SMTL ID : 2bhw.1

PEA LIGHT-HARVESTING COMPLEX II AT 2.5 ANGSTROM RESOLUTION

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-trimer

Ligands

6 x LUX: (3R,3'R,6'S,9R,9'R,13R,13'S)-4',5'-DIDEHYDRO-5',6',7',8',9,9',10,10',11,11',12,12',13,13',14,14',15,15'-OCTADECAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL(Non-covalent)

LUX.1: 20 residues within 4Å: Chain A: M.73, A.76, L.77, V.80, F.161, D.162, P.163, L.164, L.166, N.183, L.186, A.187, S.190, F.194, Q.197, P.205 Ligands: CLA.5, CLA.6, CLA.7, CHL.15 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:M.73, A:A.76, A:L.77, A:V.80, A:L.164, A:L.166, A:L.186, A:L.186, A:A.187, A:F.194, A:F.194, A:P.205 Hydrogen bonds: A:D.162, A:L.164, A:Q.197, A:Q.197 LUX.2: 20 residues within 4Å: Chain A: W.46, D.47, T.48, A.49, L.51, H.68, W.71, A.72, G.75, W.97, A.100, M.188, M.191, F.192 Ligands: CLA.8, CLA.9, CLA.10, CHL.14, CHL.17, CLA.49 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.46, A:W.46, A:L.51, A:A.72, A:W.97, A:M.188, A:F.192 Hydrogen bonds: A:D.47, A:A.49 LUX.21: 19 residues within 4Å: Chain B: M.73, A.76, L.77, V.80, F.161, D.162, P.163, L.164, L.166, N.183, L.186, S.190, F.194, Q.197, P.205 Ligands: CLA.25, CLA.26, CLA.27, CHL.35 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:M.73, B:A.76, B:L.77, B:V.80, B:L.166, B:L.186, B:L.186, B:F.194, B:F.194 Hydrogen bonds: B:D.162, B:L.164, B:Q.197 LUX.22: 19 residues within 4Å: Chain B: W.46, D.47, T.48, A.49, L.51, H.68, W.71, A.72, G.75, W.97, A.100, M.188, M.191, F.192 Ligands: CLA.9, CLA.28, CLA.29, CLA.30, CHL.37 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:W.46, B:W.46, B:L.51, B:A.72, B:W.97, B:M.188, B:F.192 Hydrogen bonds: B:D.47, B:T.48, B:T.48, B:A.49 LUX.41: 19 residues within 4Å: Chain C: M.73, A.76, L.77, V.80, F.161, D.162, P.163, L.164, L.166, N.183, L.186, S.190, F.194, Q.197, P.205 Ligands: CLA.45, CLA.46, CLA.47, CHL.55 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:M.73, C:A.76, C:L.77, C:V.80, C:L.166, C:L.186, C:L.186, C:F.194, C:F.194, C:P.205 Hydrogen bonds: C:D.162, C:L.164, C:Q.197, C:Q.197 LUX.42: 19 residues within 4Å: Chain C: W.46, D.47, T.48, A.49, L.51, H.68, W.71, A.72, G.75, W.97, M.188, M.191, F.192 Ligands: CLA.29, CLA.48, CLA.49, CLA.50, CHL.54, CHL.57 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:W.46, C:W.46, C:L.51, C:A.72, C:M.188, C:F.192 Hydrogen bonds: C:D.47, C:T.48, C:A.49

3 x NEX: (1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY-2,2,6-TRIMETHYL-7-OXABICYCLO[4.1.0]HEPT-1-YL]-3,7,12,16-TETRAMETHYLOCTADECA-1,3,5,7,9,11,13,15,17-NONAENYLIDENE}-1,5,5-TRIMETHYLCYCLOHEXANE-1,3-DIOL(Non-covalent)

NEX.3: 9 residues within 4Å: Chain A: Y.112, L.134, A.137, V.138, Y.141, P.147 Ligands: CLA.10, CHL.15, CHL.17 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.137, A:V.138, A:Y.141, A:P.147 Hydrogen bonds: A:Y.112 NEX.23: 9 residues within 4Å: Chain B: Y.112, L.134, A.137, V.138, Y.141, P.147 Ligands: CLA.30, CHL.35, CHL.37 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.134, B:A.137, B:V.138, B:Y.141, B:P.147 Hydrogen bonds: B:Y.112, B:Y.112 NEX.43: 9 residues within 4Å: Chain C: Y.112, L.134, A.137, V.138, Y.141, P.147 Ligands: CLA.50, CHL.55, CHL.57 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:A.137, C:V.138, C:P.147 Hydrogen bonds: C:Y.112, C:Y.112

3 x XAT: (3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL(Non-covalent)

XAT.4: 13 residues within 4Å: Chain A: A.221, W.222, Y.224, A.225, N.227, F.228 Chain C: W.128 Ligands: CLA.7, CLA.12, CHL.13, LHG.19, CHL.54, DGD.60 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.221, A:W.222, A:W.222, A:Y.224, A:A.225 XAT.24: 13 residues within 4Å: Chain A: W.128 Chain B: A.221, W.222, Y.224, A.225, N.227, F.228 Ligands: CHL.14, DGD.20, CLA.27, CLA.32, CHL.33, LHG.39 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:A.221, B:W.222, B:W.222, B:Y.224, B:A.225 XAT.44: 13 residues within 4Å: Chain B: W.128 Chain C: A.221, W.222, Y.224, A.225, N.227, F.228 Ligands: CHL.34, DGD.40, CLA.47, CLA.52, CHL.53, LHG.59 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:A.221, C:W.222, C:W.222, C:Y.224, C:A.225

24 x CLA: CHLOROPHYLL A(Non-covalent)

CLA.5: 21 residues within 4Å: Chain A: R.70, M.73, L.74, L.77, Y.156, P.157, G.158, F.161, D.162, L.166, A.167, F.173, L.176, K.177, K.179, E.180, N.183 Ligands: LUX.1, CLA.6, CLA.10, CHL.15 15 PLIP interactions: 15 interactions with chain A, Hydrophobic interactions: A:R.70, A:R.70, A:M.73, A:L.74, A:L.74, A:L.77, A:F.161, A:A.167, A:F.173, A:L.176, A:K.179, A:N.183 Hydrogen bonds: A:G.158 pi-Cation interactions: A:R.70 Metal complexes: A:E.180 CLA.6: 6 residues within 4Å: Chain A: K.179, N.183, L.186 Ligands: LUX.1, CLA.5, CLA.11 4 PLIP interactions: 4 interactions with chain A, Hydrophobic interactions: A:K.179, A:L.186 Salt bridges: A:K.179, A:K.179 CLA.7: 17 residues within 4Å: Chain A: F.189, F.192, G.193, V.196, Q.197, T.201, N.208, L.209, H.212, N.220, A.221, Y.224 Chain C: W.128 Ligands: LUX.1, XAT.4, CLA.12, LHG.19 10 PLIP interactions: 10 interactions with chain A, Hydrophobic interactions: A:F.189, A:F.192, A:F.192, A:V.196, A:V.196, A:Q.197, A:L.209, A:H.212, A:A.221 Hydrogen bonds: A:A.221 CLA.8: 23 residues within 4Å: Chain A: L.36, P.41, G.42, D.43, Y.44, G.45, W.46, D.47, L.51, S.52, N.61, R.62, E.65, H.68, R.185, M.188, F.189, F.192 Ligands: LUX.2, CLA.9, CHL.13, LHG.19, CLA.49 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:Y.44, A:W.46, A:L.51, A:S.52, A:N.61, A:R.62, A:R.185, A:R.185, A:M.188, A:F.189, A:F.192, A:F.192 Hydrogen bonds: A:Y.44, A:W.46 Salt bridges: A:R.185 pi-Stacking: A:W.46 pi-Cation interactions: A:R.185 Metal complexes: A:E.65 CLA.9: 16 residues within 4Å: Chain A: N.61, L.64, H.68, F.195 Chain B: A.49, L.51 Ligands: LUX.2, CLA.8, CHL.14, CHL.16, DGD.20, LUX.22, CLA.28, CLA.29, CHL.36, CLA.49 4 PLIP interactions: 4 interactions with chain A, Hydrophobic interactions: A:L.64, A:L.64, A:F.195 Metal complexes: A:H.68 CLA.10: 20 residues within 4Å: Chain A: W.71, L.74, L.77, G.78, F.81, P.82, L.85, F.92, E.94, Q.103, L.110, Y.112, L.113, L.118, V.119 Ligands: LUX.2, NEX.3, CLA.5, CHL.17, CHL.18 11 PLIP interactions: 11 interactions with chain A, Hydrophobic interactions: A:W.71, A:L.77, A:P.82, A:L.85, A:Y.112, A:L.118, A:L.118, A:V.119 Hydrogen bonds: A:Q.103, A:L.113 pi-Stacking: A:Y.112 CLA.11: 10 residues within 4Å: Chain A: W.16, L.77, L.84, E.175, K.179, K.182, N.183, L.186 Ligands: CLA.6, LHG.19 9 PLIP interactions: 9 interactions with chain A, Hydrophobic interactions: A:W.16, A:L.77, A:L.84, A:K.182, A:L.186 Hydrogen bonds: A:N.183 Salt bridges: A:K.182 pi-Cation interactions: A:K.182, A:K.182 CLA.12: 10 residues within 4Å: Chain A: L.209, H.212, L.213, P.216, N.220, W.222 Chain C: L.125, W.128 Ligands: XAT.4, CLA.7 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain C, Hydrophobic interactions: A:L.209, A:L.213, A:P.216, C:L.125, C:W.128, C:W.128 Metal complexes: A:H.212 CLA.25: 20 residues within 4Å: Chain B: R.70, M.73, L.74, Y.156, P.157, G.158, F.161, D.162, L.166, A.167, F.173, L.176, K.177, K.179, E.180, N.183 Ligands: LUX.21, CLA.26, CLA.30, CHL.35 14 PLIP interactions: 14 interactions with chain B, Hydrophobic interactions: B:R.70, B:R.70, B:M.73, B:L.74, B:L.74, B:F.161, B:A.167, B:F.173, B:L.176, B:K.179, B:N.183 Hydrogen bonds: B:G.158 pi-Cation interactions: B:R.70 Metal complexes: B:E.180 CLA.26: 6 residues within 4Å: Chain B: K.179, N.183, L.186 Ligands: LUX.21, CLA.25, CLA.31 4 PLIP interactions: 4 interactions with chain B, Hydrophobic interactions: B:K.179, B:L.186 Salt bridges: B:K.179, B:K.179 CLA.27: 17 residues within 4Å: Chain A: W.128 Chain B: F.189, F.192, G.193, V.196, Q.197, T.201, N.208, L.209, H.212, N.220, A.221, Y.224 Ligands: LUX.21, XAT.24, CLA.32, LHG.39 10 PLIP interactions: 10 interactions with chain B, Hydrophobic interactions: B:F.189, B:F.192, B:F.192, B:V.196, B:V.196, B:Q.197, B:L.209, B:H.212, B:A.221 Hydrogen bonds: B:A.221 CLA.28: 24 residues within 4Å: Chain B: L.36, P.41, G.42, D.43, Y.44, G.45, W.46, D.47, L.51, S.52, N.61, R.62, L.64, E.65, H.68, R.185, M.188, F.189, F.192 Ligands: CLA.9, LUX.22, CLA.29, CHL.33, LHG.39 20 PLIP interactions: 20 interactions with chain B, Hydrophobic interactions: B:Y.44, B:W.46, B:L.51, B:S.52, B:N.61, B:R.62, B:L.64, B:R.185, B:R.185, B:M.188, B:F.189, B:F.192, B:F.192 Hydrogen bonds: B:Y.44, B:W.46, B:N.61 Salt bridges: B:R.185 pi-Stacking: B:W.46 pi-Cation interactions: B:R.185 Metal complexes: B:E.65 CLA.29: 16 residues within 4Å: Chain B: N.61, L.64, H.68, F.195 Chain C: A.49, L.51 Ligands: CLA.9, LUX.22, CLA.28, CHL.34, CHL.36, DGD.40, LUX.42, CLA.48, CLA.49, CHL.56 4 PLIP interactions: 4 interactions with chain B, Hydrophobic interactions: B:L.64, B:L.64, B:F.195 Metal complexes: B:H.68 CLA.30: 19 residues within 4Å: Chain B: W.71, L.74, L.77, G.78, F.81, P.82, F.92, E.94, Q.103, L.110, Y.112, L.113, L.118, V.119 Ligands: LUX.22, NEX.23, CLA.25, CHL.37, CHL.38 12 PLIP interactions: 12 interactions with chain B, Hydrophobic interactions: B:W.71, B:L.74, B:L.77, B:P.82, B:Y.112, B:Y.112, B:L.118, B:L.118, B:V.119 Hydrogen bonds: B:Q.103, B:L.113 pi-Stacking: B:Y.112 CLA.31: 10 residues within 4Å: Chain B: W.16, L.77, L.84, E.175, K.179, K.182, N.183, L.186 Ligands: CLA.26, LHG.39 9 PLIP interactions: 9 interactions with chain B, Hydrophobic interactions: B:W.16, B:L.77, B:L.84, B:K.182, B:L.186 Hydrogen bonds: B:N.183 Salt bridges: B:K.182 pi-Cation interactions: B:K.182, B:K.182 CLA.32: 10 residues within 4Å: Chain A: L.125, W.128 Chain B: L.209, H.212, L.213, P.216, N.220, W.222 Ligands: XAT.24, CLA.27 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A, Hydrophobic interactions: B:L.209, B:L.213, A:L.125, A:W.128, A:W.128 Metal complexes: B:H.212 CLA.45: 21 residues within 4Å: Chain C: R.70, M.73, L.74, L.77, Y.156, P.157, G.158, F.161, D.162, L.166, A.167, F.173, L.176, K.177, K.179, E.180, N.183 Ligands: LUX.41, CLA.46, CLA.50, CHL.55 15 PLIP interactions: 15 interactions with chain C, Hydrophobic interactions: C:R.70, C:R.70, C:M.73, C:L.74, C:L.74, C:L.77, C:F.161, C:A.167, C:F.173, C:L.176, C:K.179, C:N.183 Hydrogen bonds: C:G.158 pi-Cation interactions: C:R.70 Metal complexes: C:E.180 CLA.46: 6 residues within 4Å: Chain C: K.179, N.183, L.186 Ligands: LUX.41, CLA.45, CLA.51 4 PLIP interactions: 4 interactions with chain C, Hydrophobic interactions: C:K.179, C:L.186 Salt bridges: C:K.179, C:K.179 CLA.47: 17 residues within 4Å: Chain B: W.128 Chain C: F.189, F.192, G.193, V.196, Q.197, T.201, N.208, L.209, H.212, N.220, A.221, Y.224 Ligands: LUX.41, XAT.44, CLA.52, LHG.59 10 PLIP interactions: 10 interactions with chain C, Hydrophobic interactions: C:F.189, C:F.192, C:F.192, C:V.196, C:V.196, C:Q.197, C:L.209, C:H.212, C:A.221 Hydrogen bonds: C:A.221 CLA.48: 23 residues within 4Å: Chain C: L.36, P.41, G.42, D.43, Y.44, G.45, W.46, D.47, L.51, S.52, N.61, R.62, L.64, E.65, H.68, R.185, M.188, F.189, F.192 Ligands: CLA.29, LUX.42, CLA.49, CHL.53 17 PLIP interactions: 17 interactions with chain C, Hydrophobic interactions: C:Y.44, C:W.46, C:S.52, C:N.61, C:R.62, C:L.64, C:R.185, C:M.188, C:F.189, C:F.192, C:F.192 Hydrogen bonds: C:Y.44, C:W.46 Salt bridges: C:R.185 pi-Stacking: C:W.46 pi-Cation interactions: C:R.185 Metal complexes: C:E.65 CLA.49: 16 residues within 4Å: Chain A: A.49, L.51 Chain C: N.61, L.64, H.68, F.195 Ligands: LUX.2, CLA.8, CLA.9, CHL.16, CLA.29, LUX.42, CLA.48, CHL.54, CHL.56, DGD.60 4 PLIP interactions: 4 interactions with chain C, Hydrophobic interactions: C:L.64, C:L.64, C:F.195 Metal complexes: C:H.68 CLA.50: 20 residues within 4Å: Chain C: W.71, L.74, L.77, G.78, F.81, P.82, L.85, F.92, E.94, Q.103, L.110, Y.112, L.113, L.118, V.119 Ligands: LUX.42, NEX.43, CLA.45, CHL.57, CHL.58 13 PLIP interactions: 13 interactions with chain C, Hydrophobic interactions: C:W.71, C:L.77, C:P.82, C:L.85, C:Y.112, C:Y.112, C:L.113, C:L.118, C:L.118, C:V.119 Hydrogen bonds: C:Q.103, C:L.113 pi-Stacking: C:Y.112 CLA.51: 10 residues within 4Å: Chain C: W.16, L.77, L.84, E.175, K.179, K.182, N.183, L.186 Ligands: CLA.46, LHG.59 9 PLIP interactions: 9 interactions with chain C, Hydrophobic interactions: C:W.16, C:L.77, C:L.84, C:K.182, C:L.186 Hydrogen bonds: C:N.183 Salt bridges: C:K.182 pi-Cation interactions: C:K.182, C:K.182 CLA.52: 10 residues within 4Å: Chain B: L.125, W.128 Chain C: L.209, H.212, L.213, P.216, N.220, W.222 Ligands: XAT.44, CLA.47 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain C, Hydrophobic interactions: B:L.125, B:W.128, C:L.209, C:L.213, C:P.216 pi-Stacking: C:H.212 Metal complexes: C:H.212

18 x CHL: CHLOROPHYLL B(Non-covalent)

CHL.13: 17 residues within 4Å: Chain A: V.22, K.23, Y.24, L.25, G.26, P.27, F.28, Y.44, W.46, F.189 Chain C: Q.131, G.136 Ligands: XAT.4, CLA.8, LHG.19, CHL.54, CHL.56 8 PLIP interactions: 8 interactions with chain A, Hydrophobic interactions: A:V.22, A:Y.24, A:L.25, A:F.28, A:W.46, A:W.46, A:W.46 Metal complexes: A:Y.24 CHL.14: 24 residues within 4Å: Chain A: W.97, F.98, K.99, A.100, G.101, S.102, I.104, F.105, I.124, Q.131, F.195 Chain B: W.222, A.225, T.226, F.228, V.229, P.230 Ligands: LUX.2, CLA.9, CHL.16, CHL.17, DGD.20, XAT.24, CHL.33 14 PLIP interactions: 10 interactions with chain A, 3 interactions with chain B, 1 Ligand-Water interactions, Hydrophobic interactions: A:W.97, A:W.97, A:F.98, A:I.104, A:F.105, A:F.195, A:F.195, B:W.222, B:W.222, B:V.229 Hydrogen bonds: A:G.101, A:S.102, A:Q.131 Metal complexes: H2O.1 CHL.15: 19 residues within 4Å: Chain A: I.67, R.70, W.71, V.138, Y.141, R.142, G.145, G.146, P.147, L.148, G.149, V.151, P.154, P.157, S.160, F.161 Ligands: LUX.1, NEX.3, CLA.5 15 PLIP interactions: 14 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:V.138, A:Y.141, A:R.142, A:P.147, A:L.148, A:L.148, A:V.151, A:P.157, A:P.157, A:F.161, A:F.161 Hydrogen bonds: A:R.70, A:L.148, A:G.149 Metal complexes: H2O.1 CHL.16: 21 residues within 4Å: Chain A: E.63, L.64, I.67, H.68, W.71, Q.131, V.132, M.135, G.136, E.139, R.142, I.143, F.192, F.195 Chain B: W.46, T.48 Ligands: CLA.9, CHL.14, CHL.17, CHL.33, CLA.49 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:W.71, A:I.143, A:F.192, A:F.195, B:T.48 Hydrogen bonds: A:Q.131 Salt bridges: A:R.142 Metal complexes: A:E.139 CHL.17: 15 residues within 4Å: Chain A: W.71, G.101, L.110, V.119, A.121, I.127, T.130, Q.131, L.134 Ligands: LUX.2, NEX.3, CLA.10, CHL.14, CHL.16, CHL.18 8 PLIP interactions: 8 interactions with chain A, Hydrophobic interactions: A:W.71, A:L.110, A:V.119, A:A.121, A:I.127, A:I.127, A:L.134 Water bridges: A:G.101 CHL.18: 11 residues within 4Å: Chain A: P.116, S.117, L.118, V.119, H.120, A.121, Q.122, S.123, A.126 Ligands: CLA.10, CHL.17 7 PLIP interactions: 7 interactions with chain A, Hydrophobic interactions: A:V.119, A:A.121, A:Q.122, A:Q.122 Hydrogen bonds: A:Q.122, A:S.123 Metal complexes: A:V.119 CHL.33: 17 residues within 4Å: Chain A: Q.131, G.136 Chain B: V.22, K.23, Y.24, L.25, G.26, P.27, F.28, Y.44, W.46, F.189 Ligands: CHL.14, CHL.16, XAT.24, CLA.28, LHG.39 7 PLIP interactions: 7 interactions with chain B, Hydrophobic interactions: B:V.22, B:Y.24, B:L.25, B:F.28, B:W.46, B:W.46 Metal complexes: B:Y.24 CHL.34: 23 residues within 4Å: Chain B: W.97, F.98, K.99, A.100, G.101, S.102, I.104, F.105, I.124, Q.131, F.195 Chain C: W.222, A.225, T.226, F.228, V.229, P.230 Ligands: CLA.29, CHL.36, CHL.37, DGD.40, XAT.44, CHL.53 14 PLIP interactions: 10 interactions with chain B, 3 interactions with chain C, 1 Ligand-Water interactions, Hydrophobic interactions: B:W.97, B:W.97, B:F.98, B:I.104, B:F.105, B:F.195, B:F.195, C:W.222, C:W.222, C:V.229 Hydrogen bonds: B:G.101, B:S.102, B:Q.131 Metal complexes: H2O.1 CHL.35: 20 residues within 4Å: Chain B: I.67, R.70, W.71, V.138, Y.141, R.142, G.145, G.146, P.147, L.148, G.149, E.150, V.151, P.154, P.157, S.160, F.161 Ligands: LUX.21, NEX.23, CLA.25 15 PLIP interactions: 14 interactions with chain B, 1 Ligand-Water interactions, Hydrophobic interactions: B:V.138, B:Y.141, B:R.142, B:P.147, B:L.148, B:L.148, B:V.151, B:P.157, B:P.157, B:F.161, B:F.161 Hydrogen bonds: B:R.70, B:L.148, B:G.149 Metal complexes: H2O.1 CHL.36: 21 residues within 4Å: Chain B: E.63, L.64, I.67, H.68, W.71, Q.131, V.132, M.135, G.136, E.139, R.142, I.143, F.192, F.195 Chain C: W.46, T.48 Ligands: CLA.9, CLA.29, CHL.34, CHL.37, CHL.53 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain C, Hydrophobic interactions: B:I.67, B:W.71, B:W.71, B:I.143, B:F.192, B:F.195, C:T.48 Hydrogen bonds: B:Q.131 Salt bridges: B:R.142 Metal complexes: B:E.139 CHL.37: 15 residues within 4Å: Chain B: W.71, G.101, L.110, V.119, A.121, I.127, T.130, Q.131, L.134 Ligands: LUX.22, NEX.23, CLA.30, CHL.34, CHL.36, CHL.38 9 PLIP interactions: 9 interactions with chain B, Hydrophobic interactions: B:W.71, B:L.110, B:V.119, B:A.121, B:I.127, B:I.127, B:Q.131, B:L.134 Water bridges: B:G.101 CHL.38: 11 residues within 4Å: Chain B: P.116, S.117, L.118, V.119, H.120, A.121, Q.122, S.123, A.126 Ligands: CLA.30, CHL.37 7 PLIP interactions: 7 interactions with chain B, Hydrophobic interactions: B:V.119, B:A.121, B:Q.122, B:Q.122 Hydrogen bonds: B:Q.122, B:S.123 Metal complexes: B:V.119 CHL.53: 17 residues within 4Å: Chain B: Q.131, G.136 Chain C: V.22, K.23, Y.24, L.25, G.26, P.27, F.28, Y.44, W.46, F.189 Ligands: CHL.34, CHL.36, XAT.44, CLA.48, LHG.59 8 PLIP interactions: 8 interactions with chain C, Hydrophobic interactions: C:V.22, C:Y.24, C:L.25, C:F.28, C:W.46, C:W.46, C:W.46 Metal complexes: C:Y.24 CHL.54: 24 residues within 4Å: Chain A: W.222, A.225, T.226, F.228, V.229, P.230 Chain C: W.97, F.98, K.99, A.100, G.101, S.102, I.104, F.105, I.124, Q.131, F.195 Ligands: XAT.4, CHL.13, LUX.42, CLA.49, CHL.56, CHL.57, DGD.60 15 PLIP interactions: 11 interactions with chain C, 3 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: C:W.97, C:W.97, C:F.98, C:I.104, C:F.105, C:I.124, C:F.195, C:F.195, A:W.222, A:W.222, A:V.229 Hydrogen bonds: C:G.101, C:S.102, C:Q.131 Metal complexes: H2O.1 CHL.55: 18 residues within 4Å: Chain C: R.70, W.71, V.138, Y.141, R.142, G.145, G.146, P.147, L.148, G.149, V.151, P.154, P.157, S.160, F.161 Ligands: LUX.41, NEX.43, CLA.45 16 PLIP interactions: 15 interactions with chain C, 1 Ligand-Water interactions, Hydrophobic interactions: C:V.138, C:Y.141, C:R.142, C:P.147, C:L.148, C:L.148, C:V.151, C:P.157, C:P.157, C:F.161, C:F.161, C:F.161 Hydrogen bonds: C:R.70, C:L.148, C:G.149 Metal complexes: H2O.1 CHL.56: 21 residues within 4Å: Chain A: W.46, T.48 Chain C: E.63, L.64, I.67, H.68, W.71, Q.131, V.132, M.135, G.136, E.139, R.142, I.143, F.192, F.195 Ligands: CHL.13, CLA.29, CLA.49, CHL.54, CHL.57 12 PLIP interactions: 10 interactions with chain C, 2 interactions with chain A, Hydrophobic interactions: C:I.67, C:W.71, C:W.71, C:W.71, C:I.143, C:F.192, C:F.195, A:T.48 Hydrogen bonds: C:Q.131, A:T.48 Salt bridges: C:R.142 Metal complexes: C:E.139 CHL.57: 15 residues within 4Å: Chain C: W.71, G.101, L.110, V.119, A.121, I.127, T.130, Q.131, L.134 Ligands: LUX.42, NEX.43, CLA.50, CHL.54, CHL.56, CHL.58 8 PLIP interactions: 8 interactions with chain C, Hydrophobic interactions: C:W.71, C:L.110, C:V.119, C:A.121, C:I.127, C:I.127, C:L.134 Water bridges: C:G.101 CHL.58: 11 residues within 4Å: Chain C: P.116, S.117, L.118, V.119, H.120, A.121, Q.122, S.123, A.126 Ligands: CLA.50, CHL.57 6 PLIP interactions: 6 interactions with chain C, Hydrophobic interactions: C:V.119, C:Q.122, C:Q.122 Hydrogen bonds: C:Q.122, C:S.123 Metal complexes: C:V.119

3 x LHG: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE(Non-covalent)

LHG.19: 9 residues within 4Å: Chain A: W.16, Y.44, K.182, L.186 Ligands: XAT.4, CLA.7, CLA.8, CLA.11, CHL.13 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.186 Hydrogen bonds: A:Y.44 Salt bridges: A:K.182, A:K.182 LHG.39: 9 residues within 4Å: Chain B: W.16, Y.44, K.182, L.186 Ligands: XAT.24, CLA.27, CLA.28, CLA.31, CHL.33 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.186 Salt bridges: B:K.182, B:K.182 LHG.59: 9 residues within 4Å: Chain C: W.16, Y.44, K.182, R.185, L.186 Ligands: XAT.44, CLA.47, CLA.51, CHL.53 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:L.186 Salt bridges: C:K.182, C:K.182

3 x DGD: DIGALACTOSYL DIACYL GLYCEROL (DGDG)(Non-covalent)

DGD.20: 11 residues within 4Å: Chain A: I.199, V.200, T.201, G.202 Chain B: F.228, P.230, G.231, K.232 Ligands: CLA.9, CHL.14, XAT.24 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:G.231, A:I.199 DGD.40: 11 residues within 4Å: Chain B: I.199, V.200, T.201, G.202 Chain C: F.228, P.230, G.231, K.232 Ligands: CLA.29, CHL.34, XAT.44 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:G.231, B:I.199 DGD.60: 11 residues within 4Å: Chain A: F.228, P.230, G.231, K.232 Chain C: I.199, V.200, T.201, G.202 Ligands: XAT.4, CLA.49, CHL.54 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:G.231, C:I.199

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Standfuss, J. et al., Mechanisms of Photoprotection and Nonphotochemical Quenching in Pea Light-Harvesting Complex at 2.5 A Resolution. Embo J. (2005)

Release Date

2006-05-23

Peptides

CHLOROPHYLL A-B BINDING PROTEIN AB80: 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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CHLOROPHYLL A-B BINDING PROTEIN AB80