SMTL ID : 1f4z.1

BACTERIORHODOPSIN-M PHOTOINTERMEDIATE STATE OF THE E204Q MUTANT AT 1.8 ANGSTROM RESOLUTION

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-trimer

Ligands

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

LI1.1: 8 residues within 4Å: Chain A: Y.129, V.132, I.136 Chain B: L.54 Ligands: LI1.2, LI1.8, LI1.21, LI1.27 Ligand excluded by PLIP LI1.2: 7 residues within 4Å: Chain A: Y.127, S.128, F.131, A.135, A.192 Ligands: LI1.1, LI1.3 Ligand excluded by PLIP LI1.3: 5 residues within 4Å: Chain A: V.183, L.186, A.192 Ligands: LI1.2, LI1.9 Ligand excluded by PLIP LI1.4: 2 residues within 4Å: Chain A: I.194 Ligands: LI1.10 Ligand excluded by PLIP LI1.5: 1 residues within 4Å: Ligands: LI1.11 Ligand excluded by PLIP LI1.6: 4 residues within 4Å: Chain A: A.10, A.14, L.18 Ligands: LI1.31 Ligand excluded by PLIP LI1.7: 15 residues within 4Å: Chain A: I.48, T.51, M.52, Y.60, W.76, F.84 Chain C: W.76, F.84, G.112, G.116, L.119, V.120, L.123 Ligands: LI1.22, LI1.37 Ligand excluded by PLIP LI1.8: 3 residues within 4Å: Chain A: A.139 Ligands: LI1.1, LI1.26 Ligand excluded by PLIP LI1.9: 5 residues within 4Å: Chain A: T.138, L.142, F.149, F.150 Ligands: LI1.3 Ligand excluded by PLIP LI1.10: 8 residues within 4Å: Chain A: F.149, K.168, R.171, N.172, V.175, V.176, V.183 Ligands: LI1.4 Ligand excluded by PLIP LI1.11: 5 residues within 4Å: Chain A: L.21, Y.22, V.25 Ligands: LI1.5, LI1.38 Ligand excluded by PLIP LI1.12: 11 residues within 4Å: Chain A: G.17, T.20, L.24, K.36, A.40, T.43, F.50 Chain C: A.106, A.110, Y.143 Ligands: LI1.31 Ligand excluded by PLIP LI1.13: 5 residues within 4Å: Chain A: L.83, P.87, L.91, I.104, V.108 Ligand excluded by PLIP LI1.16: 8 residues within 4Å: Chain B: Y.129, V.132, I.136 Chain C: L.54 Ligands: LI1.17, LI1.23, LI1.36, LI1.42 Ligand excluded by PLIP LI1.17: 7 residues within 4Å: Chain B: Y.127, S.128, F.131, A.135, A.192 Ligands: LI1.16, LI1.18 Ligand excluded by PLIP LI1.18: 5 residues within 4Å: Chain B: V.183, L.186, A.192 Ligands: LI1.17, LI1.24 Ligand excluded by PLIP LI1.19: 2 residues within 4Å: Chain B: I.194 Ligands: LI1.25 Ligand excluded by PLIP LI1.20: 1 residues within 4Å: Ligands: LI1.26 Ligand excluded by PLIP LI1.21: 4 residues within 4Å: Chain B: A.10, A.14, L.18 Ligands: LI1.1 Ligand excluded by PLIP LI1.22: 15 residues within 4Å: Chain A: W.76, F.84, G.112, G.116, L.119, V.120, L.123 Chain B: I.48, T.51, M.52, Y.60, W.76, F.84 Ligands: LI1.7, LI1.37 Ligand excluded by PLIP LI1.23: 3 residues within 4Å: Chain B: A.139 Ligands: LI1.16, LI1.41 Ligand excluded by PLIP LI1.24: 5 residues within 4Å: Chain B: T.138, L.142, F.149, F.150 Ligands: LI1.18 Ligand excluded by PLIP LI1.25: 8 residues within 4Å: Chain B: F.149, K.168, R.171, N.172, V.175, V.176, V.183 Ligands: LI1.19 Ligand excluded by PLIP LI1.26: 5 residues within 4Å: Chain B: L.21, Y.22, V.25 Ligands: LI1.8, LI1.20 Ligand excluded by PLIP LI1.27: 11 residues within 4Å: Chain A: A.106, A.110, Y.143 Chain B: G.17, T.20, L.24, K.36, A.40, T.43, F.50 Ligands: LI1.1 Ligand excluded by PLIP LI1.28: 5 residues within 4Å: Chain B: L.83, P.87, L.91, I.104, V.108 Ligand excluded by PLIP LI1.31: 8 residues within 4Å: Chain A: L.54 Chain C: Y.129, V.132, I.136 Ligands: LI1.6, LI1.12, LI1.32, LI1.38 Ligand excluded by PLIP LI1.32: 7 residues within 4Å: Chain C: Y.127, S.128, F.131, A.135, A.192 Ligands: LI1.31, LI1.33 Ligand excluded by PLIP LI1.33: 5 residues within 4Å: Chain C: V.183, L.186, A.192 Ligands: LI1.32, LI1.39 Ligand excluded by PLIP LI1.34: 2 residues within 4Å: Chain C: I.194 Ligands: LI1.40 Ligand excluded by PLIP LI1.35: 1 residues within 4Å: Ligands: LI1.41 Ligand excluded by PLIP LI1.36: 4 residues within 4Å: Chain C: A.10, A.14, L.18 Ligands: LI1.16 Ligand excluded by PLIP LI1.37: 15 residues within 4Å: Chain B: W.76, F.84, G.112, G.116, L.119, V.120, L.123 Chain C: I.48, T.51, M.52, Y.60, W.76, F.84 Ligands: LI1.7, LI1.22 Ligand excluded by PLIP LI1.38: 3 residues within 4Å: Chain C: A.139 Ligands: LI1.11, LI1.31 Ligand excluded by PLIP LI1.39: 5 residues within 4Å: Chain C: T.138, L.142, F.149, F.150 Ligands: LI1.33 Ligand excluded by PLIP LI1.40: 8 residues within 4Å: Chain C: F.149, K.168, R.171, N.172, V.175, V.176, V.183 Ligands: LI1.34 Ligand excluded by PLIP LI1.41: 5 residues within 4Å: Chain C: L.21, Y.22, V.25 Ligands: LI1.23, LI1.35 Ligand excluded by PLIP LI1.42: 11 residues within 4Å: Chain B: A.106, A.110, Y.143 Chain C: G.17, T.20, L.24, K.36, A.40, T.43, F.50 Ligands: LI1.16 Ligand excluded by PLIP LI1.43: 5 residues within 4Å: Chain C: L.83, P.87, L.91, I.104, V.108 Ligand excluded by PLIP

3 x SQU: 2,10,23-TRIMETHYL-TETRACOSANE(Non-covalent)

SQU.14: 7 residues within 4Å: Chain A: L.15, Y.22, V.209, S.210, V.213, L.217, R.221 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.15, A:L.15, A:V.209, A:V.213, A:L.217, A:L.217 SQU.29: 7 residues within 4Å: Chain B: L.15, Y.22, V.209, S.210, V.213, L.217, R.221 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.15, B:L.15, B:V.209, B:V.213, B:L.217, B:L.217 SQU.44: 7 residues within 4Å: Chain C: L.15, Y.22, V.209, S.210, V.213, L.217, R.221 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:L.15, C:L.15, C:V.209, C:V.213, C:L.217, C:L.217

3 x RET: RETINAL(Covalent)

RET.15: 18 residues within 4Å: Chain A: Y.79, W.82, T.85, T.86, L.89, M.114, G.118, W.134, S.137, T.138, M.141, W.178, Y.181, P.182, W.185, D.208, A.211, K.212 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.79, A:T.86, A:L.89, A:M.141, A:W.178, A:W.178, A:Y.181, A:Y.181, A:Y.181, A:Y.181, A:P.182, A:W.185, A:K.212 RET.30: 18 residues within 4Å: Chain B: Y.79, W.82, T.85, T.86, L.89, M.114, G.118, W.134, S.137, T.138, M.141, W.178, Y.181, P.182, W.185, D.208, A.211, K.212 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:Y.79, B:T.86, B:L.89, B:M.141, B:W.178, B:W.178, B:Y.181, B:Y.181, B:Y.181, B:Y.181, B:P.182, B:W.185, B:K.212 RET.45: 18 residues within 4Å: Chain C: Y.79, W.82, T.85, T.86, L.89, M.114, G.118, W.134, S.137, T.138, M.141, W.178, Y.181, P.182, W.185, D.208, A.211, K.212 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:Y.79, C:T.86, C:L.89, C:M.141, C:W.178, C:W.178, C:Y.181, C:Y.181, C:Y.181, C:Y.181, C:P.182, C:W.185, C:K.212

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Luecke, H. et al., Coupling photoisomerization of retinal to directional transport in bacteriorhodopsin. J.Mol.Biol. (2000)

Release Date

2000-08-09

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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