- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.63 Å
- Oligo State
- hetero-1-1-1-mer
- Ligands
- 6 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)
- 2 x NA: SODIUM ION(Non-functional Binders)
- 4 x BCL: BACTERIOCHLOROPHYLL A(Non-covalent)
BCL.3: 19 residues within 4Å:- Chain B: H.168, M.174, I.177, S.178, R.181, T.182
- Chain C: F.67, L.89, M.122, W.157, L.160, I.179, H.182, L.183, T.186
- Ligands: BCL.4, BCL.10, BPH.21, SPN.22
10 PLIP interactions:5 interactions with chain C, 4 interactions with chain B, 1 Ligand-Water interactions- Hydrophobic interactions: C:F.67, C:L.89, C:L.160, C:L.183, B:I.177, B:I.177
- Metal complexes: C:H.182, H2O.8
- Hydrogen bonds: B:T.182
- pi-Cation interactions: B:R.181
BCL.4: 28 residues within 4Å:- Chain B: 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, R.181, S.244, A.245, C.247, M.248
- Chain C: Y.210
- Ligands: BCL.3, BPH.9, BCL.10, BCL.11
15 PLIP interactions:14 interactions with chain B, 1 interactions with chain C,- Hydrophobic interactions: B:F.97, B:F.97, B:F.97, 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.10: 25 residues within 4Å:- Chain B: V.157, Y.162, R.181
- Chain C: 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.3, BCL.4, BCL.11, BPH.21
15 PLIP interactions:13 interactions with chain C, 2 interactions with chain B,- Hydrophobic interactions: C:L.156, C:W.157, C:T.186, C:F.189, C:L.196, C:F.197, C:I.206, C:L.209, C:Y.210, C:V.276, C:I.284, B:V.157
- Hydrogen bonds: C:S.205
- Metal complexes: C:H.202
- Salt bridges: B:R.181
BCL.11: 19 residues within 4Å:- Chain B: 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, G.211, L.214
- Ligands: BCL.4, BPH.9, BCL.10, LDA.13, LDA.15
12 PLIP interactions:6 interactions with chain C, 6 interactions with chain B,- Hydrophobic interactions: C:F.197, C:I.206, C:I.206, C:Y.210, C:L.214, B:Y.128, B:L.131, B:F.146, B:F.146, B:L.154
- pi-Stacking: C:Y.210
- Metal complexes: B:H.153
- 2 x GOL: GLYCEROL(Non-functional Binders)
- 3 x HTO: HEPTANE-1,2,3-TRIOL(Non-covalent)
HTO.7: 7 residues within 4Å:- Chain B: H.190, L.193, F.216, S.223, I.224, G.225, I.229
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:F.216, B:I.224
- Hydrogen bonds: B:H.190, B:I.224, B:G.225
HTO.8: 4 residues within 4Å:- Chain B: V.220, Y.222
- Ligands: LDA.16, LDA.17
1 PLIP interactions:1 interactions with chain B- Hydrophobic interactions: B:Y.222
HTO.20: 8 residues within 4Å:- Chain B: W.263, W.265, W.266
- Chain C: L.86, R.87, L.89, F.90, F.91
6 PLIP interactions:5 interactions with chain C, 1 interactions with chain B- Hydrophobic interactions: C:L.89, C:F.90, C:F.90, C:F.90, C:F.91, B:W.266
- 2 x BPH: BACTERIOPHEOPHYTIN A(Non-covalent)
BPH.9: 27 residues within 4Å:- Chain B: 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.148, I.150, H.153, L.238, V.241
- Chain C: Y.210, A.213, L.214, M.218, W.252, T.255, M.256
- Ligands: BCL.4, BCL.11, U10.23
16 PLIP interactions:3 interactions with chain C, 13 interactions with chain B- Hydrophobic interactions: C:Y.210, C:A.213, C:L.214, B:A.42, B:A.93, B:F.97, B:A.120, B:F.121, B:F.121, B:F.121, B:F.123, B:A.124, B:Y.148, B:L.238, B:V.241, B:V.241
BPH.21: 22 residues within 4Å:- Chain B: R.181, A.184, L.185, L.189, L.219, V.220
- Chain C: S.59, L.60, G.63, L.64, F.67, A.125, V.126, W.129, T.133, T.146, A.149, F.150, A.153, T.277
- Ligands: BCL.3, BCL.10
15 PLIP interactions:11 interactions with chain C, 4 interactions with chain B- Hydrophobic interactions: C:L.64, C:F.67, C:F.67, C:W.129, C:W.129, C:A.149, C:F.150, C:F.150, C:A.153, C:T.277, B:R.181, B:A.184, B:L.185, B:L.189
- pi-Stacking: C:F.150
- 1 x CDL: CARDIOLIPIN(Non-covalent)
CDL.12: 18 residues within 4Å:- Chain A: A.16, I.22, F.23, G.26, L.27, Y.30
- Chain B: N.199, P.200, K.202
- Chain C: G.143, K.144, H.145, W.148, L.151, R.267, I.270, W.271, L.278
23 PLIP interactions:15 interactions with chain C, 7 interactions with chain A, 1 interactions with chain B- Hydrophobic interactions: C:W.148, C:W.148, C:L.151, C:L.151, C:I.270, C:W.271, C:L.278, A:I.22, A:F.23, A:F.23, A:L.27, A:Y.30, A:Y.30
- Hydrogen bonds: C:K.144, B:P.200
- Water bridges: C:K.144, C:R.267, A:Y.30
- Salt bridges: C:K.144, C:H.145, C:H.145, C:H.145, C:R.267
- 1 x FE: FE (III) ION(Non-covalent)
- 1 x SPN: SPEROIDENONE(Non-covalent)
SPN.22: 22 residues within 4Å:- Chain C: F.67, F.68, I.70, G.71, F.74, W.75, F.105, W.115, 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.3
16 PLIP interactions:16 interactions with chain C- Hydrophobic interactions: C:F.67, C:F.67, C:F.68, C:I.70, C:F.74, C:F.105, C:W.115, C:W.157, C:L.160, C:F.162, C:W.171, C:V.175, C:Y.177, C:Y.177, C:Y.177, C:I.179
- 1 x U10: UBIQUINONE-10(Non-covalent)
U10.23: 23 residues within 4Å:- Chain B: F.29, Y.30, G.35, 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: BPH.9, LDA.14, LDA.15
14 PLIP interactions:10 interactions with chain C, 4 interactions with chain B- Hydrophobic interactions: C:M.218, C:W.252, C:F.258, C:F.258, C:A.260, C:I.265, C:W.268, C:W.268, B:F.29, B:F.29, B:W.100, B:W.100
- Hydrogen bonds: C:T.222, C:A.260
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Frolov, D. et al., Structural and Spectroscopic Consequences of Hexa-Coordination of a Bacteriochlorophyll Cofactor in the Rhodobacter Sphaeroides Reaction Centre. Biochemistry (2010)
- Release Date
- 2010-02-09
- Peptides
- REACTION CENTER PROTEIN H CHAIN: A
REACTION CENTRE PROTEIN L CHAIN: B
REACTION CENTRE PROTEIN M CHAIN: C - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
HB
LC
M - Membrane
-
We predict this structure to be a membrane protein.
SMTL ID : 2wx5.1
Hexa-coordination of a bacteriochlorophyll cofactor in the Rhodobacter sphaeroides reaction centre
REACTION CENTER PROTEIN H CHAIN
REACTION CENTRE PROTEIN L CHAIN
REACTION CENTRE PROTEIN M CHAIN
Related Entries With Identical Sequence
1aig.1 | 1aig.2 | 1aij.1 | 1aij.2 | 1e14.1 | 1e6d.1 | 1f6n.1 | 1fnp.1 | 1fnq.1 | 1jgw.1 | 1jgx.1 | 1jgy.1 | 1jgz.1 | 1jh0.1 | 1k6l.1 | 1k6n.1 | 1kby.1 | 1l9b.1 | 1l9j.1 | 1l9j.2 | 1m3x.1 | 1mps.1 | 1ogv.1 | 1pcr.1 | 1qov.1 | 1rg5.1 | 1rgn.1 | 1rqk.1 | 1ry5.1 | 1rzh.1 more...less...1rzz.1 | 1rzz.2 | 1s00.1 | 1s00.2 | 1umx.1 | 1yf6.1 | 1yst.1 | 1z9j.1 | 1z9k.1 | 1z9k.2 | 2bnp.1 | 2bns.1 | 2boz.1 | 2gmr.1 | 2hg3.1 | 2hg9.1 | 2hh1.1 | 2hhk.1 | 2hit.1 | 2hj6.1 | 2j8c.1 | 2j8d.1 | 2jiy.1 | 2jj0.1 | 2rcr.1 | 2uws.1 | 2uwt.1 | 2uwu.1 | 2uwv.1 | 2uww.1 | 2ux3.1 | 2ux4.1 | 2ux5.1 | 2uxj.1 | 2uxk.1 | 2uxl.1 | 2uxm.1 | 3dsy.1 | 3dta.1 | 3dtr.1 | 3dts.1 | 3du2.1 | 3du3.1 | 3duq.1 | 3i4d.1 | 3zum.1 | 3zuw.1 | 4h99.1 | 4h9l.1 | 4hbh.1 | 4hbj.1 | 4lwy.1 | 4rcr.1 | 4v9g.30 | 4v9g.62 | 5lri.1 | 5lse.1 | 7pil.1 | 7pqd.31 | 7pqd.66 | 7va9.3 | 7va9.35 | 7vb9.1 | 7vnm.1 | 7vny.1 | 7vor.3 | 7vor.36 | 7vot.3 | 7vot.36 | 7voy.1 | 8vtj.1