SMTL ID : 1c8s.1

BACTERIORHODOPSIN D96N LATE M STATE INTERMEDIATE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-trimer

Ligands

33 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: 9 residues within 4Å: Chain A: V.132, I.136, A.139 Chain B: F.50, L.54, L.58 Ligands: LI1.7, LI1.18, LI1.23 Ligand excluded by PLIP LI1.2: 8 residues within 4Å: Chain A: Y.127, F.131, W.134, A.135, L.164, A.170 Ligands: LI1.3, LI1.7 Ligand excluded by PLIP LI1.3: 4 residues within 4Å: Chain A: W.134, L.164, A.170 Ligands: LI1.2 Ligand excluded by PLIP LI1.4: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP LI1.5: 6 residues within 4Å: Chain A: A.10, T.13, A.14, G.17, L.18 Ligands: LI1.27 Ligand excluded by PLIP LI1.6: 17 residues within 4Å: Chain A: I.48, M.52, Y.60, W.76, F.84 Chain B: L.83 Chain C: W.76, A.80, F.84, G.112, I.113, G.116, L.119, V.120, L.123 Ligands: LI1.19, LI1.32 Ligand excluded by PLIP LI1.7: 4 residues within 4Å: Chain A: A.135, Y.146 Ligands: LI1.1, LI1.2 Ligand excluded by PLIP LI1.8: 1 residues within 4Å: Chain A: L.142 Ligand excluded by PLIP LI1.9: 7 residues within 4Å: Chain A: F.149, N.150, V.153, V.154, S.157, A.158, V.161 Ligand excluded by PLIP LI1.10: 15 residues within 4Å: Chain A: G.17, T.20, L.24, A.40, T.43, L.44, A.47, F.50 Chain C: A.106, A.110, I.113, I.136, A.140, Y.143 Ligands: LI1.27 Ligand excluded by PLIP LI1.11: 3 residues within 4Å: Chain A: L.83, F.84, L.91 Ligand excluded by PLIP LI1.14: 9 residues within 4Å: Chain B: V.132, I.136, A.139 Chain C: F.50, L.54, L.58 Ligands: LI1.20, LI1.31, LI1.36 Ligand excluded by PLIP LI1.15: 8 residues within 4Å: Chain B: Y.127, F.131, W.134, A.135, L.164, A.170 Ligands: LI1.16, LI1.20 Ligand excluded by PLIP LI1.16: 4 residues within 4Å: Chain B: W.134, L.164, A.170 Ligands: LI1.15 Ligand excluded by PLIP LI1.17: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP LI1.18: 6 residues within 4Å: Chain B: A.10, T.13, A.14, G.17, L.18 Ligands: LI1.1 Ligand excluded by PLIP LI1.19: 17 residues within 4Å: Chain A: W.76, A.80, F.84, G.112, I.113, G.116, L.119, V.120, L.123 Chain B: I.48, M.52, Y.60, W.76, F.84 Chain C: L.83 Ligands: LI1.6, LI1.32 Ligand excluded by PLIP LI1.20: 4 residues within 4Å: Chain B: A.135, Y.146 Ligands: LI1.14, LI1.15 Ligand excluded by PLIP LI1.21: 1 residues within 4Å: Chain B: L.142 Ligand excluded by PLIP LI1.22: 7 residues within 4Å: Chain B: F.149, N.150, V.153, V.154, S.157, A.158, V.161 Ligand excluded by PLIP LI1.23: 15 residues within 4Å: Chain A: A.106, A.110, I.113, I.136, A.140, Y.143 Chain B: G.17, T.20, L.24, A.40, T.43, L.44, A.47, F.50 Ligands: LI1.1 Ligand excluded by PLIP LI1.24: 3 residues within 4Å: Chain B: L.83, F.84, L.91 Ligand excluded by PLIP LI1.27: 9 residues within 4Å: Chain A: F.50, L.54, L.58 Chain C: V.132, I.136, A.139 Ligands: LI1.5, LI1.10, LI1.33 Ligand excluded by PLIP LI1.28: 8 residues within 4Å: Chain C: Y.127, F.131, W.134, A.135, L.164, A.170 Ligands: LI1.29, LI1.33 Ligand excluded by PLIP LI1.29: 4 residues within 4Å: Chain C: W.134, L.164, A.170 Ligands: LI1.28 Ligand excluded by PLIP LI1.30: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP LI1.31: 6 residues within 4Å: Chain C: A.10, T.13, A.14, G.17, L.18 Ligands: LI1.14 Ligand excluded by PLIP LI1.32: 17 residues within 4Å: Chain A: L.83 Chain B: W.76, A.80, F.84, G.112, I.113, G.116, L.119, V.120, L.123 Chain C: I.48, M.52, Y.60, W.76, F.84 Ligands: LI1.6, LI1.19 Ligand excluded by PLIP LI1.33: 4 residues within 4Å: Chain C: A.135, Y.146 Ligands: LI1.27, LI1.28 Ligand excluded by PLIP LI1.34: 1 residues within 4Å: Chain C: L.142 Ligand excluded by PLIP LI1.35: 7 residues within 4Å: Chain C: F.149, N.150, V.153, V.154, S.157, A.158, V.161 Ligand excluded by PLIP LI1.36: 15 residues within 4Å: Chain B: A.106, A.110, I.113, I.136, A.140, Y.143 Chain C: G.17, T.20, L.24, A.40, T.43, L.44, A.47, F.50 Ligands: LI1.14 Ligand excluded by PLIP LI1.37: 3 residues within 4Å: Chain C: L.83, F.84, L.91 Ligand excluded by PLIP

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

SQU.12: 6 residues within 4Å: Chain A: L.15, G.19, Y.22, S.188, V.191, L.195 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.15, A:Y.22, A:Y.22, A:Y.22, A:V.191, A:L.195, A:L.195 SQU.25: 6 residues within 4Å: Chain B: L.15, G.19, Y.22, S.188, V.191, L.195 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.15, B:Y.22, B:Y.22, B:Y.22, B:V.191, B:L.195, B:L.195 SQU.38: 6 residues within 4Å: Chain C: L.15, G.19, Y.22, S.188, V.191, L.195 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:L.15, C:Y.22, C:Y.22, C:Y.22, C:V.191, C:L.195, C:L.195

3 x RET: RETINAL(Covalent)

RET.13: 17 residues within 4Å: Chain A: W.82, T.85, T.86, L.89, M.114, G.118, W.134, S.137, T.138, M.141, W.156, Y.159, P.160, W.163, D.186, A.189, K.190 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:W.82, A:W.82, A:T.86, A:L.89, A:M.141, A:W.156, A:W.156, A:Y.159, A:Y.159, A:Y.159, A:P.160, A:W.163, A:A.189, A:K.190 RET.26: 17 residues within 4Å: Chain B: W.82, T.85, T.86, L.89, M.114, G.118, W.134, S.137, T.138, M.141, W.156, Y.159, P.160, W.163, D.186, A.189, K.190 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:W.82, B:W.82, B:T.86, B:L.89, B:M.141, B:W.156, B:W.156, B:Y.159, B:Y.159, B:Y.159, B:P.160, B:W.163, B:A.189, B:K.190 RET.39: 17 residues within 4Å: Chain C: W.82, T.85, T.86, L.89, M.114, G.118, W.134, S.137, T.138, M.141, W.156, Y.159, P.160, W.163, D.186, A.189, K.190 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:W.82, C:W.82, C:T.86, C:L.89, C:M.141, C:W.156, C:W.156, C:Y.159, C:Y.159, C:Y.159, C:P.160, C:W.163, C:A.189, C:K.190

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Luecke, H. et al., Structural changes in bacteriorhodopsin during ion transport at 2 angstrom resolution. Science (1999)

Release Date

1999-10-20

Peptides

BACTERIORHODOPSIN ("M" STATE INTERMEDIATE): 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 ("M" STATE INTERMEDIATE)