SMTL ID : 4qry.1 (1 other biounit)

the ground state and the N intermediate of pharaonis halorhodopsin in complex with bromide ion

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-trimer

Ligands

3 x RET: RETINAL(Covalent)

RET.1: 15 residues within 4Å: Chain A: W.127, S.130, T.131, M.159, G.163, Y.180, S.183, C.184, F.187, W.222, Y.225, P.226, W.229, D.252, K.256 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:W.127, A:T.131, A:Y.180, A:Y.180, A:F.187, A:F.187, A:W.222, A:Y.225, A:Y.225, A:Y.225, A:Y.225, A:Y.225, A:P.226, A:W.229, A:W.229, A:K.256 RET.6: 17 residues within 4Å: Chain B: Y.124, W.127, T.131, M.159, G.163, Y.180, S.183, F.187, M.221, W.222, Y.225, P.226, W.229, D.252, A.255, K.256 Ligands: BR.7 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:Y.124, B:T.131, B:Y.180, B:Y.180, B:F.187, B:F.187, B:W.222, B:W.222, B:Y.225, B:Y.225, B:Y.225, B:Y.225, B:P.226, B:W.229, B:A.255, B:K.256 RET.9: 17 residues within 4Å: Chain C: Y.124, W.127, T.131, M.159, G.163, Y.180, S.183, C.184, F.187, W.222, Y.225, P.226, W.229, D.252, A.255, K.256 Ligands: BR.10 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:Y.124, C:T.131, C:Y.180, C:F.187, C:F.187, C:W.222, C:W.222, C:Y.225, C:Y.225, C:Y.225, C:Y.225, C:P.226, C:W.229, C:K.256

6 x BR: BROMIDE ION(Non-covalent)

BR.2: 5 residues within 4Å: Chain A: S.81, T.126, W.127, S.130, K.256 Ligand excluded by PLIP BR.3: 5 residues within 4Å: Chain A: N.145, T.147, K.148 Chain B: P.62, K.65 Ligand excluded by PLIP BR.7: 6 residues within 4Å: Chain B: V.74, S.130, T.131, I.134, K.256 Ligands: RET.6 Ligand excluded by PLIP BR.8: 4 residues within 4Å: Chain B: N.145, T.147 Chain C: P.62, K.65 Ligand excluded by PLIP BR.10: 6 residues within 4Å: Chain C: V.74, S.130, T.131, I.134, K.256 Ligands: RET.9 Ligand excluded by PLIP BR.11: 4 residues within 4Å: Chain A: P.62, K.65 Chain C: N.145, T.147 Ligand excluded by PLIP

2 x BNG: nonyl beta-D-glucopyranoside(Non-covalent)

BNG.4: 6 residues within 4Å: Chain A: L.51, F.54, R.57, N.265, T.268, S.269 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.57, A:R.57, A:N.265, A:S.269 BNG.5: 5 residues within 4Å: Chain A: F.178 Chain B: F.25, E.26, L.29, Y.39 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.39, A:F.178, A:F.178 Hydrogen bonds: B:E.26

1 x L2P: 2,3-DI-PHYTANYL-GLYCEROL(Non-covalent)

L2P.12: 5 residues within 4Å: Chain C: S.92, L.94, W.121, L.164, L.168 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:L.94, C:W.121, C:W.121, C:W.121, C:L.164, C:L.168, C:L.168

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kouyama, T. et al., Crystal Structures of the L1, L2, N, and O States of pharaonis Halorhodopsin. Biophys.J. (2015)

Release Date

2015-06-17

Peptides

Halorhodopsin: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Membrane

We predict this structure to be a membrane protein.
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Halorhodopsin

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