SMTL ID : 2at9.1

STRUCTURE OF BACTERIORHODOPSIN AT 3.0 ANGSTROM BY ELECTRON CRYSTALLOGRAPHY

Coordinates

PDB Format

Method

ELECTRON CRYSTALLOGRAPHY 3.00 Å

Oligo State

homo-trimer

Ligands

3 x RET: RETINAL(Covalent)

RET.1: 14 residues within 4Å: Chain A: W.86, T.89, T.90, M.118, G.122, W.138, S.141, T.142, W.182, Y.185, P.186, W.189, D.212, K.216 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.86, A:T.90, A:W.182, A:Y.185, A:Y.185, A:Y.185, A:P.186, A:W.189, A:K.216 RET.10: 14 residues within 4Å: Chain B: W.86, T.89, T.90, M.118, G.122, W.138, S.141, T.142, W.182, Y.185, P.186, W.189, D.212, K.216 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:W.86, B:T.90, B:W.182, B:Y.185, B:Y.185, B:Y.185, B:P.186, B:W.189, B:K.216 RET.19: 14 residues within 4Å: Chain C: W.86, T.89, T.90, M.118, G.122, W.138, S.141, T.142, W.182, Y.185, P.186, W.189, D.212, K.216 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:W.86, C:T.90, C:W.182, C:Y.185, C:Y.185, C:Y.185, C:P.186, C:W.189, C:K.216

24 x 2DP: 3-[[3-METHYLPHOSPHONO-GLYCEROLYL]PHOSPHONYL]-[1,2-DI[2,6,10,14-TETRAMETHYL-HEXADECAN-16-YL]GLYCEROL(Non-covalent)(Non-functional Binders)

2DP.2: 11 residues within 4Å: Chain A: L.87, I.117, L.123, K.129 Chain B: L.48, I.52, Y.64, W.80, F.88 Ligands: 2DP.11, 2DP.20 Ligand excluded by PLIP 2DP.3: 8 residues within 4Å: Chain A: V.187, V.199, P.200, L.207, L.211 Ligands: 2DP.4, 2DP.7, 2DP.8 Ligand excluded by PLIP 2DP.4: 8 residues within 4Å: Chain A: W.12, I.203, L.206, L.207, V.210 Ligands: 2DP.3, 2DP.5, 2DP.8 Ligand excluded by PLIP 2DP.5: 2 residues within 4Å: Ligands: 2DP.4, 2DP.6 Ligand excluded by PLIP 2DP.6: 5 residues within 4Å: Chain A: G.6, W.10, I.11, A.14 Ligands: 2DP.5 Ligand excluded by PLIP 2DP.7: 6 residues within 4Å: Chain A: N.176, V.179, V.180, V.187 Ligands: 2DP.3, 2DP.8 Ligand excluded by PLIP 2DP.8: 13 residues within 4Å: Chain A: L.19, S.169, V.173, M.209, V.210, V.213, V.217, G.218, L.221, I.222 Ligands: 2DP.3, 2DP.4, 2DP.7 Ligand excluded by PLIP 2DP.9: 16 residues within 4Å: Chain A: G.21, T.24, L.25, L.28, V.29, K.40, Y.43, A.44, T.47, L.48, A.51, F.54 Chain C: D.104, T.107, A.110, Y.147 Ligand excluded by PLIP 2DP.11: 11 residues within 4Å: Chain B: L.87, I.117, L.123, K.129 Chain C: L.48, I.52, Y.64, W.80, F.88 Ligands: 2DP.2, 2DP.20 Ligand excluded by PLIP 2DP.12: 8 residues within 4Å: Chain B: V.187, V.199, P.200, L.207, L.211 Ligands: 2DP.13, 2DP.16, 2DP.17 Ligand excluded by PLIP 2DP.13: 8 residues within 4Å: Chain B: W.12, I.203, L.206, L.207, V.210 Ligands: 2DP.12, 2DP.14, 2DP.17 Ligand excluded by PLIP 2DP.14: 2 residues within 4Å: Ligands: 2DP.13, 2DP.15 Ligand excluded by PLIP 2DP.15: 5 residues within 4Å: Chain B: G.6, W.10, I.11, A.14 Ligands: 2DP.14 Ligand excluded by PLIP 2DP.16: 6 residues within 4Å: Chain B: N.176, V.179, V.180, V.187 Ligands: 2DP.12, 2DP.17 Ligand excluded by PLIP 2DP.17: 13 residues within 4Å: Chain B: L.19, S.169, V.173, M.209, V.210, V.213, V.217, G.218, L.221, I.222 Ligands: 2DP.12, 2DP.13, 2DP.16 Ligand excluded by PLIP 2DP.18: 16 residues within 4Å: Chain A: D.104, T.107, A.110, Y.147 Chain B: G.21, T.24, L.25, L.28, V.29, K.40, Y.43, A.44, T.47, L.48, A.51, F.54 Ligand excluded by PLIP 2DP.20: 11 residues within 4Å: Chain A: L.48, I.52, Y.64, W.80, F.88 Chain C: L.87, I.117, L.123, K.129 Ligands: 2DP.2, 2DP.11 Ligand excluded by PLIP 2DP.21: 8 residues within 4Å: Chain C: V.187, V.199, P.200, L.207, L.211 Ligands: 2DP.22, 2DP.25, 2DP.26 Ligand excluded by PLIP 2DP.22: 8 residues within 4Å: Chain C: W.12, I.203, L.206, L.207, V.210 Ligands: 2DP.21, 2DP.23, 2DP.26 Ligand excluded by PLIP 2DP.23: 2 residues within 4Å: Ligands: 2DP.22, 2DP.24 Ligand excluded by PLIP 2DP.24: 5 residues within 4Å: Chain C: G.6, W.10, I.11, A.14 Ligands: 2DP.23 Ligand excluded by PLIP 2DP.25: 6 residues within 4Å: Chain C: N.176, V.179, V.180, V.187 Ligands: 2DP.21, 2DP.26 Ligand excluded by PLIP 2DP.26: 13 residues within 4Å: Chain C: L.19, S.169, V.173, M.209, V.210, V.213, V.217, G.218, L.221, I.222 Ligands: 2DP.21, 2DP.22, 2DP.25 Ligand excluded by PLIP 2DP.27: 16 residues within 4Å: Chain B: D.104, T.107, A.110, Y.147 Chain C: G.21, T.24, L.25, L.28, V.29, K.40, Y.43, A.44, T.47, L.48, A.51, F.54 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mitsuoka, K. et al., The structure of bacteriorhodopsin at 3.0 A resolution based on electron crystallography: implication of the charge distribution. J.Mol.Biol. (1999)

Release Date

1999-04-27

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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