SMTL ID : 3t45.1

Crystal structure of bacteriorhodopsin mutant A215T, a phototaxis signaling mutant at 3.0 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.01 Å

Oligo State

homo-trimer

Ligands

3 x RET: RETINAL(Covalent)

RET.1: 17 residues within 4Å: Chain A: Y.77, W.80, T.84, L.87, M.112, G.116, W.132, S.135, T.136, M.139, W.176, Y.179, P.180, W.183, D.206, T.209, K.210 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Y.77, A:W.80, A:T.84, A:L.87, A:M.139, A:W.176, A:W.176, A:Y.179, A:Y.179, A:Y.179, A:P.180, A:W.183, A:W.183, A:K.210 RET.4: 17 residues within 4Å: Chain B: Y.77, W.80, T.84, L.87, M.112, G.116, W.132, S.135, T.136, M.139, W.176, Y.179, P.180, W.183, D.206, T.209, K.210 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:Y.77, B:T.84, B:L.87, B:M.139, B:W.176, B:W.176, B:Y.179, B:Y.179, B:Y.179, B:P.180, B:W.183, B:W.183, B:K.210 RET.12: 17 residues within 4Å: Chain C: Y.77, W.80, T.84, L.87, M.112, G.116, W.132, S.135, T.136, M.139, W.176, Y.179, P.180, W.183, D.206, T.209, K.210 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:Y.77, C:W.80, C:T.84, C:L.87, C:M.139, C:W.176, C:W.176, C:Y.179, C:Y.179, C:Y.179, C:Y.179, C:P.180, C:W.183, C:W.183, C:K.210

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

LI1.2: 7 residues within 4Å: Chain A: Y.125, S.126, F.129, W.132, A.133, L.184, A.190 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.129, A:F.129, A:W.132, A:A.133, A:L.184, A:A.190 LI1.3: 10 residues within 4Å: Chain A: G.110, I.111, G.114, L.121 Chain C: M.50, Y.58, W.74, F.82 Ligands: LI1.5, LI1.7 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:W.74, C:F.82, C:F.82 Hydrogen bonds: C:Y.58, A:L.121 LI1.5: 11 residues within 4Å: Chain A: M.50, Y.58, W.74, F.82, L.121 Chain B: G.107, G.110, I.111, G.114, V.118 Ligands: LI1.3 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:I.111, A:F.82, A:F.82, A:F.82 LI1.6: 7 residues within 4Å: Chain B: L.19, L.52, L.55 Chain C: V.130, A.133, I.134 Ligands: LI1.13 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:A.133, C:I.134, B:L.19 LI1.7: 16 residues within 4Å: Chain B: I.46, M.50, Y.58, W.74, F.82 Chain C: T.61, W.74, A.78, G.110, G.114, L.117, V.118, L.121, K.123 Ligands: LI1.3, LI1.9 9 PLIP interactions: 4 interactions with chain B, 5 interactions with chain C Hydrophobic interactions: B:I.46, B:Y.58, B:W.74, B:F.82, C:W.74, C:W.74, C:A.78, C:L.117, C:V.118 LI1.8: 7 residues within 4Å: Chain B: L.22, K.34, A.38, T.41, L.42 Chain C: I.111, Y.141 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:L.22, B:L.42, C:I.111, C:Y.141 LI1.9: 3 residues within 4Å: Chain B: W.74, L.117 Ligands: LI1.7 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:W.74, B:L.117 LI1.10: 8 residues within 4Å: Chain B: Y.125, S.126, F.129, W.132, A.133, L.184, A.190 Ligands: LI1.11 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:Y.125, B:Y.125, B:F.129, B:F.129, B:W.132, B:A.133, B:L.184 LI1.11: 2 residues within 4Å: Chain B: I.192 Ligands: LI1.10 No protein-ligand interaction detected (PLIP) LI1.13: 9 residues within 4Å: Chain C: Y.125, S.126, F.129, W.132, A.133, L.184, A.190, I.192 Ligands: LI1.6 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:F.129, C:F.129, C:W.132, C:W.132, C:A.133, C:A.190, C:I.192 LI1.14: 15 residues within 4Å: Chain A: A.104, I.111, A.138, Y.141, Y.144 Chain C: L.19, L.22, G.25, M.26, K.34, A.38, T.41, L.42, A.45, F.48 9 PLIP interactions: 5 interactions with chain C, 4 interactions with chain A Hydrophobic interactions: C:L.19, C:L.22, C:L.42, C:A.45, C:F.48, A:A.104, A:I.111, A:Y.141, A:Y.141

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Spudich, E.N. et al., A transporter converted into a sensor, a phototaxis signaling mutant of bacteriorhodopsin at 3.0 angstrom. J.Mol.Biol. (2012)

Release Date

2011-12-21

Peptides

Bacteriorhodopsin (GROUND STATE): 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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Bacteriorhodopsin (GROUND STATE)