SMTL ID : 1kg8.1

X-ray structure of an early-M intermediate of bacteriorhodopsin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-trimer

Ligands

3 x RET: RETINAL(Covalent)

RET.1: 16 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, D.212, A.215, K.216 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.90, A:M.145, A:W.182, A:Y.185, A:Y.185, A:Y.185, A:P.186, A:K.216 RET.5: 16 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, D.212, A.215, K.216 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:T.90, B:M.145, B:W.182, B:Y.185, B:Y.185, B:Y.185, B:P.186, B:K.216 RET.9: 16 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, D.212, A.215, K.216 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:T.90, C:M.145, C:W.182, C:Y.185, C:Y.185, C:Y.185, C:P.186, C:K.216

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

LI1.2: 2 residues within 4Å: Chain A: F.135, L.190 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.135, A:F.135, A:L.190 LI1.3: 9 residues within 4Å: Chain A: T.24, L.28, A.44, T.47, F.54 Chain C: A.110, A.114, A.144, Y.147 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain A Hydrophobic interactions: C:A.110, C:A.114, C:A.144, C:Y.147, A:T.24, A:A.44, A:F.54 LI1.4: 5 residues within 4Å: Chain A: L.87, F.88, P.91, L.95, V.112 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.87, A:F.88, A:P.91, A:P.91, A:L.95, A:V.112 LI1.6: 2 residues within 4Å: Chain B: F.135, L.190 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.135, B:F.135, B:L.190 LI1.7: 9 residues within 4Å: Chain A: A.110, A.114, A.144, Y.147 Chain B: T.24, L.28, A.44, T.47, F.54 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:T.24, B:A.44, B:F.54, A:A.110, A:A.114, A:A.144, A:Y.147 LI1.8: 5 residues within 4Å: Chain B: L.87, F.88, P.91, L.95, V.112 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.87, B:F.88, B:P.91, B:P.91, B:L.95, B:V.112 LI1.10: 2 residues within 4Å: Chain C: F.135, L.190 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:F.135, C:F.135, C:L.190 LI1.11: 9 residues within 4Å: Chain B: A.110, A.114, A.144, Y.147 Chain C: T.24, L.28, A.44, T.47, F.54 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:A.110, B:A.114, B:A.144, B:Y.147, C:T.24, C:A.44, C:F.54 LI1.12: 5 residues within 4Å: Chain C: L.87, F.88, P.91, L.95, V.112 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:L.87, C:F.88, C:P.91, C:P.91, C:L.95, C:V.112

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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