SMTL ID : 1xji.1

Bacteriorhodopsin crystallized in bicelles at room temperature

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x RET: RETINAL(Covalent)

RET.1: 16 residues within 4Å: Chain A: Y.82, W.85, T.89, L.92, M.117, W.137, S.140, T.141, M.144, W.181, Y.184, P.185, W.188, D.211, A.214, K.215 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.82, A:T.89, A:L.92, A:M.144, A:W.181, A:Y.184, A:Y.184, A:Y.184, A:Y.184, A:P.185, A:W.188, A:A.214, A:K.215

1 x D12: DODECANE(Non-covalent)

D12.2: 6 residues within 4Å: Chain A: W.9, A.13, T.16, F.53, L.57 Ligands: CPS.13 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.9, A:W.9, A:A.13, A:T.16, A:F.53, A:L.57

6 x D10: DECANE(Non-functional Binders)(Non-covalent)

D10.3: 1 residues within 4Å: Ligands: C14.4 No protein-ligand interaction detected (PLIP) D10.6: 5 residues within 4Å: Chain A: A.109, I.139, A.142, A.143, Y.146 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.109, A:I.139, A:A.142 D10.8: 5 residues within 4Å: Chain A: Y.132, V.135, W.136, I.139 Ligands: D10.12 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.132, A:V.135, A:W.136, A:W.136 D10.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) D10.11: 1 residues within 4Å: Ligands: C14.4 No protein-ligand interaction detected (PLIP) D10.12: 2 residues within 4Å: Ligands: OCT.5, D10.8 No protein-ligand interaction detected (PLIP)

1 x C14: TETRADECANE(Non-covalent)

C14.4: 7 residues within 4Å: Chain A: S.131, F.134, V.135, W.137, L.189 Ligands: D10.3, D10.11 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.134, A:V.135, A:W.137, A:L.189

3 x OCT: N-OCTANE(Non-functional Binders)(Non-covalent)

OCT.5: 1 residues within 4Å: Ligands: D10.12 No protein-ligand interaction detected (PLIP) OCT.7: 4 residues within 4Å: Chain A: L.27, K.39, A.43, T.46 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.39, A:A.43, A:T.46 OCT.9: 2 residues within 4Å: Chain A: I.197, V.198 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.198

1 x CPS: 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE(Non-covalent)

CPS.13: 5 residues within 4Å: Chain A: G.5, W.9, L.60, L.61 Ligands: D12.2 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.9, A:W.9, A:W.9, A:L.61 Hydrogen bonds: A:G.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Faham, S. et al., Crystallization of bacteriorhodopsin from bicelle formulations at room temperature. Protein Sci. (2005)

Release Date

2005-04-19

Peptides

Bacteriorhodopsin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Bacteriorhodopsin