SMTL ID : 1bm1.1

CRYSTAL STRUCTURE OF BACTERIORHODOPSIN IN THE LIGHT-ADAPTED STATE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

homo-trimer

Ligands

3 x RET: RETINAL(Covalent)

RET.1: 13 residues within 4Å: Chain A: W.86, T.89, T.90, L.93, M.118, S.141, M.145, W.182, Y.185, P.186, W.189, D.212, K.216 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.86, A:T.89, A:L.93, A:Y.185, A:Y.185, A:Y.185, A:Y.185, A:P.186, A:W.189, A:W.189, A:W.189, A:K.216 RET.3: 13 residues within 4Å: Chain B: W.86, T.89, T.90, L.93, M.118, S.141, M.145, W.182, Y.185, P.186, W.189, D.212, K.216 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:W.86, B:T.89, B:L.93, B:Y.185, B:Y.185, B:Y.185, B:Y.185, B:P.186, B:W.189, B:W.189, B:W.189, B:K.216 RET.5: 13 residues within 4Å: Chain C: W.86, T.89, T.90, L.93, M.118, S.141, M.145, W.182, Y.185, P.186, W.189, D.212, K.216 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:W.86, C:T.89, C:L.93, C:Y.185, C:Y.185, C:Y.185, C:Y.185, C:P.186, C:W.189, C:W.189, C:W.189, C:K.216

3 x DPG: PHOSPHORIC ACID 2,3-BIS-(3,7,11,15-TETRAMETHYL-HEXADECYLOXY)-PROPYL ESTER 2-HYDROXO-3-PHOSPHONOOXY-PROPYL ESTER(Non-covalent)

DPG.2: 17 residues within 4Å: Chain A: L.25, L.28, G.31, M.32, V.34, S.35, K.40, Y.43, A.44, T.47 Chain C: G.106, A.110, A.114, A.143, L.146, Y.147, Y.150 15 PLIP interactions: 7 interactions with chain A, 8 interactions with chain C Hydrophobic interactions: A:L.25, A:L.28, A:M.32, A:V.34, A:A.44, C:A.110, C:A.114, C:A.143, C:Y.147, C:Y.147, C:Y.147, C:Y.150, C:Y.150 Hydrogen bonds: A:V.34 Salt bridges: A:K.40 DPG.4: 17 residues within 4Å: Chain A: G.106, A.110, A.114, A.143, L.146, Y.147, Y.150 Chain B: L.25, L.28, G.31, M.32, V.34, S.35, K.40, Y.43, A.44, T.47 15 PLIP interactions: 7 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:L.25, B:L.28, B:M.32, B:V.34, B:A.44, A:A.110, A:A.114, A:A.143, A:Y.147, A:Y.147, A:Y.147, A:Y.150, A:Y.150 Hydrogen bonds: B:V.34 Salt bridges: B:K.40 DPG.6: 17 residues within 4Å: Chain B: G.106, A.110, A.114, A.143, L.146, Y.147, Y.150 Chain C: L.25, L.28, G.31, M.32, V.34, S.35, K.40, Y.43, A.44, T.47 15 PLIP interactions: 8 interactions with chain B, 7 interactions with chain C Hydrophobic interactions: B:A.110, B:A.114, B:A.143, B:Y.147, B:Y.147, B:Y.147, B:Y.150, B:Y.150, C:L.25, C:L.28, C:M.32, C:V.34, C:A.44 Hydrogen bonds: C:V.34 Salt bridges: C:K.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sato, H. et al., Specific lipid-protein interactions in a novel honeycomb lattice structure of bacteriorhodopsin. Acta Crystallogr.,Sect.D (1999)

Release Date

1999-04-27

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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