SMTL ID : 7c9r.1

STRUCTURE OF PHOTOSYNTHETIC LH1-RC SUPER-COMPLEX OF THIORHODOVIBRIO STRAIN 970

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY 2.82 Å

Oligo State

hetero-1-1-1-1-6-3-13-1-8-1-mer

Ligands

4 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 18 residues within 4Å: Chain A: Y.76, K.77, N.78, V.79, Q.80, V.81, L.82, F.90, M.94, T.98, C.107, C.110, H.111, W.116, E.117, K.124, S.127, R.128 12 PLIP interactions: 12 interactions with chain A, Hydrophobic interactions: A:Y.76, A:F.90, A:W.116 Hydrogen bonds: A:K.77, A:N.78, A:Q.80, A:V.81, A:L.82 Salt bridges: A:K.124, A:R.128 pi-Cation interactions: A:H.111 Metal complexes: A:H.111 HEM.2: 18 residues within 4Å: Chain A: V.101, Y.109, Y.122, A.126, S.127, M.130, M.133, T.134, T.151, C.152, C.155, H.156, P.160, V.161, P.162, L.291, R.295, V.305 10 PLIP interactions: 10 interactions with chain A, Hydrophobic interactions: A:V.101, A:A.126, A:M.130, A:P.162, A:V.305 Hydrogen bonds: A:Y.109, A:Y.122 Salt bridges: A:R.295, A:R.295 Metal complexes: A:H.156 HEM.3: 20 residues within 4Å: Chain A: I.210, R.211, V.212, S.213, F.233, M.236, F.239, S.240, N.246, C.247, C.250, H.251, F.256, M.257, R.266, A.269, W.270, R.274 Chain C: I.191, Y.317 16 PLIP interactions: 14 interactions with chain A, 2 interactions with chain C, Hydrophobic interactions: A:F.233, A:M.236, A:F.256, A:F.256, A:F.256, A:F.256, A:R.266, A:A.269, C:I.191 Hydrogen bonds: A:V.212, A:S.213, C:Y.317 Salt bridges: A:R.274 pi-Stacking: A:F.239 pi-Cation interactions: A:R.266 Metal complexes: A:H.251 HEM.4: 18 residues within 4Å: Chain A: H.144, V.145, A.146, T.148, G.149, V.150, Y.249, K.265, A.269, A.272, V.276, N.306, C.307, C.310, H.311, Y.315, K.316, P.317 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:V.145, A:V.150, A:A.272, A:K.316, A:P.317 Hydrogen bonds: A:A.146, A:T.148 Salt bridges: A:K.265, A:K.316, A:K.316 pi-Stacking: A:H.144, A:H.144, A:H.311 pi-Cation interactions: A:H.311 Metal complexes: A:H.144, A:H.311

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 3 residues within 4Å: Chain A: Q.183, E.230 Chain C: E.96 No protein-ligand interaction detected (PLIP)

17 x CA: CALCIUM ION(Non-covalent)

CA.6: 3 residues within 4Å: Chain A: D.136, D.278, Q.282 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.136, A:D.278, A:D.278 CA.26: 4 residues within 4Å: Chain 9: W.45 Chain E: W.47, D.50, I.52 4 PLIP interactions: 1 interactions with chain 9, 3 interactions with chain E Metal complexes: 9:W.45, E:W.47, E:D.50, E:I.52 CA.32: 4 residues within 4Å: Chain F: W.45 Chain G: W.47, D.50, I.52 4 PLIP interactions: 3 interactions with chain G, 1 interactions with chain F Metal complexes: G:W.47, G:D.50, G:I.52, F:W.45 CA.38: 4 residues within 4Å: Chain H: W.45 Chain I: W.47, D.50, I.52 4 PLIP interactions: 1 interactions with chain H, 3 interactions with chain I Metal complexes: H:W.45, I:W.47, I:D.50, I:I.52 CA.44: 4 residues within 4Å: Chain J: W.45 Chain K: W.47, D.50, I.52 4 PLIP interactions: 1 interactions with chain J, 3 interactions with chain K Metal complexes: J:W.45, K:W.47, K:D.50, K:I.52 CA.52: 4 residues within 4Å: Chain L: W.45 Chain M: W.47, D.50, I.52 4 PLIP interactions: 1 interactions with chain L, 3 interactions with chain M Metal complexes: L:W.45, M:W.47, M:D.50, M:I.52 CA.60: 4 residues within 4Å: Chain N: W.45 Chain O: W.47, D.50, I.52 4 PLIP interactions: 1 interactions with chain N, 3 interactions with chain O Metal complexes: N:W.45, O:W.47, O:D.50, O:I.52 CA.67: 4 residues within 4Å: Chain P: W.45 Chain Q: W.47, D.50, I.52 4 PLIP interactions: 3 interactions with chain Q, 1 interactions with chain P Metal complexes: Q:W.47, Q:D.50, Q:I.52, P:W.45 CA.73: 4 residues within 4Å: Chain R: W.45 Chain S: W.47, D.50, I.52 4 PLIP interactions: 3 interactions with chain S, 1 interactions with chain R Metal complexes: S:W.47, S:D.50, S:I.52, R:W.45 CA.77: 4 residues within 4Å: Chain T: W.45 Chain U: W.47, D.50, I.52 4 PLIP interactions: 1 interactions with chain T, 3 interactions with chain U Metal complexes: T:W.45, U:W.47, U:D.50, U:I.52 CA.83: 4 residues within 4Å: Chain V: W.45 Chain W: W.47, D.50, I.52 4 PLIP interactions: 3 interactions with chain W, 1 interactions with chain V Metal complexes: W:W.47, W:D.50, W:I.52, V:W.45 CA.87: 4 residues within 4Å: Chain X: W.45 Chain Y: W.47, D.50, I.52 4 PLIP interactions: 3 interactions with chain Y, 1 interactions with chain X Metal complexes: Y:W.47, Y:D.50, Y:I.52, X:W.45 CA.94: 4 residues within 4Å: Chain 0: W.47, D.50, I.52 Chain Z: W.45 4 PLIP interactions: 3 interactions with chain 0, 1 interactions with chain Z Metal complexes: 0:W.47, 0:D.50, 0:I.52, Z:W.45 CA.101: 4 residues within 4Å: Chain 1: W.45 Chain 2: W.47, D.50, I.52 4 PLIP interactions: 3 interactions with chain 2, 1 interactions with chain 1 Metal complexes: 2:W.47, 2:D.50, 2:I.52, 1:W.45 CA.107: 4 residues within 4Å: Chain 3: W.45 Chain 4: W.47, D.50, I.52 4 PLIP interactions: 1 interactions with chain 3, 3 interactions with chain 4 Metal complexes: 3:W.45, 4:W.47, 4:D.50, 4:I.52 CA.114: 4 residues within 4Å: Chain 5: W.45 Chain 6: W.47, D.50, I.52 4 PLIP interactions: 3 interactions with chain 6, 1 interactions with chain 5 Metal complexes: 6:W.47, 6:D.50, 6:I.52, 5:W.45 CA.121: 4 residues within 4Å: Chain 7: W.45 Chain 8: W.47, D.50, I.52 4 PLIP interactions: 3 interactions with chain 8, 1 interactions with chain 7 Metal complexes: 8:W.47, 8:D.50, 8:I.52, 7:W.45

1 x DGA: DIACYL GLYCEROL(Covalent)

DGA.7: 7 residues within 4Å: Chain A: C.23 Chain B: L.251, W.256, W.263, W.266 Ligands: PGV.91, PGV.96 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.251, B:L.251, B:W.263, B:W.266, B:W.266

19 x PGV: (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE(Non-covalent)

PGV.8: 8 residues within 4Å: Chain A: R.219 Chain C: L.167, I.285, L.286, T.289, V.290 Ligands: PGV.49, PGV.50 Ligand excluded by PLIP PGV.13: 17 residues within 4Å: Chain B: V.99, A.102, R.110, L.116, H.117, F.120, S.123, I.126, L.127, L.233, L.235, F.236 Chain C: P.2, E.3, Q.5, I.7 Chain D: R.211 Ligand excluded by PLIP PGV.21: 13 residues within 4Å: Chain C: V.166, L.167, M.168, G.169 Chain M: V.39, S.42 Chain O: L.34, M.38, L.41 Chain Q: S.74, R.76 Ligands: PGV.50, H4X.55 Ligand excluded by PLIP PGV.22: 12 residues within 4Å: Chain B: N.61, W.63, F.152 Chain C: H.301, G.302, V.303 Chain D: Y.9, Q.14, L.17, W.18, W.21 Ligands: PGV.40 Ligand excluded by PLIP PGV.24: 7 residues within 4Å: Chain D: F.57 Chain E: N.17, S.20 Chain G: W.23, I.27 Ligands: CDL.23, PGV.120 Ligand excluded by PLIP PGV.31: 18 residues within 4Å: Chain B: I.50, L.51, T.59, L.60, I.62, G.150 Chain E: V.39, S.42 Chain G: M.38, L.41, S.42, N.46, H.48, D.49 Ligands: BPH.10, BCL.12, H4X.27, PGV.40 Ligand excluded by PLIP PGV.37: 12 residues within 4Å: Chain D: L.25, S.26, F.29, F.57, P.58, F.59 Chain G: I.27 Chain I: V.19, S.20, W.23, A.24, F.31 Ligand excluded by PLIP PGV.40: 12 residues within 4Å: Chain D: Y.9 Chain G: L.35, M.38, V.39 Chain I: M.38, L.41, S.42, N.46, D.49 Chain K: Q.57 Ligands: PGV.22, PGV.31 Ligand excluded by PLIP PGV.46: 10 residues within 4Å: Chain I: N.17, S.20, F.28 Chain K: W.23, A.24, I.27, F.28, I.30, F.31 Ligands: PGV.54 Ligand excluded by PLIP PGV.49: 12 residues within 4Å: Chain D: L.12 Chain K: F.31, L.34, L.35, M.38, V.39, S.42 Chain M: M.38, L.41, D.49 Ligands: PGV.8, PGV.50 Ligand excluded by PLIP PGV.50: 10 residues within 4Å: Chain C: L.167 Chain M: M.38, L.41, S.42, S.43, N.46, D.49 Ligands: PGV.8, PGV.21, PGV.49 Ligand excluded by PLIP PGV.54: 9 residues within 4Å: Chain K: I.15, M.16, N.17 Chain M: V.19, S.20, W.23, I.27, I.30 Ligands: PGV.46 Ligand excluded by PLIP PGV.59: 21 residues within 4Å: Chain C: L.28, G.55, W.56, A.59, M.124, L.127 Chain O: M.16, N.17, S.20, A.24, I.27, F.28, F.31 Chain Q: R.19, L.22, L.23, S.27, I.30, L.31 Ligands: H4X.63, BCL.68 Ligand excluded by PLIP PGV.66: 13 residues within 4Å: Chain C: V.31, L.61, I.62 Chain Q: F.15, D.17, R.20, F.24 Chain R: S.5 Chain S: V.19, W.23, A.24, I.27 Ligands: CDL.72 Ligand excluded by PLIP PGV.91: 8 residues within 4Å: Chain B: W.266, L.270 Chain Y: L.35, M.38, V.39, S.42 Ligands: DGA.7, PGV.96 Ligand excluded by PLIP PGV.96: 7 residues within 4Å: Chain 0: M.38, L.41, S.42, N.46 Chain Y: V.39 Ligands: DGA.7, PGV.91 Ligand excluded by PLIP PGV.100: 18 residues within 4Å: Chain 0: F.31, V.39, S.42 Chain 2: M.38, L.41, S.42, N.46, H.48, D.49 Chain A: F.25, P.26, K.47 Chain B: F.135, L.139, A.246, V.247, F.255 Ligands: PGV.106 Ligand excluded by PLIP PGV.106: 15 residues within 4Å: Chain 2: L.35 Chain 4: F.31, M.38, L.41, S.42, S.43, N.46 Chain A: P.27 Chain B: V.74, G.75, L.76, V.138, L.139, G.141 Ligands: PGV.100 Ligand excluded by PLIP PGV.120: 18 residues within 4Å: Chain 8: R.20, F.24, A.27 Chain B: A.2, L.3, W.26, V.27, G.28, V.40, T.44 Chain D: V.45, A.96 Chain E: W.23, I.27, F.31 Ligands: MQ8.20, CDL.23, PGV.24 Ligand excluded by PLIP

36 x BCL: BACTERIOCHLOROPHYLL A(Non-covalent)

BCL.9: 23 residues within 4Å: Chain B: F.98, A.125, A.128, L.132, V.158, S.159, V.161, F.168, H.169, H.174, A.177, I.178, F.181, S.245, C.248, M.249 Chain C: Y.197, Y.210 Ligands: BPH.10, BCL.12, BCL.17, BCL.18, CDL.23 11 PLIP interactions: 10 interactions with chain B, 1 interactions with chain C, Hydrophobic interactions: B:F.98, B:F.98, B:V.158, B:V.161, B:F.168, B:A.177, B:I.178, B:I.178, B:F.181, C:Y.210 Metal complexes: B:H.174 BCL.12: 20 residues within 4Å: Chain B: T.47, Y.129, L.132, F.147, L.151, F.152, H.154, L.155 Chain C: Y.197, G.203, I.206, A.207, Y.210, G.211 Ligands: BCL.9, BPH.10, BCL.18, MQ8.20, CDL.23, PGV.31 10 PLIP interactions: 5 interactions with chain B, 5 interactions with chain C, Hydrophobic interactions: B:L.132, B:F.147, B:L.151, B:L.155, C:Y.197, C:I.206, C:I.206, C:Y.210 Metal complexes: B:H.154 pi-Stacking: C:Y.210 BCL.17: 17 residues within 4Å: Chain B: H.169, M.175, I.178, S.179, F.182, I.183, V.221, Y.223 Chain C: I.179, H.182, L.183, T.186 Ligands: BCL.9, UQ8.11, BCL.18, BPH.19, H4X.58 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain C, Hydrophobic interactions: B:I.178, B:Y.223, C:L.183 pi-Stacking: C:H.182 Metal complexes: C:H.182 BCL.18: 23 residues within 4Å: Chain B: F.182 Chain C: L.68, L.122, A.153, F.156, L.160, T.186, I.189, S.190, F.196, Y.197, H.202, S.205, I.206, M.209, Y.210, S.280, I.284 Ligands: BCL.9, BCL.12, BCL.17, BPH.19, H4X.58 13 PLIP interactions: 13 interactions with chain C, Hydrophobic interactions: C:L.68, C:L.122, C:F.156, C:F.156, C:I.189, C:F.196, C:F.196, C:Y.197, C:Y.197, C:I.206 Hydrogen bonds: C:Y.197, C:S.205 Metal complexes: C:H.202 BCL.25: 15 residues within 4Å: Chain 8: I.36 Chain E: F.26, H.37, W.47, H.48 Chain F: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: BCL.29, LMT.30, H4X.117, BCL.123 6 PLIP interactions: 3 interactions with chain E, 1 interactions with chain 8, 2 interactions with chain F, Hydrophobic interactions: E:F.26, E:W.47, 8:I.36, F:W.28, F:A.35 Metal complexes: E:H.37 BCL.29: 15 residues within 4Å: Chain E: Q.29, L.32, G.33, I.36, H.37 Chain F: W.28, F.29, V.32, H.36, W.45 Chain G: H.48 Ligands: BCL.25, H4X.27, BCL.33, LMT.36 10 PLIP interactions: 3 interactions with chain E, 7 interactions with chain F, Hydrophobic interactions: E:I.36, F:F.29, F:V.32, F:W.45, F:W.45, F:W.45, F:W.45 Hydrogen bonds: E:Q.29, E:H.37 Metal complexes: F:H.36 BCL.33: 18 residues within 4Å: Chain E: I.36 Chain G: F.26, Q.29, I.30, G.33, H.37, W.47, H.48 Chain H: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: H4X.27, BCL.29, BCL.34, LMT.36 7 PLIP interactions: 4 interactions with chain G, 2 interactions with chain H, 1 interactions with chain E, Hydrophobic interactions: G:F.26, G:Q.29, G:I.30, G:W.47, H:W.28, H:A.35, E:I.36 BCL.34: 17 residues within 4Å: Chain G: Q.29, L.32, G.33, I.36, H.37 Chain H: W.28, F.29, V.32, V.33, H.36, W.45 Chain I: H.48 Chain J: L.38 Ligands: BCL.33, H4X.35, BCL.39, LMT.43 12 PLIP interactions: 8 interactions with chain H, 3 interactions with chain G, 1 interactions with chain J, Hydrophobic interactions: H:F.29, H:V.32, H:V.33, H:W.45, H:W.45, H:W.45, H:W.45, G:I.36, J:L.38 Metal complexes: H:H.36 Hydrogen bonds: G:Q.29, G:H.37 BCL.39: 16 residues within 4Å: Chain G: I.36 Chain I: Q.29, I.30, H.37, W.47, H.48 Chain J: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: BCL.34, H4X.35, BCL.41, LMT.43 6 PLIP interactions: 3 interactions with chain I, 2 interactions with chain J, 1 interactions with chain G, Hydrophobic interactions: I:Q.29, I:I.30, J:W.28, J:A.35, G:I.36 Metal complexes: I:H.37 BCL.41: 16 residues within 4Å: Chain I: Q.29, L.32, G.33, I.36, H.37 Chain J: W.28, F.29, V.32, V.33, H.36, W.45 Chain K: H.48 Ligands: BCL.39, H4X.42, BCL.45, LMT.48 11 PLIP interactions: 8 interactions with chain J, 3 interactions with chain I, Hydrophobic interactions: J:F.29, J:V.32, J:V.33, J:W.45, J:W.45, J:W.45, J:W.45, I:I.36 Metal complexes: J:H.36 Hydrogen bonds: I:Q.29, I:H.37 BCL.45: 16 residues within 4Å: Chain I: I.36 Chain K: Q.29, I.30, H.37, W.47, H.48 Chain L: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: BCL.41, H4X.42, BCL.47, LMT.48 8 PLIP interactions: 2 interactions with chain L, 5 interactions with chain K, 1 interactions with chain I, Hydrophobic interactions: L:W.28, L:A.35, K:Q.29, K:I.30, K:W.47, I:I.36 pi-Cation interactions: K:H.37 Metal complexes: K:H.37 BCL.47: 15 residues within 4Å: Chain K: Q.29, L.32, G.33, I.36, H.37 Chain L: W.28, F.29, V.32, V.33, H.36, W.45 Chain M: H.48 Ligands: BCL.45, BCL.53, LMT.57 10 PLIP interactions: 8 interactions with chain L, 2 interactions with chain K, Hydrophobic interactions: L:F.29, L:V.32, L:V.33, L:W.45, L:W.45, L:W.45, L:W.45, K:I.36 Metal complexes: L:H.36 Hydrogen bonds: K:Q.29 BCL.53: 16 residues within 4Å: Chain K: I.36 Chain M: Q.29, I.30, H.37, W.47, H.48 Chain N: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: BCL.47, H4X.51, BCL.56, LMT.57 8 PLIP interactions: 3 interactions with chain N, 4 interactions with chain M, 1 interactions with chain K, Hydrophobic interactions: N:W.28, N:A.35, M:Q.29, M:I.30, K:I.36 Hydrogen bonds: N:H.36 pi-Stacking: M:H.37 Metal complexes: M:H.37 BCL.56: 17 residues within 4Å: Chain M: Q.29, L.32, G.33, I.36, H.37 Chain N: W.28, F.29, V.32, V.33, H.36, W.45 Chain O: H.48 Chain P: L.38 Ligands: BCL.53, H4X.55, BCL.61, LMT.65 11 PLIP interactions: 8 interactions with chain N, 2 interactions with chain M, 1 interactions with chain P, Hydrophobic interactions: N:F.29, N:V.32, N:V.33, N:W.45, N:W.45, N:W.45, N:W.45, M:I.36, P:L.38 Metal complexes: N:H.36 Hydrogen bonds: M:Q.29 BCL.61: 18 residues within 4Å: Chain M: I.36 Chain O: F.26, Q.29, I.30, G.33, H.37, W.47, H.48 Chain P: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: H4X.55, BCL.56, BCL.62, LMT.65 8 PLIP interactions: 5 interactions with chain O, 1 interactions with chain M, 2 interactions with chain P, Hydrophobic interactions: O:F.26, O:Q.29, O:I.30, O:W.47, M:I.36, P:W.28, P:A.35 Metal complexes: O:H.37 BCL.62: 16 residues within 4Å: Chain O: Q.29, L.32, G.33, I.36, H.37 Chain P: W.28, F.29, V.32, V.33, H.36, W.45 Chain Q: H.48 Ligands: BCL.61, H4X.64, BCL.68, LMT.71 10 PLIP interactions: 2 interactions with chain O, 8 interactions with chain P, Hydrophobic interactions: O:I.36, P:F.29, P:V.32, P:V.33, P:W.45, P:W.45, P:W.45, P:W.45 Hydrogen bonds: O:Q.29 Metal complexes: P:H.36 BCL.68: 17 residues within 4Å: Chain O: I.36 Chain Q: Q.29, I.30, H.37, W.47, H.48 Chain R: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: PGV.59, BCL.62, H4X.64, BCL.69, LMT.71 8 PLIP interactions: 4 interactions with chain Q, 3 interactions with chain R, 1 interactions with chain O, Hydrophobic interactions: Q:Q.29, Q:I.30, Q:W.47, R:W.28, R:W.28, R:A.35, O:I.36 Metal complexes: Q:H.37 BCL.69: 16 residues within 4Å: Chain Q: Q.29, L.32, G.33, I.36, H.37 Chain R: W.28, F.29, V.32, V.33, H.36, W.45 Chain S: H.48 Ligands: H4X.63, BCL.68, BCL.74, LMT.76 11 PLIP interactions: 8 interactions with chain R, 3 interactions with chain Q, Hydrophobic interactions: R:F.29, R:V.32, R:V.33, R:W.45, R:W.45, R:W.45, R:W.45, Q:I.36, Q:I.36 Metal complexes: R:H.36 Hydrogen bonds: Q:Q.29 BCL.74: 16 residues within 4Å: Chain Q: I.36 Chain S: F.26, Q.29, H.37, W.47, H.48 Chain T: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: H4X.63, BCL.69, BCL.75, LMT.76 8 PLIP interactions: 1 interactions with chain Q, 4 interactions with chain S, 3 interactions with chain T, Hydrophobic interactions: Q:I.36, S:F.26, S:Q.29, S:W.47, T:W.28, T:W.28, T:A.35 Metal complexes: S:H.37 BCL.75: 15 residues within 4Å: Chain S: Q.29, L.32, G.33, I.36, H.37 Chain T: W.28, F.29, V.32, H.36, W.45 Chain U: H.48 Ligands: H4X.70, BCL.74, BCL.78, LMT.82 11 PLIP interactions: 8 interactions with chain T, 3 interactions with chain S, Hydrophobic interactions: T:F.29, T:V.32, T:V.33, T:W.45, T:W.45, T:W.45, T:W.45, S:I.36 Metal complexes: T:H.36 Hydrogen bonds: S:Q.29, S:H.37 BCL.78: 17 residues within 4Å: Chain S: I.36 Chain U: Q.29, I.30, G.33, H.37, W.47, H.48 Chain V: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: H4X.70, BCL.75, BCL.79, LMT.82 7 PLIP interactions: 1 interactions with chain S, 2 interactions with chain V, 4 interactions with chain U, Hydrophobic interactions: S:I.36, V:W.28, V:A.35, U:Q.29, U:I.30, U:W.47 Metal complexes: U:H.37 BCL.79: 17 residues within 4Å: Chain U: Q.29, L.32, G.33, I.36, H.37 Chain V: W.28, F.29, V.32, V.33, H.36, W.45 Chain W: H.48 Chain X: L.38 Ligands: BCL.78, H4X.81, BCL.84, LMT.86 12 PLIP interactions: 8 interactions with chain V, 1 interactions with chain X, 3 interactions with chain U, Hydrophobic interactions: V:F.29, V:V.32, V:V.33, V:W.45, V:W.45, V:W.45, V:W.45, X:L.38, U:I.36 Metal complexes: V:H.36 Hydrogen bonds: U:Q.29, U:H.37 BCL.84: 18 residues within 4Å: Chain U: I.36 Chain W: F.26, Q.29, I.30, G.33, H.37, W.47, H.48 Chain X: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: BCL.79, H4X.81, BCL.85, LMT.86 8 PLIP interactions: 5 interactions with chain W, 2 interactions with chain X, 1 interactions with chain U, Hydrophobic interactions: W:F.26, W:Q.29, W:I.30, W:W.47, X:W.28, X:A.35, U:I.36 Metal complexes: W:H.37 BCL.85: 16 residues within 4Å: Chain W: Q.29, L.32, G.33, I.36, H.37 Chain X: W.28, F.29, V.32, V.33, H.36, W.45 Chain Y: H.48 Ligands: H4X.80, BCL.84, BCL.88, LMT.93 11 PLIP interactions: 3 interactions with chain W, 8 interactions with chain X, Hydrophobic interactions: W:I.36, X:F.29, X:V.32, X:V.33, X:W.45, X:W.45, X:W.45, X:W.45 Hydrogen bonds: W:Q.29, W:H.37 Metal complexes: X:H.36 BCL.88: 18 residues within 4Å: Chain W: I.36 Chain Y: F.26, Q.29, I.30, G.33, H.37, W.47, H.48 Chain Z: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: H4X.80, BCL.85, BCL.90, LMT.93 7 PLIP interactions: 1 interactions with chain W, 4 interactions with chain Y, 2 interactions with chain Z, Hydrophobic interactions: W:I.36, Y:F.26, Y:Q.29, Y:I.30, Z:W.28, Z:A.35 Metal complexes: Y:H.37 BCL.90: 17 residues within 4Å: Chain 0: H.48 Chain 1: L.38 Chain Y: Q.29, L.32, G.33, I.36, H.37 Chain Z: W.28, F.29, V.32, V.33, H.36, W.45 Ligands: BCL.88, H4X.92, BCL.95, LMT.99 12 PLIP interactions: 3 interactions with chain Y, 8 interactions with chain Z, 1 interactions with chain 1, Hydrophobic interactions: Y:I.36, Z:F.29, Z:V.32, Z:V.33, Z:W.45, Z:W.45, Z:W.45, Z:W.45, 1:L.38 Hydrogen bonds: Y:Q.29, Y:H.37 Metal complexes: Z:H.36 BCL.95: 17 residues within 4Å: Chain 0: Q.29, I.30, G.33, H.37, W.47, H.48 Chain 1: W.28, L.31, V.32, A.35, H.36, S.39 Chain Y: I.36 Ligands: BCL.90, H4X.92, BCL.98, LMT.99 7 PLIP interactions: 1 interactions with chain Y, 4 interactions with chain 0, 2 interactions with chain 1, Hydrophobic interactions: Y:I.36, 0:Q.29, 0:I.30, 0:W.47, 1:W.28, 1:A.35 Metal complexes: 0:H.37 BCL.98: 17 residues within 4Å: Chain 0: Q.29, L.32, G.33, I.36, H.37 Chain 1: W.28, F.29, V.32, V.33, H.36, W.45 Chain 2: H.48 Chain 3: L.38 Ligands: BCL.95, H4X.97, BCL.102, LMT.105 11 PLIP interactions: 2 interactions with chain 0, 8 interactions with chain 1, 1 interactions with chain 3, Hydrophobic interactions: 0:I.36, 1:F.29, 1:V.32, 1:V.33, 1:W.45, 1:W.45, 1:W.45, 1:W.45, 3:L.38 Hydrogen bonds: 0:Q.29 Metal complexes: 1:H.36 BCL.102: 18 residues within 4Å: Chain 0: I.36 Chain 1: F.29 Chain 2: Q.29, I.30, G.33, H.37, W.47, H.48 Chain 3: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: H4X.97, BCL.98, BCL.103, LMT.105 8 PLIP interactions: 2 interactions with chain 3, 4 interactions with chain 2, 1 interactions with chain 1, 1 interactions with chain 0, Hydrophobic interactions: 3:W.28, 3:A.35, 2:Q.29, 2:I.30, 2:W.47, 1:F.29, 0:I.36 Metal complexes: 2:H.37 BCL.103: 16 residues within 4Å: Chain 2: Q.29, L.32, G.33, I.36, H.37 Chain 3: W.28, F.29, V.32, V.33, H.36, W.45 Chain 4: H.48 Ligands: BCL.102, H4X.104, BCL.108, LMT.113 11 PLIP interactions: 8 interactions with chain 3, 3 interactions with chain 2, Hydrophobic interactions: 3:F.29, 3:V.32, 3:V.33, 3:W.45, 3:W.45, 3:W.45, 3:W.45, 2:I.36 Metal complexes: 3:H.36 Hydrogen bonds: 2:Q.29, 2:H.37 BCL.108: 17 residues within 4Å: Chain 2: I.36 Chain 4: Q.29, I.30, G.33, H.37, W.47, H.48 Chain 5: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: BCL.103, H4X.104, BCL.109, LMT.113 7 PLIP interactions: 2 interactions with chain 5, 4 interactions with chain 4, 1 interactions with chain 2, Hydrophobic interactions: 5:W.28, 5:A.35, 4:Q.29, 4:I.30, 2:I.36 pi-Stacking: 4:H.37 Metal complexes: 4:H.37 BCL.109: 16 residues within 4Å: Chain 4: Q.29, L.32, G.33, I.36, H.37 Chain 5: W.28, F.29, V.32, V.33, H.36, W.45 Chain 6: H.48 Ligands: BCL.108, H4X.112, BCL.115, LMT.119 10 PLIP interactions: 8 interactions with chain 5, 2 interactions with chain 4, Hydrophobic interactions: 5:F.29, 5:V.32, 5:V.33, 5:W.45, 5:W.45, 5:W.45, 5:W.45, 4:I.36 Metal complexes: 5:H.36 Hydrogen bonds: 4:Q.29 BCL.115: 17 residues within 4Å: Chain 4: I.36 Chain 6: F.26, Q.29, I.30, H.37, W.47, H.48 Chain 7: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: BCL.109, H4X.112, BCL.116, LMT.119 8 PLIP interactions: 5 interactions with chain 6, 2 interactions with chain 7, 1 interactions with chain 4, Hydrophobic interactions: 6:F.26, 6:Q.29, 6:I.30, 6:W.47, 7:W.28, 7:A.35, 4:I.36 Metal complexes: 6:H.37 BCL.116: 16 residues within 4Å: Chain 6: Q.29, L.32, G.33, I.36, H.37 Chain 7: W.28, F.29, V.32, V.33, H.36, W.45 Chain 8: H.48 Ligands: H4X.110, BCL.115, BCL.122, LMT.124 11 PLIP interactions: 8 interactions with chain 7, 3 interactions with chain 6, Hydrophobic interactions: 7:F.29, 7:V.32, 7:V.33, 7:W.45, 7:W.45, 7:W.45, 7:W.45, 6:I.36 Metal complexes: 7:H.36 Hydrogen bonds: 6:Q.29, 6:H.37 BCL.122: 17 residues within 4Å: Chain 6: I.36 Chain 8: V.26, Q.29, I.30, H.37, W.47, H.48 Chain 9: W.28, L.31, V.32, A.35, H.36, S.39 Ligands: H4X.110, BCL.116, BCL.123, LMT.124 7 PLIP interactions: 4 interactions with chain 8, 2 interactions with chain 9, 1 interactions with chain 6, Hydrophobic interactions: 8:Q.29, 8:I.30, 8:W.47, 9:W.28, 9:A.35, 6:I.36 Metal complexes: 8:H.37 BCL.123: 15 residues within 4Å: Chain 8: Q.29, L.32, G.33, I.36, H.37 Chain 9: W.28, F.29, V.32, H.36, W.45 Chain E: H.48 Ligands: BCL.25, LMT.30, H4X.117, BCL.122 10 PLIP interactions: 3 interactions with chain 8, 7 interactions with chain 9, Hydrophobic interactions: 8:I.36, 9:F.29, 9:V.32, 9:W.45, 9:W.45, 9:W.45, 9:W.45 Hydrogen bonds: 8:Q.29, 8:H.37 Metal complexes: 9:H.36

2 x BPH: BACTERIOPHEOPHYTIN A(Non-covalent)

BPH.10: 26 residues within 4Å: Chain B: A.43, T.47, A.94, A.97, F.98, W.101, Q.105, V.118, F.122, A.125, F.147, Y.149, G.150, L.151, H.154, A.238, A.242 Chain C: Y.210, V.214, A.217, M.218, W.252, M.256 Ligands: BCL.9, BCL.12, PGV.31 14 PLIP interactions: 11 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:A.43, B:A.97, B:F.122, B:F.122, B:F.122, B:F.147, B:Y.149, B:Y.149, B:L.151, B:A.242, C:Y.210, C:V.214, C:A.217 Hydrogen bonds: B:Q.105 BPH.19: 18 residues within 4Å: Chain B: F.182, T.185, L.186, M.190 Chain C: S.60, L.61, L.68, S.125, L.126, W.129, V.133, L.146, A.149, F.150, A.273, I.277 Ligands: BCL.17, BCL.18 10 PLIP interactions: 7 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:L.61, C:L.68, C:A.149, C:F.150, C:F.150, C:F.150, C:I.277, B:F.182, B:T.185, B:L.186

2 x UQ8: Ubiquinone-8(Non-covalent)

UQ8.11: 17 residues within 4Å: Chain B: F.180, I.183, M.190, H.191, L.194, I.195, E.213, N.214, F.217, Y.223, S.224, I.225, G.226, A.227, I.230, L.233 Ligands: BCL.17 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:F.180, B:I.183, B:M.190, B:F.217, B:F.217, B:I.225, B:I.230, B:L.233 Hydrogen bonds: B:I.225, B:G.226 UQ8.14: 14 residues within 4Å: Chain 4: L.35 Chain 6: F.31, L.34 Chain B: F.78, W.87, Q.88, T.91, I.92, G.96, V.99, V.133, F.134, W.143 Ligands: 8K6.15 8 PLIP interactions: 4 interactions with chain B, 3 interactions with chain 6, 1 interactions with chain 4 Hydrophobic interactions: B:I.92, B:V.99, B:F.134, 6:F.31, 6:L.34, 6:L.34, 4:L.35 pi-Stacking: B:W.143

2 x 8K6: Octadecane(Non-covalent)

8K6.15: 6 residues within 4Å: Chain 6: I.27 Chain 8: V.26 Chain B: S.38, S.100 Ligands: UQ8.14, LMT.118 2 PLIP interactions: 1 interactions with chain 6, 1 interactions with chain 8 Hydrophobic interactions: 6:I.27, 8:V.26 8K6.111: 1 residues within 4Å: Chain 6: I.30 1 PLIP interactions: 1 interactions with chain 6 Hydrophobic interactions: 6:I.30

1 x FE: FE (III) ION(Non-covalent)

FE.16: 5 residues within 4Å: Chain B: H.191, H.231 Chain C: H.219, E.234, H.266 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain B Metal complexes: C:H.219, C:E.234, C:H.266, B:H.191, B:H.231

1 x MQ8: MENAQUINONE 8(Non-covalent)

MQ8.20: 19 residues within 4Å: Chain B: F.30, V.40, W.101 Chain C: L.215, M.218, H.219, T.222, A.248, W.252, M.256, F.258, N.259, A.260, S.261, M.262, I.265 Ligands: BCL.12, CDL.23, PGV.120 13 PLIP interactions: 4 interactions with chain B, 9 interactions with chain C Hydrophobic interactions: B:F.30, B:F.30, B:V.40, B:V.40, C:L.215, C:M.218, C:A.248, C:W.252, C:F.258, C:F.258, C:I.265 Hydrogen bonds: C:T.222, C:A.260

3 x CDL: CARDIOLIPIN(Non-covalent)

CDL.23: 20 residues within 4Å: Chain B: A.2, P.29, F.30, A.43, T.47 Chain C: R.253, M.256, G.257, F.258 Chain D: I.28, R.32, K.36, Y.40, Q.42, F.57 Ligands: BCL.9, BCL.12, MQ8.20, PGV.24, PGV.120 14 PLIP interactions: 6 interactions with chain D, 4 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: D:I.28, B:F.30, B:A.43, C:F.258, C:F.258, C:F.258, C:F.258 Hydrogen bonds: D:R.32, D:Q.42, D:F.57, B:A.2, B:A.2 Salt bridges: D:R.32, D:K.36 CDL.72: 11 residues within 4Å: Chain B: V.221 Chain C: G.32, L.51, L.53 Chain S: N.17, S.20 Chain U: W.23, A.24, I.27 Chain W: I.30 Ligands: PGV.66 10 PLIP interactions: 2 interactions with chain S, 4 interactions with chain U, 3 interactions with chain C, 1 interactions with chain W Hydrogen bonds: S:N.17, S:S.20, C:G.32 Hydrophobic interactions: U:W.23, U:W.23, U:A.24, U:I.27, C:L.51, C:L.53, W:I.30 CDL.89: 5 residues within 4Å: Chain Y: V.19, S.20, W.23, A.24, I.27 1 PLIP interactions: 1 interactions with chain Y Hydrophobic interactions: Y:I.27

17 x H4X: (6~{E},8~{E},10~{E},12~{E},14~{E},16~{E},18~{E},20~{E},22~{E},24~{E},26~{E})-2,31-dimethoxy-2,6,10,14,19,23,27,31-octamethyl-dotriaconta-6,8,10,12,14,16,18,20,22,24,26-undecaene(Non-covalent)

H4X.27: 24 residues within 4Å: Chain 8: M.9, K.11, L.12, T.14, F.15 Chain D: F.48 Chain E: L.22, I.25, F.28, Q.29, I.36 Chain F: E.13, E.16, F.17, L.20, F.21, S.24, M.25, F.29 Chain G: L.34, H.37 Ligands: BCL.29, PGV.31, BCL.33 15 PLIP interactions: 9 interactions with chain F, 4 interactions with chain E, 1 interactions with chain 8, 1 interactions with chain G Hydrophobic interactions: F:F.17, F:F.17, F:L.20, F:L.20, F:L.20, F:F.21, F:F.21, F:M.25, F:F.29, E:L.22, E:I.25, E:F.28, E:I.36, 8:L.12, G:L.34 H4X.35: 17 residues within 4Å: Chain E: M.9, L.12, I.15 Chain G: L.22, I.25, Q.29 Chain H: E.16, F.17, I.20, F.21, S.24, M.25, F.29 Chain I: L.34, H.37 Ligands: BCL.34, BCL.39 12 PLIP interactions: 9 interactions with chain H, 2 interactions with chain G, 1 interactions with chain E Hydrophobic interactions: H:F.17, H:F.17, H:I.20, H:I.20, H:I.20, H:F.21, H:F.21, H:M.25, H:F.29, G:L.22, G:I.25, E:L.12 H4X.42: 22 residues within 4Å: Chain G: M.9, L.12, I.15 Chain I: L.22, I.25, F.28, Q.29, L.35, I.36 Chain J: E.13, E.16, F.17, I.20, F.21, S.24, M.25, F.29 Chain K: L.34, H.37, M.38 Ligands: BCL.41, BCL.45 14 PLIP interactions: 5 interactions with chain I, 6 interactions with chain J, 2 interactions with chain G, 1 interactions with chain K Hydrophobic interactions: I:L.22, I:I.25, I:F.28, I:L.35, I:I.36, J:F.17, J:I.20, J:I.20, J:F.21, J:M.25, J:F.29, G:L.12, G:I.15, K:L.34 H4X.51: 19 residues within 4Å: Chain I: M.9, L.12 Chain K: L.22, I.25, F.28, Q.29 Chain L: L.9, E.16, F.17, I.20, F.21, S.24, M.25, F.29 Chain M: L.34, H.37, M.38, L.41 Ligands: BCL.53 10 PLIP interactions: 3 interactions with chain K, 6 interactions with chain L, 1 interactions with chain I Hydrophobic interactions: K:L.22, K:I.25, K:F.28, L:F.17, L:F.17, L:I.20, L:I.20, L:M.25, L:F.29, I:L.12 H4X.55: 20 residues within 4Å: Chain K: M.9, L.12, I.15 Chain M: L.22, I.25, F.28, Q.29 Chain N: E.13, E.16, F.17, I.20, F.21, S.24, M.25, F.29 Chain O: L.34, H.37 Ligands: PGV.21, BCL.56, BCL.61 14 PLIP interactions: 8 interactions with chain N, 2 interactions with chain K, 1 interactions with chain O, 3 interactions with chain M Hydrophobic interactions: N:F.17, N:F.17, N:I.20, N:I.20, N:F.21, N:F.21, N:M.25, N:F.29, K:L.12, K:I.15, O:L.34, M:L.22, M:I.25, M:F.28 H4X.58: 26 residues within 4Å: Chain C: L.68, I.71, G.72, L.73, M.75, L.76, W.115, L.116, G.119, L.120, T.123, F.157, G.161, F.162, W.171, P.175, P.176, F.177, G.178, H.182 Chain O: M.38, V.39, S.42 Chain Q: M.38 Ligands: BCL.17, BCL.18 14 PLIP interactions: 13 interactions with chain C, 1 interactions with chain O Hydrophobic interactions: C:I.71, C:L.73, C:W.115, C:L.116, C:L.120, C:F.157, C:F.157, C:F.162, C:F.162, C:P.175, C:F.177, C:F.177, C:F.177, O:V.39 H4X.63: 21 residues within 4Å: Chain O: K.11, L.12, I.15 Chain Q: L.22, I.25, F.28, Q.29, I.36 Chain R: E.16, F.17, I.20, F.21, S.24, M.25 Chain S: G.33, L.34, H.37, M.38 Ligands: PGV.59, BCL.69, BCL.74 10 PLIP interactions: 4 interactions with chain R, 4 interactions with chain Q, 1 interactions with chain S, 1 interactions with chain O Hydrophobic interactions: R:F.17, R:I.20, R:I.20, R:M.25, Q:L.22, Q:I.25, Q:F.28, Q:I.36, S:L.34, O:L.12 H4X.64: 22 residues within 4Å: Chain M: G.8, M.9, L.12, I.15 Chain O: L.22, F.28, Q.29, I.36 Chain P: E.13, E.16, F.17, L.20, F.21, S.24, M.25, F.29 Chain Q: I.30, I.34, H.37, M.38 Ligands: BCL.62, BCL.68 12 PLIP interactions: 3 interactions with chain O, 8 interactions with chain P, 1 interactions with chain Q Hydrophobic interactions: O:L.22, O:F.28, O:I.36, P:F.17, P:F.17, P:L.20, P:F.21, P:F.21, P:M.25, P:F.29, P:F.29, Q:I.34 H4X.70: 20 residues within 4Å: Chain Q: T.9, M.12, F.15 Chain S: L.22, Q.29, I.36 Chain T: E.13, E.16, F.17, I.20, F.21, S.24, M.25, F.29 Chain U: G.33, L.34, H.37, M.38 Ligands: BCL.75, BCL.78 9 PLIP interactions: 4 interactions with chain T, 2 interactions with chain S, 1 interactions with chain U, 2 interactions with chain Q Hydrophobic interactions: T:F.17, T:I.20, T:M.25, T:F.29, S:L.22, S:I.36, U:L.34, Q:M.12, Q:F.15 H4X.80: 24 residues within 4Å: Chain U: G.8, M.9, K.11, L.12, I.15 Chain W: L.22, I.25, F.28, Q.29, L.32, L.35, I.36 Chain X: F.17, I.20, F.21, S.24, M.25, F.29 Chain Y: I.30, L.34, H.37, M.38 Ligands: BCL.85, BCL.88 12 PLIP interactions: 3 interactions with chain X, 6 interactions with chain W, 2 interactions with chain Y, 1 interactions with chain U Hydrophobic interactions: X:I.20, X:I.20, X:F.29, W:L.22, W:I.25, W:F.28, W:L.32, W:L.35, W:I.36, Y:I.30, Y:L.34, U:L.12 H4X.81: 17 residues within 4Å: Chain S: M.9, L.12 Chain U: L.22, F.28, Q.29, I.36 Chain V: E.16, F.17, I.20, F.21, S.24, M.25, F.29 Chain W: L.34, H.37 Ligands: BCL.79, BCL.84 13 PLIP interactions: 6 interactions with chain V, 3 interactions with chain U, 2 interactions with chain W, 2 interactions with chain S Hydrophobic interactions: V:I.20, V:I.20, V:I.20, V:F.21, V:M.25, V:F.29, U:L.22, U:F.28, U:I.36, W:L.34, W:H.37, S:L.12, S:L.12 H4X.92: 20 residues within 4Å: Chain 0: L.34, H.37 Chain W: M.9, K.11, L.12, M.14, I.15 Chain Y: L.22, I.25, F.28, Q.29 Chain Z: E.16, F.17, I.20, F.21, S.24, M.25, F.29 Ligands: BCL.90, BCL.95 13 PLIP interactions: 3 interactions with chain Y, 8 interactions with chain Z, 2 interactions with chain W Hydrophobic interactions: Y:L.22, Y:I.25, Y:F.28, Z:F.17, Z:F.17, Z:I.20, Z:I.20, Z:F.21, Z:F.21, Z:F.29, Z:F.29, W:L.12, W:I.15 H4X.97: 17 residues within 4Å: Chain 0: L.22, Q.29 Chain 1: E.16, F.17, I.20, F.21, S.24, M.25, F.29 Chain 2: H.37, M.38 Chain Y: M.9, K.11, L.12, I.15 Ligands: BCL.98, BCL.102 10 PLIP interactions: 1 interactions with chain Y, 8 interactions with chain 1, 1 interactions with chain 0 Hydrophobic interactions: Y:L.12, 1:F.17, 1:F.17, 1:I.20, 1:F.21, 1:F.21, 1:M.25, 1:F.29, 1:F.29, 0:L.22 H4X.104: 21 residues within 4Å: Chain 0: K.11, L.12, I.15 Chain 2: L.22, I.25, F.28, Q.29, L.35, I.36 Chain 3: E.13, E.16, F.17, L.20, F.21, S.24, M.25, F.29 Chain 4: L.34, H.37 Ligands: BCL.103, BCL.108 15 PLIP interactions: 5 interactions with chain 2, 3 interactions with chain 0, 6 interactions with chain 3, 1 interactions with chain 4 Hydrophobic interactions: 2:L.22, 2:I.25, 2:F.28, 2:L.35, 2:I.36, 0:K.11, 0:L.12, 0:I.15, 3:F.17, 3:L.20, 3:L.20, 3:M.25, 3:F.29, 3:F.29, 4:L.34 H4X.110: 22 residues within 4Å: Chain 4: K.11, L.12, I.15 Chain 6: L.22, F.28, Q.29, L.32, L.35, I.36 Chain 7: L.9, E.16, F.17, I.20, F.21, S.24, M.25, F.29 Chain 8: I.34, H.37, M.38 Ligands: BCL.116, BCL.122 13 PLIP interactions: 1 interactions with chain 4, 6 interactions with chain 7, 5 interactions with chain 6, 1 interactions with chain 8 Hydrophobic interactions: 4:L.12, 7:F.17, 7:F.17, 7:I.20, 7:F.21, 7:M.25, 7:F.29, 6:L.22, 6:F.28, 6:L.32, 6:L.35, 6:I.36, 8:I.34 H4X.112: 20 residues within 4Å: Chain 2: G.8, M.9, L.12, I.15 Chain 4: L.22, I.25, Q.29, L.35 Chain 5: E.13, E.16, F.17, I.20, F.21, S.24, M.25, F.29 Chain 6: L.34, H.37 Ligands: BCL.109, BCL.115 10 PLIP interactions: 6 interactions with chain 5, 3 interactions with chain 4, 1 interactions with chain 2 Hydrophobic interactions: 5:F.17, 5:F.17, 5:I.20, 5:I.20, 5:M.25, 5:F.29, 4:L.22, 4:I.25, 4:L.35, 2:L.12 H4X.117: 19 residues within 4Å: Chain 6: M.9, K.11, L.12, I.15 Chain 8: I.25, F.28, Q.29, I.36 Chain 9: E.13, F.17, I.20, F.21, S.24, M.25 Chain E: L.34, H.37, M.38 Ligands: BCL.25, BCL.123 10 PLIP interactions: 3 interactions with chain 8, 1 interactions with chain 6, 6 interactions with chain 9 Hydrophobic interactions: 8:I.25, 8:F.28, 8:I.36, 6:L.12, 9:E.13, 9:I.20, 9:I.20, 9:I.20, 9:F.21, 9:F.21

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

LMT.28: 7 residues within 4Å: Chain E: F.6, M.9, L.12 Chain F: H.18, M.22 Chain G: I.30 Chain H: L.27 Ligand excluded by PLIP LMT.30: 7 residues within 4Å: Chain 9: L.46 Chain F: L.38, S.39, Y.42 Chain G: Q.59 Ligands: BCL.25, BCL.123 Ligand excluded by PLIP LMT.36: 7 residues within 4Å: Chain F: L.46 Chain H: L.38, S.39, Y.42 Chain I: Q.59 Ligands: BCL.29, BCL.33 Ligand excluded by PLIP LMT.43: 7 residues within 4Å: Chain H: L.46 Chain J: L.38, S.39, Y.42 Chain K: Q.59 Ligands: BCL.34, BCL.39 Ligand excluded by PLIP LMT.48: 7 residues within 4Å: Chain J: L.46 Chain L: L.38, S.39, Y.42 Chain M: Q.59 Ligands: BCL.41, BCL.45 Ligand excluded by PLIP LMT.57: 7 residues within 4Å: Chain L: L.46 Chain N: L.38, S.39, Y.42 Chain O: Q.59 Ligands: BCL.47, BCL.53 Ligand excluded by PLIP LMT.65: 6 residues within 4Å: Chain N: L.46 Chain P: L.38, S.39, Y.42 Ligands: BCL.56, BCL.61 Ligand excluded by PLIP LMT.71: 7 residues within 4Å: Chain P: L.46 Chain R: L.38, S.39, Y.42 Chain S: Q.59 Ligands: BCL.62, BCL.68 Ligand excluded by PLIP LMT.76: 7 residues within 4Å: Chain R: L.46 Chain T: L.38, S.39, Y.42 Chain U: Q.59 Ligands: BCL.69, BCL.74 Ligand excluded by PLIP LMT.82: 8 residues within 4Å: Chain T: L.46 Chain V: L.38, S.39, Y.42, R.43 Chain W: Q.59 Ligands: BCL.75, BCL.78 Ligand excluded by PLIP LMT.86: 7 residues within 4Å: Chain V: L.46 Chain X: L.38, S.39, Y.42 Chain Y: Q.59 Ligands: BCL.79, BCL.84 Ligand excluded by PLIP LMT.93: 7 residues within 4Å: Chain 0: Q.59 Chain X: L.46 Chain Z: L.38, S.39, Y.42 Ligands: BCL.85, BCL.88 Ligand excluded by PLIP LMT.99: 7 residues within 4Å: Chain 1: L.38, S.39, Y.42 Chain 2: Q.59 Chain Z: L.46 Ligands: BCL.90, BCL.95 Ligand excluded by PLIP LMT.105: 7 residues within 4Å: Chain 1: L.46 Chain 3: L.38, S.39, Y.42 Chain 4: Q.59 Ligands: BCL.98, BCL.102 Ligand excluded by PLIP LMT.113: 7 residues within 4Å: Chain 3: L.46 Chain 5: L.38, S.39, Y.42 Chain 6: Q.59 Ligands: BCL.103, BCL.108 Ligand excluded by PLIP LMT.118: 5 residues within 4Å: Chain 6: F.6, I.25 Chain 7: H.18, M.22 Ligands: 8K6.15 Ligand excluded by PLIP LMT.119: 6 residues within 4Å: Chain 5: L.46 Chain 7: L.38, S.39, Y.42 Ligands: BCL.109, BCL.115 Ligand excluded by PLIP LMT.124: 7 residues within 4Å: Chain 7: L.46 Chain 9: L.38, S.39, Y.42 Chain E: Q.59 Ligands: BCL.116, BCL.122 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tani, K. et al., Cryo-EM structure of a Ca 2+ -bound photosynthetic LH1-RC complex containing multiple alpha beta-polypeptides. Nat Commun (2020)

Release Date

2020-10-07

Peptides

Photosynthetic reaction center cytochrome c subunit: A
L subunit of the reaction center: B
Reaction center protein M chain: C
Photosynthetic reaction center, subunit H, bacterial: D
Alpha subunit 1 of light-harvesting 1 complex: EGIKMO
Antenna complex alpha/beta subunit: FP3
Antenna complex alpha/beta subunit: HJLNRTVXZ1579
Antenna complex alpha/beta subunit: Q
LHC domain-containing protein: SUWY0246
Alpha subunit 2 of light-harvesting 1 complex: 8

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
L

C
M

D
H

E
A

G
D

I
F

K
I

M
K

O
O

F
B

P
P

3
4

H
E

J
G

L
J

N
N

R
R

T
T

V
V

X
X

Z
Z

1
2

5
6

7
8

9
0

Q
Q

S
S

U
U

W
W

Y
Y

0
1

2
3

4
5

6
7

8
9

Membrane

We predict this structure to be a membrane protein.
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Photosynthetic reaction center cytochrome c subunit

L subunit of the reaction center

Reaction center protein M chain

Photosynthetic reaction center, subunit H, bacterial

Alpha subunit 1 of light-harvesting 1 complex

Antenna complex alpha/beta subunit

Antenna complex alpha/beta subunit

Antenna complex alpha/beta subunit

LHC domain-containing protein

Alpha subunit 2 of light-harvesting 1 complex