SMTL ID : 1cwq.1

M INTERMEDIATE STRUCTURE OF THE WILD TYPE BACTERIORHODOPSIN IN COMBINATION WITH THE GROUND STATE STRUCTURE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-hexamer

Ligands

6 x RET: RETINAL(Covalent)

RET.1: 35 residues within 4Å: Chain A: Y.84, W.87, T.90, T.91, L.94, M.119, W.139, S.142, T.143, M.146, W.183, Y.186, P.187, W.190, D.213, A.216, K.217 Chain B: Y.84, W.87, T.90, L.94, M.119, I.120, W.139, S.142, T.143, W.183, Y.186, P.187, W.190, F.209, D.213, A.216, K.217 Ligands: RET.24 24 PLIP interactions: 12 interactions with chain A, 12 interactions with chain B Hydrophobic interactions: A:W.87, A:W.87, A:T.91, A:L.94, A:W.139, A:M.146, A:W.183, A:W.183, A:P.187, A:W.190, A:W.190, A:K.217, B:Y.84, B:W.87, B:W.87, B:I.120, B:S.142, B:T.143, B:Y.186, B:Y.186, B:Y.186, B:Y.186, B:P.187, B:F.209 RET.24: 35 residues within 4Å: Chain A: Y.84, W.87, T.90, T.91, L.94, M.119, W.139, S.142, T.143, M.146, W.183, Y.186, P.187, W.190, D.213, A.216, K.217 Chain B: Y.84, W.87, T.90, T.91, L.94, M.119, I.120, W.139, S.142, T.143, W.183, Y.186, P.187, W.190, D.213, A.216, K.217 Ligands: RET.1 25 PLIP interactions: 12 interactions with chain A, 13 interactions with chain B Hydrophobic interactions: A:W.87, A:W.87, A:T.91, A:W.139, A:M.146, A:W.183, A:W.183, A:P.187, A:W.190, A:W.190, A:A.216, A:K.217, B:Y.84, B:W.87, B:I.120, B:S.142, B:T.143, B:Y.186, B:Y.186, B:Y.186, B:Y.186, B:Y.186, B:P.187, B:W.190, B:A.216 RET.45: 35 residues within 4Å: Chain C: Y.84, W.87, T.90, T.91, L.94, M.119, W.139, S.142, T.143, M.146, W.183, Y.186, P.187, W.190, D.213, A.216, K.217 Chain D: Y.84, W.87, T.90, L.94, M.119, I.120, W.139, S.142, T.143, W.183, Y.186, P.187, W.190, F.209, D.213, A.216, K.217 Ligands: RET.68 24 PLIP interactions: 11 interactions with chain C, 13 interactions with chain D Hydrophobic interactions: C:W.87, C:W.87, C:T.91, C:L.94, C:W.139, C:M.146, C:W.183, C:W.183, C:P.187, C:W.190, C:W.190, D:Y.84, D:W.87, D:W.87, D:I.120, D:S.142, D:T.143, D:Y.186, D:Y.186, D:Y.186, D:Y.186, D:P.187, D:F.209, D:K.217 RET.68: 35 residues within 4Å: Chain C: Y.84, W.87, T.90, T.91, L.94, M.119, W.139, S.142, T.143, M.146, W.183, Y.186, P.187, W.190, D.213, A.216, K.217 Chain D: Y.84, W.87, T.90, T.91, L.94, M.119, I.120, W.139, S.142, T.143, W.183, Y.186, P.187, W.190, D.213, A.216, K.217 Ligands: RET.45 25 PLIP interactions: 11 interactions with chain C, 14 interactions with chain D Hydrophobic interactions: C:W.87, C:W.87, C:T.91, C:W.139, C:M.146, C:W.183, C:W.183, C:P.187, C:W.190, C:W.190, C:A.216, D:Y.84, D:W.87, D:I.120, D:S.142, D:T.143, D:Y.186, D:Y.186, D:Y.186, D:Y.186, D:Y.186, D:P.187, D:W.190, D:A.216, D:K.217 RET.89: 35 residues within 4Å: Chain E: Y.84, W.87, T.90, T.91, L.94, M.119, W.139, S.142, T.143, M.146, W.183, Y.186, P.187, W.190, D.213, A.216, K.217 Chain F: Y.84, W.87, T.90, L.94, M.119, I.120, W.139, S.142, T.143, W.183, Y.186, P.187, W.190, F.209, D.213, A.216, K.217 Ligands: RET.112 24 PLIP interactions: 11 interactions with chain E, 13 interactions with chain F Hydrophobic interactions: E:W.87, E:W.87, E:T.91, E:L.94, E:W.139, E:M.146, E:W.183, E:W.183, E:P.187, E:W.190, E:W.190, F:Y.84, F:W.87, F:W.87, F:I.120, F:S.142, F:T.143, F:Y.186, F:Y.186, F:Y.186, F:Y.186, F:P.187, F:F.209, F:K.217 RET.112: 35 residues within 4Å: Chain E: Y.84, W.87, T.90, T.91, L.94, M.119, W.139, S.142, T.143, M.146, W.183, Y.186, P.187, W.190, D.213, A.216, K.217 Chain F: Y.84, W.87, T.90, T.91, L.94, M.119, I.120, W.139, S.142, T.143, W.183, Y.186, P.187, W.190, D.213, A.216, K.217 Ligands: RET.89 25 PLIP interactions: 14 interactions with chain F, 11 interactions with chain E Hydrophobic interactions: F:Y.84, F:W.87, F:I.120, F:S.142, F:T.143, F:Y.186, F:Y.186, F:Y.186, F:Y.186, F:Y.186, F:P.187, F:W.190, F:A.216, F:K.217, E:W.87, E:W.87, E:T.91, E:W.139, E:M.146, E:W.183, E:W.183, E:P.187, E:W.190, E:W.190, E:A.216

24 x UND: UNDECANE(Non-covalent)

UND.2: 4 residues within 4Å: Chain A: V.174, I.223 Chain B: I.223 Ligands: UND.12 Ligand excluded by PLIP UND.11: 3 residues within 4Å: Chain F: F.55, L.59 Ligands: UND.23 Ligand excluded by PLIP UND.12: 8 residues within 4Å: Chain A: V.174, V.178, I.223 Chain B: V.174, V.178, I.223 Ligands: UND.2, TRD.17 Ligand excluded by PLIP UND.23: 4 residues within 4Å: Chain A: V.137 Chain B: V.137 Chain F: L.59 Ligands: UND.11 Ligand excluded by PLIP UND.29: 7 residues within 4Å: Chain A: L.26, V.30 Chain B: L.23, L.26, V.30 Ligands: OCT.20, UND.40 Ligand excluded by PLIP UND.31: 2 residues within 4Å: Chain B: I.199 Ligands: UND.41 Ligand excluded by PLIP UND.40: 4 residues within 4Å: Chain A: V.30 Chain B: L.26, V.30 Ligands: UND.29 Ligand excluded by PLIP UND.41: 4 residues within 4Å: Chain B: I.192, I.199 Ligands: UND.31, OCT.32 Ligand excluded by PLIP UND.46: 4 residues within 4Å: Chain C: V.174, I.223 Chain D: I.223 Ligands: UND.56 Ligand excluded by PLIP UND.55: 3 residues within 4Å: Chain B: F.55, L.59 Ligands: UND.67 Ligand excluded by PLIP UND.56: 8 residues within 4Å: Chain C: V.174, V.178, I.223 Chain D: V.174, V.178, I.223 Ligands: UND.46, TRD.61 Ligand excluded by PLIP UND.67: 4 residues within 4Å: Chain B: L.59 Chain C: V.137 Chain D: V.137 Ligands: UND.55 Ligand excluded by PLIP UND.73: 7 residues within 4Å: Chain C: L.26, V.30 Chain D: L.23, L.26, V.30 Ligands: OCT.64, UND.84 Ligand excluded by PLIP UND.75: 2 residues within 4Å: Chain D: I.199 Ligands: UND.85 Ligand excluded by PLIP UND.84: 4 residues within 4Å: Chain C: V.30 Chain D: L.26, V.30 Ligands: UND.73 Ligand excluded by PLIP UND.85: 4 residues within 4Å: Chain D: I.192, I.199 Ligands: UND.75, OCT.76 Ligand excluded by PLIP UND.90: 4 residues within 4Å: Chain E: V.174, I.223 Chain F: I.223 Ligands: UND.100 Ligand excluded by PLIP UND.99: 3 residues within 4Å: Chain D: F.55, L.59 Ligands: UND.111 Ligand excluded by PLIP UND.100: 8 residues within 4Å: Chain E: V.174, V.178, I.223 Chain F: V.174, V.178, I.223 Ligands: UND.90, TRD.105 Ligand excluded by PLIP UND.111: 4 residues within 4Å: Chain D: L.59 Chain E: V.137 Chain F: V.137 Ligands: UND.99 Ligand excluded by PLIP UND.117: 7 residues within 4Å: Chain E: L.26, V.30 Chain F: L.23, L.26, V.30 Ligands: OCT.108, UND.128 Ligand excluded by PLIP UND.119: 2 residues within 4Å: Chain F: I.199 Ligands: UND.129 Ligand excluded by PLIP UND.128: 4 residues within 4Å: Chain E: V.30 Chain F: L.26, V.30 Ligands: UND.117 Ligand excluded by PLIP UND.129: 4 residues within 4Å: Chain F: I.192, I.199 Ligands: UND.119, OCT.120 Ligand excluded by PLIP

48 x OCT: N-OCTANE(Non-covalent)(Non-functional Binders)

OCT.3: 10 residues within 4Å: Chain A: W.13, N.203, I.204, L.207 Chain B: W.13, N.203 Ligands: HEX.4, OCT.10, OCT.13, HEX.14 Ligand excluded by PLIP OCT.8: 4 residues within 4Å: Chain A: L.147 Chain B: L.147 Ligands: HEX.9, OCT.19 Ligand excluded by PLIP OCT.10: 7 residues within 4Å: Chain A: I.204, L.207 Chain B: I.204 Ligands: OCT.3, TRD.7, OCT.13, OCT.22 Ligand excluded by PLIP OCT.13: 5 residues within 4Å: Chain A: W.13, L.207 Chain B: W.13 Ligands: OCT.3, OCT.10 Ligand excluded by PLIP OCT.19: 4 residues within 4Å: Ligands: OCT.8, HEX.9, OCT.32, HEX.44 Ligand excluded by PLIP OCT.20: 2 residues within 4Å: Ligands: UND.29, OCT.34 Ligand excluded by PLIP OCT.22: 7 residues within 4Å: Chain A: I.204, L.207, L.208 Chain B: I.204, L.207, L.208 Ligands: OCT.10 Ligand excluded by PLIP OCT.25: 12 residues within 4Å: Chain A: G.114, G.117, I.118 Chain B: G.114, G.117, I.118 Chain E: I.53, F.89 Chain F: I.53, M.57, F.89 Ligands: OCT.36 Ligand excluded by PLIP OCT.26: 4 residues within 4Å: Chain A: N.177 Chain B: R.176, N.177 Ligands: OCT.37 Ligand excluded by PLIP OCT.28: 2 residues within 4Å: Chain B: L.23 Ligands: OCT.39 Ligand excluded by PLIP OCT.32: 9 residues within 4Å: Chain A: W.139, L.191 Chain B: W.139, L.191 Ligands: HEX.9, OCT.19, UND.41, OCT.42, HEX.44 Ligand excluded by PLIP OCT.34: 1 residues within 4Å: Ligands: OCT.20 Ligand excluded by PLIP OCT.36: 14 residues within 4Å: Chain A: G.114, G.117, I.118 Chain B: L.110, V.113, G.114, G.117, I.118 Chain E: I.53, F.89 Chain F: I.53, F.89 Ligands: HEX.6, OCT.25 Ligand excluded by PLIP OCT.37: 3 residues within 4Å: Chain B: N.177, V.180 Ligands: OCT.26 Ligand excluded by PLIP OCT.39: 3 residues within 4Å: Chain A: L.23 Chain B: L.23 Ligands: OCT.28 Ligand excluded by PLIP OCT.42: 5 residues within 4Å: Chain A: W.139, L.191 Chain B: W.139, L.191 Ligands: OCT.32 Ligand excluded by PLIP OCT.47: 10 residues within 4Å: Chain C: W.13, N.203, I.204, L.207 Chain D: W.13, N.203 Ligands: HEX.48, OCT.54, OCT.57, HEX.58 Ligand excluded by PLIP OCT.52: 4 residues within 4Å: Chain C: L.147 Chain D: L.147 Ligands: HEX.53, OCT.63 Ligand excluded by PLIP OCT.54: 7 residues within 4Å: Chain C: I.204, L.207 Chain D: I.204 Ligands: OCT.47, TRD.51, OCT.57, OCT.66 Ligand excluded by PLIP OCT.57: 5 residues within 4Å: Chain C: W.13, L.207 Chain D: W.13 Ligands: OCT.47, OCT.54 Ligand excluded by PLIP OCT.63: 4 residues within 4Å: Ligands: OCT.52, HEX.53, OCT.76, HEX.88 Ligand excluded by PLIP OCT.64: 2 residues within 4Å: Ligands: UND.73, OCT.78 Ligand excluded by PLIP OCT.66: 7 residues within 4Å: Chain C: I.204, L.207, L.208 Chain D: I.204, L.207, L.208 Ligands: OCT.54 Ligand excluded by PLIP OCT.69: 12 residues within 4Å: Chain A: I.53, F.89 Chain B: I.53, M.57, F.89 Chain C: G.114, G.117, I.118 Chain D: G.114, G.117, I.118 Ligands: OCT.80 Ligand excluded by PLIP OCT.70: 4 residues within 4Å: Chain C: N.177 Chain D: R.176, N.177 Ligands: OCT.81 Ligand excluded by PLIP OCT.72: 2 residues within 4Å: Chain D: L.23 Ligands: OCT.83 Ligand excluded by PLIP OCT.76: 9 residues within 4Å: Chain C: W.139, L.191 Chain D: W.139, L.191 Ligands: HEX.53, OCT.63, UND.85, OCT.86, HEX.88 Ligand excluded by PLIP OCT.78: 1 residues within 4Å: Ligands: OCT.64 Ligand excluded by PLIP OCT.80: 14 residues within 4Å: Chain A: I.53, F.89 Chain B: I.53, F.89 Chain C: G.114, G.117, I.118 Chain D: L.110, V.113, G.114, G.117, I.118 Ligands: HEX.50, OCT.69 Ligand excluded by PLIP OCT.81: 3 residues within 4Å: Chain D: N.177, V.180 Ligands: OCT.70 Ligand excluded by PLIP OCT.83: 3 residues within 4Å: Chain C: L.23 Chain D: L.23 Ligands: OCT.72 Ligand excluded by PLIP OCT.86: 5 residues within 4Å: Chain C: W.139, L.191 Chain D: W.139, L.191 Ligands: OCT.76 Ligand excluded by PLIP OCT.91: 10 residues within 4Å: Chain E: W.13, N.203, I.204, L.207 Chain F: W.13, N.203 Ligands: HEX.92, OCT.98, OCT.101, HEX.102 Ligand excluded by PLIP OCT.96: 4 residues within 4Å: Chain E: L.147 Chain F: L.147 Ligands: HEX.97, OCT.107 Ligand excluded by PLIP OCT.98: 7 residues within 4Å: Chain E: I.204, L.207 Chain F: I.204 Ligands: OCT.91, TRD.95, OCT.101, OCT.110 Ligand excluded by PLIP OCT.101: 5 residues within 4Å: Chain E: W.13, L.207 Chain F: W.13 Ligands: OCT.91, OCT.98 Ligand excluded by PLIP OCT.107: 4 residues within 4Å: Ligands: OCT.96, HEX.97, OCT.120, HEX.132 Ligand excluded by PLIP OCT.108: 2 residues within 4Å: Ligands: UND.117, OCT.122 Ligand excluded by PLIP OCT.110: 7 residues within 4Å: Chain E: I.204, L.207, L.208 Chain F: I.204, L.207, L.208 Ligands: OCT.98 Ligand excluded by PLIP OCT.113: 12 residues within 4Å: Chain C: I.53, F.89 Chain D: I.53, M.57, F.89 Chain E: G.114, G.117, I.118 Chain F: G.114, G.117, I.118 Ligands: OCT.124 Ligand excluded by PLIP OCT.114: 4 residues within 4Å: Chain E: N.177 Chain F: R.176, N.177 Ligands: OCT.125 Ligand excluded by PLIP OCT.116: 2 residues within 4Å: Chain F: L.23 Ligands: OCT.127 Ligand excluded by PLIP OCT.120: 9 residues within 4Å: Chain E: W.139, L.191 Chain F: W.139, L.191 Ligands: HEX.97, OCT.107, UND.129, OCT.130, HEX.132 Ligand excluded by PLIP OCT.122: 1 residues within 4Å: Ligands: OCT.108 Ligand excluded by PLIP OCT.124: 14 residues within 4Å: Chain C: I.53, F.89 Chain D: I.53, F.89 Chain E: G.114, G.117, I.118 Chain F: L.110, V.113, G.114, G.117, I.118 Ligands: HEX.94, OCT.113 Ligand excluded by PLIP OCT.125: 3 residues within 4Å: Chain F: N.177, V.180 Ligands: OCT.114 Ligand excluded by PLIP OCT.127: 3 residues within 4Å: Chain E: L.23 Chain F: L.23 Ligands: OCT.116 Ligand excluded by PLIP OCT.130: 5 residues within 4Å: Chain E: W.139, L.191 Chain F: W.139, L.191 Ligands: OCT.120 Ligand excluded by PLIP

36 x HEX: HEXANE(Non-covalent)

HEX.4: 7 residues within 4Å: Chain A: W.13, L.16, M.210, V.211 Ligands: OCT.3, TRD.7, HEX.14 Ligand excluded by PLIP HEX.5: 6 residues within 4Å: Chain A: L.20, G.24, V.218 Chain B: G.24, V.218 Ligands: HEX.15 Ligand excluded by PLIP HEX.6: 7 residues within 4Å: Chain A: L.88, V.113 Chain B: V.113 Chain E: F.89 Chain F: F.89 Ligands: HEX.16, OCT.36 Ligand excluded by PLIP HEX.9: 13 residues within 4Å: Chain A: L.147, L.150, S.184, V.188 Chain B: M.146, L.147, S.184, P.187, V.188 Ligands: OCT.8, OCT.19, OCT.32, HEX.44 Ligand excluded by PLIP HEX.14: 6 residues within 4Å: Chain A: W.13, L.16 Chain B: W.13 Ligands: OCT.3, HEX.4, TRD.7 Ligand excluded by PLIP HEX.15: 8 residues within 4Å: Chain A: L.20, L.23, G.24, Y.27 Chain B: L.20, G.24, Y.27 Ligands: HEX.5 Ligand excluded by PLIP HEX.16: 7 residues within 4Å: Chain A: L.88, V.113 Chain B: L.88, V.113 Ligands: HEX.6, TRD.62, TRD.74 Ligand excluded by PLIP HEX.21: 5 residues within 4Å: Chain A: W.81, L.124 Chain B: W.81, L.124 Ligands: HEX.35 Ligand excluded by PLIP HEX.33: 3 residues within 4Å: Chain A: V.30 Chain B: V.30 Ligands: HEX.43 Ligand excluded by PLIP HEX.35: 3 residues within 4Å: Chain A: W.81 Chain B: W.81 Ligands: HEX.21 Ligand excluded by PLIP HEX.43: 3 residues within 4Å: Chain A: V.30 Chain B: V.30 Ligands: HEX.33 Ligand excluded by PLIP HEX.44: 13 residues within 4Å: Chain A: W.139, T.143, M.146, L.147, S.184 Chain B: W.139, T.143, M.146, S.184, P.187 Ligands: HEX.9, OCT.19, OCT.32 Ligand excluded by PLIP HEX.48: 7 residues within 4Å: Chain C: W.13, L.16, M.210, V.211 Ligands: OCT.47, TRD.51, HEX.58 Ligand excluded by PLIP HEX.49: 6 residues within 4Å: Chain C: L.20, G.24, V.218 Chain D: G.24, V.218 Ligands: HEX.59 Ligand excluded by PLIP HEX.50: 7 residues within 4Å: Chain A: F.89 Chain B: F.89 Chain C: L.88, V.113 Chain D: V.113 Ligands: HEX.60, OCT.80 Ligand excluded by PLIP HEX.53: 13 residues within 4Å: Chain C: L.147, L.150, S.184, V.188 Chain D: M.146, L.147, S.184, P.187, V.188 Ligands: OCT.52, OCT.63, OCT.76, HEX.88 Ligand excluded by PLIP HEX.58: 6 residues within 4Å: Chain C: W.13, L.16 Chain D: W.13 Ligands: OCT.47, HEX.48, TRD.51 Ligand excluded by PLIP HEX.59: 8 residues within 4Å: Chain C: L.20, L.23, G.24, Y.27 Chain D: L.20, G.24, Y.27 Ligands: HEX.49 Ligand excluded by PLIP HEX.60: 7 residues within 4Å: Chain C: L.88, V.113 Chain D: L.88, V.113 Ligands: HEX.50, TRD.106, TRD.118 Ligand excluded by PLIP HEX.65: 5 residues within 4Å: Chain C: W.81, L.124 Chain D: W.81, L.124 Ligands: HEX.79 Ligand excluded by PLIP HEX.77: 3 residues within 4Å: Chain C: V.30 Chain D: V.30 Ligands: HEX.87 Ligand excluded by PLIP HEX.79: 3 residues within 4Å: Chain C: W.81 Chain D: W.81 Ligands: HEX.65 Ligand excluded by PLIP HEX.87: 3 residues within 4Å: Chain C: V.30 Chain D: V.30 Ligands: HEX.77 Ligand excluded by PLIP HEX.88: 13 residues within 4Å: Chain C: W.139, T.143, M.146, L.147, S.184 Chain D: W.139, T.143, M.146, S.184, P.187 Ligands: HEX.53, OCT.63, OCT.76 Ligand excluded by PLIP HEX.92: 7 residues within 4Å: Chain E: W.13, L.16, M.210, V.211 Ligands: OCT.91, TRD.95, HEX.102 Ligand excluded by PLIP HEX.93: 6 residues within 4Å: Chain E: L.20, G.24, V.218 Chain F: G.24, V.218 Ligands: HEX.103 Ligand excluded by PLIP HEX.94: 7 residues within 4Å: Chain C: F.89 Chain D: F.89 Chain E: L.88, V.113 Chain F: V.113 Ligands: HEX.104, OCT.124 Ligand excluded by PLIP HEX.97: 13 residues within 4Å: Chain E: L.147, L.150, S.184, V.188 Chain F: M.146, L.147, S.184, P.187, V.188 Ligands: OCT.96, OCT.107, OCT.120, HEX.132 Ligand excluded by PLIP HEX.102: 6 residues within 4Å: Chain E: W.13, L.16 Chain F: W.13 Ligands: OCT.91, HEX.92, TRD.95 Ligand excluded by PLIP HEX.103: 8 residues within 4Å: Chain E: L.20, L.23, G.24, Y.27 Chain F: L.20, G.24, Y.27 Ligands: HEX.93 Ligand excluded by PLIP HEX.104: 7 residues within 4Å: Chain E: L.88, V.113 Chain F: L.88, V.113 Ligands: TRD.18, TRD.30, HEX.94 Ligand excluded by PLIP HEX.109: 5 residues within 4Å: Chain E: W.81, L.124 Chain F: W.81, L.124 Ligands: HEX.123 Ligand excluded by PLIP HEX.121: 3 residues within 4Å: Chain E: V.30 Chain F: V.30 Ligands: HEX.131 Ligand excluded by PLIP HEX.123: 3 residues within 4Å: Chain E: W.81 Chain F: W.81 Ligands: HEX.109 Ligand excluded by PLIP HEX.131: 3 residues within 4Å: Chain E: V.30 Chain F: V.30 Ligands: HEX.121 Ligand excluded by PLIP HEX.132: 13 residues within 4Å: Chain E: W.139, T.143, M.146, L.147, S.184 Chain F: W.139, T.143, M.146, S.184, P.187 Ligands: HEX.97, OCT.107, OCT.120 Ligand excluded by PLIP

18 x TRD: TRIDECANE(Non-functional Binders)(Non-covalent)(Covalent)

TRD.7: 4 residues within 4Å: Ligands: HEX.4, OCT.10, HEX.14, TRD.17 Ligand excluded by PLIP TRD.17: 2 residues within 4Å: Ligands: TRD.7, UND.12 Ligand excluded by PLIP TRD.18: 12 residues within 4Å: Chain E: K.42, L.96, L.100, Q.106, I.109 Chain F: P.92, L.93, L.96, Q.106, I.109 Ligands: TRD.30, HEX.104 Ligand excluded by PLIP TRD.27: 22 residues within 4Å: Chain A: G.22, A.45, T.48, L.49, F.55 Chain B: G.22, T.25, A.45, L.49, A.52, F.55 Chain C: A.111, I.118, I.141, A.145, Y.148 Chain D: A.111, I.118, I.141, A.145, Y.148 Ligands: TRD.38 Ligand excluded by PLIP TRD.30: 13 residues within 4Å: Chain E: K.42, P.92, L.96, L.100, I.109 Chain F: K.42, P.92, L.93, L.96, Q.106, I.109 Ligands: TRD.18, HEX.104 Ligand excluded by PLIP TRD.38: 10 residues within 4Å: Chain A: T.48, F.55 Chain B: L.29, T.48, L.49, F.55 Chain C: Y.148 Chain D: A.111, Y.148 Ligands: TRD.27 Ligand excluded by PLIP TRD.51: 4 residues within 4Å: Ligands: HEX.48, OCT.54, HEX.58, TRD.61 Ligand excluded by PLIP TRD.61: 2 residues within 4Å: Ligands: TRD.51, UND.56 Ligand excluded by PLIP TRD.62: 12 residues within 4Å: Chain A: K.42, L.96, L.100, Q.106, I.109 Chain B: P.92, L.93, L.96, Q.106, I.109 Ligands: HEX.16, TRD.74 Ligand excluded by PLIP TRD.71: 22 residues within 4Å: Chain C: G.22, A.45, T.48, L.49, F.55 Chain D: G.22, T.25, A.45, L.49, A.52, F.55 Chain E: A.111, I.118, I.141, A.145, Y.148 Chain F: A.111, I.118, I.141, A.145, Y.148 Ligands: TRD.82 Ligand excluded by PLIP TRD.74: 13 residues within 4Å: Chain A: K.42, P.92, L.96, L.100, I.109 Chain B: K.42, P.92, L.93, L.96, Q.106, I.109 Ligands: HEX.16, TRD.62 Ligand excluded by PLIP TRD.82: 10 residues within 4Å: Chain C: T.48, F.55 Chain D: L.29, T.48, L.49, F.55 Chain E: Y.148 Chain F: A.111, Y.148 Ligands: TRD.71 Ligand excluded by PLIP TRD.95: 4 residues within 4Å: Ligands: HEX.92, OCT.98, HEX.102, TRD.105 Ligand excluded by PLIP TRD.105: 2 residues within 4Å: Ligands: TRD.95, UND.100 Ligand excluded by PLIP TRD.106: 12 residues within 4Å: Chain C: K.42, L.96, L.100, Q.106, I.109 Chain D: P.92, L.93, L.96, Q.106, I.109 Ligands: HEX.60, TRD.118 Ligand excluded by PLIP TRD.115: 22 residues within 4Å: Chain A: A.111, I.118, I.141, A.145, Y.148 Chain B: A.111, I.118, I.141, A.145, Y.148 Chain E: G.22, A.45, T.48, L.49, F.55 Chain F: G.22, T.25, A.45, L.49, A.52, F.55 Ligands: TRD.126 Ligand excluded by PLIP TRD.118: 13 residues within 4Å: Chain C: K.42, P.92, L.96, L.100, I.109 Chain D: K.42, P.92, L.93, L.96, Q.106, I.109 Ligands: HEX.60, TRD.106 Ligand excluded by PLIP TRD.126: 10 residues within 4Å: Chain A: Y.148 Chain B: A.111, Y.148 Chain E: T.48, F.55 Chain F: L.29, T.48, L.49, F.55 Ligands: TRD.115 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sass, H.J. et al., Structural alterations for proton translocation in the M state of wild-type bacteriorhodopsin. Nature (2000)

Release Date

1999-10-20

Peptides

BACTERIORHODOPSIN ("M" STATE INTERMEDIATE IN COMBINATION WITH GROUND STATE): ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

Membrane

We predict this structure to be a membrane protein.
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BACTERIORHODOPSIN ("M" STATE INTERMEDIATE IN COMBINATION WITH GROUND STATE)