SMTL ID : 8wcl.1

FCP pentamer in Chaetoceros gracilis

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-1-1-mer

Ligands

30 x A86: (3S,3'S,5R,5'R,6S,6'R,8'R)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate(Non-covalent)

A86.1: 10 residues within 4Å: Chain A: V.41, A.42, P.43, N.169, R.172, A.173, M.176 Ligands: CLA.5, CLA.6, CLA.13 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:N.169, A:R.172, A:A.173 A86.2: 17 residues within 4Å: Chain A: K.68, V.72, M.75, Y.92, L.93, P.95, I.122, C.126, V.129, E.130 Chain B: Y.189, Y.192, A.193 Ligands: CLA.8, KC2.9, KC1.10, A86.20 9 PLIP interactions: 7 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.93, A:P.95, A:I.122, A:I.122, A:I.122, A:V.129, B:Y.189, B:Y.192 Hydrogen bonds: A:Y.92 A86.3: 17 residues within 4Å: Chain A: F.47, P.49, L.50, V.72, A.76, T.80, H.83, G.107, I.108, G.110, L.111, M.175, I.178 Ligands: CLA.6, KC2.7, CLA.8, KC1.10 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.47, A:F.47, A:L.50, A:V.72, A:A.76, A:L.111, A:L.111, A:M.175, A:I.178 Hydrogen bonds: A:G.110, A:L.111 A86.4: 21 residues within 4Å: Chain A: M.74, M.75, M.77, L.78, W.134, V.145, L.147, N.170, A.173, A.174, G.177, T.181, H.184, F.192 Ligands: CLA.11, KC1.12, CLA.13, A86.20, KC1.27, A86.66, KC2.77 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:M.74, A:L.78, A:V.145, A:L.147, A:A.174 A86.15: 7 residues within 4Å: Chain B: L.41, N.165, A.169, M.172 Ligands: CLA.14, CLA.21, CLA.28 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:N.165, B:M.172 Hydrogen bonds: B:N.165 A86.16: 17 residues within 4Å: Chain B: K.66, V.70, A.73, Y.90, L.91, P.93, I.120, F.124, E.128 Chain D: Y.189, Y.192, A.193 Ligands: CLA.23, KC2.24, KC1.25, CLA.26, A86.65 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: B:A.73, B:L.91, B:P.93, B:I.120, B:F.124, B:F.124, B:F.124, D:Y.189 Hydrogen bonds: B:Y.90 A86.17: 21 residues within 4Å: Chain B: Y.44, P.46, L.47, H.67, V.70, A.71, A.74, T.78, H.81, G.105, G.108, I.109, M.171, I.174, M.175, M.178 Ligands: CLA.21, KC2.22, CLA.23, KC1.25, CLA.29 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:Y.44, B:L.47, B:A.71, B:A.74, B:T.78, B:I.109, B:M.171, B:I.174 Hydrogen bonds: B:G.105, B:G.108, B:I.109 A86.18: 21 residues within 4Å: Chain B: M.72, V.75, V.76, V.143, G.144, Y.145, F.146, N.166, A.169, A.170, G.173, G.176, N.177, M.188, Y.192 Ligands: A86.20, CLA.26, KC1.27, CLA.28, KC1.60, A86.65 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:M.72, B:V.75, B:V.76, B:F.146, B:A.169, B:A.170 Hydrogen bonds: B:F.146, B:G.147, B:Y.192, B:Y.192 A86.19: 8 residues within 4Å: Chain B: W.49, M.175, M.178, V.179, V.182, L.183 Ligands: KC2.22, CLA.29 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:W.49, B:M.178, B:V.179, B:V.182 A86.20: 13 residues within 4Å: Chain A: L.147, L.150 Chain B: I.79, N.82, N.83, Y.145, F.146, Y.192 Ligands: A86.2, A86.4, CLA.14, A86.18, KC1.27 6 PLIP interactions: 1 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:L.147, B:I.79, B:I.79, B:N.82, B:Y.192 Hydrogen bonds: B:Y.145 A86.31: 8 residues within 4Å: Chain C: Q.38, N.170, R.173, A.174, M.177 Ligands: CLA.38, CLA.39, CLA.46 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:R.173, C:M.177 A86.32: 16 residues within 4Å: Chain C: K.67, I.71, L.74, N.91, I.92, Y.94, F.99, L.120, I.124, E.128, M.132, F.144 Ligands: CLA.41, CLA.42, CLA.43, CLA.44 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:K.67, C:I.71, C:Y.94, C:F.99, C:L.120, C:I.124 Hydrogen bonds: C:N.91 A86.33: 19 residues within 4Å: Chain C: F.44, P.46, H.68, S.72, A.75, Y.79, E.82, G.105, F.106, L.109, M.176, M.177, I.179, L.180 Ligands: CLA.39, KC2.40, CLA.41, CLA.43, CLA.81 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:F.44, C:P.46, C:A.75, C:Y.79, C:F.106, C:L.109, C:M.176, C:L.180 Hydrogen bonds: C:G.105, C:G.105 A86.34: 16 residues within 4Å: Chain C: F.130, V.131, I.135, F.144, R.145, N.146, F.148, I.149, F.151, F.156, K.164 Ligands: A86.35, A86.37, CLA.41, CLA.44, KC1.45 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:I.135, C:F.148, C:I.149, C:I.149, C:F.151 Salt bridges: C:K.164 A86.35: 17 residues within 4Å: Chain C: M.73, V.76, L.80, F.151, Q.171, A.174, A.175, G.178, A.181, L.182, L.192 Ligands: A86.34, A86.37, CLA.41, CLA.44, KC1.45, CLA.46 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:M.73, C:V.76, C:L.80, C:F.151, C:A.174, C:A.175, C:A.181, C:L.192, C:L.192 A86.36: 11 residues within 4Å: Chain C: L.49, R.60, L.180, M.183, V.184, K.187, L.188 Chain E: F.206 Ligands: CLA.39, KC2.40, CLA.43 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain E Hydrophobic interactions: C:L.49, C:L.180, C:M.183, C:V.184, C:L.188, E:F.206 Hydrogen bonds: C:R.60 A86.37: 8 residues within 4Å: Chain C: L.80, A.84, K.164, L.193, P.194 Ligands: A86.34, A86.35, KC1.45 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:L.80, C:P.194 A86.48: 10 residues within 4Å: Chain D: T.38, E.39, L.41, N.165, R.168, A.169, M.172 Ligands: CLA.53, CLA.54, CLA.61 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:L.41, D:N.165 Hydrogen bonds: D:T.38, D:E.39, D:N.165 A86.49: 17 residues within 4Å: Chain D: K.66, R.69, V.70, A.73, Y.90, L.91, P.93, I.120, F.124, E.128 Chain E: Y.189, Y.192, A.193 Ligands: CLA.56, KC2.57, KC1.58, A86.72 12 PLIP interactions: 10 interactions with chain D, 2 interactions with chain E Hydrophobic interactions: D:K.66, D:A.73, D:L.91, D:P.93, D:I.120, D:F.124, D:F.124, D:F.124, D:F.124, E:Y.189, E:Y.192 Hydrogen bonds: D:Y.90 A86.50: 21 residues within 4Å: Chain D: Y.44, P.46, L.47, V.70, A.74, T.78, T.104, G.105, V.106, G.108, I.109, M.171, M.172, I.174, M.175, M.178 Ligands: CLA.54, KC2.55, CLA.56, KC1.58, CLA.62 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:Y.44, D:P.46, D:L.47, D:V.70, D:A.74, D:M.171 Hydrogen bonds: D:G.108 A86.51: 21 residues within 4Å: Chain D: M.72, V.75, V.76, M.132, V.143, G.144, Y.145, F.146, N.166, A.169, A.170, G.173, G.176, N.177, M.188, Y.192 Ligands: CLA.59, KC1.60, CLA.61, A86.65, A86.72 11 PLIP interactions: 11 interactions with chain D Hydrophobic interactions: D:M.72, D:V.75, D:V.76, D:V.143, D:V.143, D:Y.145, D:F.146, D:A.169, D:A.170 Hydrogen bonds: D:F.146, D:Y.192 A86.52: 8 residues within 4Å: Chain D: W.49, R.60, M.175, V.179, V.182, L.183 Ligands: KC2.55, CLA.62 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:W.49, D:V.179, D:V.182, D:L.183 A86.65: 14 residues within 4Å: Chain B: F.146, G.147 Chain D: I.79, N.82, N.83, Y.145, F.146, Y.192 Ligands: A86.16, A86.18, A86.51, CLA.53, KC1.60, LMT.63 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:I.79, D:I.79, D:N.82, D:Y.192 Hydrogen bonds: D:Y.145, D:Y.145 A86.66: 15 residues within 4Å: Chain A: F.81, N.84, N.85, L.150, F.192 Chain E: F.146, G.147, N.148 Ligands: A86.4, CLA.5, CLA.11, KC1.12, A86.68, A86.70, LMT.83 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain E Hydrophobic interactions: A:F.81, A:N.84, A:L.150 Hydrogen bonds: A:N.85, E:N.148 A86.67: 12 residues within 4Å: Chain E: E.39, P.40, L.41, N.165, A.169, M.172, I.183, F.206 Ligands: CLA.73, CLA.74, CLA.81, LMG.82 5 PLIP interactions: 5 interactions with chain E Hydrophobic interactions: E:N.165, E:A.169, E:I.183, E:F.206 Hydrogen bonds: E:N.165 A86.68: 15 residues within 4Å: Chain A: A.196, A.197 Chain E: K.66, V.70, A.73, Y.90, I.91, P.93, F.99, I.120, L.124, E.128 Ligands: A86.66, CLA.76, KC2.77 9 PLIP interactions: 8 interactions with chain E, 1 interactions with chain A Hydrophobic interactions: E:A.73, E:P.93, E:F.99, E:I.120, E:I.120, E:L.124, E:L.124, E:E.128, A:A.196 A86.69: 20 residues within 4Å: Chain E: F.44, P.46, L.47, H.67, V.70, A.74, T.78, H.81, G.105, I.106, G.108, I.109, M.171, I.174, M.175 Ligands: KC2.40, CLA.43, CLA.74, KC2.75, CLA.76 11 PLIP interactions: 11 interactions with chain E Hydrophobic interactions: E:F.44, E:L.47, E:V.70, E:A.74, E:T.78, E:I.109, E:M.171, E:I.174 Hydrogen bonds: E:I.106, E:G.108, E:I.109 A86.70: 21 residues within 4Å: Chain E: M.72, V.75, V.76, V.143, G.144, Y.145, F.146, G.147, N.166, A.170, G.173, N.177, M.188, Y.192 Ligands: CLA.5, KC2.57, A86.66, A86.72, CLA.79, KC1.80, CLA.81 9 PLIP interactions: 9 interactions with chain E Hydrophobic interactions: E:M.72, E:V.75, E:V.76, E:V.143, E:F.146, E:A.170 Hydrogen bonds: E:F.146, E:G.147, E:N.177 A86.71: 9 residues within 4Å: Chain E: W.49, E.53, R.60, M.175, M.178, V.179, K.182, I.183 Ligands: KC2.75 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:M.178, E:V.179 A86.72: 15 residues within 4Å: Chain D: F.146, G.147 Chain E: I.79, N.82, N.83, Y.145, M.188, Y.192 Ligands: A86.49, A86.51, LMT.63, A86.70, CLA.73, KC1.80, LMT.83 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:I.79, E:N.82, E:Y.192 Hydrogen bonds: E:Y.145

29 x CLA: CHLOROPHYLL A(Non-covalent)

CLA.5: 18 residues within 4Å: Chain A: V.41, A.42, P.43, R.162, N.165, A.166, N.169, N.170, A.173 Chain E: F.123, F.126, A.130, W.131, L.132 Ligands: A86.1, KC1.12, A86.66, A86.70 12 PLIP interactions: 6 interactions with chain A, 6 interactions with chain E, Hydrophobic interactions: A:P.43, A:P.43, A:N.169, A:A.173, E:F.123, E:F.126, E:A.130, E:W.131, E:W.131 Hydrogen bonds: A:N.169, A:N.170 pi-Stacking: E:W.131 CLA.6: 22 residues within 4Å: Chain A: I.38, G.39, L.44, G.45, Y.46, F.47, D.48, Y.52, I.53, F.59, Y.62, R.63, V.65, E.66, H.69, R.172, M.175, M.176, L.179 Ligands: A86.1, A86.3, KC2.7 17 PLIP interactions: 17 interactions with chain A, Hydrophobic interactions: A:L.44, A:Y.52, A:Y.52, A:I.53, A:Y.62, A:Y.62, A:R.63, A:V.65, A:E.66, A:R.172, A:R.172, A:M.175, A:L.179 Hydrogen bonds: A:F.47 Salt bridges: A:R.63, A:R.172 pi-Cation interactions: A:R.172 CLA.8: 16 residues within 4Å: Chain A: M.75, A.76, L.78, G.79, V.82, H.83, W.87, T.88, F.89, F.101, I.104, G.110, L.111 Ligands: A86.2, A86.3, CLA.11 10 PLIP interactions: 10 interactions with chain A, Hydrophobic interactions: A:L.78, A:V.82, A:V.82, A:F.89, A:F.89, A:F.101 Hydrogen bonds: A:F.89 pi-Stacking: A:H.83, A:H.83 Metal complexes: A:H.83 CLA.11: 22 residues within 4Å: Chain A: R.71, M.74, M.75, L.78, W.134, G.141, D.142, Y.143, G.144, V.145, R.146, L.147, N.151, W.153, Q.163, K.164, E.167, N.170 Ligands: A86.4, CLA.8, KC1.12, A86.66 17 PLIP interactions: 17 interactions with chain A, Hydrophobic interactions: A:R.71, A:R.71, A:M.74, A:L.78, A:W.134, A:Y.143, A:L.147, A:W.153, A:W.153, A:Q.163, A:K.164, A:N.170 Hydrogen bonds: A:Y.143, A:V.145 Salt bridges: A:R.146 pi-Cation interactions: A:R.71 Metal complexes: A:E.167 CLA.13: 7 residues within 4Å: Chain A: M.176, G.180, T.183, H.184, I.187 Ligands: A86.1, A86.4 1 PLIP interactions: 1 interactions with chain A, Hydrophobic interactions: A:I.187 CLA.14: 17 residues within 4Å: Chain A: F.128, V.129, A.132, W.133, W.134 Chain B: T.38, E.39, P.40, R.158, N.161, V.162, N.165, N.166 Ligands: KC2.9, A86.15, A86.20, KC1.27 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B, Hydrophobic interactions: A:F.128, A:V.129, A:A.132, A:W.133, A:W.133, B:E.39, B:P.40, B:N.165 pi-Stacking: A:W.133 CLA.21: 25 residues within 4Å: Chain B: I.33, L.35, G.36, V.37, L.41, G.42, V.43, Y.44, D.45, L.47, W.49, L.50, F.57, R.60, R.61, E.64, H.67, R.168, M.171, M.172, M.175 Ligands: A86.15, A86.17, KC2.22, CLA.28 16 PLIP interactions: 16 interactions with chain B, Hydrophobic interactions: B:L.41, B:W.49, B:L.50, B:F.57, B:R.60, B:H.67, B:R.168, B:R.168, B:M.175 Hydrogen bonds: B:Y.44 Salt bridges: B:R.61, B:R.168 pi-Cation interactions: B:R.61, B:R.168, B:R.168 Metal complexes: B:E.64 CLA.23: 16 residues within 4Å: Chain B: A.73, A.74, V.76, G.77, V.80, H.81, I.85, V.86, F.87, F.99, I.102, G.108, I.109, I.112 Ligands: A86.16, A86.17 11 PLIP interactions: 11 interactions with chain B, Hydrophobic interactions: B:A.74, B:V.76, B:V.80, B:V.80, B:F.99, B:I.102, B:I.112 Hydrogen bonds: B:F.87 Salt bridges: B:H.81 pi-Stacking: B:H.81, B:H.81 CLA.26: 23 residues within 4Å: Chain B: R.69, M.72, M.132, D.138, G.139, D.140, Y.141, G.142, V.143, G.144, Y.145, T.148, D.149, I.150, K.156, K.159, L.160, V.162, E.163, N.166 Ligands: A86.16, A86.18, KC1.27 18 PLIP interactions: 18 interactions with chain B, Hydrophobic interactions: B:R.69, B:R.69, B:M.72, B:Y.141, B:V.143, B:Y.145, B:K.159, B:L.160, B:E.163, B:N.166 Hydrogen bonds: B:Y.141, B:G.142, B:I.150 Salt bridges: B:R.69, B:K.156 pi-Cation interactions: B:R.69, B:R.69 Metal complexes: B:E.163 CLA.28: 15 residues within 4Å: Chain B: M.172, G.173, M.175, G.176, V.179, A.180, L.183, T.184, Q.191, H.196, I.197, P.199 Ligands: A86.15, A86.18, CLA.21 5 PLIP interactions: 5 interactions with chain B, Hydrophobic interactions: B:M.172, B:V.179, B:V.179, B:L.183 Hydrogen bonds: B:Q.191 CLA.29: 8 residues within 4Å: Chain B: V.106, D.107, I.109, R.110, L.117 Ligands: A86.17, A86.19, KC2.22 6 PLIP interactions: 6 interactions with chain B, Hydrophobic interactions: B:V.106, B:I.109, B:I.109, B:R.110, B:L.117 Hydrogen bonds: B:R.110 CLA.38: 10 residues within 4Å: Chain C: Q.38, P.39, P.40, A.166, I.167, N.170, Q.171, A.174 Ligands: A86.31, KC1.45 8 PLIP interactions: 8 interactions with chain C, Hydrophobic interactions: C:P.39, C:P.39, C:P.40, C:N.170, C:A.174 Hydrogen bonds: C:Q.38, C:N.170, C:Q.171 CLA.39: 21 residues within 4Å: Chain C: E.34, G.36, L.41, G.42, F.43, F.44, D.45, L.49, F.58, L.61, R.62, V.64, E.65, H.68, R.173, M.176, M.177 Ligands: A86.31, A86.33, A86.36, KC2.40 10 PLIP interactions: 10 interactions with chain C, Hydrophobic interactions: C:L.41, C:L.49, C:L.61, C:H.68, C:R.173, C:M.176 Hydrogen bonds: C:F.44 Salt bridges: C:R.62, C:R.173 pi-Cation interactions: C:R.173 CLA.41: 23 residues within 4Å: Chain C: I.71, L.74, A.75, V.77, G.78, I.81, E.82, I.86, R.87, L.88, F.99, I.102, P.103, I.112, L.120, L.127, M.132 Ligands: A86.32, A86.33, A86.34, A86.35, CLA.44, CLA.81 12 PLIP interactions: 12 interactions with chain C, Hydrophobic interactions: C:L.74, C:A.75, C:V.77, C:I.81, C:I.86, C:L.88, C:F.99, C:I.112, C:L.120, C:L.127 Hydrogen bonds: C:L.88 Salt bridges: C:R.87 CLA.42: 11 residues within 4Å: Chain C: I.92, S.93, Y.94, P.113, A.115, G.116, Q.119, L.120, F.123 Chain D: T.114 Ligands: A86.32 5 PLIP interactions: 5 interactions with chain C, Hydrophobic interactions: C:Y.94, C:Q.119, C:L.120, C:F.123, C:F.123 CLA.43: 16 residues within 4Å: Chain C: Y.63, V.64, K.67, H.68, I.71, F.121, I.124, G.125, E.128 Ligands: A86.32, A86.33, A86.36, KC2.40, A86.69, CLA.81, LMG.82 8 PLIP interactions: 8 interactions with chain C, Hydrophobic interactions: C:K.67, C:I.71, C:F.121, C:I.124, C:E.128 Salt bridges: C:K.67 pi-Cation interactions: C:K.67 Metal complexes: C:E.128 CLA.44: 23 residues within 4Å: Chain C: R.70, M.73, L.74, M.132, F.140, G.142, D.143, F.144, R.145, D.150, F.151, G.152, W.153, F.156, K.164, R.165, I.167, E.168 Ligands: A86.32, A86.34, A86.35, CLA.41, KC1.45 18 PLIP interactions: 18 interactions with chain C, Hydrophobic interactions: C:R.70, C:L.74, C:L.74, C:F.144, C:R.145, C:F.151, C:F.151, C:W.153, C:F.156, C:K.164, C:I.167, C:E.168 Hydrogen bonds: C:D.143, C:F.144, C:D.150, C:F.151 Salt bridges: C:R.145 pi-Cation interactions: C:R.70 CLA.46: 7 residues within 4Å: Chain C: A.181, V.184, H.185, V.190, L.192 Ligands: A86.31, A86.35 6 PLIP interactions: 6 interactions with chain C, Hydrophobic interactions: C:V.184, C:V.184, C:V.190, C:L.192 pi-Cation interactions: C:H.185 Metal complexes: C:H.185 CLA.53: 19 residues within 4Å: Chain B: F.123, V.127, A.130, W.131, M.132, Y.141 Chain D: T.38, E.39, P.40, R.158, N.161, V.162, N.165, N.166, A.169 Ligands: KC2.24, A86.48, KC1.60, A86.65 15 PLIP interactions: 9 interactions with chain B, 6 interactions with chain D, Hydrophobic interactions: B:F.123, B:V.127, B:A.130, B:W.131, B:W.131, B:W.131, D:P.40, D:N.165, D:A.169 Hydrogen bonds: B:M.132, D:N.165, D:N.166 pi-Stacking: B:W.131, B:W.131 Salt bridges: D:R.158 CLA.54: 24 residues within 4Å: Chain D: I.33, L.35, V.37, L.41, G.42, V.43, Y.44, D.45, W.49, L.50, F.57, R.60, R.61, V.63, E.64, H.67, R.168, M.171, M.172, M.175 Ligands: A86.48, A86.50, KC2.55, CLA.61 18 PLIP interactions: 18 interactions with chain D, Hydrophobic interactions: D:L.41, D:Y.44, D:W.49, D:L.50, D:F.57, D:R.60, D:V.63, D:E.64, D:R.168, D:M.171, D:M.175 Hydrogen bonds: D:Y.44 Salt bridges: D:R.60, D:R.61, D:R.168 pi-Cation interactions: D:R.61, D:R.168, D:R.168 CLA.56: 15 residues within 4Å: Chain D: A.73, A.74, V.76, G.77, V.80, H.81, I.85, V.86, F.87, F.99, I.102, G.108, I.112 Ligands: A86.49, A86.50 11 PLIP interactions: 11 interactions with chain D, Hydrophobic interactions: D:V.76, D:V.80, D:V.80, D:F.87, D:F.87, D:F.99, D:I.102 Hydrogen bonds: D:F.87 pi-Stacking: D:H.81, D:H.81 Metal complexes: D:H.81 CLA.59: 22 residues within 4Å: Chain D: R.69, M.72, M.132, D.138, G.139, D.140, Y.141, G.142, V.143, G.144, Y.145, T.148, D.149, I.150, K.156, K.159, L.160, V.162, E.163, N.166 Ligands: A86.51, KC1.60 22 PLIP interactions: 22 interactions with chain D, Hydrophobic interactions: D:R.69, D:R.69, D:M.72, D:Y.141, D:V.143, D:Y.145, D:Y.145, D:K.159, D:L.160, D:E.163, D:E.163, D:N.166 Hydrogen bonds: D:D.140, D:Y.141, D:G.142, D:V.143, D:G.144, D:D.149, D:I.150 Salt bridges: D:R.69, D:K.156 pi-Cation interactions: D:R.69 CLA.61: 14 residues within 4Å: Chain D: M.172, G.173, G.176, V.179, A.180, L.183, T.184, Q.191, H.196, I.197, P.199 Ligands: A86.48, A86.51, CLA.54 4 PLIP interactions: 4 interactions with chain D, Hydrophobic interactions: D:M.172, D:V.179, D:L.183 Hydrogen bonds: D:Q.191 CLA.62: 9 residues within 4Å: Chain D: V.106, D.107, I.109, R.110, L.117, M.178 Ligands: A86.50, A86.52, KC2.55 5 PLIP interactions: 5 interactions with chain D, Hydrophobic interactions: D:V.106, D:I.109, D:I.109, D:L.117 Salt bridges: D:R.110 CLA.73: 19 residues within 4Å: Chain C: V.129, F.130, K.133 Chain D: F.123, A.130, W.131, M.132, Y.141 Chain E: E.39, P.40, R.158, N.161, A.162, N.165, N.166 Ligands: KC2.57, A86.67, A86.72, KC1.80 10 PLIP interactions: 5 interactions with chain E, 2 interactions with chain C, 3 interactions with chain D, Hydrophobic interactions: E:P.40, E:N.165, C:V.129, C:F.130, D:F.123, D:A.130, D:W.131 Hydrogen bonds: E:N.166, E:N.166 Salt bridges: E:R.158 CLA.74: 23 residues within 4Å: Chain E: I.33, L.35, G.36, L.41, G.42, V.43, F.44, D.45, W.49, L.50, F.57, R.60, R.61, E.64, H.67, R.168, M.171, M.172, M.175 Ligands: A86.67, A86.69, KC2.75, CLA.81 16 PLIP interactions: 16 interactions with chain E, Hydrophobic interactions: E:L.41, E:F.44, E:W.49, E:L.50, E:F.57, E:R.60, E:E.64, E:R.168, E:M.175 Hydrogen bonds: E:F.44 Salt bridges: E:R.61, E:R.168 pi-Cation interactions: E:R.61, E:R.168, E:R.168 Metal complexes: E:E.64 CLA.76: 15 residues within 4Å: Chain E: A.73, A.74, V.76, G.77, V.80, H.81, I.85, V.86, F.87, F.99, I.102, G.108, I.109 Ligands: A86.68, A86.69 9 PLIP interactions: 9 interactions with chain E, Hydrophobic interactions: E:A.74, E:V.76, E:V.80, E:V.80, E:F.87, E:F.99 Hydrogen bonds: E:F.87 Salt bridges: E:H.81 pi-Stacking: E:H.81 CLA.79: 20 residues within 4Å: Chain E: R.69, M.72, D.138, G.139, D.140, Y.141, V.143, G.144, Y.145, N.148, D.149, I.150, K.156, K.159, L.160, A.162, E.163, N.166 Ligands: A86.70, KC1.80 18 PLIP interactions: 18 interactions with chain E, Hydrophobic interactions: E:R.69, E:R.69, E:M.72, E:Y.141, E:Y.145, E:Y.145, E:K.159, E:L.160, E:A.162, E:E.163, E:N.166 Hydrogen bonds: E:Y.141, E:D.149, E:I.150 Salt bridges: E:R.69, E:K.156 pi-Cation interactions: E:R.69, E:R.69 CLA.81: 23 residues within 4Å: Chain C: L.109, L.120, F.121 Chain E: M.172, G.173, M.175, G.176, V.179, Q.191, Y.192, H.196, F.197, P.199 Ligands: A86.33, KC2.40, CLA.41, CLA.43, LMG.47, KC2.57, A86.67, A86.70, CLA.74, LMG.82 9 PLIP interactions: 4 interactions with chain C, 5 interactions with chain E, Hydrophobic interactions: C:L.109, C:L.120, C:F.121, C:F.121, E:M.172, E:V.179, E:P.199 Hydrogen bonds: E:Q.191 Salt bridges: E:H.196

9 x KC2: Chlorophyll c2(Non-covalent)

KC2.7: 7 residues within 4Å: Chain A: R.61, Y.62, V.65, H.69 Ligands: A86.3, CLA.6, KC1.10 7 PLIP interactions: 7 interactions with chain A, Hydrophobic interactions: A:V.65 Hydrogen bonds: A:R.61 Salt bridges: A:R.61 pi-Stacking: A:H.69, A:H.69, A:H.69 Metal complexes: A:H.69 KC2.9: 14 residues within 4Å: Chain A: L.93, S.94, P.95, S.96, P.115, A.117, G.118, Q.121, I.122, L.125 Chain B: Y.192, I.197 Ligands: A86.2, CLA.14 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:I.122, A:I.122, A:L.125, B:I.197 Hydrogen bonds: A:S.96, A:S.96, A:Q.121 KC2.22: 9 residues within 4Å: Chain B: R.59, V.63, H.67 Ligands: A86.17, A86.19, CLA.21, KC1.25, CLA.29, LMT.30 9 PLIP interactions: 9 interactions with chain B, Hydrophobic interactions: B:V.63 Hydrogen bonds: B:R.59 Salt bridges: B:R.59, B:R.59, B:R.60 pi-Stacking: B:H.67, B:H.67, B:H.67, B:H.67 KC2.24: 15 residues within 4Å: Chain B: L.91, S.92, P.93, S.94, N.95, I.112, P.113, A.115, G.116, Q.119, I.120, F.123 Chain D: Y.192 Ligands: A86.16, CLA.53 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain D, Hydrophobic interactions: B:L.91, B:I.112, B:I.120, B:F.123, D:Y.192 Hydrogen bonds: B:S.94, B:S.94 KC2.40: 10 residues within 4Å: Chain C: R.60, L.61, V.64, H.68 Ligands: A86.33, A86.36, CLA.39, CLA.43, A86.69, CLA.81 6 PLIP interactions: 6 interactions with chain C, Hydrophobic interactions: C:V.64, C:V.64 Salt bridges: C:R.60 pi-Stacking: C:H.68 pi-Cation interactions: C:H.68 Metal complexes: C:H.68 KC2.55: 11 residues within 4Å: Chain D: R.59, R.60, V.63, H.67, M.175 Ligands: A86.50, A86.52, CLA.54, KC1.58, CLA.62, LMT.64 9 PLIP interactions: 9 interactions with chain D, Hydrophobic interactions: D:V.63 Hydrogen bonds: D:R.59, D:R.59 Salt bridges: D:R.59, D:R.59, D:R.60 pi-Stacking: D:H.67, D:H.67, D:H.67 KC2.57: 18 residues within 4Å: Chain D: L.91, S.92, P.93, S.94, I.112, P.113, A.115, G.116, Q.119, I.120, F.123 Chain E: Y.192, F.197 Ligands: LMG.47, A86.49, A86.70, CLA.73, CLA.81 7 PLIP interactions: 6 interactions with chain D, 1 interactions with chain E, Hydrophobic interactions: D:L.91, D:Q.119, D:I.120, D:I.120, D:F.123, E:F.197 Hydrogen bonds: D:S.94 KC2.75: 9 residues within 4Å: Chain E: R.59, R.60, V.63, H.67 Ligands: A86.69, A86.71, CLA.74, KC1.78, LMT.84 8 PLIP interactions: 8 interactions with chain E, Hydrophobic interactions: E:V.63 Hydrogen bonds: E:R.59 Salt bridges: E:R.59, E:R.59, E:R.60 pi-Stacking: E:H.67, E:H.67 Metal complexes: E:H.67 KC2.77: 14 residues within 4Å: Chain E: I.91, S.92, P.93, S.94, N.95, V.112, P.113, A.115, G.116, Q.119, I.120, F.123 Ligands: A86.4, A86.68 5 PLIP interactions: 5 interactions with chain E, Hydrophobic interactions: E:V.112, E:I.120, E:F.123 Hydrogen bonds: E:S.94, E:S.94

9 x KC1: Chlorophyll c1(Non-covalent)

KC1.10: 15 residues within 4Å: Chain A: R.61, V.65, K.68, H.69, V.72, I.123, C.126, G.127, E.130, L.131, A.136, S.137 Ligands: A86.2, A86.3, KC2.7 9 PLIP interactions: 9 interactions with chain A, Hydrophobic interactions: A:K.68, A:I.123, A:L.131, A:A.136 Hydrogen bonds: A:A.136 Salt bridges: A:R.61, A:K.68 pi-Cation interactions: A:K.68 Metal complexes: A:E.130 KC1.12: 10 residues within 4Å: Chain A: R.162, Q.163, A.166, N.170 Chain E: W.131, V.143 Ligands: A86.4, CLA.5, CLA.11, A86.66 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain E, Hydrogen bonds: A:Q.163 Salt bridges: A:R.162 Hydrophobic interactions: E:W.131 KC1.25: 18 residues within 4Å: Chain B: R.59, A.62, V.63, K.66, H.67, V.70, L.121, F.124, A.125, E.128, L.129, A.134, S.135, Y.137 Ligands: A86.16, A86.17, KC2.22, LMT.30 13 PLIP interactions: 13 interactions with chain B, Hydrophobic interactions: B:K.66, B:V.70, B:A.125, B:L.129, B:A.134 Hydrogen bonds: B:S.135 Salt bridges: B:R.59, B:R.59, B:K.66 pi-Cation interactions: B:K.66, B:K.66, B:K.66 Metal complexes: B:E.128 KC1.27: 11 residues within 4Å: Chain A: W.133 Chain B: V.76, Y.145, K.159, V.162, N.166 Ligands: A86.4, CLA.14, A86.18, A86.20, CLA.26 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A, Hydrophobic interactions: B:V.76, B:V.162, B:V.162, A:W.133, A:W.133 Salt bridges: B:K.159 KC1.45: 8 residues within 4Å: Chain C: K.164, I.167, Q.171 Ligands: A86.34, A86.35, A86.37, CLA.38, CLA.44 2 PLIP interactions: 2 interactions with chain C, Hydrophobic interactions: C:I.167 Salt bridges: C:K.164 KC1.58: 18 residues within 4Å: Chain D: R.59, A.62, V.63, K.66, H.67, V.70, L.121, F.124, A.125, E.128, L.129, A.134, S.135, Y.137 Ligands: A86.49, A86.50, KC2.55, LMT.64 13 PLIP interactions: 13 interactions with chain D, Hydrophobic interactions: D:K.66, D:V.70, D:L.121, D:A.125, D:L.129, D:A.134 Hydrogen bonds: D:S.135, D:Y.137 Salt bridges: D:R.59, D:K.66 pi-Cation interactions: D:K.66, D:K.66 Metal complexes: D:E.128 KC1.60: 12 residues within 4Å: Chain B: W.131 Chain D: V.76, Y.145, R.158, K.159, V.162, N.166 Ligands: A86.18, A86.51, CLA.53, CLA.59, A86.65 9 PLIP interactions: 7 interactions with chain D, 2 interactions with chain B, Hydrophobic interactions: D:V.76, D:V.162, D:V.162, B:W.131, B:W.131 Hydrogen bonds: D:Y.145, D:R.158 Salt bridges: D:R.158, D:K.159 KC1.78: 16 residues within 4Å: Chain E: R.59, A.62, V.63, K.66, H.67, V.70, I.121, L.124, G.125, E.128, L.129, A.134, S.135, Y.137 Ligands: KC2.75, LMT.84 12 PLIP interactions: 12 interactions with chain E, Hydrophobic interactions: E:K.66, E:V.70, E:L.124, E:L.129, E:A.134 Hydrogen bonds: E:S.135, E:Y.137 Salt bridges: E:R.59, E:R.59, E:K.66 pi-Cation interactions: E:K.66 Metal complexes: E:E.128 KC1.80: 10 residues within 4Å: Chain D: W.131 Chain E: V.76, Y.145, R.158, K.159, N.166 Ligands: A86.70, A86.72, CLA.73, CLA.79 7 PLIP interactions: 6 interactions with chain E, 1 interactions with chain D, Hydrophobic interactions: E:V.76, D:W.131 Hydrogen bonds: E:Y.145, E:R.158, E:R.158 Salt bridges: E:R.158, E:K.159

5 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)

LMT.30: 4 residues within 4Å: Chain B: R.59, Y.137 Ligands: KC2.22, KC1.25 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.59, B:Y.137 Salt bridges: B:R.59 LMT.63: 12 residues within 4Å: Chain A: T.149 Chain B: G.147, T.148 Chain D: Y.145, F.146, T.148, I.150, K.151, E.155 Ligands: A86.65, A86.72, LMT.83 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain B Hydrophobic interactions: D:F.146 Hydrogen bonds: D:K.151, D:E.155, B:T.148 LMT.64: 4 residues within 4Å: Chain D: R.59, Y.137 Ligands: KC2.55, KC1.58 2 PLIP interactions: 2 interactions with chain D Salt bridges: D:R.59, D:R.59 LMT.83: 18 residues within 4Å: Chain A: T.149, D.152, E.155, Q.156 Chain D: F.146, G.147, T.148 Chain E: Y.145, F.146, N.148, D.149, I.150, L.151, E.155, K.159 Ligands: LMT.63, A86.66, A86.72 9 PLIP interactions: 6 interactions with chain E, 3 interactions with chain A Hydrophobic interactions: E:F.146, E:F.146 Hydrogen bonds: E:N.148, E:L.151, E:K.159, E:K.159, A:T.149, A:D.152, A:E.155 LMT.84: 4 residues within 4Å: Chain E: R.59, Y.137 Ligands: KC2.75, KC1.78 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:R.59 Salt bridges: E:R.59

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

LMG.47: 11 residues within 4Å: Chain C: D.114, F.118, F.121 Chain D: S.94, N.95, Q.119 Chain E: G.195, F.197, N.198 Ligands: KC2.57, CLA.81 6 PLIP interactions: 1 interactions with chain D, 5 interactions with chain C Hydrogen bonds: D:S.94 Hydrophobic interactions: C:F.118, C:F.118, C:F.118, C:F.121, C:F.121 LMG.82: 11 residues within 4Å: Chain E: P.40, T.184, P.199, D.202, E.204, G.205, F.206, F.207 Ligands: CLA.43, A86.67, CLA.81 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:P.40 Hydrogen bonds: E:H.196, E:F.207, E:F.207

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, C. et al., Structural and spectroscopic insights into fucoxanthin chlorophyll a/c-binding proteins of diatoms in diverse oligomeric states. Plant Commun. (2024)

Release Date

2024-07-31

Peptides

Chlorophyll a/c-binding protein Lhcf6: A
Chlorophyll a/b-binding protein: BD
Fucoxanthin-chlorophyll a/c protein: C
Chlorophyll a/c-binding protein Lhcf7: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
6

B
8

D
5

C
9

E
7

Membrane

We predict this structure to be a membrane protein.
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Chlorophyll a/c-binding protein Lhcf6

Chlorophyll a/b-binding protein

Fucoxanthin-chlorophyll a/c protein

Chlorophyll a/c-binding protein Lhcf7

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