SMTL ID : 7e0k.1

LHCII-2 in the state transition supercomplex PSI-LHCI-LHCII from the double phosphatase mutant pph1;pbcp of Chlamydomonas reinhardti.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

18 x CHL: CHLOROPHYLL B(Non-covalent)

CHL.1: 18 residues within 4Å: Chain A: A.46, K.47, W.48, L.49, G.50, P.51, Y.52, Y.69, W.71, F.214 Chain C: L.145, Q.148, G.153 Ligands: CLA.2, LHG.19, CHL.46, CHL.48, XAT.56 9 PLIP interactions: 8 interactions with chain A, 1 interactions with chain C, Hydrophobic interactions: A:A.46, A:W.48, A:W.48, A:L.49, A:Y.52, A:W.71, A:W.71, C:L.145 Metal complexes: A:W.48 CHL.5: 9 residues within 4Å: Chain A: S.142, L.143, V.144, H.145, A.146, Q.147, N.148, T.152 Ligands: CHL.6 6 PLIP interactions: 6 interactions with chain A, Hydrophobic interactions: A:V.144, A:A.146, A:Q.147 Hydrogen bonds: A:Q.147, A:N.148 Metal complexes: A:V.144 CHL.6: 17 residues within 4Å: Chain A: W.96, G.126, I.129, L.135, V.144, A.146, I.149, T.152, V.155, Q.156, M.160 Ligands: CLA.4, CHL.5, CHL.7, CHL.9, LUT.16, NEX.18 7 PLIP interactions: 7 interactions with chain A, Hydrophobic interactions: A:W.96, A:I.129, A:L.135, A:A.146, A:I.149, A:T.152, A:Q.156 CHL.7: 21 residues within 4Å: Chain A: W.122, F.123, K.124, G.126, A.127, F.130, I.149, L.153, Q.156 Chain B: F.259, A.262, Q.263, F.265, T.266, P.267 Ligands: CLA.3, CHL.6, CHL.9, LUT.16, XAT.17, CHL.20 10 PLIP interactions: 7 interactions with chain A, 3 interactions with chain B, Hydrophobic interactions: A:W.122, A:F.123, A:F.130, A:I.149, A:L.153, B:F.259, B:F.259, B:A.262 Hydrogen bonds: A:G.126, A:Q.156 CHL.8: 19 residues within 4Å: Chain A: I.92, R.95, W.96, L.99, M.160, V.163, Y.166, R.167, G.170, G.171, P.172, A.173, G.174, P.179, L.180, P.182, F.186 Ligands: CLA.10, NEX.18 9 PLIP interactions: 9 interactions with chain A, Hydrophobic interactions: A:V.163, A:R.167, A:P.172, A:A.173, A:P.182, A:P.182, A:F.186 Hydrogen bonds: A:R.95, A:A.173 CHL.9: 23 residues within 4Å: Chain A: E.88, L.89, I.92, H.93, W.96, Q.156, V.157, M.160, G.161, E.164, R.167, V.168 Chain B: W.60, L.61, W.82, S.84 Ligands: CLA.3, CHL.6, CHL.7, XAT.17, CHL.20, CLA.21, LUT.35 13 PLIP interactions: 11 interactions with chain A, 2 interactions with chain B, Hydrophobic interactions: A:L.89, A:I.92, A:W.96, A:W.96, A:V.157, A:V.168, B:W.60, B:L.61 Hydrogen bonds: A:H.93 Salt bridges: A:R.167 pi-Cation interactions: A:R.167, A:R.167 Metal complexes: A:E.164 CHL.20: 18 residues within 4Å: Chain A: L.153, Q.156, G.161 Chain B: G.58, L.59, W.60, L.61, G.62, P.63, L.64, Y.80, W.82, F.226 Ligands: CHL.7, CHL.9, XAT.17, CLA.21, LHG.38 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A, Hydrophobic interactions: B:W.60, B:W.60, B:L.61, B:L.64, B:Y.80, B:Y.80, B:W.82, A:L.153 Metal complexes: B:W.60 CHL.24: 11 residues within 4Å: Chain B: G.153, L.154, V.155, H.156, A.157, Q.158, S.159, T.163, V.166 Ligands: CHL.25, LMG.39 8 PLIP interactions: 8 interactions with chain B, Hydrophobic interactions: B:V.155, B:V.155, B:A.157, B:Q.158, B:V.166 Hydrogen bonds: B:Q.158, B:S.159 Metal complexes: B:V.155 CHL.25: 16 residues within 4Å: Chain B: W.107, G.137, L.146, V.155, A.157, I.160, T.163, V.166, Q.167, M.171 Ligands: CLA.23, CHL.24, CHL.26, CHL.28, LUT.35, NEX.37 5 PLIP interactions: 5 interactions with chain B, Hydrophobic interactions: B:W.107, B:L.146, B:V.155, B:A.157, B:I.160 CHL.26: 20 residues within 4Å: Chain B: W.133, F.134, K.135, G.137, A.138, F.141, I.160, L.164, Q.167 Chain C: F.239, A.242, T.243, F.245, T.246 Ligands: CLA.22, CHL.25, CHL.28, LUT.35, XAT.36, CHL.40 12 PLIP interactions: 9 interactions with chain B, 3 interactions with chain C, Hydrophobic interactions: B:W.133, B:F.134, B:F.141, B:I.160, B:I.160, B:L.164, C:F.239, C:F.239, C:A.242 Hydrogen bonds: B:G.137, B:A.138, B:Q.167 CHL.27: 20 residues within 4Å: Chain B: I.103, R.106, W.107, L.110, I.174, Y.177, R.178, G.181, G.182, P.183, A.184, G.185, K.190, L.191, P.193, F.197, F.198 Ligands: CLA.29, LUT.34, NEX.37 8 PLIP interactions: 8 interactions with chain B, Hydrophobic interactions: B:I.174, B:Y.177, B:R.178, B:P.183, B:A.184, B:P.193 Hydrogen bonds: B:R.106, B:A.184 CHL.28: 19 residues within 4Å: Chain B: L.100, I.103, H.104, W.107, Q.167, M.171, G.172, E.175, R.178, V.179 Chain C: L.41, W.63, T.65 Ligands: CLA.22, CHL.25, CHL.26, XAT.36, CHL.40, LUT.55 13 PLIP interactions: 3 interactions with chain C, 10 interactions with chain B, Hydrophobic interactions: C:L.41, C:T.65, B:L.100, B:I.103, B:W.107, B:V.179 Hydrogen bonds: C:T.65, B:H.104, B:Q.167 Salt bridges: B:R.178 pi-Cation interactions: B:R.178, B:R.178 Metal complexes: B:E.175 CHL.40: 18 residues within 4Å: Chain B: L.164, Q.167, G.172 Chain C: P.38, K.39, F.40, L.41, G.42, P.43, F.44, Y.61, W.63, F.206 Ligands: CHL.26, CHL.28, XAT.36, CLA.41, LHG.58 6 PLIP interactions: 6 interactions with chain C, Hydrophobic interactions: C:P.38, C:F.40, C:L.41, C:F.44, C:W.63 Metal complexes: C:F.40 CHL.44: 9 residues within 4Å: Chain C: N.134, L.135, I.136, H.137, A.138, Q.139, S.140, T.144 Ligands: CHL.45 6 PLIP interactions: 6 interactions with chain C, Hydrophobic interactions: C:I.136, C:A.138, C:Q.139 Hydrogen bonds: C:Q.139, C:S.140 Metal complexes: C:I.136 CHL.45: 18 residues within 4Å: Chain C: W.88, G.118, I.121, L.127, I.136, A.138, I.141, T.144, F.147, Q.148, V.151, M.152 Ligands: CLA.43, CHL.44, CHL.46, CHL.48, LUT.55, NEX.57 7 PLIP interactions: 7 interactions with chain C, Hydrophobic interactions: C:W.88, C:I.121, C:L.127, C:A.138, C:I.141, C:Q.148, C:V.151 CHL.46: 24 residues within 4Å: Chain A: F.247, A.250, T.251, F.253, T.254 Chain C: W.114, F.115, K.116, A.117, G.118, A.119, F.122, I.141, Q.148, F.212, A.215, I.216 Ligands: CHL.1, LHG.19, CLA.42, CHL.45, CHL.48, LUT.55, XAT.56 14 PLIP interactions: 11 interactions with chain C, 3 interactions with chain A, Hydrophobic interactions: C:W.114, C:W.114, C:F.115, C:F.122, C:I.141, C:F.212, C:A.215, C:I.216, A:F.247, A:F.247, A:A.250 Hydrogen bonds: C:G.118, C:A.119, C:Q.148 CHL.47: 19 residues within 4Å: Chain C: I.84, R.87, W.88, L.91, M.152, Y.158, R.159, G.162, G.163, P.164, L.165, G.166, P.171, L.172, P.174, F.178 Ligands: CLA.49, LUT.54, NEX.57 9 PLIP interactions: 9 interactions with chain C, Hydrophobic interactions: C:R.159, C:P.164, C:L.165, C:L.165, C:P.174, C:P.174, C:F.178 Hydrogen bonds: C:R.87, C:L.165 CHL.48: 23 residues within 4Å: Chain A: W.48, L.49, W.71, T.73 Chain C: E.80, L.81, I.84, H.85, W.88, Q.148, V.149, M.152, G.153, E.156, R.159, F.209 Ligands: CHL.1, CLA.2, LUT.16, CLA.42, CHL.45, CHL.46, XAT.56 13 PLIP interactions: 4 interactions with chain A, 9 interactions with chain C, Hydrophobic interactions: A:W.48, A:L.49, A:T.73, C:L.81, C:I.84, C:W.88, C:V.149 Hydrogen bonds: A:T.73, C:H.85 Salt bridges: C:R.159 pi-Cation interactions: C:R.159, C:R.159 Metal complexes: C:E.156

24 x CLA: CHLOROPHYLL A(Non-covalent)

CLA.2: 24 residues within 4Å: Chain A: L.61, P.66, G.67, D.68, Y.69, G.70, W.71, D.72, L.76, S.77, F.83, Y.86, R.87, L.89, E.90, R.210, M.213, F.214 Ligands: CHL.1, CLA.3, LUT.16, LHG.19, CLA.42, CHL.48 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:Y.69, A:W.71, A:W.71, A:W.71, A:L.76, A:F.83, A:Y.86, A:Y.86, A:R.87, A:L.89, A:R.210, A:M.213, A:F.214 Hydrogen bonds: A:Y.69, A:G.70, A:W.71 Salt bridges: A:R.210 Metal complexes: A:E.90 CLA.3: 13 residues within 4Å: Chain A: Y.86, L.89, H.93, F.217, F.220 Chain B: A.85, L.87 Ligands: CLA.2, CHL.7, CHL.9, LUT.16, CLA.21, LUT.35 7 PLIP interactions: 7 interactions with chain A, Hydrophobic interactions: A:Y.86, A:L.89, A:F.217, A:F.220, A:F.220 Hydrogen bonds: A:Y.86 Metal complexes: A:H.93 CLA.4: 15 residues within 4Å: Chain A: W.96, L.99, G.100, L.102, G.103, T.106, P.107, F.117, E.119, Q.128, L.135, Y.137 Ligands: CHL.6, LUT.16, NEX.18 9 PLIP interactions: 9 interactions with chain A, Hydrophobic interactions: A:W.96, A:L.99, A:L.102, A:T.106, A:F.117, A:L.135, A:Y.137, A:Y.137 Hydrogen bonds: A:Q.128 CLA.10: 18 residues within 4Å: Chain A: R.95, M.98, L.99, Y.181, P.182, G.183, F.186, D.187, L.191, A.192, F.198, L.201, K.202, K.204, E.205 Ligands: CHL.8, CLA.12, LUT.15 12 PLIP interactions: 12 interactions with chain A, Hydrophobic interactions: A:R.95, A:R.95, A:M.98, A:L.99, A:F.186, A:A.192, A:L.201, A:K.204, A:E.205, A:E.205 Hydrogen bonds: A:G.183 Metal complexes: A:E.205 CLA.11: 9 residues within 4Å: Chain A: F.40, E.200, V.203, K.204, K.207, N.208 Ligands: CLA.12, LHG.19, XAT.56 5 PLIP interactions: 5 interactions with chain A, Hydrophobic interactions: A:K.207 Hydrogen bonds: A:N.208 Salt bridges: A:K.204, A:K.207 pi-Cation interactions: A:K.207 CLA.12: 7 residues within 4Å: Chain A: L.102, K.204, N.208, L.211 Ligands: CLA.10, CLA.11, LUT.15 3 PLIP interactions: 3 interactions with chain A, Hydrophobic interactions: A:L.102, A:K.204, A:L.211 CLA.13: 18 residues within 4Å: Chain A: F.214, F.217, G.218, V.221, Q.222, V.225, T.226, N.233, L.234, H.237, N.244, N.245, A.246, F.249 Ligands: CLA.14, LUT.15, LHG.19, XAT.56 10 PLIP interactions: 10 interactions with chain A, Hydrophobic interactions: A:F.214, A:F.217, A:V.221, A:Q.222, A:V.225, A:L.234, A:A.246 Hydrogen bonds: A:T.226, A:A.246 pi-Stacking: A:H.237 CLA.14: 9 residues within 4Å: Chain A: H.237, L.238, P.241, T.242, N.245, F.247 Chain C: I.142 Ligands: CLA.13, XAT.56 4 PLIP interactions: 4 interactions with chain A, Hydrophobic interactions: A:L.238, A:P.241, A:T.242 Metal complexes: A:H.237 CLA.21: 26 residues within 4Å: Chain B: L.72, P.77, G.78, D.79, Y.80, G.81, W.82, D.83, L.87, S.88, F.94, Y.97, R.98, L.100, E.101, H.104, R.222, M.225, F.226, F.229 Ligands: CLA.3, CHL.9, CHL.20, CLA.22, LUT.35, LHG.38 20 PLIP interactions: 20 interactions with chain B, Hydrophobic interactions: B:Y.80, B:W.82, B:W.82, B:L.87, B:F.94, B:Y.97, B:Y.97, B:R.98, B:L.100, B:R.222, B:R.222, B:M.225, B:F.226, B:F.229 Hydrogen bonds: B:Y.80, B:W.82 Salt bridges: B:R.222 pi-Stacking: B:W.82 pi-Cation interactions: B:R.222 Metal complexes: B:E.101 CLA.22: 13 residues within 4Å: Chain B: Y.97, L.100, H.104, F.229, F.232 Chain C: A.66, L.68 Ligands: CLA.21, CHL.26, CHL.28, LUT.35, CLA.41, LUT.55 7 PLIP interactions: 7 interactions with chain B, Hydrophobic interactions: B:Y.97, B:L.100, B:L.100, B:F.229, B:F.232, B:F.232 Metal complexes: B:H.104 CLA.23: 21 residues within 4Å: Chain B: W.107, L.110, L.113, G.114, T.117, P.118, L.121, I.128, E.130, A.136, Q.139, L.146, D.147, Y.148, L.149, V.155 Ligands: CHL.25, CLA.29, LUT.35, NEX.37, LMG.39 9 PLIP interactions: 9 interactions with chain B, Hydrophobic interactions: B:W.107, B:L.110, B:L.113, B:T.117, B:P.118, B:L.121, B:L.146, B:Y.148 Hydrogen bonds: B:Q.139 CLA.29: 21 residues within 4Å: Chain B: R.106, M.109, L.110, L.113, H.192, P.193, G.194, F.198, D.199, L.203, A.204, F.210, L.213, K.214, K.216, E.217, N.220 Ligands: CLA.23, CHL.27, CLA.31, LUT.34 15 PLIP interactions: 15 interactions with chain B, Hydrophobic interactions: B:R.106, B:R.106, B:M.109, B:L.110, B:L.110, B:L.113, B:F.198, B:A.204, B:F.210, B:L.213, B:K.216, B:N.220 Hydrogen bonds: B:G.194 Salt bridges: B:H.192 Metal complexes: B:E.217 CLA.30: 8 residues within 4Å: Chain B: F.52, V.215, K.216, K.219, N.220, L.223 Ligands: CLA.31, LHG.38 6 PLIP interactions: 6 interactions with chain B, Hydrophobic interactions: B:F.52, B:K.219, B:L.223 Hydrogen bonds: B:N.220 Salt bridges: B:K.219 pi-Cation interactions: B:K.219 CLA.31: 8 residues within 4Å: Chain B: L.113, L.213, K.216, N.220, L.223 Ligands: CLA.29, CLA.30, LUT.34 6 PLIP interactions: 6 interactions with chain B, Hydrophobic interactions: B:L.113, B:L.213, B:K.216, B:L.223 Salt bridges: B:K.216, B:K.216 CLA.32: 22 residues within 4Å: Chain A: V.150, L.153, A.154 Chain B: F.226, S.227, F.229, G.230, V.233, Q.234, V.237, T.238, N.245, L.246, E.248, H.249, N.257, A.258, Y.261 Ligands: XAT.17, CLA.33, LUT.34, LHG.38 11 PLIP interactions: 9 interactions with chain B, 2 interactions with chain A, Hydrophobic interactions: B:F.229, B:F.229, B:V.233, B:Q.234, B:V.237, B:A.258, A:L.153, A:A.154 Hydrogen bonds: B:T.238, B:A.258 pi-Stacking: B:H.249 CLA.33: 8 residues within 4Å: Chain B: H.249, L.250, P.253, F.254, N.257, F.259 Ligands: XAT.17, CLA.32 5 PLIP interactions: 5 interactions with chain B, Hydrophobic interactions: B:P.253, B:P.253, B:F.254 pi-Stacking: B:F.254 Metal complexes: B:H.249 CLA.41: 24 residues within 4Å: Chain C: L.53, P.58, G.59, D.60, Y.61, G.62, W.63, D.64, L.68, S.69, F.75, Y.78, R.79, L.81, E.82, H.85, R.202, M.205, F.206 Ligands: CLA.22, CHL.40, CLA.42, LUT.55, LHG.58 17 PLIP interactions: 17 interactions with chain C, Hydrophobic interactions: C:Y.61, C:W.63, C:W.63, C:W.63, C:F.75, C:Y.78, C:Y.78, C:R.79, C:L.81, C:R.202, C:M.205, C:F.206 Hydrogen bonds: C:Y.61, C:G.62, C:W.63 Salt bridges: C:R.202 Metal complexes: C:E.82 CLA.42: 12 residues within 4Å: Chain A: L.76 Chain C: Y.78, L.81, H.85, F.209, F.212 Ligands: CLA.2, LUT.16, CLA.41, CHL.46, CHL.48, LUT.55 7 PLIP interactions: 7 interactions with chain C, Hydrophobic interactions: C:Y.78, C:L.81, C:F.209, C:F.212, C:F.212 Hydrogen bonds: C:Y.78 Metal complexes: C:H.85 CLA.43: 17 residues within 4Å: Chain C: W.88, L.91, G.92, L.94, G.95, T.98, P.99, F.109, E.111, Q.120, L.127, Y.129, L.130, I.136 Ligands: CHL.45, LUT.55, NEX.57 7 PLIP interactions: 7 interactions with chain C, Hydrophobic interactions: C:W.88, C:L.91, C:L.94, C:T.98, C:L.127, C:Y.129 Hydrogen bonds: C:Q.120 CLA.49: 18 residues within 4Å: Chain C: R.87, M.90, L.91, H.173, P.174, G.175, F.178, D.179, L.183, A.184, F.190, L.193, K.194, K.196, E.197 Ligands: CHL.47, CLA.51, LUT.54 12 PLIP interactions: 12 interactions with chain C, Hydrophobic interactions: C:R.87, C:R.87, C:M.90, C:L.91, C:F.178, C:A.184, C:L.193, C:K.196, C:E.197 Hydrogen bonds: C:G.175 Salt bridges: C:H.173 Metal complexes: C:E.197 CLA.50: 9 residues within 4Å: Chain C: W.32, E.192, V.195, K.196, K.199, N.200 Ligands: XAT.36, CLA.51, LHG.58 6 PLIP interactions: 6 interactions with chain C, Hydrophobic interactions: C:W.32, C:K.199 Hydrogen bonds: C:N.200 Salt bridges: C:K.196, C:K.199 pi-Cation interactions: C:K.199 CLA.51: 7 residues within 4Å: Chain C: L.94, K.196, N.200, L.203 Ligands: CLA.49, CLA.50, LUT.54 3 PLIP interactions: 3 interactions with chain C, Hydrophobic interactions: C:L.94, C:K.196, C:L.203 CLA.52: 19 residues within 4Å: Chain B: L.164 Chain C: F.206, F.209, G.210, V.213, Q.214, V.217, T.218, N.225, L.226, H.229, V.236, N.237, A.238, Y.241 Ligands: XAT.36, CLA.53, LUT.54, LHG.58 9 PLIP interactions: 8 interactions with chain C, 1 interactions with chain B, Hydrophobic interactions: C:F.206, C:F.209, C:V.213, C:Q.214, C:V.217, C:A.238, B:L.164 Hydrogen bonds: C:T.218, C:A.238 CLA.53: 9 residues within 4Å: Chain B: L.161 Chain C: H.229, L.230, P.233, T.234, N.237, F.239 Ligands: XAT.36, CLA.52 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain C, Hydrophobic interactions: B:L.161, C:L.230, C:P.233 Metal complexes: C:H.229

6 x LUT: (3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL(Non-covalent)

LUT.15: 19 residues within 4Å: Chain A: M.98, A.101, L.102, F.186, D.187, L.189, L.191, N.208, L.211, A.212, S.215, F.219, Q.222, P.230, N.233, L.234 Ligands: CLA.10, CLA.12, CLA.13 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:M.98, A:A.101, A:L.102, A:L.191, A:L.211, A:A.212, A:F.219 Hydrogen bonds: A:L.189, A:G.190, A:Q.222, A:L.234 LUT.16: 23 residues within 4Å: Chain A: W.71, D.72, T.73, A.74, L.76, H.93, W.96, A.97, G.100, G.103, C.104, W.122, A.125, M.213, M.216, F.217 Ligands: CLA.2, CLA.3, CLA.4, CHL.6, CHL.7, CLA.42, CHL.48 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.71, A:W.71, A:A.74, A:L.76, A:A.97, A:W.122, A:M.213, A:F.217 Hydrogen bonds: A:T.73, A:A.74 LUT.34: 18 residues within 4Å: Chain B: M.109, A.112, L.113, F.198, D.199, P.200, L.201, N.220, A.224, S.227, F.231, Q.234, P.242, L.246 Ligands: CHL.27, CLA.29, CLA.31, CLA.32 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:M.109, B:A.112, B:L.113, B:L.201, B:A.224, B:F.231, B:L.246 Hydrogen bonds: B:L.201, B:Q.234, B:L.246 LUT.35: 22 residues within 4Å: Chain B: W.82, D.83, S.84, A.85, L.87, H.104, W.107, A.108, G.111, C.115, W.133, A.136, M.225, M.228, F.229 Ligands: CLA.3, CHL.9, CLA.21, CLA.22, CLA.23, CHL.25, CHL.26 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:W.82, B:W.82, B:W.82, B:A.85, B:L.87, B:A.108, B:W.133, B:W.133, B:M.225, B:F.229 Hydrogen bonds: B:A.85 LUT.54: 20 residues within 4Å: Chain C: M.90, A.93, L.94, F.178, D.179, L.181, L.183, N.200, L.203, A.204, S.207, F.211, Q.214, P.222, N.225, L.226 Ligands: CHL.47, CLA.49, CLA.51, CLA.52 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:M.90, C:A.93, C:L.94, C:L.203, C:A.204, C:F.211 Hydrogen bonds: C:Q.214, C:L.226 LUT.55: 23 residues within 4Å: Chain C: W.63, D.64, T.65, A.66, L.68, H.85, W.88, A.89, G.92, G.95, C.96, W.114, A.117, M.205, M.208, F.209 Ligands: CLA.22, CHL.28, CLA.41, CLA.42, CLA.43, CHL.45, CHL.46 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:W.63, C:W.63, C:A.66, C:L.68, C:A.89, C:W.114, C:M.205, C:F.209 Hydrogen bonds: C:T.65, C:A.66

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.17: 13 residues within 4Å: Chain A: L.153, V.157 Chain B: A.258, F.259, Y.261, A.262, F.265 Ligands: CHL.7, CHL.9, CHL.20, CLA.32, CLA.33, LHG.38 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:A.258, B:F.259, B:A.262, A:V.157, A:V.157 XAT.36: 13 residues within 4Å: Chain B: L.164 Chain C: A.238, F.239, Y.241, A.242, F.245 Ligands: CHL.26, CHL.28, CHL.40, CLA.50, CLA.52, CLA.53, LHG.58 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:A.238, C:F.239, C:A.242, B:L.164 XAT.56: 14 residues within 4Å: Chain A: A.246, F.247, F.249, A.250, F.253 Chain C: L.145, V.149 Ligands: CHL.1, CLA.11, CLA.13, CLA.14, LHG.19, CHL.46, CHL.48 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:A.246, A:F.247, A:A.250, C:V.149, C:V.149

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.18: 10 residues within 4Å: Chain A: W.96, Y.137, L.159, L.162, V.163, Y.166, P.172 Ligands: CLA.4, CHL.6, CHL.8 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.96, A:L.159, A:L.159, A:L.162, A:P.172 NEX.37: 9 residues within 4Å: Chain B: W.107, Y.148, L.170, M.171, A.173, Y.177 Ligands: CLA.23, CHL.25, CHL.27 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:W.107, B:L.170, B:A.173 NEX.57: 9 residues within 4Å: Chain C: W.88, Y.129, V.151, L.154, Y.158, P.164 Ligands: CLA.43, CHL.45, CHL.47 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:W.88, C:V.151, C:V.151, C:L.154, C:P.164

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

LHG.19: 11 residues within 4Å: Chain A: Y.69, K.207, R.210, L.211, F.214 Ligands: CHL.1, CLA.2, CLA.11, CLA.13, CHL.46, XAT.56 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:R.210, A:L.211, A:F.214 Hydrogen bonds: A:Y.69 Salt bridges: A:K.207 LHG.38: 9 residues within 4Å: Chain B: Y.80, K.219, L.223, F.226 Ligands: XAT.17, CHL.20, CLA.21, CLA.30, CLA.32 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:K.219, B:L.223, B:L.223, B:F.226, B:F.226 Hydrogen bonds: B:Y.80 Salt bridges: B:K.219, B:K.219 LHG.58: 12 residues within 4Å: Chain C: I.30, W.32, Y.61, K.199, R.202, L.203, F.206 Ligands: XAT.36, CHL.40, CLA.41, CLA.50, CLA.52 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:R.202, C:F.206 Salt bridges: C:K.199

1 x LMG: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE(Non-covalent)

LMG.39: 5 residues within 4Å: Chain B: N.151, G.153, L.154 Ligands: CLA.23, CHL.24 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.151

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pan, X. et al., Structural basis of LhcbM5-mediated state transitions in green algae. Nat.Plants (2021)

Release Date

2021-06-30

Peptides

Chlorophyll a-b binding protein, chloroplastic: A
Chlorophyll a-b binding protein, chloroplastic: B
Chlorophyll a-b binding protein, chloroplastic: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
U

B
V

C
W

Membrane

We predict this structure to be a membrane protein.
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Chlorophyll a-b binding protein, chloroplastic

Chlorophyll a-b binding protein, chloroplastic

Chlorophyll a-b binding protein, chloroplastic

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