SMTL ID : 1qhj.1

X-RAY STRUCTURE OF BACTERIORHODOPSIN GROWN IN LIPIDIC CUBIC PHASES

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-trimer

Ligands

3 x RET: RETINAL(Covalent)

RET.1: 18 residues within 4Å: Chain A: Y.83, W.86, T.89, T.90, L.93, M.118, G.122, W.138, S.141, T.142, M.145, W.182, Y.185, P.186, W.189, D.212, A.215, K.216 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.83, A:T.90, A:L.93, A:M.145, A:W.182, A:Y.185, A:Y.185, A:Y.185, A:Y.185, A:P.186, A:W.189, A:A.215, A:K.216 RET.11: 18 residues within 4Å: Chain B: Y.83, W.86, T.89, T.90, L.93, M.118, G.122, W.138, S.141, T.142, M.145, W.182, Y.185, P.186, W.189, D.212, A.215, K.216 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:Y.83, B:T.90, B:L.93, B:M.145, B:W.182, B:Y.185, B:Y.185, B:Y.185, B:Y.185, B:P.186, B:W.189, B:A.215, B:K.216 RET.21: 18 residues within 4Å: Chain C: Y.83, W.86, T.89, T.90, L.93, M.118, G.122, W.138, S.141, T.142, M.145, W.182, Y.185, P.186, W.189, D.212, A.215, K.216 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:Y.83, C:T.90, C:L.93, C:M.145, C:W.182, C:Y.185, C:Y.185, C:Y.185, C:Y.185, C:P.186, C:W.189, C:A.215, C:K.216

27 x PH1: 1,2-[DI-2,6,10,14-TETRAMETHYL-HEXADECAN-16-OXY]-PROPANE(Non-covalent)

PH1.2: 19 residues within 4Å: Chain A: L.48, I.52, M.56, Y.64, W.80, A.84, L.87, F.88, L.92, L.123, L.127 Chain C: G.113, G.116, I.117, G.120, V.124, L.127 Ligands: PH1.12, PH1.22 15 PLIP interactions: 12 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:I.52, A:I.52, A:W.80, A:W.80, A:W.80, A:A.84, A:L.87, A:F.88, A:F.88, A:F.88, A:L.92, A:L.127, C:I.117, C:V.124, C:L.127 PH1.3: 18 residues within 4Å: Chain A: Y.133, V.136, A.139, I.140 Chain B: A.14, T.17, A.18, G.21, L.22, T.24, L.25, F.54, L.58, L.61, L.62 Ligands: PH1.4, PH1.6, PH1.8 16 PLIP interactions: 12 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:A.14, B:T.17, B:A.18, B:L.22, B:T.24, B:L.25, B:L.25, B:F.54, B:F.54, B:F.54, B:L.61, B:L.62, A:Y.133, A:V.136, A:A.139, A:I.140 PH1.4: 12 residues within 4Å: Chain A: Y.131, S.132, F.135, W.138, A.139, A.143, L.146, L.190, A.196 Ligands: PH1.3, PH1.5, PH1.6 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.135, A:F.135, A:F.135, A:W.138, A:A.139, A:A.143, A:L.146, A:L.190, A:A.196 Hydrogen bonds: A:Y.131 PH1.5: 4 residues within 4Å: Chain A: A.196, I.198 Ligands: PH1.4, PH1.9 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.196, A:I.198 PH1.6: 4 residues within 4Å: Chain B: L.22 Ligands: PH1.3, PH1.4, PH1.8 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.22 PH1.7: 10 residues within 4Å: Chain A: F.153, K.172, R.175, N.176, V.179, V.180, S.183, A.184, V.187 Ligands: PH1.9 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.153, A:N.176, A:V.179, A:V.180, A:V.180, A:V.187 Hydrogen bonds: A:R.175, A:N.176 PH1.8: 23 residues within 4Å: Chain A: G.106, T.107, A.110, A.114, I.117, I.140, A.143, A.144, L.146, Y.147, Y.150 Chain B: L.25, L.28, G.31, M.32, K.40, Y.43, A.44, T.47, L.48, T.55 Ligands: PH1.3, PH1.6 17 PLIP interactions: 10 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:A.114, A:I.117, A:A.143, A:A.144, A:Y.147, A:Y.147, A:Y.147, A:Y.147, A:Y.147, A:Y.150, B:L.25, B:K.40, B:Y.43, B:A.44, B:T.47, B:L.48, B:T.55 PH1.9: 9 residues within 4Å: Chain A: M.145, L.146, L.149, Y.150, F.153, F.154, S.183 Ligands: PH1.5, PH1.7 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.146, A:L.149, A:L.149, A:F.153, A:F.154, A:F.154, A:F.154 PH1.10: 11 residues within 4Å: Chain A: L.19, Y.26, V.177, V.210, V.213, S.214, V.217, G.218, L.221, I.222, R.225 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.19, A:Y.26, A:Y.26, A:V.177, A:V.210, A:V.213, A:V.217, A:V.217, A:L.221, A:L.221 PH1.12: 19 residues within 4Å: Chain A: G.113, G.116, I.117, G.120, V.124, L.127 Chain B: L.48, I.52, M.56, Y.64, W.80, A.84, L.87, F.88, L.92, L.123, L.127 Ligands: PH1.2, PH1.22 15 PLIP interactions: 12 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:I.52, B:I.52, B:W.80, B:W.80, B:W.80, B:A.84, B:L.87, B:F.88, B:F.88, B:F.88, B:L.92, B:L.127, A:I.117, A:V.124, A:L.127 PH1.13: 18 residues within 4Å: Chain B: Y.133, V.136, A.139, I.140 Chain C: A.14, T.17, A.18, G.21, L.22, T.24, L.25, F.54, L.58, L.61, L.62 Ligands: PH1.14, PH1.16, PH1.18 16 PLIP interactions: 4 interactions with chain B, 12 interactions with chain C Hydrophobic interactions: B:Y.133, B:V.136, B:A.139, B:I.140, C:A.14, C:T.17, C:A.18, C:L.22, C:T.24, C:L.25, C:L.25, C:F.54, C:F.54, C:F.54, C:L.61, C:L.62 PH1.14: 12 residues within 4Å: Chain B: Y.131, S.132, F.135, W.138, A.139, A.143, L.146, L.190, A.196 Ligands: PH1.13, PH1.15, PH1.16 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:F.135, B:F.135, B:F.135, B:W.138, B:A.139, B:A.143, B:L.146, B:L.190, B:A.196 Hydrogen bonds: B:Y.131 PH1.15: 4 residues within 4Å: Chain B: A.196, I.198 Ligands: PH1.14, PH1.19 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:A.196, B:I.198 PH1.16: 4 residues within 4Å: Chain C: L.22 Ligands: PH1.13, PH1.14, PH1.18 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.22 PH1.17: 10 residues within 4Å: Chain B: F.153, K.172, R.175, N.176, V.179, V.180, S.183, A.184, V.187 Ligands: PH1.19 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:F.153, B:N.176, B:V.179, B:V.180, B:V.180, B:V.187 Hydrogen bonds: B:R.175, B:N.176 PH1.18: 23 residues within 4Å: Chain B: G.106, T.107, A.110, A.114, I.117, I.140, A.143, A.144, L.146, Y.147, Y.150 Chain C: L.25, L.28, G.31, M.32, K.40, Y.43, A.44, T.47, L.48, T.55 Ligands: PH1.13, PH1.16 17 PLIP interactions: 7 interactions with chain C, 10 interactions with chain B Hydrophobic interactions: C:L.25, C:K.40, C:Y.43, C:A.44, C:T.47, C:L.48, C:T.55, B:A.114, B:I.117, B:A.143, B:A.144, B:Y.147, B:Y.147, B:Y.147, B:Y.147, B:Y.147, B:Y.150 PH1.19: 9 residues within 4Å: Chain B: M.145, L.146, L.149, Y.150, F.153, F.154, S.183 Ligands: PH1.15, PH1.17 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.146, B:L.149, B:L.149, B:F.153, B:F.154, B:F.154, B:F.154 PH1.20: 11 residues within 4Å: Chain B: L.19, Y.26, V.177, V.210, V.213, S.214, V.217, G.218, L.221, I.222, R.225 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:L.19, B:Y.26, B:Y.26, B:V.177, B:V.210, B:V.213, B:V.217, B:V.217, B:L.221, B:L.221 PH1.22: 19 residues within 4Å: Chain B: G.113, G.116, I.117, G.120, V.124, L.127 Chain C: L.48, I.52, M.56, Y.64, W.80, A.84, L.87, F.88, L.92, L.123, L.127 Ligands: PH1.2, PH1.12 15 PLIP interactions: 12 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:I.52, C:I.52, C:W.80, C:W.80, C:W.80, C:A.84, C:L.87, C:F.88, C:F.88, C:F.88, C:L.92, C:L.127, B:I.117, B:V.124, B:L.127 PH1.23: 18 residues within 4Å: Chain A: A.14, T.17, A.18, G.21, L.22, T.24, L.25, F.54, L.58, L.61, L.62 Chain C: Y.133, V.136, A.139, I.140 Ligands: PH1.24, PH1.26, PH1.28 16 PLIP interactions: 12 interactions with chain A, 4 interactions with chain C Hydrophobic interactions: A:A.14, A:T.17, A:A.18, A:L.22, A:T.24, A:L.25, A:L.25, A:F.54, A:F.54, A:F.54, A:L.61, A:L.62, C:Y.133, C:V.136, C:A.139, C:I.140 PH1.24: 12 residues within 4Å: Chain C: Y.131, S.132, F.135, W.138, A.139, A.143, L.146, L.190, A.196 Ligands: PH1.23, PH1.25, PH1.26 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:F.135, C:F.135, C:F.135, C:W.138, C:A.139, C:A.143, C:L.146, C:L.190, C:A.196 Hydrogen bonds: C:Y.131 PH1.25: 4 residues within 4Å: Chain C: A.196, I.198 Ligands: PH1.24, PH1.29 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:A.196, C:I.198 PH1.26: 4 residues within 4Å: Chain A: L.22 Ligands: PH1.23, PH1.24, PH1.28 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.22 PH1.27: 10 residues within 4Å: Chain C: F.153, K.172, R.175, N.176, V.179, V.180, S.183, A.184, V.187 Ligands: PH1.29 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:F.153, C:N.176, C:V.179, C:V.180, C:V.180, C:V.187 Hydrogen bonds: C:R.175, C:N.176 PH1.28: 23 residues within 4Å: Chain A: L.25, L.28, G.31, M.32, K.40, Y.43, A.44, T.47, L.48, T.55 Chain C: G.106, T.107, A.110, A.114, I.117, I.140, A.143, A.144, L.146, Y.147, Y.150 Ligands: PH1.23, PH1.26 17 PLIP interactions: 7 interactions with chain A, 10 interactions with chain C Hydrophobic interactions: A:L.25, A:K.40, A:Y.43, A:A.44, A:T.47, A:L.48, A:T.55, C:A.114, C:I.117, C:A.143, C:A.144, C:Y.147, C:Y.147, C:Y.147, C:Y.147, C:Y.147, C:Y.150 PH1.29: 9 residues within 4Å: Chain C: M.145, L.146, L.149, Y.150, F.153, F.154, S.183 Ligands: PH1.25, PH1.27 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:L.146, C:L.149, C:L.149, C:F.153, C:F.154, C:F.154, C:F.154 PH1.30: 11 residues within 4Å: Chain C: L.19, Y.26, V.177, V.210, V.213, S.214, V.217, G.218, L.221, I.222, R.225 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:L.19, C:Y.26, C:Y.26, C:V.177, C:V.210, C:V.213, C:V.217, C:V.217, C:L.221, C:L.221

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Belrhali, H. et al., Protein, lipid and water organization in bacteriorhodopsin crystals: a molecular view of the purple membrane at 1.9 A resolution. Structure Fold.Des. (1999)

Release Date

1999-07-21

Peptides

PROTEIN (BACTERIORHODOPSIN): ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Membrane

We predict this structure to be a membrane protein.
Show / Hide

PROTEIN (BACTERIORHODOPSIN)

Related Entries With Identical Sequence