SMTL ID : 7e0j.1

LHCII-1 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

17 x CHL: CHLOROPHYLL B(Non-covalent)

CHL.1: 18 residues within 4Å: Chain A: P.38, K.39, F.40, L.41, G.42, P.43, F.44, Y.61, W.63, F.206 Chain C: L.153, Q.156, G.161 Ligands: CLA.2, LHG.18, CHL.44, CHL.46, XAT.54 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain C, Hydrophobic interactions: A:P.38, A:F.40, A:F.44, A:W.63, C:L.153 Metal complexes: A:F.40 CHL.5: 9 residues within 4Å: Chain A: N.134, L.135, I.136, H.137, A.138, Q.139, S.140, T.144, F.147 9 PLIP interactions: 9 interactions with chain A, Hydrophobic interactions: A:I.136, A:I.136, A:A.138, A:Q.139, A:Q.139, A:F.147 Hydrogen bonds: A:Q.139, A:S.140 Metal complexes: A:I.136 CHL.6: 21 residues within 4Å: Chain A: W.114, F.115, K.116, A.117, G.118, A.119, F.122, I.141, Q.148, F.212 Chain B: F.247, A.250, T.251, F.253, T.254 Ligands: CLA.3, CHL.8, LUT.15, XAT.16, CHL.19, LHG.37 12 PLIP interactions: 9 interactions with chain A, 3 interactions with chain B, Hydrophobic interactions: A:W.114, A:W.114, A:F.115, A:F.122, A:I.141, A:I.141, B:F.247, B:F.247, B:A.250 Hydrogen bonds: A:G.118, A:A.119, A:Q.148 CHL.7: 23 residues within 4Å: Chain A: I.84, R.87, W.88, L.91, M.152, Y.158, R.159, G.162, G.163, P.164, L.165, G.166, L.169, P.171, L.172, P.174, A.177, F.178, P.180 Ligands: CLA.4, CLA.9, LUT.14, NEX.17 9 PLIP interactions: 9 interactions with chain A, Hydrophobic interactions: A:R.159, A:P.164, A:L.165, A:L.169, A:P.174, A:P.174, A:P.180 Hydrogen bonds: A:R.87, A:L.165 CHL.8: 22 residues within 4Å: Chain A: E.80, L.81, I.84, H.85, W.88, Q.148, M.152, G.153, E.156, R.159, F.209, F.212 Chain B: W.48, L.49, W.71, T.73 Ligands: CLA.3, CHL.6, XAT.16, CHL.19, LUT.34, CLA.40 12 PLIP interactions: 9 interactions with chain A, 3 interactions with chain B, Hydrophobic interactions: A:L.81, A:I.84, A:W.88, A:W.88, A:F.209, A:F.212, B:W.48, B:L.49 Hydrogen bonds: A:H.85, B:T.73 Salt bridges: A:R.159 Metal complexes: A:E.156 CHL.19: 18 residues within 4Å: Chain A: L.145, Q.148, G.153 Chain B: A.46, K.47, W.48, L.49, G.50, P.51, Y.52, Y.69, W.71, F.214 Ligands: CHL.6, CHL.8, XAT.16, CLA.20, LHG.37 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A, Hydrophobic interactions: B:A.46, B:W.48, B:W.48, B:Y.52, B:W.71, A:L.145 Metal complexes: B:W.48 CHL.23: 10 residues within 4Å: Chain B: S.142, L.143, V.144, H.145, A.146, Q.147, N.148, T.152, V.155 Ligands: CHL.24 8 PLIP interactions: 8 interactions with chain B, Hydrophobic interactions: B:V.144, B:A.146, B:Q.147, B:Q.147, B:V.155 Hydrogen bonds: B:Q.147, B:N.148 Metal complexes: B:V.144 CHL.24: 19 residues within 4Å: Chain B: W.96, A.125, G.126, I.129, L.135, V.144, A.146, I.149, T.152, V.155, Q.156, L.159, M.160 Ligands: CLA.22, CHL.23, CHL.25, CHL.27, LUT.34, NEX.36 7 PLIP interactions: 7 interactions with chain B, Hydrophobic interactions: B:W.96, B:I.129, B:L.135, B:A.146, B:I.149, B:Q.156, B:L.159 CHL.25: 21 residues within 4Å: Chain B: W.122, F.123, K.124, A.125, G.126, A.127, F.130, I.149, Q.156, F.220 Chain C: F.247, A.250, T.251, F.253, T.254 Ligands: CLA.21, CHL.24, CHL.27, LUT.34, XAT.35, CHL.38 12 PLIP interactions: 9 interactions with chain B, 3 interactions with chain C, Hydrophobic interactions: B:W.122, B:W.122, B:F.123, B:F.130, B:I.149, B:F.220, C:F.247, C:F.247, C:A.250 Hydrogen bonds: B:G.126, B:A.127, B:Q.156 CHL.26: 21 residues within 4Å: Chain B: 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, L.177, P.179, L.180, P.182, F.186 Ligands: CLA.28, LUT.33, NEX.36 11 PLIP interactions: 11 interactions with chain B, Hydrophobic interactions: B:V.163, B:R.167, B:P.172, B:A.173, B:L.177, B:P.182, B:P.182, B:F.186, B:F.186 Hydrogen bonds: B:R.95, B:A.173 CHL.27: 23 residues within 4Å: Chain B: E.88, L.89, I.92, H.93, W.96, Q.156, M.160, G.161, E.164, R.167, V.168, F.217, F.220 Chain C: L.50, W.71, T.73 Ligands: CLA.21, CHL.24, CHL.25, XAT.35, CHL.38, CLA.39, LUT.53 13 PLIP interactions: 2 interactions with chain C, 11 interactions with chain B, Hydrophobic interactions: C:L.50, B:L.89, B:I.92, B:W.96, B:W.96, B:W.96, B:V.168, B:F.217, B:F.220 Hydrogen bonds: C:T.73, B:H.93 Salt bridges: B:R.167 Metal complexes: B:E.164 CHL.38: 17 residues within 4Å: Chain B: L.153, Q.156, G.161 Chain C: P.47, L.48, F.49, L.50, G.51, F.53, Y.69, W.71, F.214 Ligands: CHL.25, CHL.27, XAT.35, CLA.39, LHG.56 9 PLIP interactions: 8 interactions with chain C, 1 interactions with chain B, Hydrophobic interactions: C:P.47, C:F.49, C:L.50, C:F.53, C:Y.69, C:Y.69, C:W.71, B:L.153 Metal complexes: C:F.49 CHL.42: 13 residues within 4Å: Chain C: P.141, N.142, L.143, V.144, H.145, A.146, Q.147, S.148, A.151, I.152, T.155 Ligands: CLA.41, CHL.43 5 PLIP interactions: 5 interactions with chain C, Hydrophobic interactions: C:Q.147, C:Q.147, C:I.152 Hydrogen bonds: C:S.148 Metal complexes: C:V.144 CHL.43: 15 residues within 4Å: Chain C: W.96, G.126, L.135, A.146, I.152, T.155, Q.156, L.159, M.160 Ligands: CLA.41, CHL.42, CHL.44, CHL.46, LUT.53, NEX.55 4 PLIP interactions: 4 interactions with chain C, Hydrophobic interactions: C:W.96, C:A.146, C:I.152, C:I.152 CHL.44: 22 residues within 4Å: Chain A: F.239, A.242, T.243, F.245, T.246 Chain C: W.122, F.123, K.124, G.126, A.127, I.129, F.130, L.153, Q.156, F.220 Ligands: CHL.1, LHG.18, CLA.40, CHL.43, CHL.46, LUT.53, XAT.54 14 PLIP interactions: 12 interactions with chain C, 2 interactions with chain A, Hydrophobic interactions: C:W.122, C:W.122, C:F.123, C:I.129, C:F.130, C:L.153, C:F.220, C:F.220, C:F.220, A:F.239, A:F.239 Hydrogen bonds: C:G.126, C:A.127, C:Q.156 CHL.45: 19 residues within 4Å: Chain C: I.92, R.95, W.96, L.99, I.163, Y.166, R.167, G.170, G.171, P.172, L.173, G.174, K.179, L.180, P.182, F.186 Ligands: CLA.47, LUT.52, NEX.55 13 PLIP interactions: 13 interactions with chain C, Hydrophobic interactions: C:I.163, C:I.163, C:Y.166, C:R.167, C:R.167, C:P.172, C:L.173, C:P.182, C:P.182, C:F.186, C:F.186 Hydrogen bonds: C:R.95, C:L.173 CHL.46: 24 residues within 4Å: Chain A: L.41, W.63, T.65 Chain C: E.88, L.89, I.92, H.93, W.96, Q.156, V.157, M.160, G.161, E.164, R.167, V.168, F.217 Ligands: CHL.1, CLA.2, LUT.15, CLA.39, CLA.40, CHL.43, CHL.44, XAT.54 13 PLIP interactions: 10 interactions with chain C, 3 interactions with chain A, Hydrophobic interactions: C:L.89, C:I.92, C:W.96, C:V.157, C:V.168, C:F.217, A:L.41, A:T.65 Hydrogen bonds: C:H.93, A:T.65 Salt bridges: C:R.167 pi-Cation interactions: C:R.167 Metal complexes: C:E.164

24 x CLA: CHLOROPHYLL A(Non-covalent)

CLA.2: 26 residues within 4Å: Chain A: 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, R.202, M.205, F.206, F.209 Ligands: CHL.1, CLA.3, CLA.12, LUT.15, LHG.18, CLA.40, CHL.46 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:Y.61, A:W.63, A:W.63, A:F.75, A:Y.78, A:Y.78, A:R.79, A:L.81, A:E.82, A:R.202, A:M.205, A:F.206, A:F.206, A:F.206, A:F.209, A:F.209 Hydrogen bonds: A:Y.61, A:G.62, A:W.63 Salt bridges: A:R.202 pi-Stacking: A:W.63 pi-Cation interactions: A:R.202 Metal complexes: A:E.82 CLA.3: 13 residues within 4Å: Chain A: Y.78, L.81, H.85, F.209, F.212 Chain B: L.76 Ligands: CLA.2, CHL.6, CHL.8, LUT.15, CLA.20, LUT.34, CLA.40 7 PLIP interactions: 7 interactions with chain A, Hydrophobic interactions: A:Y.78, A:L.81, A:F.209, A:F.212, A:F.212 Hydrogen bonds: A:Y.78 Metal complexes: A:H.85 CLA.4: 18 residues within 4Å: Chain A: W.88, L.91, G.92, L.94, G.95, T.98, P.99, F.109, E.111, A.117, Q.120, L.127, Y.129, L.130 Ligands: CHL.7, CLA.9, LUT.15, NEX.17 9 PLIP interactions: 9 interactions with chain A, Hydrophobic interactions: A:W.88, A:L.91, A:L.94, A:L.94, A:T.98, A:L.127, A:Y.129, A:Y.129 Hydrogen bonds: A:Q.120 CLA.9: 21 residues within 4Å: Chain A: R.87, M.90, L.91, L.94, 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: CLA.4, CHL.7, CLA.11, LUT.14, NEX.17 13 PLIP interactions: 13 interactions with chain A, Hydrophobic interactions: A:R.87, A:M.90, A:L.91, A:L.94, A:F.178, A:A.184, A:L.193, A:K.196, A:E.197 Hydrogen bonds: A:G.175 Salt bridges: A:H.173 pi-Cation interactions: A:R.87 Metal complexes: A:E.197 CLA.10: 10 residues within 4Å: Chain A: I.30, W.32, E.192, V.195, K.196, K.199, N.200 Ligands: CLA.11, LHG.18, XAT.54 7 PLIP interactions: 7 interactions with chain A, Hydrophobic interactions: A:I.30, A:W.32, A:K.199 Hydrogen bonds: A:N.200 Salt bridges: A:K.196, A:K.199 pi-Cation interactions: A:K.199 CLA.11: 7 residues within 4Å: Chain A: L.94, K.196, N.200, L.203 Ligands: CLA.9, CLA.10, LUT.14 3 PLIP interactions: 3 interactions with chain A, Hydrophobic interactions: A:L.94, A:K.196, A:L.203 CLA.12: 21 residues within 4Å: Chain A: F.206, F.209, G.210, Q.214, V.217, T.218, N.225, L.226, H.229, V.236, N.237, A.238, Y.241 Chain C: L.150, L.153, V.157 Ligands: CLA.2, CLA.13, LUT.14, LHG.18, XAT.54 10 PLIP interactions: 8 interactions with chain A, 2 interactions with chain C, Hydrophobic interactions: A:F.206, A:F.209, A:Q.214, A:V.217, A:H.229, A:A.238, C:L.153, C:V.157 Hydrogen bonds: A:T.218, A:A.238 CLA.13: 9 residues within 4Å: Chain A: H.229, L.230, P.233, T.234, N.237, F.239 Chain C: L.150 Ligands: CLA.12, XAT.54 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain A, Hydrophobic interactions: C:L.150, A:L.230, A:P.233 Metal complexes: A:H.229 CLA.20: 23 residues within 4Å: Chain B: 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: CLA.3, CHL.19, CLA.21, LUT.34, LHG.37 19 PLIP interactions: 19 interactions with chain B, Hydrophobic interactions: B:Y.69, B:W.71, B:W.71, B:F.83, B:Y.86, B:Y.86, B:R.87, B:L.89, B:E.90, B:R.210, B:M.213, B:F.214 Hydrogen bonds: B:Y.69, B:G.70, B:W.71 Salt bridges: B:R.210 pi-Stacking: B:W.71 pi-Cation interactions: B:R.210 Metal complexes: B:E.90 CLA.21: 12 residues within 4Å: Chain B: Y.86, H.93, F.217, F.220 Chain C: L.76 Ligands: CLA.20, CHL.25, CHL.27, LUT.34, CLA.39, CLA.40, LUT.53 6 PLIP interactions: 6 interactions with chain B, Hydrophobic interactions: B:Y.86, B:F.217, B:F.220, B:F.220 Hydrogen bonds: B:Y.86 Metal complexes: B:H.93 CLA.22: 18 residues within 4Å: Chain B: W.96, L.99, G.100, L.102, G.103, T.106, P.107, F.117, E.119, A.125, Q.128, L.135, Y.137, L.138 Ligands: CHL.24, CLA.28, LUT.34, NEX.36 9 PLIP interactions: 9 interactions with chain B, Hydrophobic interactions: B:W.96, B:L.99, B:L.102, B:L.102, B:T.106, B:L.135, B:Y.137, B:Y.137 Hydrogen bonds: B:Q.128 CLA.28: 21 residues within 4Å: Chain B: R.95, M.98, L.99, L.102, 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: CLA.22, CHL.26, CLA.30, LUT.33, NEX.36 12 PLIP interactions: 12 interactions with chain B, Hydrophobic interactions: B:R.95, B:M.98, B:L.99, B:L.102, B:F.186, B:A.192, B:L.201, B:K.204, B:E.205 Hydrogen bonds: B:G.183 pi-Cation interactions: B:R.95 Metal complexes: B:E.205 CLA.29: 10 residues within 4Å: Chain B: I.38, F.40, E.200, V.203, K.204, K.207, N.208 Ligands: XAT.16, CLA.30, LHG.37 6 PLIP interactions: 6 interactions with chain B, Hydrophobic interactions: B:I.38, B:K.207 Hydrogen bonds: B:N.208 Salt bridges: B:K.204, B:K.207 pi-Cation interactions: B:K.207 CLA.30: 7 residues within 4Å: Chain B: L.102, K.204, N.208, L.211 Ligands: CLA.28, CLA.29, LUT.33 2 PLIP interactions: 2 interactions with chain B, Hydrophobic interactions: B:L.102, B:L.211 CLA.31: 20 residues within 4Å: Chain A: I.142, L.145, A.146 Chain B: F.214, F.217, G.218, Q.222, V.225, T.226, N.233, L.234, H.237, N.244, N.245, A.246, F.249 Ligands: XAT.16, CLA.32, LUT.33, LHG.37 11 PLIP interactions: 8 interactions with chain B, 3 interactions with chain A, Hydrophobic interactions: B:F.214, B:F.217, B:Q.222, B:V.225, B:L.234, B:A.246, A:I.142, A:L.145, A:A.146 Hydrogen bonds: B:T.226, B:A.246 CLA.32: 9 residues within 4Å: Chain A: I.142 Chain B: H.237, L.238, P.241, T.242, N.245, F.247 Ligands: XAT.16, CLA.31 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B, Hydrophobic interactions: A:I.142, A:I.142, B:L.238, B:P.241 Metal complexes: B:H.237 CLA.39: 26 residues within 4Å: Chain C: 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, F.217 Ligands: CLA.21, CHL.27, CHL.38, CLA.40, CHL.46, LUT.53, LHG.56 18 PLIP interactions: 18 interactions with chain C, Hydrophobic interactions: C:Y.69, C:W.71, C:W.71, C:Y.86, C:Y.86, C:R.87, C:L.89, C:E.90, C:M.213, C:F.214, C:F.217 Hydrogen bonds: C:Y.69, C:G.70, C:W.71 Salt bridges: C:R.210 pi-Stacking: C:W.71 pi-Cation interactions: C:R.210 Metal complexes: C:E.90 CLA.40: 17 residues within 4Å: Chain A: A.66, L.68, F.209 Chain C: L.89, H.93, F.217, F.220 Ligands: CLA.2, CLA.3, CHL.8, LUT.15, LHG.18, CLA.21, CLA.39, CHL.44, CHL.46, LUT.53 9 PLIP interactions: 8 interactions with chain C, 1 interactions with chain A, Hydrophobic interactions: C:L.89, C:L.89, C:F.217, C:F.220, C:F.220, C:F.220, A:F.209 Hydrogen bonds: C:Y.86 Metal complexes: C:H.93 CLA.41: 20 residues within 4Å: Chain C: W.96, L.99, L.102, G.103, F.106, P.107, F.117, E.119, A.125, Q.128, L.135, Y.137, L.138, L.143, V.144 Ligands: CHL.42, CHL.43, CLA.47, LUT.53, NEX.55 11 PLIP interactions: 11 interactions with chain C, Hydrophobic interactions: C:W.96, C:L.99, C:L.102, C:F.106, C:Y.137, C:L.138, C:L.143, C:V.144 Hydrogen bonds: C:Q.128, C:L.138 pi-Stacking: C:Y.137 CLA.47: 21 residues within 4Å: Chain C: R.95, M.98, L.99, L.102, Y.181, P.182, G.183, F.186, D.187, L.191, A.192, F.198, L.201, K.202, K.204, E.205, N.208 Ligands: CLA.41, CHL.45, CLA.49, LUT.52 15 PLIP interactions: 15 interactions with chain C, Hydrophobic interactions: C:R.95, C:R.95, C:M.98, C:L.99, C:L.99, C:L.102, C:F.186, C:F.198, C:L.201, C:K.202, C:K.204, C:N.208 Hydrogen bonds: C:G.183 pi-Cation interactions: C:R.95 Metal complexes: C:E.205 CLA.48: 11 residues within 4Å: Chain C: W.41, F.106, L.109, E.200, K.204, K.207, N.208, L.211 Ligands: XAT.35, CLA.49, LHG.56 9 PLIP interactions: 9 interactions with chain C, Hydrophobic interactions: C:W.41, C:F.106, C:L.109, C:K.207, C:L.211 Hydrogen bonds: C:N.208 Salt bridges: C:K.207 pi-Cation interactions: C:K.207, C:K.207 CLA.49: 8 residues within 4Å: Chain C: L.102, F.106, K.204, N.208, L.211 Ligands: CLA.47, CLA.48, LUT.52 5 PLIP interactions: 5 interactions with chain C, Hydrophobic interactions: C:L.102, C:K.204, C:L.211 Salt bridges: C:K.204, C:K.204 CLA.50: 21 residues within 4Å: Chain B: L.153, A.154 Chain C: F.214, S.215, F.217, G.218, V.221, Q.222, V.225, T.226, N.233, L.234, H.237, N.244, N.245, A.246, Y.249 Ligands: XAT.35, CLA.51, LUT.52, LHG.56 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain C, Hydrophobic interactions: B:L.153, B:A.154, C:V.221, C:Q.222, C:V.225, C:A.246 Hydrogen bonds: C:A.246 CLA.51: 11 residues within 4Å: Chain B: V.150 Chain C: L.234, H.237, L.238, P.241, N.245, F.247 Ligands: XAT.35, CLA.50, LUT.52, LHG.56 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain C, Hydrophobic interactions: B:V.150, C:L.234, C:P.241, C:P.241 Metal complexes: C:H.237

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

LUT.14: 21 residues within 4Å: Chain A: M.90, A.93, L.94, F.178, D.179, L.181, G.182, L.183, N.200, L.203, A.204, S.207, F.211, Q.214, P.222, N.225, L.226 Ligands: CHL.7, CLA.9, CLA.11, CLA.12 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:M.90, A:A.93, A:L.94, A:L.203, A:A.204, A:F.211 Hydrogen bonds: A:G.182, A:Q.214 LUT.15: 22 residues within 4Å: Chain A: 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.2, CLA.3, CLA.4, CHL.6, CLA.40, CHL.46 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.63, A:W.63, A:A.66, A:A.89, A:W.114, A:M.205, A:F.209 Hydrogen bonds: A:T.65, A:A.66 LUT.33: 22 residues within 4Å: Chain B: M.98, A.101, L.102, I.105, F.186, D.187, L.189, G.190, L.191, N.208, L.211, A.212, S.215, F.219, Q.222, P.230, N.233, L.234 Ligands: CHL.26, CLA.28, CLA.30, CLA.31 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:M.98, B:A.101, B:L.102, B:I.105, B:L.211, B:A.212, B:F.219 Hydrogen bonds: B:L.189, B:G.190, B:Q.222 LUT.34: 23 residues within 4Å: Chain B: 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.3, CHL.8, CLA.20, CLA.21, CLA.22, CHL.24, CHL.25 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:W.71, B:W.71, B:A.74, B:A.97, B:W.122, B:M.213, B:F.217 Hydrogen bonds: B:T.73, B:A.74 LUT.52: 21 residues within 4Å: Chain C: M.98, A.101, L.102, F.186, D.187, P.188, L.189, L.191, N.208, L.211, A.212, S.215, F.219, Q.222, P.230, N.233 Ligands: CHL.45, CLA.47, CLA.49, CLA.50, CLA.51 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:M.98, C:A.101, C:L.102, C:L.189, C:L.191, C:L.211, C:A.212, C:F.219, C:P.230 Hydrogen bonds: C:L.189, C:Q.222, C:L.234 LUT.53: 23 residues within 4Å: Chain C: 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.21, CHL.27, CLA.39, CLA.40, CLA.41, CHL.43, CHL.44 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:W.71, C:W.71, C:W.71, C:A.74, C:L.76, C:A.97, C:W.122, C:M.213, C:F.217 Hydrogen bonds: C:D.72, C:A.74

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.16: 14 residues within 4Å: Chain A: L.145, V.149 Chain B: A.246, F.247, F.249, A.250, F.253 Ligands: CHL.6, CHL.8, CHL.19, CLA.29, CLA.31, CLA.32, LHG.37 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:A.246, B:F.247, B:A.250, A:L.145, A:V.149, A:V.149 XAT.35: 14 residues within 4Å: Chain B: L.153, V.157 Chain C: A.246, F.247, Y.249, A.250, F.253 Ligands: CHL.25, CHL.27, CHL.38, CLA.48, CLA.50, CLA.51, LHG.56 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:L.153, B:V.157, B:V.157, C:A.246, C:F.247, C:A.250 XAT.54: 14 residues within 4Å: Chain A: A.238, F.239, Y.241, A.242, F.245 Chain C: L.153, V.157 Ligands: CHL.1, CLA.10, CLA.12, CLA.13, LHG.18, CHL.44, CHL.46 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:A.238, A:F.239, A:A.242, C:L.153, C:V.157 Hydrogen bonds: A:F.245

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.17: 10 residues within 4Å: Chain A: W.88, Y.129, V.151, M.152, L.154, Y.158, P.164 Ligands: CLA.4, CHL.7, CLA.9 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.88, A:V.151, A:L.154, A:P.164 NEX.36: 12 residues within 4Å: Chain B: W.96, Y.137, L.159, M.160, L.162, V.163, Y.166, P.172 Ligands: CLA.22, CHL.24, CHL.26, CLA.28 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:W.96, B:L.159, B:L.162, B:P.172 NEX.55: 9 residues within 4Å: Chain C: W.96, Y.137, A.162, I.163, Y.166, P.172 Ligands: CLA.41, CHL.43, CHL.45 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:W.96, C:A.162, C:P.172

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

LHG.18: 13 residues within 4Å: Chain A: W.32, Y.61, K.199, R.202, L.203, F.206 Ligands: CHL.1, CLA.2, CLA.10, CLA.12, CLA.40, CHL.44, XAT.54 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:R.202, A:L.203, A:F.206 Hydrogen bonds: A:Y.61 Salt bridges: A:K.199 LHG.37: 11 residues within 4Å: Chain B: Y.69, K.207, R.210, L.211, F.214 Ligands: CHL.6, XAT.16, CHL.19, CLA.20, CLA.29, CLA.31 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:R.210, B:L.211, B:F.214 Hydrogen bonds: B:Y.69 Salt bridges: B:K.207 LHG.56: 12 residues within 4Å: Chain C: W.41, Y.69, K.207, R.210, L.211, F.214 Ligands: XAT.35, CHL.38, CLA.39, CLA.48, CLA.50, CLA.51 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:R.210, C:L.211, C:F.214 Salt bridges: C:K.207, C:K.207

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
X

B
Y

C
Z

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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