SMTL ID : 3qbi.1

Crystal structure of an anion-free yellow form of pharaonis halorhodopsin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-trimer

Ligands

3 x RET: RETINAL(Covalent)

RET.1: 17 residues within 4Å: Chain A: Y.124, 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, A.255, K.256 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:Y.124, A:W.127, A:W.127, A:T.131, A:Y.180, 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:A.255, A:K.256 RET.5: 16 residues within 4Å: Chain B: Y.124, W.127, S.130, T.131, M.159, G.163, Y.180, S.183, F.187, W.222, Y.225, P.226, W.229, D.252, A.255, K.256 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:Y.124, B:W.127, B:T.131, B:Y.180, B:Y.180, B:F.187, B:F.187, B:W.222, B:Y.225, B:Y.225, B:Y.225, B:Y.225, B:P.226, B:W.229, B:W.229, B:A.255, B:K.256 RET.8: 18 residues within 4Å: Chain C: Y.124, W.127, S.130, T.131, I.134, 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 19 PLIP interactions: 19 interactions with chain C Hydrophobic interactions: C:Y.124, C:W.127, C:T.131, C:I.134, C:Y.180, 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:W.229, C:A.255, C:K.256

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

BNG.2: 6 residues within 4Å: Chain A: A.98, G.99, H.173, W.177 Ligands: BNG.3, BNG.7 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.177, A:W.177 Hydrogen bonds: A:A.98, A:H.173 Water bridges: A:H.173 Salt bridges: A:H.173 BNG.3: 5 residues within 4Å: Chain A: G.99, F.101, H.173, W.177 Ligands: BNG.2 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.101, A:W.177, A:W.177, A:W.177 Hydrogen bonds: A:G.99 Salt bridges: A:H.173 BNG.4: 5 residues within 4Å: Chain A: F.25, E.26, I.42 Chain C: L.174, F.178 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:I.42, C:L.174, C:F.178, C:F.178 Hydrogen bonds: A:E.26 BNG.7: 7 residues within 4Å: Chain A: L.174, M.175, F.178 Chain B: F.25, E.26, Y.39 Ligands: BNG.2 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:Y.39, A:L.174, A:F.178, A:F.178 Hydrogen bonds: B:E.26, B:E.26 Water bridges: B:R.22

2 x 22B: BACTERIORUBERIN(Non-covalent)

22B.6: 13 residues within 4Å: Chain A: T.147, T.151, F.155, A.185, V.189, I.193, E.197 Chain B: I.49, V.53, T.56, A.68, V.69, I.72 13 PLIP interactions: 7 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:T.147, A:T.151, A:F.155, A:F.155, A:A.185, A:I.193, B:I.49, B:V.53, B:A.68, B:V.69, B:I.72 Water bridges: A:E.197, B:K.65 22B.9: 11 residues within 4Å: Chain A: I.49, V.53, T.56, K.65, I.72 Chain C: F.155, I.182, A.185, V.189, Y.192, E.197 10 PLIP interactions: 7 interactions with chain C, 3 interactions with chain A Hydrophobic interactions: C:F.155, C:F.155, C:I.182, C:A.185, C:V.189, C:E.197, A:I.49, A:V.53, A:I.72 Hydrogen bonds: C:E.197

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kanada, S. et al., Crystal structures of an O-like blue form and an anion-free yellow form of pharaonis halorhodopsin. J.Mol.Biol. (2011)

Release Date

2011-08-31

Peptides

Halorhodopsin: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Halorhodopsin

Related Entries With Identical Sequence