIC REACTION CENTER MUTANT WITH PHE M197 REPLACED WITH ARG (CHAIN M, FM197R) AND GLY M203 REPLACED WITH ASP (CHAIN M, GM203D)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

LDA.1: 10 residues within 4Å: Chain A: Q.32, M.36, Y.40, L.42, Q.53, G.54, F.56 Chain C: G.257, F.258 Ligands: LDA.13 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:F.56, C:F.258, C:F.258, C:F.258 Hydrogen bonds: A:Y.40 Water bridges: A:Q.32 LDA.12: 8 residues within 4Å: Chain B: V.220, G.221 Chain C: S.30, G.31, V.32, G.33, L.47, G.48 No protein-ligand interaction detected (PLIP) LDA.13: 8 residues within 4Å: Chain A: W.21 Chain B: W.151 Chain C: P.200, D.203, A.207, F.208 Ligands: LDA.1, BCL.3 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:A.207, C:F.208 Salt bridges: C:D.203

4 x BCL: BACTERIOCHLOROPHYLL A(Non-covalent)

BCL.2: 29 residues within 4Å: Chain B: F.97, F.121, A.124, I.125, A.127, L.131, W.156, V.157, T.160, G.161, 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, BPH.4, BCL.6, BCL.7, U10.10 16 PLIP interactions: 15 interactions with chain B, 1 interactions with chain C, Hydrophobic interactions: B:F.97, B:F.97, B:F.121, B:A.124, B:A.127, B:V.157, 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.3: 21 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: R.197, D.203, I.206, A.207, Y.210, G.211, L.214 Ligands: BCL.2, BPH.4, BCL.7, U10.10, LDA.13 13 PLIP interactions: 8 interactions with chain B, 5 interactions with chain C, Hydrophobic interactions: B:I.46, B:I.46, B:Y.128, B:L.131, B:F.146, B:I.150, B:L.154, C:I.206, C:I.206, C:L.214 Metal complexes: B:H.153 pi-Stacking: C:Y.210, C:Y.210 BCL.6: 21 residues within 4Å: Chain B: H.168, M.174, I.177, S.178, F.181, T.182, L.185 Chain C: F.67, M.122, W.157, L.160, V.175, I.179, H.182, L.183, T.186 Ligands: BCL.2, U10.5, BCL.7, BPH.8, SPN.11 11 PLIP interactions: 6 interactions with chain C, 5 interactions with chain B, Hydrophobic interactions: C:F.67, C:L.160, C:V.175, C:I.179, C:L.183, B:I.177, B:F.181, B:L.185 Metal complexes: C:H.182 Hydrogen bonds: B:S.178 pi-Stacking: B:F.181 BCL.7: 28 residues within 4Å: Chain B: V.157, Y.162, H.168, F.181 Chain C: W.66, V.126, A.153, L.156, W.157, L.160, T.186, N.187, F.189, S.190, L.196, R.197, H.202, S.205, I.206, L.209, Y.210, V.276, G.280, I.284 Ligands: BCL.2, BCL.3, BCL.6, BPH.8 13 PLIP interactions: 12 interactions with chain C, 1 interactions with chain B, Hydrophobic interactions: C:W.66, C:V.126, C:L.156, C:W.157, C:F.189, C:L.196, C:I.206, C:L.209, C:Y.210, C:V.276, C:I.284, B:F.181 Metal complexes: C:H.202

2 x BPH: BACTERIOPHEOPHYTIN A(Non-covalent)

BPH.4: 29 residues within 4Å: Chain B: A.42, I.49, A.93, A.96, F.97, W.100, E.104, I.117, A.120, F.121, A.124, Y.148, G.149, I.150, H.153, S.237, L.238, V.241 Chain C: Y.210, A.213, L.214, A.217, M.218, W.252, T.255, M.256 Ligands: BCL.2, BCL.3, U10.10 15 PLIP interactions: 12 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:A.42, B:I.49, B:A.120, B:F.121, B:F.121, B:F.121, B:Y.148, B:I.150, B:L.238, B:V.241, B:V.241, C:Y.210, C:A.213, C:A.217 Hydrogen bonds: B:E.104 BPH.8: 26 residues within 4Å: Chain B: F.181, A.184, L.185, A.188, L.189, F.216, L.219, V.220 Chain C: S.59, G.63, L.64, W.66, F.67, A.125, V.126, W.129, T.133, T.146, A.149, F.150, A.153, A.273, V.274, T.277 Ligands: BCL.6, BCL.7 14 PLIP interactions: 4 interactions with chain B, 10 interactions with chain C Hydrophobic interactions: B:A.184, B:L.185, B:A.188, B:L.189, C:L.64, C:W.66, C:F.67, C:W.129, C:A.149, C:F.150, C:F.150, C:F.150, C:T.277 pi-Stacking: C:F.150

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

U10.5: 22 residues within 4Å: Chain B: M.174, I.175, S.178, F.179, T.182, L.189, H.190, L.193, V.194, E.212, D.213, F.216, Y.222, S.223, I.224, G.225, T.226, I.229, L.232, W.263 Chain C: F.90 Ligands: BCL.6 15 PLIP interactions: 14 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:M.174, B:F.179, B:T.182, B:L.189, B:L.193, B:F.216, B:F.216, B:Y.222, B:I.224, B:I.224, B:I.229, B:W.263, C:F.90 Hydrogen bonds: B:I.224, B:G.225 U10.10: 27 residues within 4Å: Chain B: F.29, Y.30, G.35, T.38, W.100, R.103 Chain C: 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.2, BCL.3, BPH.4 14 PLIP interactions: 11 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:L.214, C:M.218, C:W.252, C:M.256, C:F.258, C:F.258, C:A.260, C:I.265, C:W.268, C:W.268, B:F.29, B:W.100, B:W.100 Hydrogen bonds: C:A.260

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

FE.9: 5 residues within 4Å: Chain B: H.190, H.230 Chain C: H.219, E.234, H.266 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain C Metal complexes: B:H.190, B:H.230, C:H.219, C:E.234, C:H.266

1 x SPN: SPEROIDENONE(Non-covalent)

SPN.11: 22 residues within 4Å: Chain C: F.67, F.68, I.70, G.71, F.74, W.75, F.85, L.89, W.115, S.119, F.120, M.122, F.123, W.157, L.160, G.161, F.162, W.171, V.175, G.178, H.182 Ligands: BCL.6 19 PLIP interactions: 19 interactions with chain C Hydrophobic interactions: C:F.67, C:F.67, C:F.67, C:I.70, C:I.70, C:F.74, C:L.89, C:W.115, C:F.120, C:F.123, C:W.157, C:L.160, C:F.162, C:F.162, C:W.171, C:W.171, C:V.175, C:V.175, C:H.182

1 x CDL: CARDIOLIPIN(Non-covalent)

CDL.14: 17 residues within 4Å: Chain A: I.22, F.23, G.26, L.27, Y.30 Chain B: N.199, P.200 Chain C: G.143, K.144, H.145, W.148, W.155, R.267, I.270, W.271, L.278, I.282 23 PLIP interactions: 16 interactions with chain C, 7 interactions with chain A Hydrophobic interactions: C:W.148, C:W.148, C:W.148, C:W.155, C:W.155, C:W.155, C:I.270, C:L.278, C:L.278, C:I.282, A:I.22, A:F.23, A:F.23, A:L.27, A:Y.30, A:Y.30 Hydrogen bonds: C:K.144 Water bridges: C:R.267, A:Y.30 Salt bridges: C:H.145, C:H.145, C:H.145, C:R.267

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fyfe, P.K. et al., Structural Consequences of the Replacement of Glycine M203 with Aspartic Acid in the Reaction Center from Rhodobacter Sphaeroides. Biochemistry (2000)

Release Date

2000-06-02

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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