SMTL ID : 1kg9.1

Structure of a "mock-trapped" early-M intermediate of bacteriorhosopsin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.81 Å

Oligo State

homo-trimer

Ligands

3 x RET: RETINAL(Covalent)

RET.1: 17 residues within 4Å: Chain A: 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 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.86, A:T.90, A:L.93, A:M.145, A:W.182, A:W.182, A:Y.185, A:Y.185, A:Y.185, A:Y.185, A:P.186, A:W.189, A:W.189, A:A.215, A:K.216 RET.11: 17 residues within 4Å: Chain B: 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 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:W.86, B:T.90, B:L.93, B:M.145, B:W.182, B:W.182, B:Y.185, B:Y.185, B:Y.185, B:Y.185, B:P.186, B:W.189, B:W.189, B:A.215, B:K.216 RET.21: 17 residues within 4Å: Chain C: 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 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:W.86, C:T.90, C:L.93, C:M.145, C:W.182, C:W.182, C:Y.185, C:Y.185, C:Y.185, C:Y.185, C:P.186, C:W.189, C:W.189, C:A.215, C:K.216

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

LI1.2: 2 residues within 4Å: Chain A: F.135, L.190 Ligand excluded by PLIP LI1.3: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP LI1.4: 2 residues within 4Å: Chain A: I.198, V.199 Ligand excluded by PLIP LI1.5: 5 residues within 4Å: Chain A: A.14, A.18, G.21, L.22, L.61 Ligand excluded by PLIP LI1.6: 5 residues within 4Å: Chain A: M.56, F.88 Chain C: G.116, I.117, G.120 Ligand excluded by PLIP LI1.7: 1 residues within 4Å: Chain A: F.154 Ligand excluded by PLIP LI1.8: 2 residues within 4Å: Chain A: N.176, V.180 Ligand excluded by PLIP LI1.9: 11 residues within 4Å: Chain A: G.21, T.24, L.25, L.28, Y.43, A.44, T.47, F.54 Chain C: A.110, A.144, Y.147 Ligand excluded by PLIP LI1.10: 5 residues within 4Å: Chain A: L.87, F.88, P.91, L.95, V.112 Ligand excluded by PLIP LI1.12: 2 residues within 4Å: Chain B: F.135, L.190 Ligand excluded by PLIP LI1.13: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP LI1.14: 2 residues within 4Å: Chain B: I.198, V.199 Ligand excluded by PLIP LI1.15: 5 residues within 4Å: Chain B: A.14, A.18, G.21, L.22, L.61 Ligand excluded by PLIP LI1.16: 5 residues within 4Å: Chain A: G.116, I.117, G.120 Chain B: M.56, F.88 Ligand excluded by PLIP LI1.17: 1 residues within 4Å: Chain B: F.154 Ligand excluded by PLIP LI1.18: 2 residues within 4Å: Chain B: N.176, V.180 Ligand excluded by PLIP LI1.19: 11 residues within 4Å: Chain A: A.110, A.144, Y.147 Chain B: G.21, T.24, L.25, L.28, Y.43, A.44, T.47, F.54 Ligand excluded by PLIP LI1.20: 5 residues within 4Å: Chain B: L.87, F.88, P.91, L.95, V.112 Ligand excluded by PLIP LI1.22: 2 residues within 4Å: Chain C: F.135, L.190 Ligand excluded by PLIP LI1.23: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP LI1.24: 2 residues within 4Å: Chain C: I.198, V.199 Ligand excluded by PLIP LI1.25: 5 residues within 4Å: Chain C: A.14, A.18, G.21, L.22, L.61 Ligand excluded by PLIP LI1.26: 5 residues within 4Å: Chain B: G.116, I.117, G.120 Chain C: M.56, F.88 Ligand excluded by PLIP LI1.27: 1 residues within 4Å: Chain C: F.154 Ligand excluded by PLIP LI1.28: 2 residues within 4Å: Chain C: N.176, V.180 Ligand excluded by PLIP LI1.29: 11 residues within 4Å: Chain B: A.110, A.144, Y.147 Chain C: G.21, T.24, L.25, L.28, Y.43, A.44, T.47, F.54 Ligand excluded by PLIP LI1.30: 5 residues within 4Å: Chain C: L.87, F.88, P.91, L.95, V.112 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Facciotti, M.T. et al., Structure of an early intermediate in the M-state phase of the bacteriorhodopsin photocycle. Biophys.J. (2001)

Release Date

2001-12-05

Peptides

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.
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bacteriorhodopsin

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