SMTL ID : 7xxf.1

Structure of photosynthetic LH1-RC super-complex of Rhodopila globiformis

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-16-16-11-mer

Ligands

4 x HEC: HEME C(Non-covalent)

HEC.1: 20 residues within 4Å: Chain A: Y.80, H.81, N.82, V.83, Q.84, V.85, L.86, F.94, M.98, M.101, T.102, C.111, C.114, H.115, M.120, A.121, K.128, A.131, R.132 Ligands: HEC.2 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:Y.80, A:Y.80, A:V.83, A:F.94, A:M.98, A:K.128, A:A.131, A:R.132 Hydrogen bonds: A:H.81, A:N.82, A:N.82, A:Q.84, A:V.85, A:L.86 Salt bridges: A:R.132 pi-Stacking: A:F.94, A:H.115, A:H.115 Metal complexes: A:H.115 HEC.2: 24 residues within 4Å: Chain A: M.101, V.105, Y.113, Y.126, T.127, V.130, M.134, I.135, M.137, V.138, V.158, C.159, C.162, H.163, P.167, V.168, P.169, I.172, F.300, R.304, P.312, V.314, C.319 Ligands: HEC.1 13 PLIP interactions: 13 interactions with chain A, Hydrophobic interactions: A:V.105, A:V.130, A:M.134, A:I.135, A:V.138, A:I.172, A:P.312, A:V.314 Hydrogen bonds: A:Y.113, A:Y.126 Salt bridges: A:R.304, A:R.304 Metal complexes: A:H.163 HEC.3: 21 residues within 4Å: Chain A: I.219, R.220, V.221, Q.222, T.241, Y.242, M.245, F.248, T.249, N.255, C.256, C.259, H.260, W.265, E.266, R.275, A.278, W.279, R.283 Chain B: L.166 Ligands: HEC.4 27 PLIP interactions: 26 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:T.241, A:Y.242, A:M.245, A:F.248, A:T.249, A:W.265, A:W.265, A:W.265, A:W.265, A:R.275, A:A.278, B:L.166 Hydrogen bonds: A:V.221, A:Q.222 Water bridges: A:R.220, A:R.220, A:E.266, A:E.266, A:R.275, A:R.283, A:R.283, A:R.283 Salt bridges: A:R.220, A:R.283 pi-Stacking: A:F.248 pi-Cation interactions: A:R.275 Metal complexes: A:H.260 HEC.4: 27 residues within 4Å: Chain A: I.141, H.148, V.149, A.151, N.152, A.153, T.155, G.156, V.157, L.252, Y.258, Q.274, T.277, A.278, G.281, I.282, M.284, V.285, V.314, W.315, C.316, C.319, H.320, Y.324, K.325, P.326 Ligands: HEC.3 24 PLIP interactions: 24 interactions with chain A, Hydrophobic interactions: A:I.141, A:V.149, A:V.149, A:T.155, A:V.157, A:L.252, A:T.277, A:A.278, A:I.282, A:V.314, A:K.325, A:P.326 Hydrogen bonds: A:A.151, A:N.152, A:N.152, A:A.153, A:T.155, A:T.155, A:Q.274 Water bridges: A:N.152 Salt bridges: A:K.325, A:K.325 Metal complexes: A:H.148, A:H.320

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

PGV.5: 19 residues within 4Å: Chain 0: V.23, L.26, F.30 Chain A: A.20, V.23, F.24, G.25, F.27, E.28, R.29, N.49, R.51 Chain B: I.250, I.251, F.255 Ligands: PGV.6, PGV.7, U10.14, LMT.76 Ligand excluded by PLIP PGV.6: 15 residues within 4Å: Chain A: A.18, G.21, V.22, G.25 Chain B: W.266, W.267, M.272 Chain Y: L.26, L.27, F.30, I.31, S.34 Ligands: PGV.5, LMT.20, LMT.76 Ligand excluded by PLIP PGV.7: 15 residues within 4Å: Chain 0: L.27, I.31, S.34, T.35 Chain 2: F.30, L.33, S.34, T.35, D.36, N.39 Chain A: F.24, R.29 Ligands: PGV.5, LMT.81, PGV.86 Ligand excluded by PLIP PGV.11: 17 residues within 4Å: Chain B: I.50, V.51, T.59, W.60, N.61, I.62, I.65, Y.149, G.150 Chain E: L.27, I.31 Chain G: F.30, L.33, S.34, N.39 Ligands: PGV.19, I7D.39 Ligand excluded by PLIP PGV.12: 17 residues within 4Å: Chain B: A.102, L.116, H.117, F.120, S.123, R.232, V.235, F.236 Chain C: P.2, E.3, Q.5, V.7, I.43, L.224 Chain D: H.246 Ligands: CDL.27, PGV.84 Ligand excluded by PLIP PGV.17: 12 residues within 4Å: Chain B: I.221, G.222, Y.223 Chain C: T.31, G.32, K.33, F.35, I.48, G.49, I.51 Chain S: R.12 Ligands: BPH.24 Ligand excluded by PLIP PGV.18: 14 residues within 4Å: Chain 8: F.8, R.12, A.16 Chain B: A.2, W.26, V.27, G.28 Chain D: L.51, P.94 Chain E: R.11, R.12, V.15, A.16 Ligands: CDL.34 Ligand excluded by PLIP PGV.19: 10 residues within 4Å: Chain B: N.61, W.63, R.64 Chain G: L.26, L.27, F.30, S.34 Ligands: PGV.11, PGV.33, PGV.45 Ligand excluded by PLIP PGV.30: 24 residues within 4Å: Chain C: Y.102, G.103, L.104, G.105, F.120, A.124, L.127, F.162, I.166, L.167 Chain M: L.27, I.31, S.34 Chain O: V.23, L.26, L.27, F.30, L.33, S.34, N.39 Ligands: I7D.26, PEE.29, PGV.53, I7D.54 Ligand excluded by PLIP PGV.31: 9 residues within 4Å: Chain C: T.31, G.32, I.62 Chain Q: R.12, A.16 Chain S: R.11, R.12, V.19 Ligands: BPH.24 Ligand excluded by PLIP PGV.32: 7 residues within 4Å: Chain B: K.203 Chain D: L.22, G.26, I.29, Y.30 Chain I: V.19 Ligands: CDL.28 Ligand excluded by PLIP PGV.33: 14 residues within 4Å: Chain B: N.61, W.63 Chain C: M.203, H.301, G.302, I.303 Chain D: Q.14, L.17, Y.18, W.21 Ligands: PGV.19, BCL.22, CDL.34, PGV.45 Ligand excluded by PLIP PGV.41: 9 residues within 4Å: Chain D: M.33, E.52, F.54, P.56, M.57, A.59, P.60 Chain G: R.12 Chain I: R.12 Ligand excluded by PLIP PGV.45: 16 residues within 4Å: Chain D: Q.9, I.10, Q.14, Y.18, L.22 Chain G: V.23, L.27 Chain I: F.22, L.26, L.27, F.30, S.34, N.39, D.42 Ligands: PGV.19, PGV.33 Ligand excluded by PLIP PGV.53: 11 residues within 4Å: Chain C: L.285, T.289, V.290 Chain D: I.3 Chain M: F.30, L.33, S.34, T.35, N.39 Ligands: PGV.30, LMT.49 Ligand excluded by PLIP PGV.84: 8 residues within 4Å: Chain 4: R.12 Chain B: F.35, F.42, L.103, R.110, L.116 Chain D: I.257 Ligands: PGV.12 Ligand excluded by PLIP PGV.86: 9 residues within 4Å: Chain 2: L.27, F.30, I.31 Chain 4: F.30, S.34 Ligands: PGV.7, LMT.15, LMT.81, PGV.87 Ligand excluded by PLIP PGV.87: 15 residues within 4Å: Chain 4: F.30, S.34 Chain 6: F.30, L.33, S.34, N.39 Chain B: Y.74, G.75, L.76, A.77, F.78, V.134, W.143 Ligands: LMT.15, PGV.86 Ligand excluded by PLIP

36 x BCL: BACTERIOCHLOROPHYLL A(Non-covalent)

BCL.8: 26 residues within 4Å: Chain B: F.98, A.125, A.128, Y.129, L.132, W.157, V.158, T.161, Y.163, F.168, H.169, H.174, A.177, I.178, F.181, F.182, S.245, A.246, C.248, I.249 Chain C: T.186, Y.210 Ligands: BPH.9, BCL.16, BCL.22, BCL.23 18 PLIP interactions: 17 interactions with chain B, 1 interactions with chain C, Hydrophobic interactions: B:F.98, B:F.98, B:A.128, B:L.132, B:V.158, B:T.161, B:Y.163, B:F.168, B:F.168, B:A.177, B:I.178, B:F.181, B:F.181, B:F.182, B:I.249, C:Y.210 Hydrogen bonds: B:S.245 Metal complexes: B:H.174 BCL.16: 20 residues within 4Å: Chain B: H.169, M.175, I.178, S.179, F.182, T.183, L.186 Chain C: F.90, Y.157, L.160, I.179, H.182, L.183, T.186 Ligands: BCL.8, U10.10, U10.14, BCL.23, BPH.24, I7D.26 9 PLIP interactions: 5 interactions with chain C, 4 interactions with chain B, Hydrophobic interactions: C:F.90, C:Y.157, C:L.160, C:L.183, B:I.178, B:I.178, B:L.186 Metal complexes: C:H.182 pi-Stacking: B:F.182 BCL.22: 22 residues within 4Å: Chain B: I.50, F.98, Y.129, L.132, F.147, I.151, L.152, H.154, L.155, V.158 Chain C: F.197, M.203, I.206, A.207, Y.210, G.211 Ligands: BCL.8, BPH.9, BCL.23, MQ9.25, PGV.33, CDL.34 13 PLIP interactions: 8 interactions with chain B, 5 interactions with chain C, Hydrophobic interactions: B:I.50, B:F.98, B:Y.129, B:L.132, B:F.147, B:L.155, B:V.158, C:F.197, C:I.206, C:I.206, C:Y.210 Metal complexes: B:H.154 pi-Stacking: C:Y.210 BCL.23: 29 residues within 4Å: Chain B: V.158, Y.163, H.169, F.182 Chain C: I.126, A.153, L.156, Y.157, L.160, W.185, T.186, A.187, F.189, S.190, L.196, F.197, H.202, S.205, I.206, L.209, Y.210, V.276, G.280, I.284 Ligands: BCL.8, BCL.16, BCL.22, BPH.24, I7D.26 15 PLIP interactions: 14 interactions with chain C, 1 interactions with chain B, Hydrophobic interactions: C:I.126, C:L.156, C:Y.157, C:W.185, C:T.186, C:F.189, C:L.196, C:F.197, C:F.197, C:I.206, C:L.209, C:Y.210, C:V.276 Metal complexes: C:H.202 pi-Cation interactions: B:H.169 BCL.36: 21 residues within 4Å: Chain 8: F.20, I.28 Chain 9: L.48 Chain E: L.14, G.18, V.19, L.21, F.22, A.25, H.29, L.32, W.40 Chain F: F.30, I.33, A.34, A.37, H.38 Ligands: I7D.37, BCL.38, BCL.98 Chain a: I.8 15 PLIP interactions: 8 interactions with chain E, 2 interactions with chain F, 1 interactions with chain a, 3 interactions with chain 8, 1 interactions with chain 9, Hydrophobic interactions: E:L.21, E:L.32, E:W.40, E:W.40, E:W.40, E:W.40, F:F.30, F:A.37, a:I.8, 8:F.20, 8:I.28, 8:I.28, 9:L.48 pi-Stacking: E:H.29 Metal complexes: E:H.29 BCL.38: 27 residues within 4Å: Chain E: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain F: F.27, F.30, A.34, H.38, W.47 Chain G: L.41 Chain H: S.26, V.29, F.30 Ligands: BCL.36, I7D.39, BCL.40, I7D.42 Chain b: W.5, I.8, L.9, P.12, A.13, I.16, L.19 18 PLIP interactions: 7 interactions with chain F, 2 interactions with chain E, 3 interactions with chain H, 5 interactions with chain b, 1 interactions with chain G, Hydrophobic interactions: F:F.27, F:F.30, F:A.34, F:W.47, F:W.47, F:W.47, E:I.28, E:F.38, H:V.29, H:F.30, H:F.30, b:I.8, b:I.8, b:L.9, b:I.16, b:L.19, G:L.41 Metal complexes: F:H.38 BCL.40: 23 residues within 4Å: Chain E: I.13, F.20, I.28 Chain F: L.48 Chain G: L.14, G.18, L.21, F.22, A.25, H.29, L.32, W.40 Chain H: F.30, I.33, A.34, A.37, H.38 Ligands: CDL.35, BCL.38, I7D.39, I7D.42, BCL.43 Chain b: I.8 18 PLIP interactions: 4 interactions with chain E, 1 interactions with chain H, 2 interactions with chain b, 10 interactions with chain G, 1 interactions with chain F, Hydrophobic interactions: E:I.13, E:F.20, E:I.28, E:I.28, H:F.30, b:I.8, b:I.8, G:L.21, G:L.21, G:F.22, G:L.32, G:W.40, G:W.40, G:W.40, G:W.40, F:L.48 pi-Cation interactions: G:H.29 Metal complexes: G:H.29 BCL.43: 25 residues within 4Å: Chain G: M.1, L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain H: F.27, F.30, T.31, A.34, H.38, W.47 Chain J: F.30 Ligands: BCL.40, I7D.42, BCL.44, I7D.47 Chain c: W.5, I.8, L.9, P.12, A.13, I.16 21 PLIP interactions: 8 interactions with chain H, 8 interactions with chain c, 2 interactions with chain J, 3 interactions with chain G, Hydrophobic interactions: H:F.27, H:F.30, H:A.34, H:W.47, H:W.47, H:W.47, H:W.47, c:I.8, c:I.8, c:L.9, c:P.12, c:P.12, c:A.13, c:I.16, c:I.16, J:F.30, J:F.30, G:I.28, G:L.32, G:F.38 Metal complexes: H:H.38 BCL.44: 21 residues within 4Å: Chain G: F.20, I.28 Chain H: L.48 Chain I: L.14, G.18, V.19, L.21, F.22, A.25, H.29, L.32, W.40 Chain J: F.30, I.33, A.34, A.37, H.38 Ligands: I7D.42, BCL.43, BCL.46 Chain c: I.8 18 PLIP interactions: 11 interactions with chain I, 1 interactions with chain H, 3 interactions with chain G, 1 interactions with chain c, 2 interactions with chain J, Hydrophobic interactions: I:V.19, I:L.21, I:L.21, I:A.25, I:L.32, I:W.40, I:W.40, I:W.40, I:W.40, H:L.48, G:F.20, G:I.28, G:I.28, c:I.8, J:F.30, J:A.37 pi-Cation interactions: I:H.29 Metal complexes: I:H.29 BCL.46: 26 residues within 4Å: Chain I: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain J: F.27, F.30, T.31, A.34, H.38, W.47 Chain L: S.26, F.30 Ligands: BCL.44, I7D.47, BCL.48, I7D.51 Chain d: W.5, I.8, L.9, P.12, A.13, I.16, L.19 20 PLIP interactions: 7 interactions with chain d, 9 interactions with chain J, 2 interactions with chain L, 2 interactions with chain I, Hydrophobic interactions: d:I.8, d:I.8, d:L.9, d:L.9, d:A.13, d:L.19, J:F.27, J:F.30, J:A.34, J:W.47, J:W.47, J:W.47, J:W.47, J:W.47, L:F.30, L:F.30, I:I.28, I:F.38 pi-Stacking: d:W.5 Metal complexes: J:H.38 BCL.48: 23 residues within 4Å: Chain I: F.8, I.28 Chain J: L.48 Chain K: L.14, L.17, G.18, V.19, L.21, F.22, A.25, H.29, L.32, W.40 Chain L: F.30, I.33, A.34, A.37, H.38 Ligands: BCL.46, I7D.47, BCL.50, I7D.51 Chain d: I.8 16 PLIP interactions: 1 interactions with chain J, 9 interactions with chain K, 2 interactions with chain L, 1 interactions with chain d, 3 interactions with chain I, Hydrophobic interactions: J:L.48, K:L.14, K:L.17, K:L.21, K:L.32, K:W.40, K:W.40, K:W.40, K:W.40, L:F.30, L:A.37, d:I.8, I:F.8, I:I.28, I:I.28 Metal complexes: K:H.29 BCL.50: 24 residues within 4Å: Chain K: M.1, L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain L: F.27, F.30, A.34, H.38, W.47 Chain N: V.29, F.30 Ligands: BCL.48, I7D.51, BCL.52 Chain e: W.5, I.8, L.9, P.12, I.16, L.19 22 PLIP interactions: 9 interactions with chain e, 7 interactions with chain L, 3 interactions with chain K, 3 interactions with chain N, Hydrophobic interactions: e:I.8, e:I.8, e:L.9, e:L.9, e:P.12, e:I.16, e:I.16, e:L.19, L:F.27, L:F.30, L:A.34, L:W.47, L:W.47, L:W.47, K:I.28, K:L.32, K:F.38, N:V.29, N:F.30, N:F.30 pi-Stacking: e:W.5 Metal complexes: L:H.38 BCL.52: 21 residues within 4Å: Chain K: I.28 Chain L: L.48 Chain M: L.14, V.15, G.18, L.21, F.22, A.25, H.29, L.32, W.40 Chain N: F.30, I.33, A.34, A.37, H.38 Ligands: BCL.50, I7D.51, I7D.54, BCL.55 Chain e: I.8 14 PLIP interactions: 9 interactions with chain M, 1 interactions with chain L, 1 interactions with chain N, 2 interactions with chain K, 1 interactions with chain e, Hydrophobic interactions: M:V.15, M:L.21, M:F.22, M:L.32, M:W.40, M:W.40, M:W.40, M:W.40, L:L.48, N:F.30, K:I.28, K:I.28, e:I.8 Metal complexes: M:H.29 BCL.55: 28 residues within 4Å: Chain M: M.1, L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain N: F.27, F.30, T.31, A.34, H.38, W.47 Chain O: W.40, L.41 Chain P: S.26, F.30, I.33 Ligands: BCL.52, I7D.54, BCL.56, I7D.58 Chain f: W.5, I.8, L.9, P.12, A.13 18 PLIP interactions: 2 interactions with chain M, 2 interactions with chain P, 9 interactions with chain N, 1 interactions with chain O, 4 interactions with chain f, Hydrophobic interactions: M:I.28, M:F.38, P:F.30, P:I.33, N:F.27, N:F.30, N:A.34, N:W.47, N:W.47, N:W.47, N:W.47, N:W.47, O:L.41, f:I.8, f:I.8, f:L.9, f:P.12 Metal complexes: N:H.38 BCL.56: 20 residues within 4Å: Chain M: I.28 Chain N: L.48 Chain O: L.14, V.15, G.18, V.19, L.21, F.22, A.25, H.29, W.40 Chain P: F.30, A.34, A.37, H.38, W.44 Ligands: I7D.54, BCL.55, BCL.57 Chain f: I.8 14 PLIP interactions: 1 interactions with chain N, 7 interactions with chain O, 2 interactions with chain P, 2 interactions with chain M, 2 interactions with chain f, Hydrophobic interactions: N:L.48, O:L.21, O:F.22, O:W.40, O:W.40, O:W.40, O:W.40, P:A.37, P:W.44, M:I.28, M:I.28, f:I.8, f:I.8 Metal complexes: O:H.29 BCL.57: 28 residues within 4Å: Chain O: M.4, L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain P: F.27, F.30, T.31, A.34, H.38, W.47 Chain Q: L.41 Chain R: V.29, F.30 Ligands: BCL.56, I7D.58, BCL.59, I7D.60 Chain g: W.5, I.8, L.9, P.12, A.13, I.16, L.19 21 PLIP interactions: 6 interactions with chain g, 3 interactions with chain O, 8 interactions with chain P, 3 interactions with chain R, 1 interactions with chain Q, Hydrophobic interactions: g:I.8, g:I.8, g:P.12, g:A.13, g:I.16, g:L.19, O:I.28, O:L.32, O:F.38, P:F.27, P:F.30, P:A.34, P:W.47, P:W.47, P:W.47, P:W.47, R:V.29, R:F.30, R:F.30, Q:L.41 Metal complexes: P:H.38 BCL.59: 21 residues within 4Å: Chain O: F.20, I.28 Chain P: L.48 Chain Q: G.18, V.19, L.21, F.22, A.25, H.29, L.32, W.40 Chain R: F.30, I.33, A.34, A.37, H.38 Ligands: BCL.57, I7D.58, I7D.60, BCL.61 Chain g: I.8 17 PLIP interactions: 9 interactions with chain Q, 2 interactions with chain R, 3 interactions with chain O, 2 interactions with chain g, 1 interactions with chain P, Hydrophobic interactions: Q:V.19, Q:L.21, Q:L.32, Q:W.40, Q:W.40, Q:W.40, Q:W.40, R:F.30, R:A.37, O:F.20, O:I.28, O:I.28, g:I.8, g:I.8, P:L.48 pi-Stacking: Q:H.29 Metal complexes: Q:H.29 BCL.61: 27 residues within 4Å: Chain Q: M.1, L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain R: F.30, T.31, A.34, H.38, W.47 Chain S: L.41 Chain T: V.29, F.30 Ligands: BCL.59, I7D.60, BCL.62, I7D.63 Chain h: W.5, I.8, L.9, P.12, A.13, I.16, L.19 17 PLIP interactions: 3 interactions with chain T, 3 interactions with chain Q, 4 interactions with chain h, 6 interactions with chain R, 1 interactions with chain S, Hydrophobic interactions: T:V.29, T:F.30, T:F.30, Q:I.28, Q:L.32, Q:F.38, h:I.8, h:I.8, h:A.13, h:L.19, R:F.30, R:A.34, R:W.47, R:W.47, R:W.47, S:L.41 Metal complexes: R:H.38 BCL.62: 23 residues within 4Å: Chain Q: F.8, I.28 Chain R: L.48 Chain S: L.14, L.17, G.18, V.19, L.21, F.22, A.25, H.29, L.32, W.40 Chain T: F.30, I.33, A.34, A.37, H.38 Ligands: I7D.60, BCL.61, I7D.63, BCL.64 Chain h: I.8 16 PLIP interactions: 9 interactions with chain S, 2 interactions with chain T, 3 interactions with chain Q, 1 interactions with chain R, 1 interactions with chain h, Hydrophobic interactions: S:L.17, S:L.21, S:L.32, S:W.40, S:W.40, S:W.40, S:W.40, T:F.30, T:A.37, Q:F.8, Q:I.28, Q:I.28, R:L.48, h:I.8 pi-Cation interactions: S:H.29 Metal complexes: S:H.29 BCL.64: 22 residues within 4Å: Chain S: M.1, L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain T: F.27, F.30, T.31, A.34, H.38, W.47 Chain U: L.41 Chain V: S.26, V.29, F.30 Ligands: BCL.62, I7D.63, CDL.65, BCL.66 15 PLIP interactions: 4 interactions with chain V, 7 interactions with chain T, 1 interactions with chain U, 3 interactions with chain S, Hydrophobic interactions: V:V.29, V:V.29, V:F.30, V:F.30, T:F.27, T:F.30, T:A.34, T:W.47, T:W.47, T:W.47, U:L.41, S:I.28, S:L.32, S:F.38 Metal complexes: T:H.38 BCL.66: 22 residues within 4Å: Chain S: I.13, F.20, I.28 Chain T: L.48 Chain U: L.14, V.15, G.18, L.21, F.22, A.25, H.29, L.32, W.40 Chain V: F.30, I.33, A.34, A.37, H.38 Ligands: I7D.63, BCL.64, CDL.65, BCL.68 17 PLIP interactions: 10 interactions with chain U, 4 interactions with chain S, 2 interactions with chain V, 1 interactions with chain T, Hydrophobic interactions: U:L.14, U:V.15, U:L.21, U:L.32, U:W.40, U:W.40, U:W.40, U:W.40, S:I.13, S:F.20, S:I.28, S:I.28, V:F.30, V:A.37, T:L.48 pi-Stacking: U:H.29 Metal complexes: U:H.29 BCL.68: 28 residues within 4Å: Chain U: M.1, L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain V: F.27, F.30, T.31, A.34, H.38, W.47 Chain W: L.41 Chain X: S.26, F.30 Ligands: BCL.66, I7D.67, BCL.69, I7D.70 Chain i: W.5, I.8, L.9, P.12, A.13, I.16, L.19 20 PLIP interactions: 8 interactions with chain V, 7 interactions with chain i, 1 interactions with chain W, 2 interactions with chain U, 2 interactions with chain X, Hydrophobic interactions: V:F.27, V:F.30, V:A.34, V:W.47, V:W.47, V:W.47, V:W.47, i:I.8, i:I.8, i:L.9, i:P.12, i:A.13, i:I.16, i:L.19, W:L.41, U:I.28, U:F.38, X:F.30, X:F.30 Metal complexes: V:H.38 BCL.69: 22 residues within 4Å: Chain U: F.8, I.28 Chain V: L.48 Chain W: L.14, G.18, V.19, L.21, F.22, A.25, H.29, L.32, W.40 Chain X: F.30, I.33, A.34, A.37, H.38 Ligands: I7D.67, BCL.68, I7D.70, BCL.71 Chain i: I.8 16 PLIP interactions: 9 interactions with chain W, 3 interactions with chain U, 1 interactions with chain i, 2 interactions with chain X, 1 interactions with chain V, Hydrophobic interactions: W:V.19, W:L.21, W:L.32, W:W.40, W:W.40, W:W.40, W:W.40, U:F.8, U:I.28, U:I.28, i:I.8, X:F.30, X:A.37, V:L.48 pi-Stacking: W:H.29 Metal complexes: W:H.29 BCL.71: 29 residues within 4Å: Chain W: M.1, L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain X: F.27, F.30, T.31, A.34, H.38, A.41, W.47 Chain Y: L.41 Chain Z: S.26, V.29, F.30 Ligands: BCL.69, I7D.70, BCL.72 Chain j: W.5, I.8, L.9, P.12, A.13, I.16, L.19 22 PLIP interactions: 7 interactions with chain j, 8 interactions with chain X, 1 interactions with chain Y, 3 interactions with chain Z, 3 interactions with chain W, Hydrophobic interactions: j:I.8, j:I.8, j:L.9, j:P.12, j:P.12, j:A.13, j:L.19, X:F.27, X:F.30, X:A.34, X:A.41, X:W.47, X:W.47, X:W.47, Y:L.41, Z:V.29, Z:F.30, Z:F.30, W:I.28, W:L.32, W:F.38 Metal complexes: X:H.38 BCL.72: 20 residues within 4Å: Chain W: M.4, I.28 Chain X: L.48 Chain Y: L.14, G.18, V.19, L.21, F.22, A.25, H.29, L.32, W.40 Chain Z: F.30, A.34, A.37, H.38 Ligands: I7D.70, BCL.71, BCL.73 Chain j: I.8 13 PLIP interactions: 1 interactions with chain X, 1 interactions with chain j, 1 interactions with chain Z, 8 interactions with chain Y, 2 interactions with chain W, Hydrophobic interactions: X:L.48, j:I.8, Z:F.30, Y:V.19, Y:L.32, Y:W.40, Y:W.40, Y:W.40, Y:W.40, W:I.28, W:I.28 pi-Stacking: Y:H.29 Metal complexes: Y:H.29 BCL.73: 21 residues within 4Å: Chain 1: S.26, F.30 Chain Y: M.1, L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain Z: F.27, F.30, T.31, A.34, H.38, A.41, W.47 Ligands: BCL.72, I7D.74, BCL.75, CDL.77 14 PLIP interactions: 9 interactions with chain Z, 2 interactions with chain Y, 3 interactions with chain 1, Hydrophobic interactions: Z:F.27, Z:F.30, Z:A.34, Z:A.41, Z:W.47, Z:W.47, Z:W.47, Z:W.47, Y:I.28, Y:F.38, 1:F.30, 1:F.30, 1:F.30 Metal complexes: Z:H.38 BCL.75: 21 residues within 4Å: Chain 0: L.14, G.18, V.19, L.21, A.25, H.29, L.32, W.40 Chain 1: F.30, I.33, A.34, A.37, H.38 Chain Y: I.13, F.20, I.28 Chain Z: L.48 Ligands: BCL.73, I7D.74, CDL.77, BCL.78 15 PLIP interactions: 4 interactions with chain Y, 8 interactions with chain 0, 2 interactions with chain 1, 1 interactions with chain Z, Hydrophobic interactions: Y:I.13, Y:F.20, Y:I.28, Y:I.28, 0:L.14, 0:L.21, 0:L.32, 0:W.40, 0:W.40, 0:W.40, 0:W.40, 1:F.30, 1:A.37, Z:L.48 Metal complexes: 0:H.29 BCL.78: 24 residues within 4Å: Chain 0: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain 1: F.27, F.30, A.34, H.38, W.47 Chain 3: V.29, F.30 Ligands: BCL.75, I7D.79, BCL.80, I7D.82 Chain k: W.5, I.8, L.9, P.12, A.13, I.16 20 PLIP interactions: 3 interactions with chain 3, 6 interactions with chain k, 8 interactions with chain 1, 3 interactions with chain 0, Hydrophobic interactions: 3:V.29, 3:F.30, 3:F.30, k:I.8, k:I.8, k:L.9, k:A.13, k:I.16, k:I.16, 1:F.27, 1:F.30, 1:A.34, 1:W.47, 1:W.47, 1:W.47, 1:W.47, 0:I.28, 0:L.32, 0:F.38 Metal complexes: 1:H.38 BCL.80: 20 residues within 4Å: Chain 0: I.28 Chain 1: L.48 Chain 2: L.14, V.15, G.18, L.21, F.22, A.25, H.29, L.32, W.40 Chain 3: F.30, I.33, A.34, A.37, H.38 Ligands: BCL.78, I7D.79, BCL.83 Chain k: I.8 15 PLIP interactions: 2 interactions with chain 3, 9 interactions with chain 2, 1 interactions with chain 1, 1 interactions with chain k, 2 interactions with chain 0, Hydrophobic interactions: 3:F.30, 3:A.37, 2:V.15, 2:L.21, 2:F.22, 2:L.32, 2:W.40, 2:W.40, 2:W.40, 2:W.40, 1:L.48, k:I.8, 0:I.28, 0:I.28 Metal complexes: 2:H.29 BCL.83: 23 residues within 4Å: Chain 2: M.1, L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain 3: F.27, F.30, T.31, A.34, H.38, W.47 Chain 4: W.40, L.41 Chain 5: S.26, V.29, F.30 Ligands: BCL.80, I7D.82, BCL.85, CDL.88 14 PLIP interactions: 1 interactions with chain 4, 9 interactions with chain 3, 2 interactions with chain 2, 2 interactions with chain 5, Hydrophobic interactions: 4:L.41, 3:F.27, 3:F.30, 3:A.34, 3:W.47, 3:W.47, 3:W.47, 3:W.47, 3:W.47, 2:I.28, 2:F.38, 5:V.29, 5:F.30 Metal complexes: 3:H.38 BCL.85: 20 residues within 4Å: Chain 2: I.13, I.28 Chain 4: L.14, V.15, G.18, L.21, F.22, A.25, H.29, L.32, W.40 Chain 5: F.30, I.33, A.34, A.37, H.38 Ligands: I7D.82, BCL.83, CDL.88, BCL.90 13 PLIP interactions: 8 interactions with chain 4, 3 interactions with chain 2, 2 interactions with chain 5, Hydrophobic interactions: 4:L.21, 4:A.25, 4:L.32, 4:W.40, 4:W.40, 4:W.40, 4:W.40, 2:I.13, 2:I.28, 2:I.28, 5:F.30, 5:A.37 Metal complexes: 4:H.29 BCL.90: 24 residues within 4Å: Chain 4: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain 5: F.27, F.30, T.31, A.34, H.38, W.47 Chain 6: W.40, L.41 Chain 7: T.25, S.26, F.30, I.33 Ligands: BCL.85, I7D.89, CDL.91, BCL.93, I7D.94 15 PLIP interactions: 3 interactions with chain 4, 8 interactions with chain 5, 3 interactions with chain 7, 1 interactions with chain 6, Hydrophobic interactions: 4:I.28, 4:L.32, 4:F.38, 5:F.27, 5:F.30, 5:A.34, 5:W.47, 5:W.47, 5:W.47, 5:W.47, 7:T.25, 7:F.30, 7:I.33, 6:L.41 Metal complexes: 5:H.38 BCL.93: 23 residues within 4Å: Chain 4: W.5, I.13, A.16, F.20, I.28 Chain 5: L.48 Chain 6: V.15, G.18, V.19, L.21, F.22, A.25, H.29, L.32, W.40 Chain 7: F.30, I.33, A.34, H.38 Ligands: I7D.89, BCL.90, CDL.91, BCL.95 18 PLIP interactions: 9 interactions with chain 6, 8 interactions with chain 4, 1 interactions with chain 5, Hydrophobic interactions: 6:V.15, 6:V.19, 6:F.22, 6:L.32, 6:W.40, 6:W.40, 6:W.40, 6:W.40, 4:W.5, 4:I.13, 4:A.16, 4:F.20, 4:F.20, 4:F.20, 4:I.28, 4:I.28, 5:L.48 Metal complexes: 6:H.29 BCL.95: 23 residues within 4Å: Chain 6: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain 7: F.30, T.31, A.34, H.38, W.47 Chain 8: W.40, L.41 Chain 9: T.25, S.26, V.29, F.30, I.33 Ligands: BCL.93, I7D.94, BCL.96, CDL.97 14 PLIP interactions: 5 interactions with chain 9, 2 interactions with chain 6, 6 interactions with chain 7, 1 interactions with chain 8, Hydrophobic interactions: 9:V.29, 9:V.29, 9:F.30, 9:F.30, 9:I.33, 6:I.28, 6:F.38, 7:F.30, 7:A.34, 7:W.47, 7:W.47, 7:W.47, 8:L.41 Metal complexes: 7:H.38 BCL.96: 19 residues within 4Å: Chain 6: M.1, I.28 Chain 7: L.48 Chain 8: L.21, A.25, H.29, L.32, W.40 Chain 9: F.30, I.33, A.34, A.37, H.38 Ligands: I7D.37, U10.92, I7D.94, BCL.95, CDL.97, BCL.98 14 PLIP interactions: 2 interactions with chain 9, 2 interactions with chain 6, 9 interactions with chain 8, 1 interactions with chain 7, Hydrophobic interactions: 9:F.30, 9:A.37, 6:I.28, 6:I.28, 8:L.21, 8:L.21, 8:L.32, 8:W.40, 8:W.40, 8:W.40, 8:W.40, 7:L.48 pi-Stacking: 8:H.29 Metal complexes: 8:H.29 BCL.98: 26 residues within 4Å: Chain 8: M.1, M.4, L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain 9: F.27, F.30, T.31, A.34, H.38, W.47 Chain F: S.26, F.30 Ligands: BCL.36, I7D.39, BCL.96 Chain a: W.5, I.8, L.9, P.12, A.13, I.16 17 PLIP interactions: 7 interactions with chain 9, 5 interactions with chain a, 3 interactions with chain 8, 2 interactions with chain F, Hydrophobic interactions: 9:F.27, 9:F.30, 9:A.34, 9:W.47, 9:W.47, 9:W.47, a:I.8, a:I.8, a:L.9, a:P.12, a:I.16, 8:I.28, 8:L.32, 8:F.38, F:F.30, F:F.30 Metal complexes: 9:H.38

2 x BPH: BACTERIOPHEOPHYTIN A(Non-covalent)

BPH.9: 30 residues within 4Å: Chain B: F.42, A.43, I.50, A.94, A.97, F.98, W.101, Q.105, I.118, A.121, F.122, A.125, Y.129, Y.149, G.150, I.151, H.154, F.181, A.238, A.242 Chain C: Y.210, A.213, V.214, A.217, M.218, W.252, M.256 Ligands: BCL.8, BCL.22, MQ9.25 18 PLIP interactions: 15 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:A.43, B:I.50, B:A.94, B:A.97, B:A.121, B:F.122, B:F.122, B:F.122, B:A.125, B:Y.129, B:Y.149, B:Y.149, B:F.181, B:A.242, C:Y.210, C:A.213, C:V.214 Hydrogen bonds: B:Q.105 BPH.24: 27 residues within 4Å: Chain B: F.182, A.185, L.186, A.189, L.190 Chain C: S.60, I.61, I.62, G.64, F.65, I.68, L.122, S.125, I.126, W.129, M.133, T.146, A.149, F.150, A.153, A.273, T.277 Chain S: V.19 Ligands: BCL.16, PGV.17, BCL.23, PGV.31 17 PLIP interactions: 14 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:I.61, C:I.62, C:F.65, C:F.65, C:F.65, C:F.65, C:I.68, C:L.122, C:W.129, C:A.149, C:F.150, C:F.150, C:T.277, B:F.182, B:A.185, B:A.189 pi-Stacking: C:F.150

4 x U10: UBIQUINONE-10(Non-covalent)

U10.10: 20 residues within 4Å: Chain B: S.179, F.180, T.183, L.190, H.191, L.194, I.195, E.213, N.214, F.217, Y.223, S.224, I.225, G.226, T.227, I.230, L.233, L.237 Ligands: U10.14, BCL.16 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:F.180, B:L.190, B:L.194, B:F.217, B:F.217, B:I.225, B:I.230, B:L.233, B:L.237 Hydrogen bonds: B:I.225, B:G.226 U10.13: 6 residues within 4Å: Chain B: F.124, F.236, V.239, S.240, F.243, W.244 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:F.243, B:F.243 U10.14: 12 residues within 4Å: Chain A: V.23, F.27 Chain B: P.172, M.175, I.176, S.179, F.243, W.244, W.264 Ligands: PGV.5, U10.10, BCL.16 10 PLIP interactions: 7 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:P.172, B:M.175, B:F.243, B:W.244, B:W.244, B:W.264, A:V.23, A:F.27, A:F.27 Hydrogen bonds: B:S.179 U10.92: 32 residues within 4Å: Chain 6: M.4, F.8, F.20, V.23, L.24, L.26, L.27, F.30 Chain 8: P.10, R.11, L.14, V.15, G.18, V.19, F.22 Chain 9: L.11, E.15 Chain B: L.22, F.23, V.37, T.38, F.41, L.45, F.78, Q.88, T.91, V.92, C.93, W.143 Chain D: W.93 Ligands: I7D.37, BCL.96 27 PLIP interactions: 7 interactions with chain 6, 7 interactions with chain 8, 13 interactions with chain B Hydrophobic interactions: 6:F.8, 6:F.20, 6:V.23, 6:L.24, 6:L.26, 6:L.27, 6:L.27, 8:P.10, 8:R.11, 8:L.14, 8:L.14, 8:V.15, 8:F.22, 8:F.22, B:L.22, B:F.23, B:V.37, B:F.41, B:F.41, B:L.45, B:F.78, B:Q.88, B:T.91, B:V.92, B:V.92, B:W.143, B:W.143

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

LMT.15: 11 residues within 4Å: Chain A: P.31, I.32 Chain B: S.73, G.75, L.138, L.139, M.140, G.141 Ligands: LMT.81, PGV.86, PGV.87 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:S.73, A:I.32, A:I.32 Water bridges: B:G.75, B:G.75, B:M.140, A:I.32, A:T.34 LMT.20: 13 residues within 4Å: Chain B: S.265, W.266, N.269, L.270, P.271, M.272 Chain W: V.23, L.27 Chain Y: F.22, L.26, F.30, S.34 Ligands: PGV.6 9 PLIP interactions: 4 interactions with chain B, 2 interactions with chain W, 3 interactions with chain Y Hydrogen bonds: B:S.265, B:W.266, B:N.269 Water bridges: B:W.266 Hydrophobic interactions: W:V.23, W:L.27, Y:F.22, Y:L.26, Y:F.30 LMT.49: 16 residues within 4Å: Chain C: V.290 Chain D: E.2, I.3, G.4, A.5, I.6, A.12, L.15, T.19 Chain K: L.27, F.30, I.31, S.34, T.35 Chain M: D.42 Ligands: PGV.53 10 PLIP interactions: 4 interactions with chain K, 4 interactions with chain D, 2 interactions with chain M Hydrophobic interactions: K:L.27, K:F.30, D:L.15 Hydrogen bonds: K:S.34, K:S.34, D:G.4, D:G.4, D:A.5, M:D.42, M:D.42 LMT.76: 18 residues within 4Å: Chain 0: F.22, L.26, F.30, L.33, S.34, N.39, L.41, D.42, R.46 Chain A: G.21, F.24, G.25 Chain Y: V.23, L.24, I.31, T.35 Ligands: PGV.5, PGV.6 9 PLIP interactions: 7 interactions with chain 0, 1 interactions with chain A, 1 interactions with chain Y Hydrophobic interactions: 0:F.22, 0:F.22, 0:L.26, 0:F.30, Y:V.23 Hydrogen bonds: 0:N.39, 0:D.42, 0:R.46, A:F.24 LMT.81: 8 residues within 4Å: Chain 2: S.34, D.36 Chain A: P.30, P.31 Chain B: L.139 Ligands: PGV.7, LMT.15, PGV.86 5 PLIP interactions: 2 interactions with chain 2, 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: 2:S.34, 2:D.36 Hydrophobic interactions: B:L.139, A:P.30 Water bridges: A:R.29

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

FE.21: 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 MQ9: MENAQUINONE-9(Non-covalent)

MQ9.25: 20 residues within 4Å: Chain B: W.101 Chain C: L.215, M.218, H.219, T.222, A.248, M.249, W.252, M.256, F.258, N.259, A.260, T.261, F.262, I.265, W.268, F.272 Ligands: BPH.9, BCL.22, CDL.34 16 PLIP interactions: 15 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:L.215, C:M.218, C:T.222, C:A.248, C:W.252, C:M.256, C:F.258, C:A.260, C:I.265, C:W.268, C:W.268, C:F.272, B:W.101 Hydrogen bonds: C:T.222, C:A.260 pi-Stacking: C:F.262

17 x I7D: (6~{E},8~{E},10~{E},12~{E},14~{E},16~{E},18~{E},20~{E},22~{E},24~{E},26~{E},28~{E})-2,31-dimethoxy-2,6,10,14,19,23,27,31-octamethyl-dotriaconta-6,8,10,12,14,16,18,20,22,24,26,28-dodecaen-5-one(Non-covalent)

I7D.26: 25 residues within 4Å: Chain C: I.68, E.69, I.71, G.72, M.75, L.106, W.115, G.116, G.119, F.120, T.123, Y.157, G.161, F.162, W.171, P.175, P.176, F.177, G.178, I.179, H.182 Chain Q: F.30 Ligands: BCL.16, BCL.23, PGV.30 14 PLIP interactions: 13 interactions with chain C, 1 interactions with chain Q Hydrophobic interactions: C:I.68, C:I.71, C:W.115, C:W.115, C:F.120, C:T.123, C:Y.157, C:Y.157, C:Y.157, C:F.162, C:P.175, C:F.177, C:I.179, Q:F.30 I7D.37: 21 residues within 4Å: Chain 6: R.3, M.4 Chain 8: L.14, L.17, F.20, L.21, L.24 Chain 9: E.18, F.19, F.23, S.26, F.27 Chain E: F.22, A.25, L.26, H.29, F.30, L.33 Ligands: BCL.36, U10.92, BCL.96 16 PLIP interactions: 7 interactions with chain 8, 5 interactions with chain 9, 3 interactions with chain E, 1 interactions with chain 6 Hydrophobic interactions: 8:L.14, 8:L.14, 8:L.17, 8:F.20, 8:F.20, 8:L.21, 8:L.24, 9:F.19, 9:F.23, 9:F.23, 9:F.27, 9:F.27, E:A.25, E:L.26, E:L.33, 6:R.3 I7D.39: 29 residues within 4Å: Chain 8: R.3, M.4, L.6, L.7 Chain E: L.14, L.17, F.20, L.21, L.24, I.28, I.31 Chain F: L.11, E.15, F.19, I.22, F.23, S.26, F.27, F.30 Chain G: F.22, A.25, L.26, H.29, F.30, L.33 Ligands: PGV.11, BCL.38, BCL.40, BCL.98 24 PLIP interactions: 8 interactions with chain E, 3 interactions with chain 8, 9 interactions with chain F, 4 interactions with chain G Hydrophobic interactions: E:L.14, E:L.17, E:F.20, E:F.20, E:L.21, E:L.21, E:L.24, E:I.28, 8:R.3, 8:M.4, 8:L.6, F:E.15, F:F.19, F:F.19, F:I.22, F:I.22, F:F.23, F:F.23, F:F.27, F:F.30, G:A.25, G:L.26, G:H.29, G:F.30 I7D.42: 25 residues within 4Å: Chain E: M.4, L.7, F.8 Chain G: L.14, L.17, F.20, L.21, L.24, L.27 Chain H: L.11, E.15, F.19, I.22, F.23, S.26, F.27 Chain I: F.22, A.25, L.26, H.29, F.30 Ligands: BCL.38, BCL.40, BCL.43, BCL.44 21 PLIP interactions: 8 interactions with chain G, 8 interactions with chain H, 3 interactions with chain E, 2 interactions with chain I Hydrophobic interactions: G:L.14, G:L.17, G:L.17, G:F.20, G:L.21, G:L.21, G:L.24, G:L.27, H:F.19, H:F.19, H:I.22, H:I.22, H:F.23, H:F.23, H:F.27, H:F.27, E:M.4, E:L.7, E:F.8, I:F.22, I:A.25 I7D.47: 26 residues within 4Å: Chain G: M.1, R.3, M.4, L.7 Chain I: P.10, L.14, L.17, F.20, L.21, L.24, I.31 Chain J: L.11, F.19, I.22, F.23, S.26, F.27 Chain K: F.22, A.25, L.26, H.29, F.30, W.40 Ligands: BCL.43, BCL.46, BCL.48 21 PLIP interactions: 7 interactions with chain I, 8 interactions with chain J, 3 interactions with chain K, 3 interactions with chain G Hydrophobic interactions: I:L.14, I:L.17, I:F.20, I:F.20, I:L.21, I:L.24, I:I.31, J:F.19, J:F.19, J:I.22, J:I.22, J:F.23, J:F.23, J:F.27, J:F.27, K:A.25, K:H.29, K:W.40, G:R.3, G:M.4, G:L.7 I7D.51: 25 residues within 4Å: Chain I: R.3, M.4, L.6, L.7 Chain K: L.14, L.17, F.20, L.21, L.24, L.27 Chain L: E.15, F.19, I.22, F.23, S.26, F.27 Chain M: F.22, A.25, L.26, H.29, F.30 Ligands: BCL.46, BCL.48, BCL.50, BCL.52 19 PLIP interactions: 9 interactions with chain L, 8 interactions with chain K, 1 interactions with chain M, 1 interactions with chain I Hydrophobic interactions: L:E.15, L:F.19, L:F.19, L:F.19, L:I.22, L:I.22, L:F.23, L:F.23, L:F.27, K:L.14, K:L.17, K:F.20, K:F.20, K:L.21, K:L.21, K:L.24, K:L.27, M:A.25, I:M.4 I7D.54: 24 residues within 4Å: Chain K: M.1, R.3, M.4, L.7 Chain M: L.14, L.17, F.20, L.21, L.24 Chain N: E.15, E.18, F.19, I.22, F.23, S.26, F.27 Chain O: F.22, A.25, L.26, H.29 Ligands: PGV.30, BCL.52, BCL.55, BCL.56 19 PLIP interactions: 2 interactions with chain O, 6 interactions with chain M, 3 interactions with chain K, 8 interactions with chain N Hydrophobic interactions: O:A.25, O:L.26, M:L.14, M:L.17, M:F.20, M:L.21, M:L.21, M:L.24, K:R.3, K:M.4, K:L.7, N:E.18, N:F.19, N:F.19, N:F.19, N:I.22, N:F.23, N:F.23, N:F.27 I7D.58: 26 residues within 4Å: Chain M: M.1, R.3, M.4, L.7 Chain O: L.14, L.17, F.20, L.21, L.24 Chain P: L.11, E.15, E.18, F.19, I.22, F.23, S.26, F.27 Chain Q: F.22, A.25, L.26, H.29, F.30, L.33 Ligands: BCL.55, BCL.57, BCL.59 20 PLIP interactions: 3 interactions with chain Q, 8 interactions with chain P, 6 interactions with chain O, 3 interactions with chain M Hydrophobic interactions: Q:F.22, Q:A.25, Q:L.33, P:E.15, P:F.19, P:F.19, P:I.22, P:F.23, P:F.23, P:F.27, P:F.27, O:L.14, O:L.17, O:F.20, O:F.20, O:L.21, O:L.24, M:R.3, M:M.4, M:L.7 I7D.60: 25 residues within 4Å: Chain O: R.3, M.4, L.7 Chain Q: L.14, L.17, L.21, L.24, L.27, I.31 Chain R: E.15, E.18, F.19, I.22, F.23, S.26, F.27 Chain S: F.22, A.25, L.26, H.29, L.33 Ligands: BCL.57, BCL.59, BCL.61, BCL.62 21 PLIP interactions: 3 interactions with chain O, 7 interactions with chain Q, 8 interactions with chain R, 3 interactions with chain S Hydrophobic interactions: O:R.3, O:M.4, O:L.7, Q:L.14, Q:L.17, Q:L.21, Q:L.21, Q:L.24, Q:L.27, Q:I.31, R:F.19, R:F.19, R:I.22, R:I.22, R:F.23, R:F.23, R:F.27, R:F.27, S:F.22, S:A.25, S:L.33 I7D.63: 27 residues within 4Å: Chain Q: R.3, M.4, L.7 Chain S: L.14, L.17, F.20, L.21, L.24, I.28, I.31 Chain T: L.11, E.15, E.18, F.19, I.22, F.23, S.26, F.27 Chain U: F.22, A.25, L.26, H.29, F.30 Ligands: BCL.61, BCL.62, BCL.64, BCL.66 24 PLIP interactions: 4 interactions with chain Q, 9 interactions with chain S, 3 interactions with chain U, 8 interactions with chain T Hydrophobic interactions: Q:R.3, Q:M.4, Q:L.7, Q:L.7, S:L.14, S:L.14, S:L.17, S:F.20, S:L.21, S:L.24, S:L.24, S:I.28, S:I.31, U:F.22, U:A.25, U:H.29, T:E.15, T:F.19, T:I.22, T:I.22, T:F.23, T:F.23, T:F.23, T:F.27 I7D.67: 25 residues within 4Å: Chain S: R.3, M.4, L.7 Chain U: L.14, L.17, F.20, L.21, L.24, L.27, I.31 Chain V: E.15, E.18, F.19, I.22, F.23, S.26, F.27 Chain W: F.22, A.25, L.26, H.29, F.30, W.40 Ligands: BCL.68, BCL.69 19 PLIP interactions: 8 interactions with chain U, 2 interactions with chain S, 7 interactions with chain V, 2 interactions with chain W Hydrophobic interactions: U:L.14, U:L.17, U:F.20, U:L.21, U:L.21, U:L.24, U:L.27, U:I.31, S:R.3, S:M.4, V:F.19, V:F.19, V:I.22, V:F.23, V:F.23, V:F.27, V:F.27, W:A.25, W:W.40 I7D.70: 25 residues within 4Å: Chain U: M.1, R.3, M.4, L.7 Chain W: L.14, L.17, L.21, L.24, L.27 Chain X: E.15, E.18, F.19, I.22, F.23, S.26, F.27 Chain Y: A.25, L.26, H.29, F.30, W.40 Ligands: BCL.68, BCL.69, BCL.71, BCL.72 15 PLIP interactions: 5 interactions with chain W, 7 interactions with chain X, 2 interactions with chain Y, 1 interactions with chain U Hydrophobic interactions: W:L.17, W:L.21, W:L.24, W:L.24, W:L.27, X:F.19, X:F.19, X:I.22, X:F.23, X:F.23, X:F.27, X:F.27, Y:A.25, Y:W.40, U:M.4 I7D.74: 22 residues within 4Å: Chain 0: F.22, A.25, L.26, H.29, F.30 Chain W: M.1, R.3, M.4, L.7 Chain Y: P.10, L.14, L.17, L.21, L.24, L.27 Chain Z: F.19, I.22, F.23, S.26, F.27 Ligands: BCL.73, BCL.75 17 PLIP interactions: 2 interactions with chain 0, 6 interactions with chain Y, 6 interactions with chain Z, 3 interactions with chain W Hydrophobic interactions: 0:F.22, 0:A.25, Y:L.14, Y:L.17, Y:L.21, Y:L.21, Y:L.24, Y:L.27, Z:F.19, Z:F.19, Z:I.22, Z:F.23, Z:F.23, Z:F.27, W:R.3, W:M.4, W:L.7 I7D.79: 22 residues within 4Å: Chain 0: L.17, L.21, L.24 Chain 1: L.11, E.15, E.18, F.19, I.22, F.23, S.26, F.27 Chain 2: F.22, A.25, L.26, H.29, F.30 Chain Y: M.1, R.3, M.4, L.7 Ligands: BCL.78, BCL.80 16 PLIP interactions: 4 interactions with chain 0, 9 interactions with chain 1, 2 interactions with chain Y, 1 interactions with chain 2 Hydrophobic interactions: 0:L.17, 0:L.21, 0:L.21, 0:L.24, 1:E.15, 1:E.18, 1:F.19, 1:F.19, 1:I.22, 1:I.22, 1:F.23, 1:F.23, 1:F.27, Y:M.4, Y:L.7, 2:A.25 I7D.82: 23 residues within 4Å: Chain 0: M.1, R.3, M.4, L.7 Chain 2: L.14, L.17, L.21, L.24, I.31 Chain 3: L.11, E.15, F.19, I.22, F.23, S.26, F.27 Chain 4: A.25, L.26, H.29, F.30 Ligands: BCL.78, BCL.83, BCL.85 13 PLIP interactions: 5 interactions with chain 3, 5 interactions with chain 2, 2 interactions with chain 0, 1 interactions with chain 4 Hydrophobic interactions: 3:E.15, 3:F.19, 3:F.19, 3:F.23, 3:F.27, 2:L.14, 2:L.17, 2:L.21, 2:L.21, 2:L.24, 0:R.3, 0:M.4, 4:A.25 I7D.89: 26 residues within 4Å: Chain 2: M.1, R.3, M.4, L.7 Chain 4: L.14, L.17, L.21, L.24, L.27, I.28, I.31 Chain 5: E.15, E.18, F.19, I.22, F.23, S.26, F.27 Chain 6: A.25, L.26, H.29, F.30, L.33, W.40 Ligands: BCL.90, BCL.93 22 PLIP interactions: 8 interactions with chain 4, 3 interactions with chain 6, 2 interactions with chain 2, 9 interactions with chain 5 Hydrophobic interactions: 4:L.14, 4:L.14, 4:L.17, 4:L.21, 4:L.21, 4:L.24, 4:L.27, 4:I.28, 6:A.25, 6:L.26, 6:H.29, 2:M.4, 2:L.7, 5:E.18, 5:F.19, 5:F.19, 5:I.22, 5:I.22, 5:F.23, 5:F.23, 5:F.27, 5:F.27 I7D.94: 22 residues within 4Å: Chain 4: M.1, W.2 Chain 5: H.20 Chain 6: L.14, L.17, L.21, L.24, L.27, I.28 Chain 7: I.22, F.23, S.26, F.27 Chain 8: F.22, A.25, L.26, H.29, F.30, W.40 Ligands: BCL.90, BCL.95, BCL.96 13 PLIP interactions: 6 interactions with chain 6, 4 interactions with chain 8, 3 interactions with chain 7 Hydrophobic interactions: 6:L.14, 6:L.17, 6:L.21, 6:L.24, 6:L.27, 6:I.28, 8:F.22, 8:A.25, 8:H.29, 8:W.40, 7:F.27, 7:F.27, 7:F.27

9 x CDL: CARDIOLIPIN(Non-covalent)

CDL.27: 7 residues within 4Å: Chain C: F.4, Q.5, N.6, V.7, F.8, R.10 Ligands: PGV.12 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:V.7 Hydrogen bonds: C:Q.5, C:V.7, C:F.8, C:F.8 Water bridges: C:R.10, C:R.10 CDL.28: 19 residues within 4Å: Chain B: N.200, P.201, P.202, K.203 Chain C: R.138, G.143, T.144, H.145, W.148, S.152, R.267, W.270, W.271 Chain D: L.22, F.23, G.26, L.27, Y.30 Ligands: PGV.32 18 PLIP interactions: 11 interactions with chain C, 1 interactions with chain B, 6 interactions with chain D Hydrophobic interactions: C:W.148, C:W.148, C:W.270, C:W.271, C:W.271, D:F.23, D:F.23, D:L.27, D:Y.30, D:Y.30 Hydrogen bonds: C:T.144, C:T.144, B:N.200 Salt bridges: C:R.138, C:H.145, C:H.145, C:R.267 Water bridges: D:K.61 CDL.34: 27 residues within 4Å: Chain B: A.2, V.27, G.28, P.29, G.36, W.101, R.104 Chain C: A.207, R.253, M.256, G.257, F.258, W.268 Chain D: F.24, R.32, K.36, Y.40, L.42, L.51, G.53, F.54 Chain E: R.12 Ligands: PGV.18, BCL.22, MQ9.25, PGV.33, CDL.35 17 PLIP interactions: 6 interactions with chain D, 5 interactions with chain C, 4 interactions with chain B, 2 interactions with chain E Hydrophobic interactions: D:F.24, D:F.24, C:A.207, C:F.258, C:W.268, B:V.27, B:W.101 Hydrogen bonds: D:Y.40, D:F.54, C:R.253, C:R.253, B:A.2, B:A.2, E:R.12 Salt bridges: D:R.32, D:K.36, E:R.12 CDL.35: 17 residues within 4Å: Chain D: I.29, L.51, E.52, G.53, F.54 Chain E: L.7, F.8, D.9, R.12, I.13, A.16 Chain G: R.11, R.12, V.15, F.22 Ligands: CDL.34, BCL.40 14 PLIP interactions: 3 interactions with chain G, 6 interactions with chain E, 5 interactions with chain D Hydrophobic interactions: G:F.22, E:A.16, D:I.29, D:F.54 Salt bridges: G:R.11, G:R.12, E:R.12, E:R.12, E:R.12 Hydrogen bonds: E:L.7, E:D.9, D:E.52, D:G.53, D:F.54 CDL.65: 11 residues within 4Å: Chain T: H.38, L.39, W.42, W.47, L.48 Chain V: A.37, L.40, Q.43, W.44 Ligands: BCL.64, BCL.66 11 PLIP interactions: 6 interactions with chain T, 5 interactions with chain V Hydrophobic interactions: T:W.42, T:W.42, T:W.47, T:L.48, T:L.48, V:L.40, V:L.40, V:W.44 Hydrogen bonds: T:L.48, V:Q.43, V:W.44 CDL.77: 13 residues within 4Å: Chain 1: A.37, L.40, A.41, W.44 Chain Z: T.31, I.35, H.38, L.39, W.42, W.47, L.48 Ligands: BCL.73, BCL.75 13 PLIP interactions: 8 interactions with chain Z, 5 interactions with chain 1 Hydrophobic interactions: Z:T.31, Z:I.35, Z:I.35, Z:H.38, Z:L.39, Z:L.39, Z:W.42, Z:W.47, 1:A.37, 1:L.40, 1:L.40, 1:W.44 Hydrogen bonds: 1:W.44 CDL.88: 11 residues within 4Å: Chain 3: H.38, L.39, W.42, W.47, L.48 Chain 5: A.37, L.40, Q.43, W.44 Ligands: BCL.83, BCL.85 4 PLIP interactions: 2 interactions with chain 5, 2 interactions with chain 3 Hydrophobic interactions: 5:L.40, 5:W.44, 3:L.39, 3:W.42 CDL.91: 13 residues within 4Å: Chain 5: I.35, H.38, L.39, W.42, W.47, L.48 Chain 7: A.37, L.40, A.41, Q.43, W.44 Ligands: BCL.90, BCL.93 8 PLIP interactions: 5 interactions with chain 5, 3 interactions with chain 7 Hydrophobic interactions: 5:I.35, 5:H.38, 5:L.39, 5:W.42, 5:W.42, 7:A.37, 7:L.40, 7:L.40 CDL.97: 12 residues within 4Å: Chain 7: I.35, H.38, L.39, W.42, W.47, L.48 Chain 9: A.37, L.40, Q.43, W.44 Ligands: BCL.95, BCL.96 8 PLIP interactions: 5 interactions with chain 7, 3 interactions with chain 9 Hydrophobic interactions: 7:I.35, 7:L.39, 7:W.42, 7:W.47, 9:A.37, 9:L.40, 9:W.44 Hydrogen bonds: 7:L.48

1 x PEE: 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine(Non-covalent)

PEE.29: 17 residues within 4Å: Chain C: F.63, A.124, L.127, W.130, V.131, Y.134, R.135, W.148, A.151, I.154, L.158 Chain O: R.11, V.15, V.19, V.23 Chain Q: F.22 Ligands: PGV.30 17 PLIP interactions: 4 interactions with chain O, 12 interactions with chain C, 1 interactions with chain Q Hydrophobic interactions: O:V.19, O:V.23, C:F.63, C:A.124, C:L.127, C:W.130, C:W.130, C:W.130, C:V.131, C:Y.134, C:W.148, C:I.154, C:L.158, Q:F.22 Hydrogen bonds: O:R.11, O:R.11 Salt bridges: C:R.135

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tani, K. et al., An LH1-RC photocomplex from an extremophilic phototroph provides insight into origins of two photosynthesis proteins. Commun Biol (2022)

Release Date

2022-11-16

Peptides

Photosynthetic reaction center cytochrome c subunit: A
Reaction center protein L chain: B
Reaction center protein M chain: C
Photosynthetic reaction center H subunit: D
Light-harvesting protein: EGIKMOQSUWY02468
Light-harvesting protein: FHJLNPRTVXZ13579
Light-harvesting protein LH1 Gamma-like: abcdefghijk

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

Q
Q

S
S

U
U

W
W

Y
Y

0
1

2
3

4
5

6
7

8
9

F
B

H
E

J
G

L
J

N
N

P
P

R
R

T
T

V
V

X
X

Z
Z

1
2

3
4

5
6

7
8

9
0

a
a

b
b

c
c

d
d

e
e

f
f

g
g

h
h

i
i

j
j

k
k

Membrane

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

Reaction center protein L chain

Reaction center protein M chain

Photosynthetic reaction center H subunit

Light-harvesting protein

Light-harvesting protein

Light-harvesting protein LH1 Gamma-like