SMTL ID : 1c3w.1

BACTERIORHODOPSIN/LIPID COMPLEX AT 1.55 A RESOLUTION

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-trimer

Ligands

39 x LI1: 1-[2,6,10.14-TETRAMETHYL-HEXADECAN-16-YL]-2-[2,10,14-TRIMETHYLHEXADECAN-16-YL]GLYCEROL(Non-covalent)(Non-functional Binders)

LI1.1: 9 residues within 4Å: Chain A: Y.129, V.132, A.135, I.136, A.139 Chain B: L.54 Ligands: LI1.2, LI1.8, LI1.21 Ligand excluded by PLIP LI1.2: 9 residues within 4Å: Chain A: Y.127, S.128, F.131, W.134, A.135, A.187 Ligands: LI1.1, LI1.3, LI1.8 Ligand excluded by PLIP LI1.3: 6 residues within 4Å: Chain A: T.138, V.178, L.181, I.189 Ligands: LI1.2, LI1.9 Ligand excluded by PLIP LI1.4: 2 residues within 4Å: Chain A: I.189 Ligands: LI1.10 Ligand excluded by PLIP LI1.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP LI1.6: 6 residues within 4Å: Chain A: A.10, A.14, L.18, L.57 Ligands: LI1.11, LI1.31 Ligand excluded by PLIP LI1.7: 16 residues within 4Å: Chain A: T.51, M.52, Y.60, W.76, F.84 Chain C: W.76, A.80, F.84, G.112, I.113, G.116, L.119, V.120, L.123 Ligands: LI1.22, LI1.37 Ligand excluded by PLIP LI1.8: 4 residues within 4Å: Chain A: A.135, A.139 Ligands: LI1.1, LI1.2 Ligand excluded by PLIP LI1.9: 2 residues within 4Å: Chain A: F.150 Ligands: LI1.3 Ligand excluded by PLIP LI1.10: 9 residues within 4Å: Chain A: F.149, K.163, N.167, V.170, V.171, S.174, A.175, V.178 Ligands: LI1.4 Ligand excluded by PLIP LI1.11: 4 residues within 4Å: Chain A: L.18, L.21, Y.22 Ligands: LI1.6 Ligand excluded by PLIP LI1.12: 12 residues within 4Å: Chain A: G.17, L.21, L.24, K.36, Y.39, A.40, T.43, L.44, F.50 Chain C: A.106, A.110, Y.143 Ligand excluded by PLIP LI1.13: 6 residues within 4Å: Chain A: L.83, F.84, P.87, L.88, L.91, V.108 Ligand excluded by PLIP LI1.16: 9 residues within 4Å: Chain B: Y.129, V.132, A.135, I.136, A.139 Chain C: L.54 Ligands: LI1.17, LI1.23, LI1.36 Ligand excluded by PLIP LI1.17: 9 residues within 4Å: Chain B: Y.127, S.128, F.131, W.134, A.135, A.187 Ligands: LI1.16, LI1.18, LI1.23 Ligand excluded by PLIP LI1.18: 6 residues within 4Å: Chain B: T.138, V.178, L.181, I.189 Ligands: LI1.17, LI1.24 Ligand excluded by PLIP LI1.19: 2 residues within 4Å: Chain B: I.189 Ligands: LI1.25 Ligand excluded by PLIP LI1.20: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP LI1.21: 6 residues within 4Å: Chain B: A.10, A.14, L.18, L.57 Ligands: LI1.1, LI1.26 Ligand excluded by PLIP LI1.22: 16 residues within 4Å: Chain A: W.76, A.80, F.84, G.112, I.113, G.116, L.119, V.120, L.123 Chain B: T.51, M.52, Y.60, W.76, F.84 Ligands: LI1.7, LI1.37 Ligand excluded by PLIP LI1.23: 4 residues within 4Å: Chain B: A.135, A.139 Ligands: LI1.16, LI1.17 Ligand excluded by PLIP LI1.24: 2 residues within 4Å: Chain B: F.150 Ligands: LI1.18 Ligand excluded by PLIP LI1.25: 9 residues within 4Å: Chain B: F.149, K.163, N.167, V.170, V.171, S.174, A.175, V.178 Ligands: LI1.19 Ligand excluded by PLIP LI1.26: 4 residues within 4Å: Chain B: L.18, L.21, Y.22 Ligands: LI1.21 Ligand excluded by PLIP LI1.27: 12 residues within 4Å: Chain A: A.106, A.110, Y.143 Chain B: G.17, L.21, L.24, K.36, Y.39, A.40, T.43, L.44, F.50 Ligand excluded by PLIP LI1.28: 6 residues within 4Å: Chain B: L.83, F.84, P.87, L.88, L.91, V.108 Ligand excluded by PLIP LI1.31: 9 residues within 4Å: Chain A: L.54 Chain C: Y.129, V.132, A.135, I.136, A.139 Ligands: LI1.6, LI1.32, LI1.38 Ligand excluded by PLIP LI1.32: 9 residues within 4Å: Chain C: Y.127, S.128, F.131, W.134, A.135, A.187 Ligands: LI1.31, LI1.33, LI1.38 Ligand excluded by PLIP LI1.33: 6 residues within 4Å: Chain C: T.138, V.178, L.181, I.189 Ligands: LI1.32, LI1.39 Ligand excluded by PLIP LI1.34: 2 residues within 4Å: Chain C: I.189 Ligands: LI1.40 Ligand excluded by PLIP LI1.35: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP LI1.36: 6 residues within 4Å: Chain C: A.10, A.14, L.18, L.57 Ligands: LI1.16, LI1.41 Ligand excluded by PLIP LI1.37: 16 residues within 4Å: Chain B: W.76, A.80, F.84, G.112, I.113, G.116, L.119, V.120, L.123 Chain C: T.51, M.52, Y.60, W.76, F.84 Ligands: LI1.7, LI1.22 Ligand excluded by PLIP LI1.38: 4 residues within 4Å: Chain C: A.135, A.139 Ligands: LI1.31, LI1.32 Ligand excluded by PLIP LI1.39: 2 residues within 4Å: Chain C: F.150 Ligands: LI1.33 Ligand excluded by PLIP LI1.40: 9 residues within 4Å: Chain C: F.149, K.163, N.167, V.170, V.171, S.174, A.175, V.178 Ligands: LI1.34 Ligand excluded by PLIP LI1.41: 4 residues within 4Å: Chain C: L.18, L.21, Y.22 Ligands: LI1.36 Ligand excluded by PLIP LI1.42: 12 residues within 4Å: Chain B: A.106, A.110, Y.143 Chain C: G.17, L.21, L.24, K.36, Y.39, A.40, T.43, L.44, F.50 Ligand excluded by PLIP LI1.43: 6 residues within 4Å: Chain C: L.83, F.84, P.87, L.88, L.91, V.108 Ligand excluded by PLIP

3 x SQU: 2,10,23-TRIMETHYL-TETRACOSANE(Non-covalent)

SQU.14: 6 residues within 4Å: Chain A: L.15, V.204, S.205, V.208, G.209, L.212 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.204, A:V.208, A:L.212 SQU.29: 6 residues within 4Å: Chain B: L.15, V.204, S.205, V.208, G.209, L.212 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:V.204, B:V.208, B:L.212 SQU.44: 6 residues within 4Å: Chain C: L.15, V.204, S.205, V.208, G.209, L.212 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:V.204, C:V.208, C:L.212

3 x RET: RETINAL(Covalent)

RET.15: 17 residues within 4Å: Chain A: W.82, T.85, T.86, L.89, M.114, G.118, W.134, S.137, T.138, M.141, W.173, Y.176, P.177, W.180, D.203, A.206, K.207 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:W.82, A:T.86, A:M.141, A:W.173, A:W.173, A:Y.176, A:Y.176, A:Y.176, A:P.177, A:W.180, A:W.180, A:A.206, A:K.207 RET.30: 17 residues within 4Å: Chain B: W.82, T.85, T.86, L.89, M.114, G.118, W.134, S.137, T.138, M.141, W.173, Y.176, P.177, W.180, D.203, A.206, K.207 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:W.82, B:T.86, B:M.141, B:W.173, B:W.173, B:Y.176, B:Y.176, B:Y.176, B:P.177, B:W.180, B:W.180, B:A.206, B:K.207 RET.45: 17 residues within 4Å: Chain C: W.82, T.85, T.86, L.89, M.114, G.118, W.134, S.137, T.138, M.141, W.173, Y.176, P.177, W.180, D.203, A.206, K.207 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:W.82, C:T.86, C:M.141, C:W.173, C:W.173, C:Y.176, C:Y.176, C:Y.176, C:P.177, C:W.180, C:W.180, C:A.206, C:K.207

Links

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Citation

Luecke, H. et al., Structure of bacteriorhodopsin at 1.55 A resolution. J.Mol.Biol. (1999)

Release Date

1999-09-15

Peptides

BACTERIORHODOPSIN (GROUND STATE WILD TYPE "BR"): 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.
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BACTERIORHODOPSIN (GROUND STATE WILD TYPE "BR")