SMTL ID : 8iun.1

Cryo-EM structure of the CRT-LESS RC-LH core complex from roseiflexus castenholzii

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-15-2-15-1-1-1-1-mer

Ligands

48 x BCL: BACTERIOCHLOROPHYLL A(Non-covalent)

BCL.1: 15 residues within 4Å: Chain A: T.32, G.36, L.37, A.40, H.44, W.53 Chain X: G.19, A.23, I.26, H.27, V.30, F.36 Ligands: PGV.6, BCL.86, BCL.88 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain X, Hydrophobic interactions: A:T.32, A:A.40, A:W.53, A:W.53, A:W.53, X:I.26, X:V.30, X:F.36 Metal complexes: A:H.44 BCL.2: 16 residues within 4Å: Chain A: W.14, L.17, F.18, W.23, H.26, V.30, I.33, Y.34 Chain B: I.28, K.31, T.32, I.39 Chain X: F.8, S.11 Ligands: BCL.3, U4Z.84 10 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B, 1 interactions with chain X, Hydrophobic interactions: A:W.14, A:L.17, A:F.18, A:W.23, A:V.30, B:K.31, B:I.39 Metal complexes: A:H.26 Salt bridges: B:K.31 Hydrogen bonds: X:S.11 BCL.3: 16 residues within 4Å: Chain B: G.36, L.37, H.44, C.47, W.53 Chain W: G.19, A.23, I.26, H.27, F.36 Ligands: BCL.2, PGV.5, BCL.7, U4Z.84, BCL.85, BCL.86 7 PLIP interactions: 2 interactions with chain W, 5 interactions with chain B, Hydrophobic interactions: W:I.26, W:F.36, B:W.53, B:W.53, B:W.53, B:W.53 Metal complexes: B:H.44 BCL.4: 18 residues within 4Å: Chain B: W.14, L.17, F.18, W.23, H.26, V.30, I.33, Y.34 Chain C: I.28, K.31, T.32, G.35, I.38, I.39 Chain W: F.6, F.8, S.11, S.15 12 PLIP interactions: 7 interactions with chain B, 4 interactions with chain C, 1 interactions with chain W, Hydrophobic interactions: B:W.14, B:L.17, B:W.23, B:V.30, B:I.33, C:I.28, C:I.38, C:I.39 Hydrogen bonds: B:Y.34, W:S.11 Metal complexes: B:H.26 Salt bridges: C:K.31 BCL.7: 19 residues within 4Å: Chain C: I.33, G.36, L.37, A.40, H.44, C.47, W.53 Chain V: G.19, M.22, A.23, I.26, H.27, F.36 Ligands: BCL.3, PGV.9, BCL.10, BCL.82, U4Z.84, BCL.85 8 PLIP interactions: 6 interactions with chain C, 2 interactions with chain V, Hydrophobic interactions: C:A.40, C:W.53, C:W.53, C:W.53, C:W.53, V:I.26, V:F.36 Metal complexes: C:H.44 BCL.8: 16 residues within 4Å: Chain C: W.14, L.17, F.18, W.23, H.26, V.30, Y.34 Chain D: I.28, K.31, T.32, G.35, I.39 Chain V: F.8, S.11, S.15 Ligands: CDL.83 15 PLIP interactions: 9 interactions with chain C, 2 interactions with chain V, 4 interactions with chain D, Hydrophobic interactions: C:W.14, C:L.17, C:F.18, C:W.23, C:V.30, C:Y.34, V:F.8, D:I.28, D:I.39, D:I.39 Salt bridges: C:H.26, D:K.31 pi-Stacking: C:H.26 Metal complexes: C:H.26 Hydrogen bonds: V:S.11 BCL.10: 15 residues within 4Å: Chain D: I.33, G.36, A.40, H.44, C.47, W.53 Chain U: G.19, A.23, I.26, H.27 Ligands: BCL.7, BCL.12, PGV.14, BCL.80, BCL.82 7 PLIP interactions: 6 interactions with chain D, 1 interactions with chain U, Hydrophobic interactions: D:A.40, D:W.53, D:W.53, D:W.53, D:W.53, U:I.26 Metal complexes: D:H.44 BCL.11: 17 residues within 4Å: Chain D: W.14, L.17, F.18, W.23, H.26, V.30, I.33, Y.34 Chain E: I.28, K.31, T.32, I.38 Chain U: E.7, F.8, S.11 Ligands: U4Z.78, BCL.80 15 PLIP interactions: 9 interactions with chain D, 2 interactions with chain U, 4 interactions with chain E, Hydrophobic interactions: D:L.17, D:F.18, D:W.23, D:V.30, D:V.30, D:I.33, D:Y.34, U:F.8, E:I.28, E:I.28, E:K.31, E:I.38 Hydrogen bonds: D:Y.34, U:S.11 pi-Stacking: D:H.26 BCL.12: 17 residues within 4Å: Chain D: L.37 Chain E: G.36, L.37, A.40, H.44, C.47, W.53 Chain T: G.19, A.23, I.26, H.27 Ligands: BCL.10, BCL.15, PGV.18, U4Z.78, BCL.79, BCL.80 7 PLIP interactions: 5 interactions with chain E, 1 interactions with chain T, 1 interactions with chain D, Hydrophobic interactions: E:W.53, E:W.53, E:W.53, E:W.53, T:I.26, D:L.37 Metal complexes: E:H.44 BCL.13: 16 residues within 4Å: Chain E: W.14, L.17, F.18, W.23, H.26, V.30, I.33, Y.34 Chain F: I.28, K.31, T.32, G.35 Chain T: F.6, F.8, S.11 Ligands: BCL.79 16 PLIP interactions: 10 interactions with chain E, 3 interactions with chain T, 3 interactions with chain F, Hydrophobic interactions: E:W.14, E:W.14, E:L.17, E:F.18, E:F.18, E:W.23, E:V.30, E:I.33, T:F.6, T:F.8, F:I.28, F:K.31 Salt bridges: E:H.26, F:K.31 Metal complexes: E:H.26 Hydrogen bonds: T:S.11 BCL.15: 20 residues within 4Å: Chain E: I.33 Chain F: I.33, G.36, L.37, A.40, H.44, C.47, W.53 Chain R: W.38, L.39 Chain S: G.19, M.22, A.23, I.26, H.27 Ligands: BCL.12, PGV.17, BCL.74, U4Z.78, BCL.79 8 PLIP interactions: 1 interactions with chain E, 5 interactions with chain F, 1 interactions with chain R, 1 interactions with chain S, Hydrophobic interactions: E:I.33, F:L.37, F:W.53, F:W.53, F:W.53, R:L.39, S:I.26 Metal complexes: F:H.44 BCL.16: 16 residues within 4Å: Chain F: W.14, L.17, F.18, W.23, H.26, V.30, I.33, Y.34 Chain G: I.28, K.31, T.32, G.35 Chain S: F.8, S.11, S.15 Ligands: BCL.19 12 PLIP interactions: 1 interactions with chain G, 9 interactions with chain F, 2 interactions with chain S, Hydrophobic interactions: G:I.28, F:W.14, F:L.17, F:F.18, F:F.18, F:W.23, F:V.30, F:I.33, F:Y.34, S:F.8 Metal complexes: F:H.26 Hydrogen bonds: S:S.11 BCL.19: 16 residues within 4Å: Chain G: I.33, G.36, A.40, H.44, C.47, W.53 Chain R: G.19, A.23, I.26, H.27, V.30 Ligands: BCL.16, PGV.21, BCL.22, BCL.74, BCL.110 6 PLIP interactions: 2 interactions with chain R, 4 interactions with chain G, Hydrophobic interactions: R:I.26, R:V.30, G:W.53, G:W.53, G:W.53 Metal complexes: G:H.44 BCL.20: 13 residues within 4Å: Chain G: W.14, L.17, F.18, W.23, H.26, V.30, I.33, Y.34 Chain H: I.28 Chain R: F.6, F.8, S.11 Ligands: BCL.110 10 PLIP interactions: 8 interactions with chain G, 2 interactions with chain R, Hydrophobic interactions: G:W.14, G:L.17, G:F.18, G:W.23, G:V.30, G:I.33, R:F.6 pi-Cation interactions: G:H.26 Metal complexes: G:H.26 Hydrogen bonds: R:S.11 BCL.22: 19 residues within 4Å: Chain 4: W.38 Chain 5: G.19, M.22, A.23, I.26, H.27, F.36 Chain H: I.33, G.36, L.37, A.40, H.44, C.47, W.53 Ligands: BCL.19, BCL.24, PGV.27, BCL.107, BCL.110 8 PLIP interactions: 2 interactions with chain 5, 6 interactions with chain H, Hydrophobic interactions: 5:I.26, 5:F.36, H:L.37, H:W.53, H:W.53, H:W.53, H:W.53 Metal complexes: H:H.44 BCL.23: 18 residues within 4Å: Chain 5: F.6, F.8, S.11, S.15 Chain H: W.14, L.17, F.18, W.23, H.26, V.30, Y.34 Chain I: I.28, K.31, T.32, Y.34, G.35, I.39 Ligands: U4Z.106 15 PLIP interactions: 6 interactions with chain I, 8 interactions with chain H, 1 interactions with chain 5, Hydrophobic interactions: I:I.28, I:K.31, I:K.31, I:K.31, I:Y.34, I:I.39, H:W.14, H:W.14, H:L.17, H:F.18, H:W.23, H:V.30, H:V.30 Salt bridges: H:H.26 Hydrogen bonds: 5:S.11 BCL.24: 16 residues within 4Å: Chain 4: G.19, M.22, A.23, I.26, H.27 Chain I: G.36, L.37, A.40, H.44, C.47, W.53 Ligands: BCL.22, PGV.26, BCL.104, U4Z.106, BCL.107 6 PLIP interactions: 5 interactions with chain I, 1 interactions with chain 4, Hydrophobic interactions: I:A.40, I:W.53, I:W.53, I:W.53, 4:I.26 Metal complexes: I:H.44 BCL.25: 17 residues within 4Å: Chain 4: E.7, F.8, S.11, V.12 Chain I: W.14, L.17, F.18, W.23, H.26, V.30, Y.34 Chain J: I.28, K.31, T.32, G.35, I.39 Ligands: BCL.104 10 PLIP interactions: 6 interactions with chain I, 2 interactions with chain J, 2 interactions with chain 4, Hydrophobic interactions: I:W.14, I:L.17, I:F.18, I:W.23, I:V.30, J:I.28, J:I.39, 4:V.12 Metal complexes: I:H.26 Hydrogen bonds: 4:S.11 BCL.28: 18 residues within 4Å: Chain 3: F.8, S.11 Chain J: W.14, L.17, F.18, W.23, H.26, V.30, I.33, Y.34 Chain K: I.28, K.31, T.32, G.35, I.39 Ligands: BCL.29, U4Z.31, BCL.100 14 PLIP interactions: 8 interactions with chain J, 1 interactions with chain 3, 5 interactions with chain K, Hydrophobic interactions: J:W.14, J:L.17, J:W.23, J:V.30, J:I.33, K:I.28, K:K.31, K:T.32, K:I.39 Salt bridges: J:H.26, K:K.31 pi-Stacking: J:F.18 Metal complexes: J:H.26 Hydrogen bonds: 3:S.11 BCL.29: 15 residues within 4Å: Chain 2: G.19, A.23, I.26, H.27 Chain K: G.36, A.40, H.44, C.47, W.53 Ligands: BCL.28, U4Z.31, PGV.32, BCL.34, BCL.99, BCL.100 6 PLIP interactions: 5 interactions with chain K, 1 interactions with chain 2, Hydrophobic interactions: K:W.53, K:W.53, K:W.53, K:W.53, 2:I.26 Metal complexes: K:H.44 BCL.30: 18 residues within 4Å: Chain 2: F.6, F.8, S.11, S.15 Chain K: W.14, L.17, F.18, W.23, H.26, V.30, I.33, Y.34 Chain L: I.28, K.31, T.32, G.35, I.39 Ligands: BCL.34 17 PLIP interactions: 9 interactions with chain K, 3 interactions with chain 2, 5 interactions with chain L, Hydrophobic interactions: K:W.14, K:L.17, K:F.18, K:W.23, K:V.30, K:I.33, 2:F.6, 2:F.8, L:I.28, L:K.31, L:K.31, L:I.39, L:I.39 Salt bridges: K:H.26 pi-Stacking: K:H.26 Metal complexes: K:H.26 Hydrogen bonds: 2:S.11 BCL.34: 18 residues within 4Å: Chain 1: G.19, M.22, A.23, I.26, H.27, F.36 Chain L: I.33, G.36, H.44, C.47, W.53 Ligands: BCL.29, BCL.30, U4Z.31, PGV.36, BCL.37, BCL.98, BCL.99 7 PLIP interactions: 2 interactions with chain 1, 5 interactions with chain L, Hydrophobic interactions: 1:I.26, 1:F.36, L:W.53, L:W.53, L:W.53, L:W.53 Metal complexes: L:H.44 BCL.35: 18 residues within 4Å: Chain 1: F.6, F.8, S.11, S.15 Chain L: W.14, L.17, F.18, W.23, H.26, V.30, I.33, Y.34 Chain M: I.28, K.31, T.32, G.35, I.39 Ligands: BCL.98 15 PLIP interactions: 4 interactions with chain M, 3 interactions with chain 1, 8 interactions with chain L, Hydrophobic interactions: M:I.28, M:K.31, M:I.39, 1:F.6, 1:F.8, L:W.14, L:L.17, L:F.18, L:W.23, L:V.30 Salt bridges: M:K.31, L:H.26 Hydrogen bonds: 1:S.11, L:Y.34 Metal complexes: L:H.26 BCL.37: 17 residues within 4Å: Chain 0: G.19, A.23, I.26, H.27, F.36 Chain M: I.33, G.36, L.37, A.40, H.44, C.47, W.53 Ligands: BCL.34, PGV.39, BCL.95, BCL.97, BCL.98 8 PLIP interactions: 6 interactions with chain M, 2 interactions with chain 0, Hydrophobic interactions: M:A.40, M:W.53, M:W.53, M:W.53, M:W.53, 0:I.26, 0:F.36 Metal complexes: M:H.44 BCL.38: 12 residues within 4Å: Chain 0: F.8, S.11 Chain M: W.14, L.17, F.18, H.26, V.30, I.33, Y.34 Chain N: I.28, T.32 Ligands: U4Z.96 9 PLIP interactions: 1 interactions with chain 0, 6 interactions with chain M, 2 interactions with chain N, Hydrogen bonds: 0:S.11 Hydrophobic interactions: M:W.14, M:L.17, M:F.18, M:V.30, M:Y.34, N:I.28 Metal complexes: M:H.26 Salt bridges: N:K.31 BCL.40: 15 residues within 4Å: Chain N: W.14, L.17, F.18, W.23, H.26, V.30, Y.34 Chain O: I.28, K.31, T.32, G.35, I.39 Chain Z: F.8, S.11, S.15 13 PLIP interactions: 1 interactions with chain Z, 6 interactions with chain O, 6 interactions with chain N, Hydrogen bonds: Z:S.11, N:Y.34 Hydrophobic interactions: O:I.28, O:I.28, O:I.28, O:K.31, O:K.31, O:I.39, N:L.17, N:F.18, N:W.23, N:V.30 Metal complexes: N:H.26 BCL.42: 16 residues within 4Å: Chain 8: W.41, I.42 Chain O: G.36, L.37, A.40, H.44, C.47, W.53 Chain Y: G.19, A.23, I.26, H.27, F.36 Ligands: BCL.91, U4Z.96, UNL.127 8 PLIP interactions: 2 interactions with chain 8, 4 interactions with chain O, 2 interactions with chain Y, Hydrophobic interactions: 8:W.41, 8:I.42, O:L.37, O:A.40, O:W.53, Y:I.26, Y:F.36 Metal complexes: O:H.44 BCL.43: 12 residues within 4Å: Chain 8: F.20 Chain O: W.14, L.17, F.18, W.23, H.26, V.30, I.33, Y.34 Chain Y: F.8, S.11, S.15 13 PLIP interactions: 10 interactions with chain O, 2 interactions with chain 8, 1 interactions with chain Y, Hydrophobic interactions: O:W.14, O:W.14, O:L.17, O:F.18, O:W.23, O:V.30, O:I.33, O:Y.34, 8:F.20, 8:F.20 Salt bridges: O:H.26 Metal complexes: O:H.26 Hydrogen bonds: Y:S.11 BCL.44: 20 residues within 4Å: Chain P: A.476, L.479, Y.480, W.508, T.509, V.512, S.513, F.519, Y.520, H.525, S.528, I.529, G.603, L.607 Chain Q: Y.201, F.220 Ligands: BPH.45, BPH.57, BCL.58, BCL.59 11 PLIP interactions: 10 interactions with chain P, 1 interactions with chain Q, Hydrophobic interactions: P:A.476, P:Y.480, P:W.508, P:V.512, P:F.519, P:I.529, Q:F.220 Hydrogen bonds: P:Y.520 Salt bridges: P:H.525 pi-Stacking: P:F.519 Metal complexes: P:H.525 BCL.58: 17 residues within 4Å: Chain P: Y.520, M.526, I.529, F.530, L.533, G.534, L.537 Chain Q: Y.87, W.167, F.185, I.189, H.192, L.193 Ligands: BCL.44, BCL.59, BPH.60, LHG.115 10 PLIP interactions: 4 interactions with chain P, 6 interactions with chain Q, Hydrophobic interactions: P:Y.520, P:I.529, P:F.530, P:L.537, Q:Y.87, Q:Y.87, Q:W.167, Q:F.185, Q:L.193 Metal complexes: Q:H.192 BCL.59: 21 residues within 4Å: Chain P: T.509, Y.520 Chain Q: F.136, V.163, S.166, L.170, V.196, I.199, Y.201, F.206, F.207, H.212, I.216, V.275, S.278, N.279, C.281, I.282 Ligands: BCL.44, BCL.58, BPH.60 11 PLIP interactions: 11 interactions with chain Q, Hydrophobic interactions: Q:F.136, Q:V.163, Q:L.170, Q:V.196, Q:I.199, Q:Y.201, Q:F.206, Q:F.207, Q:F.207, Q:I.216 Metal complexes: Q:H.212 BCL.74: 18 residues within 4Å: Chain G: G.36, I.39, A.40, H.44 Chain R: T.16, L.17, G.19, L.20, A.23, H.27, L.31, W.38 Chain S: V.14, L.18, I.26 Ligands: BCL.15, PGV.17, BCL.19 6 PLIP interactions: 4 interactions with chain R, 2 interactions with chain S, Hydrophobic interactions: R:T.16, R:L.31, S:L.18, S:I.26 pi-Cation interactions: R:H.27 Metal complexes: R:H.27 BCL.79: 17 residues within 4Å: Chain F: G.36, I.39, A.40, H.44 Chain S: G.19, H.27, W.38 Chain T: F.6, S.11, S.15, I.26 Ligands: BCL.12, BCL.13, BCL.15, PGV.18, U4Z.78, PGV.81 5 PLIP interactions: 3 interactions with chain T, 2 interactions with chain S, Hydrophobic interactions: T:F.6, T:I.26, T:I.26 pi-Stacking: S:H.27 Metal complexes: S:H.27 BCL.80: 19 residues within 4Å: Chain E: G.36, I.39, A.40, H.44 Chain T: V.12, V.13, T.16, A.23, H.27, W.38 Chain U: F.6, V.14, S.15, I.26 Ligands: BCL.10, BCL.11, BCL.12, PGV.14, U4Z.78 11 PLIP interactions: 3 interactions with chain U, 8 interactions with chain T, Hydrophobic interactions: U:F.6, U:V.14, U:I.26, T:V.12, T:V.13, T:T.16, T:W.38, T:W.38, T:W.38 pi-Stacking: T:H.27 Metal complexes: T:H.27 BCL.82: 18 residues within 4Å: Chain D: V.29, G.36, I.39, A.40, H.44, C.47, W.50 Chain U: S.15, T.16, G.19, L.20, A.23, H.27, W.38 Chain V: I.26 Ligands: BCL.7, PGV.9, BCL.10 6 PLIP interactions: 4 interactions with chain U, 1 interactions with chain V, 1 interactions with chain D, Hydrophobic interactions: U:L.20, U:L.20, V:I.26, D:W.50 pi-Stacking: U:H.27 Metal complexes: U:H.27 BCL.85: 18 residues within 4Å: Chain C: G.36, I.39, A.40, H.44, C.47 Chain V: T.16, A.23, H.27, W.38 Chain W: S.11, V.14, S.15, L.18, I.26 Ligands: BCL.3, PGV.5, BCL.7, U4Z.84 10 PLIP interactions: 4 interactions with chain W, 6 interactions with chain V, Hydrophobic interactions: W:V.14, W:L.18, W:I.26, W:I.26, V:T.16, V:W.38, V:W.38, V:W.38 pi-Stacking: V:H.27 Metal complexes: V:H.27 BCL.86: 17 residues within 4Å: Chain B: A.40, H.44, C.47 Chain Q: F.55 Chain W: T.16, L.20, A.23, H.27, W.38 Chain X: T.10, V.14, L.18, I.26 Ligands: BCL.1, BCL.3, PGV.6, U4Z.84 8 PLIP interactions: 5 interactions with chain W, 3 interactions with chain X, Hydrophobic interactions: W:T.16, W:L.20, W:W.38, W:W.38, X:T.10, X:L.18, X:I.26 pi-Stacking: W:H.27 BCL.88: 13 residues within 4Å: Chain 8: T.13 Chain A: I.39, A.40, H.44 Chain X: T.16, G.19, L.20, A.23, H.27, V.30, L.31 Ligands: BCL.1, UNL.89 5 PLIP interactions: 5 interactions with chain X, Hydrophobic interactions: X:T.16, X:L.20, X:V.30, X:L.31 Metal complexes: X:H.27 BCL.91: 18 residues within 4Å: Chain O: I.39, A.40, H.44, C.47 Chain Y: T.16, G.19, L.20, A.23, H.27, W.38 Chain Z: F.6, S.11, L.18, I.26 Ligands: PGV.41, BCL.42, BCL.95, U4Z.96 6 PLIP interactions: 3 interactions with chain Y, 3 interactions with chain Z, Hydrophobic interactions: Y:T.16, Z:F.6, Z:L.18, Z:I.26 pi-Stacking: Y:H.27 Metal complexes: Y:H.27 BCL.95: 17 residues within 4Å: Chain N: G.36, L.37, A.40, H.44, C.47, W.53 Chain Y: L.39 Chain Z: G.19, M.22, A.23, I.26, H.27 Ligands: BCL.37, PGV.41, BCL.91, U4Z.96, BCL.97 7 PLIP interactions: 1 interactions with chain Z, 5 interactions with chain N, 1 interactions with chain Y, Hydrophobic interactions: Z:I.26, N:W.53, N:W.53, N:W.53, N:W.53, Y:L.39 Metal complexes: N:H.44 BCL.97: 19 residues within 4Å: Chain 0: S.11, V.14, S.15, I.26 Chain N: G.36, I.39, A.40, H.44, C.47 Chain Z: T.16, G.19, L.20, A.23, H.27, W.38 Ligands: BCL.37, PGV.39, BCL.95, U4Z.96 4 PLIP interactions: 2 interactions with chain Z, 2 interactions with chain 0, Hydrophobic interactions: Z:L.20, 0:V.14, 0:I.26 Metal complexes: Z:H.27 BCL.98: 19 residues within 4Å: Chain 0: T.16, G.19, L.20, A.23, H.27, W.38 Chain 1: F.6, S.11, V.14, S.15, I.26 Chain M: I.39, A.40, H.44, C.47 Ligands: BCL.34, BCL.35, PGV.36, BCL.37 8 PLIP interactions: 4 interactions with chain 0, 4 interactions with chain 1, Hydrophobic interactions: 0:T.16, 0:L.20, 1:F.6, 1:V.14, 1:I.26, 1:I.26 pi-Stacking: 0:H.27 Metal complexes: 0:H.27 BCL.99: 18 residues within 4Å: Chain 1: T.16, G.19, L.20, A.23, H.27, W.38 Chain 2: T.10, S.15, I.26 Chain L: G.36, I.39, A.40, A.43, H.44 Ligands: BCL.29, U4Z.31, PGV.32, BCL.34 6 PLIP interactions: 1 interactions with chain L, 2 interactions with chain 2, 3 interactions with chain 1, Hydrophobic interactions: L:A.43, 2:T.10, 2:I.26, 1:T.16 pi-Stacking: 1:H.27 Metal complexes: 1:H.27 BCL.100: 19 residues within 4Å: Chain 2: V.12, T.16, L.20, H.27, W.38 Chain 3: T.10, I.26 Chain K: G.36, I.39, A.40, H.44, C.47, W.50 Ligands: BCL.28, BCL.29, U4Z.31, PGV.33, UNL.102, BCL.103 8 PLIP interactions: 2 interactions with chain 3, 5 interactions with chain 2, 1 interactions with chain K, Hydrophobic interactions: 3:T.10, 3:I.26, 2:V.12, 2:T.16, 2:L.20, K:W.50 pi-Stacking: 2:H.27 Metal complexes: 2:H.27 BCL.103: 16 residues within 4Å: Chain 3: G.19, A.23, I.26, H.27, F.36 Chain I: I.33 Chain J: G.36, L.37, A.40, H.44, C.47, W.53 Ligands: PGV.33, BCL.100, BCL.104, U4Z.106 9 PLIP interactions: 2 interactions with chain 3, 6 interactions with chain J, 1 interactions with chain I, Hydrophobic interactions: 3:I.26, 3:F.36, J:L.37, J:A.40, J:W.53, J:W.53, J:W.53, I:I.33 Metal complexes: J:H.44 BCL.104: 21 residues within 4Å: Chain 3: T.16, L.20, A.23, H.27, F.36, W.38 Chain 4: S.11, S.15, L.18, I.26 Chain J: G.36, I.39, A.40, H.44, W.50 Ligands: BCL.24, BCL.25, PGV.26, BCL.103, UNL.105, U4Z.106 8 PLIP interactions: 5 interactions with chain 3, 1 interactions with chain J, 2 interactions with chain 4, Hydrophobic interactions: 3:T.16, 3:L.20, 3:F.36, J:W.50, 4:L.18, 4:I.26 pi-Stacking: 3:H.27 Metal complexes: 3:H.27 BCL.107: 21 residues within 4Å: Chain 4: V.12, T.16, G.19, A.23, H.27, W.38 Chain 5: F.6, S.11, S.15, I.26 Chain I: G.36, I.39, A.40, A.43, H.44, C.47 Ligands: BCL.22, BCL.24, PGV.27, U4Z.106, UNL.108 7 PLIP interactions: 4 interactions with chain 4, 3 interactions with chain 5, Hydrophobic interactions: 4:V.12, 4:T.16, 5:F.6, 5:F.6, 5:I.26 pi-Stacking: 4:H.27 Metal complexes: 4:H.27 BCL.110: 18 residues within 4Å: Chain 5: V.13, T.16, G.19, L.20, A.23, H.27, W.38 Chain H: G.36, I.39, A.40, H.44 Chain R: F.6, S.15, I.26 Ligands: BCL.19, BCL.20, PGV.21, BCL.22 7 PLIP interactions: 4 interactions with chain 5, 3 interactions with chain R, Hydrophobic interactions: 5:V.13, 5:T.16, R:F.6, R:I.26, R:I.26 pi-Stacking: 5:H.27 Metal complexes: 5:H.27

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

PGV.5: 9 residues within 4Å: Chain B: H.44, W.48, I.54, R.55 Chain C: A.43, A.49, W.50 Ligands: BCL.3, BCL.85 Ligand excluded by PLIP PGV.6: 13 residues within 4Å: Chain A: A.40, V.41, H.44, W.48, W.53, I.54, R.55 Chain B: A.43, C.47, A.49, W.50 Ligands: BCL.1, BCL.86 Ligand excluded by PLIP PGV.9: 10 residues within 4Å: Chain C: H.44, W.48, I.54, R.55 Chain D: A.43, C.47, A.49, W.50 Ligands: BCL.7, BCL.82 Ligand excluded by PLIP PGV.14: 10 residues within 4Å: Chain D: H.44, W.48, I.54, R.55 Chain E: A.43, C.47, A.49, W.50 Ligands: BCL.10, BCL.80 Ligand excluded by PLIP PGV.17: 9 residues within 4Å: Chain F: H.44, W.48, I.54 Chain G: A.43, C.47, A.49, W.50 Ligands: BCL.15, BCL.74 Ligand excluded by PLIP PGV.18: 10 residues within 4Å: Chain E: H.44, W.48, W.53, I.54 Chain F: A.43, C.47, A.49, W.50 Ligands: BCL.12, BCL.79 Ligand excluded by PLIP PGV.21: 11 residues within 4Å: Chain G: V.41, H.44, W.48, W.53, I.54 Chain H: A.43, C.47, A.49, W.50 Ligands: BCL.19, BCL.110 Ligand excluded by PLIP PGV.26: 10 residues within 4Å: Chain I: H.44, W.48, I.54, R.55 Chain J: A.43, C.47, A.49, W.50 Ligands: BCL.24, BCL.104 Ligand excluded by PLIP PGV.27: 11 residues within 4Å: Chain H: H.44, W.48, I.54, R.55 Chain I: A.43, L.46, C.47, A.49, W.50 Ligands: BCL.22, BCL.107 Ligand excluded by PLIP PGV.32: 10 residues within 4Å: Chain K: V.41, H.44, W.48, I.54 Chain L: A.43, C.47, A.49, W.50 Ligands: BCL.29, BCL.99 Ligand excluded by PLIP PGV.33: 10 residues within 4Å: Chain J: H.44, W.48, I.54 Chain K: A.43, L.46, C.47, A.49, W.50 Ligands: BCL.100, BCL.103 Ligand excluded by PLIP PGV.36: 10 residues within 4Å: Chain L: V.41, H.44, W.48, I.54, R.55 Chain M: A.43, C.47, W.50 Ligands: BCL.34, BCL.98 Ligand excluded by PLIP PGV.39: 9 residues within 4Å: Chain M: V.41, H.44, W.48, R.55 Chain N: A.43, C.47, W.50 Ligands: BCL.37, BCL.97 Ligand excluded by PLIP PGV.41: 11 residues within 4Å: Chain N: V.41, H.44, W.48, W.53, I.54 Chain O: A.43, C.47, A.49, W.50 Ligands: BCL.91, BCL.95 Ligand excluded by PLIP PGV.48: 9 residues within 4Å: Chain P: K.461, V.465, G.466, T.467, Q.468, W.471, W.593 Chain Q: R.239 Ligands: PEF.51 Ligand excluded by PLIP PGV.62: 15 residues within 4Å: Chain 7: P.13, W.14, P.15, F.24, L.27 Chain P: K.625 Chain Q: T.97, N.99, L.101, A.102 Chain S: L.24, F.28 Chain T: L.18, L.25, F.28 Ligand excluded by PLIP PGV.67: 8 residues within 4Å: Chain P: R.576, G.580 Chain Q: R.66, F.67 Chain T: R.9 Ligands: MQE.47, CDL.83, PEF.117 Ligand excluded by PLIP PGV.68: 6 residues within 4Å: Chain Q: L.50, R.53, F.54, F.55, F.72 Chain X: L.17 Ligand excluded by PLIP PGV.81: 7 residues within 4Å: Chain 7: I.36, R.39, F.40 Chain T: T.10 Ligands: BCL.79, PEF.117, UNL.118 Ligand excluded by PLIP PGV.92: 14 residues within 4Å: Chain 6: W.3, T.7 Chain 8: S.35, I.36, F.39, W.40, F.43 Chain Q: F.288 Chain Y: L.25, F.28, V.29, S.32 Ligands: UNL.63, UNL.66 Ligand excluded by PLIP PGV.116: 16 residues within 4Å: Chain 7: V.30, G.33, F.34, F.40, T.41, Q.44 Chain 9: G.6 Chain P: N.587, I.590, W.591, W.594, F.595, F.598 Ligands: UNL.56, UNL.118, UNL.119 Ligand excluded by PLIP PGV.125: 18 residues within 4Å: Chain 8: M.190, N.191, T.192, L.193, P.194 Chain P: E.411, W.413, N.414, F.502, R.503 Chain Q: Y.208, P.210, I.214, W.296, W.299, D.300 Ligands: BPH.57, CA.124 Ligand excluded by PLIP

5 x U4Z: gamma-Carotene(Non-covalent)

U4Z.31: 20 residues within 4Å: Chain 1: L.20, L.24, H.27, F.28, W.38 Chain 2: V.12, S.15, L.18, M.22 Chain 3: S.11 Chain K: V.25, I.28, V.29, T.32, I.33 Ligands: BCL.28, BCL.29, BCL.34, BCL.99, BCL.100 12 PLIP interactions: 2 interactions with chain 2, 5 interactions with chain K, 5 interactions with chain 1 Hydrophobic interactions: 2:V.12, 2:L.18, K:V.25, K:I.28, K:V.29, K:T.32, K:I.33, 1:L.20, 1:L.24, 1:H.27, 1:F.28, 1:W.38 U4Z.78: 19 residues within 4Å: Chain E: V.25, I.28, V.29, T.32, I.33 Chain S: A.23, L.24, H.27, W.38 Chain T: V.12, S.15, L.18, I.26 Chain U: S.11 Ligands: BCL.11, BCL.12, BCL.15, BCL.79, BCL.80 11 PLIP interactions: 5 interactions with chain E, 3 interactions with chain S, 3 interactions with chain T Hydrophobic interactions: E:V.25, E:I.28, E:V.29, E:T.32, E:I.33, S:A.23, S:L.24, S:W.38, T:V.12, T:L.18, T:I.26 U4Z.84: 18 residues within 4Å: Chain B: V.25, V.29, T.32, I.33 Chain V: A.23, L.24, H.27, W.38 Chain W: V.12, S.15, L.18, M.22 Chain X: S.11 Ligands: BCL.2, BCL.3, BCL.7, BCL.85, BCL.86 10 PLIP interactions: 2 interactions with chain W, 4 interactions with chain B, 4 interactions with chain V Hydrophobic interactions: W:V.12, W:L.18, B:V.25, B:V.29, B:T.32, B:I.33, V:A.23, V:L.24, V:H.27, V:W.38 U4Z.96: 21 residues within 4Å: Chain 0: F.6 Chain N: V.25, I.28, V.29, T.32, I.33 Chain Y: L.20, A.23, H.27, F.28, W.38 Chain Z: V.12, S.15, T.16, L.18, G.19 Ligands: BCL.38, BCL.42, BCL.91, BCL.95, BCL.97 12 PLIP interactions: 5 interactions with chain N, 4 interactions with chain Y, 2 interactions with chain Z, 1 interactions with chain 0 Hydrophobic interactions: N:V.25, N:I.28, N:V.29, N:T.32, N:I.33, Y:L.20, Y:A.23, Y:F.28, Y:W.38, Z:V.12, Z:L.18, 0:F.6 U4Z.106: 20 residues within 4Å: Chain 3: L.20, A.23, L.24, H.27, W.38 Chain 4: V.12, S.15, T.16, L.18, G.19 Chain 5: F.6 Chain I: V.25, I.28, T.32, I.33 Ligands: BCL.23, BCL.24, BCL.103, BCL.104, BCL.107 11 PLIP interactions: 3 interactions with chain 3, 4 interactions with chain I, 2 interactions with chain 5, 2 interactions with chain 4 Hydrophobic interactions: 3:L.20, 3:A.23, 3:W.38, I:V.25, I:I.28, I:T.32, I:I.33, 5:F.6, 5:F.6, 4:V.12, 4:L.18

3 x BPH: BACTERIOPHEOPHYTIN A(Non-covalent)

BPH.45: 23 residues within 4Å: Chain P: I.351, Y.374, V.375, G.379, F.383, F.386, W.452, R.455, L.456, L.469, G.472, F.473, A.476, A.596, A.600 Chain Q: F.220, T.223, L.224, H.227, M.228 Ligands: BCL.44, BPH.57, UNL.101 12 PLIP interactions: 10 interactions with chain P, 2 interactions with chain Q Hydrophobic interactions: P:I.351, P:V.375, P:F.383, P:F.383, P:F.386, P:W.452, P:F.473, P:A.476, P:A.600, Q:T.223, Q:L.224 pi-Stacking: P:F.473 BPH.57: 22 residues within 4Å: Chain P: F.386, S.389, I.393, L.445, Y.480, Y.484, P.498, F.502, I.505, L.506, W.508, T.509 Chain Q: F.207, A.213, I.216, T.217, F.220, A.221, L.224 Ligands: BCL.44, BPH.45, PGV.125 10 PLIP interactions: 2 interactions with chain Q, 8 interactions with chain P Hydrophobic interactions: Q:F.207, Q:L.224, P:F.386, P:I.393, P:L.445, P:P.498, P:L.506, P:W.508, P:W.508 Hydrogen bonds: P:Y.484 BPH.60: 26 residues within 4Å: Chain P: L.533, T.536, L.537, M.541, W.575, V.578, M.579 Chain Q: I.80, G.83, V.84, Y.87, F.136, W.139, Q.143, V.156, A.159, F.160, V.163, L.187, G.188, I.189, H.192, G.271, V.275 Ligands: BCL.58, BCL.59 10 PLIP interactions: 9 interactions with chain Q, 1 interactions with chain P Hydrophobic interactions: Q:I.80, Q:I.80, Q:V.84, Q:Y.87, Q:A.159, Q:V.163, Q:V.163, Q:V.275, P:T.536 Hydrogen bonds: Q:Q.143

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.46: 5 residues within 4Å: Chain P: H.542, E.557, H.589 Chain Q: H.229, H.264 5 PLIP interactions: 2 interactions with chain Q, 3 interactions with chain P Metal complexes: Q:H.229, Q:H.264, P:H.542, P:E.557, P:H.589

2 x MQE: 2-methyl-3-[(2E,6E,10E,14E,18E,22E,26E,30E,34E,38E)-3,7,11,15,19,23,27,31,35,39,43-undecamethyltetratetraconta-2,6,10,1 4,18,22,26,30,34,38,42-undecaen-1-yl]naphthalene-1,4-dione(Non-covalent)

MQE.47: 27 residues within 4Å: Chain 7: F.34 Chain P: M.541, H.542, T.545, Q.572, W.575, M.579, W.581, N.582, A.583, N.584, I.588, W.591, F.595 Chain Q: F.67, V.69, I.77, I.81, W.139 Chain U: V.21, L.24 Chain V: L.17, L.18, M.22, L.25 Ligands: PGV.67, CDL.83 24 PLIP interactions: 7 interactions with chain Q, 3 interactions with chain V, 2 interactions with chain U, 2 interactions with chain 7, 10 interactions with chain P Hydrophobic interactions: Q:F.67, Q:F.67, Q:V.69, Q:I.77, Q:I.77, Q:I.81, Q:W.139, V:L.17, V:L.18, V:L.25, U:V.21, U:L.24, 7:F.34, 7:F.34, P:T.545, P:Q.572, P:W.575, P:W.581, P:W.581, P:A.583, P:I.588, P:W.591, P:F.595 Hydrogen bonds: P:A.583 MQE.61: 19 residues within 4Å: Chain 6: M.11, L.14, F.17, L.18, V.21 Chain P: L.365 Chain Q: M.228, H.229, A.232, H.247, W.250, L.254, Y.256, S.257, I.258, G.259, I.263, T.270, F.277 12 PLIP interactions: 3 interactions with chain 6, 8 interactions with chain Q, 1 interactions with chain P Hydrophobic interactions: 6:F.17, 6:L.18, 6:V.21, Q:M.228, Q:W.250, Q:L.254, Q:I.258, Q:I.263, Q:F.277, P:L.365 Hydrogen bonds: Q:I.258, Q:G.259

11 x BGL: 2-O-octyl-beta-D-glucopyranose(Non-covalent)

BGL.49: 5 residues within 4Å: Chain 7: S.18 Chain P: L.613, V.614 Chain R: F.28 Ligands: LMT.75 3 PLIP interactions: 2 interactions with chain P, 1 interactions with chain R Hydrophobic interactions: P:L.613, P:V.614, R:F.28 BGL.50: 6 residues within 4Å: Chain 4: F.28, L.31, S.32 Chain P: G.425, L.426 Ligands: LMT.52 3 PLIP interactions: 2 interactions with chain P, 1 interactions with chain 4 Hydrogen bonds: P:G.425, P:L.426 Hydrophobic interactions: 4:F.28 BGL.53: 5 residues within 4Å: Chain P: H.357, V.358, G.359, W.360 Ligands: BGL.114 3 PLIP interactions: 3 interactions with chain P Hydrogen bonds: P:H.357, P:G.359, P:W.360 BGL.64: 7 residues within 4Å: Chain Q: A.294, F.295, G.297, F.298 Ligands: BGL.65, UNL.66, UNL.72 4 PLIP interactions: 4 interactions with chain Q Hydrophobic interactions: Q:F.295, Q:F.295, Q:F.298, Q:F.298 BGL.65: 6 residues within 4Å: Chain Q: F.288, K.290, D.291 Ligands: UNL.63, BGL.64, UNL.66 3 PLIP interactions: 3 interactions with chain Q Hydrogen bonds: Q:K.290, Q:K.290, Q:D.291 BGL.70: 9 residues within 4Å: Chain 0: L.25 Chain Q: F.298, K.301, M.302, P.303 Chain Z: F.28, S.32 Ligands: UNL.72, LMT.94 4 PLIP interactions: 3 interactions with chain Z, 1 interactions with chain 0 Hydrophobic interactions: Z:F.28, Z:F.28, 0:L.25 Hydrogen bonds: Z:S.32 BGL.71: 5 residues within 4Å: Chain Q: L.114, N.115, I.176 Ligands: LMT.87, UNL.90 3 PLIP interactions: 3 interactions with chain Q Hydrophobic interactions: Q:I.176 Hydrogen bonds: Q:L.114, Q:N.115 BGL.76: 3 residues within 4Å: Chain R: R.9 Chain S: E.7, T.10 4 PLIP interactions: 2 interactions with chain R, 2 interactions with chain S Hydrogen bonds: R:R.9, S:E.7, S:T.10 Salt bridges: R:R.9 BGL.112: 6 residues within 4Å: Chain 6: V.22, Y.26, V.29, T.30 Chain Y: F.6 Ligands: UNL.113 2 PLIP interactions: 1 interactions with chain 6, 1 interactions with chain Y Hydrophobic interactions: 6:V.22, Y:F.6 BGL.114: 6 residues within 4Å: Chain 6: W.28 Chain P: G.359, W.360, R.363 Ligands: BGL.53, UNL.93 No protein-ligand interaction detected (PLIP) BGL.126: 8 residues within 4Å: Chain 6: N.2, I.4, V.5 Chain 8: Y.44 Chain X: W.38, R.40 Ligands: UNL.89, UNL.128 5 PLIP interactions: 2 interactions with chain X, 2 interactions with chain 6, 1 interactions with chain 8 Hydrophobic interactions: X:W.38, 6:V.5 Salt bridges: X:R.40 Hydrogen bonds: 6:N.2, 8:Y.44

4 x PEF: DI-PALMITOYL-3-SN-PHOSPHATIDYLETHANOLAMINE(Non-covalent)

PEF.51: 8 residues within 4Å: Chain 5: V.13, L.17 Chain P: Y.457, K.461, T.467, W.471 Ligands: PGV.48, UNL.108 5 PLIP interactions: 2 interactions with chain 5, 3 interactions with chain P Hydrophobic interactions: 5:V.13, 5:L.17 Hydrogen bonds: P:Y.457, P:W.471 Salt bridges: P:K.461 PEF.69: 7 residues within 4Å: Chain Q: R.53, L.148, D.151, M.152, M.154 Ligands: PEF.73, UNL.113 3 PLIP interactions: 3 interactions with chain Q Hydrogen bonds: Q:D.151, Q:D.151 Salt bridges: Q:R.53 PEF.73: 12 residues within 4Å: Chain 6: V.15, L.18, P.19, V.22, Y.26 Chain Q: L.140, M.154, P.157, I.158, I.168 Ligands: PEF.69, UNL.113 9 PLIP interactions: 4 interactions with chain 6, 5 interactions with chain Q Hydrophobic interactions: 6:V.15, 6:L.18, 6:P.19, Q:L.140, Q:M.154, Q:P.157, Q:I.158 Hydrogen bonds: 6:Y.26, Q:M.154 PEF.117: 11 residues within 4Å: Chain 7: F.34, I.35, R.39, D.42, T.46 Chain P: W.581 Chain Q: R.66 Chain T: R.9 Ligands: PGV.67, PGV.81, CDL.83 9 PLIP interactions: 6 interactions with chain 7, 1 interactions with chain T, 1 interactions with chain P, 1 interactions with chain Q Hydrophobic interactions: 7:F.34, 7:I.35, 7:R.39, P:W.581 Hydrogen bonds: 7:D.42, 7:T.46, Q:R.66 Salt bridges: 7:R.39, T:R.9

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

LMT.52: 10 residues within 4Å: Chain 5: V.29, S.32, S.33 Chain P: F.486, L.489, A.490, L.491, G.492, F.608 Ligands: BGL.50 7 PLIP interactions: 2 interactions with chain 5, 5 interactions with chain P Hydrophobic interactions: 5:V.29, P:F.486, P:A.490, P:F.608 Hydrogen bonds: 5:S.32, P:L.489, P:A.490 LMT.75: 8 residues within 4Å: Chain 7: W.17, A.21 Chain R: F.28, L.31, S.32, W.38 Chain S: L.25 Ligands: BGL.49 5 PLIP interactions: 3 interactions with chain R, 1 interactions with chain S, 1 interactions with chain 7 Hydrophobic interactions: R:F.28, S:L.25, 7:A.21 Hydrogen bonds: R:L.31, R:S.32 LMT.87: 11 residues within 4Å: Chain Q: L.114, N.115, V.116, L.127 Chain W: F.28, V.29, L.31, S.32, L.39 Chain X: G.34 Ligands: BGL.71 5 PLIP interactions: 2 interactions with chain Q, 2 interactions with chain W, 1 interactions with chain X Hydrogen bonds: Q:V.116, Q:V.116, W:L.39, X:G.34 Hydrophobic interactions: W:V.29 LMT.94: 8 residues within 4Å: Chain Y: L.31, L.39 Chain Z: L.25, F.28, V.29, S.32, S.33 Ligands: BGL.70 4 PLIP interactions: 3 interactions with chain Z, 1 interactions with chain Y Hydrophobic interactions: Z:L.25, Z:V.29 Hydrogen bonds: Z:V.29, Y:L.39 LMT.109: 8 residues within 4Å: Chain 4: E.7, R.9, T.10, V.13, L.17 Chain P: W.378, T.458 Ligands: UNL.108 1 PLIP interactions: 1 interactions with chain 4 Hydrophobic interactions: 4:L.17

20 x UNL: UNKNOWN LIGAND(Non-functional Binders)

UNL.54: 7 residues within 4Å: Chain P: A.352, P.354, G.356, V.370 Chain Q: L.254, G.255, Y.256 Ligand excluded by PLIP UNL.55: 5 residues within 4Å: Chain 1: F.28 Chain 2: L.25 Chain P: W.403, P.405, Y.408 Ligand excluded by PLIP UNL.56: 3 residues within 4Å: Chain P: W.594 Ligands: PGV.116, UNL.119 Ligand excluded by PLIP UNL.63: 5 residues within 4Å: Chain 6: W.3 Chain Q: F.288 Ligands: BGL.65, UNL.66, PGV.92 Ligand excluded by PLIP UNL.66: 4 residues within 4Å: Ligands: UNL.63, BGL.64, BGL.65, PGV.92 Ligand excluded by PLIP UNL.72: 3 residues within 4Å: Chain Q: F.298 Ligands: BGL.64, BGL.70 Ligand excluded by PLIP UNL.77: 2 residues within 4Å: Chain 5: R.9 Chain R: T.10 Ligand excluded by PLIP UNL.89: 8 residues within 4Å: Chain X: H.27, L.31, W.38, L.39, R.40 Ligands: BCL.88, BGL.126, UNL.128 Ligand excluded by PLIP UNL.90: 5 residues within 4Å: Chain 6: N.2 Chain Q: I.176 Chain X: F.28, W.38 Ligands: BGL.71 Ligand excluded by PLIP UNL.93: 6 residues within 4Å: Chain 6: W.28, V.29 Chain P: R.363 Chain Y: R.4, R.9 Ligands: BGL.114 Ligand excluded by PLIP UNL.101: 5 residues within 4Å: Chain 2: R.9 Chain 3: V.14 Chain P: I.351, A.352 Ligands: BPH.45 Ligand excluded by PLIP UNL.102: 7 residues within 4Å: Chain 2: L.24, H.27, F.28, L.31 Chain 3: M.22 Chain P: W.432 Ligands: BCL.100 Ligand excluded by PLIP UNL.105: 12 residues within 4Å: Chain 3: V.13, T.16, L.17 Chain 4: F.6, V.14, L.17, L.18, V.21 Chain P: L.377, I.381, I.447 Ligands: BCL.104 Ligand excluded by PLIP UNL.108: 7 residues within 4Å: Chain 4: R.9, V.13 Chain 5: T.10 Chain P: Y.457 Ligands: PEF.51, BCL.107, LMT.109 Ligand excluded by PLIP UNL.111: 3 residues within 4Å: Chain 5: F.28, L.31, S.32 Ligand excluded by PLIP UNL.113: 4 residues within 4Å: Chain 6: Y.26 Ligands: PEF.69, PEF.73, BGL.112 Ligand excluded by PLIP UNL.118: 7 residues within 4Å: Chain 7: G.33, I.36, F.40 Chain S: L.17 Ligands: PGV.81, PGV.116, UNL.119 Ligand excluded by PLIP UNL.119: 3 residues within 4Å: Ligands: UNL.56, PGV.116, UNL.118 Ligand excluded by PLIP UNL.127: 3 residues within 4Å: Chain 8: W.41 Ligands: BCL.42, UNL.128 Ligand excluded by PLIP UNL.128: 8 residues within 4Å: Chain 6: I.4, F.8 Chain 8: A.37, W.41, Y.44 Ligands: UNL.89, BGL.126, UNL.127 Ligand excluded by PLIP

1 x CDL: CARDIOLIPIN(Non-covalent)

CDL.83: 18 residues within 4Å: Chain Q: I.64, G.65, F.67 Chain U: R.9, T.10, V.13, V.14, T.16, L.17 Chain V: F.6, E.7, T.10, S.11, V.14 Ligands: BCL.8, MQE.47, PGV.67, PEF.117 9 PLIP interactions: 2 interactions with chain Q, 4 interactions with chain U, 3 interactions with chain V Hydrophobic interactions: Q:I.64, Q:F.67, U:V.13, U:T.16, U:L.17, V:F.6, V:V.14 Salt bridges: U:R.9 Hydrogen bonds: V:E.7

1 x LHG: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE(Covalent)

LHG.115: 6 residues within 4Å: Chain 7: C.23, L.27 Chain P: M.526, L.527 Chain Q: I.189 Ligands: BCL.58 No protein-ligand interaction detected (PLIP)

4 x HEC: HEME C(Covalent)

HEC.120: 25 residues within 4Å: Chain 8: M.78, Y.81, Q.89, A.90, V.91, Q.92, V.93, L.94, I.102, S.103, M.106, V.107, V.110, S.111, V.116, D.117, C.118, C.121, H.122, F.127, A.128, K.139, A.142, R.143, M.146 15 PLIP interactions: 15 interactions with chain 8, Hydrophobic interactions: 8:I.102, 8:V.107, 8:V.110, 8:V.116, 8:K.139, 8:A.142 Hydrogen bonds: 8:Y.81, 8:Q.89, 8:A.90, 8:Q.92, 8:V.93, 8:L.94 Salt bridges: 8:R.143 pi-Cation interactions: 8:K.139 Metal complexes: 8:H.122 HEC.121: 19 residues within 4Å: Chain 8: Y.120, K.138, M.145, M.146, M.148, S.149, I.169, T.170, C.171, T.173, C.174, H.175, A.179, A.180, G.181, L.182, M.286, A.287, K.289 8 PLIP interactions: 8 interactions with chain 8, Hydrophobic interactions: 8:M.145, 8:I.169 Hydrogen bonds: 8:Y.120, 8:G.181, 8:L.182 Salt bridges: 8:K.138, 8:K.289 Metal complexes: 8:H.175 HEC.122: 24 residues within 4Å: Chain 8: Y.205, P.206, G.207, G.208, L.209, V.210, V.211, T.212, N.225, Q.226, M.229, M.232, N.233, G.239, C.240, C.243, H.244, F.249, P.250, K.257, S.260, I.261 Chain P: I.514 Chain Q: Y.204 15 PLIP interactions: 13 interactions with chain 8, 1 interactions with chain Q, 1 interactions with chain P, Hydrophobic interactions: 8:M.229, 8:M.232, 8:N.233, 8:F.249, 8:F.249, 8:K.257, Q:Y.204, P:I.514 Hydrogen bonds: 8:G.207, 8:G.208, 8:L.209, 8:V.211, 8:T.212 pi-Cation interactions: 8:K.257 Metal complexes: 8:H.244 HEC.123: 20 residues within 4Å: Chain 8: L.160, V.164, G.166, Y.167, I.169, M.232, M.236, Q.256, H.259, S.260, M.263, L.264, M.266, T.267, S.292, C.293, C.296, H.297, N.301, P.303 11 PLIP interactions: 11 interactions with chain 8, Hydrophobic interactions: 8:I.169, 8:I.169, 8:H.259, 8:M.263, 8:L.264 Hydrogen bonds: 8:G.166, 8:Y.167, 8:Y.167, 8:N.301 Salt bridges: 8:H.259 Metal complexes: 8:H.297

1 x CA: CALCIUM ION(Non-covalent)

CA.124: 4 residues within 4Å: Chain 8: M.190, L.193, N.195 Ligands: PGV.125 2 PLIP interactions: 2 interactions with chain 8 Metal complexes: 8:M.190, 8:L.193

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Qi, C.H. et al., New insights on the photocomplex of Roseiflexus castenholzii revealed from comparisons of native and carotenoid-depleted complexes. J.Biol.Chem. (2023)

Release Date

2023-12-06

Peptides

Antenna complex alpha/beta subunit: ABCDEFGHIJKLMNO
Reaction center protein L chain: PQ
Alpha subunit of light-harvesting 1: RSTUVWXYZ012345
reaction center small polypeptide: 6
reaction center small polypeptide: 7
Cytochrome subunit of photosynthetic reaction center: 8
reaction center unknown polypeptide: 9

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
W

B
U

C
S

D
Q

E
O

F
K

G
I

H
G

I
E

J
B

K
0

L
8

M
6

N
4

O
2

P
M

Q
L

R
H

S
J

T
N

U
P

V
R

W
T

X
V

Y
1

Z
3

0
5

1
7

2
9

3
A

4
D

5
F

6
Y

7
h

8
C

9
Z

Membrane

We predict this structure to be a membrane protein.
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Antenna complex alpha/beta subunit

Reaction center protein L chain

Alpha subunit of light-harvesting 1

reaction center small polypeptide

reaction center small polypeptide

Cytochrome subunit of photosynthetic reaction center

reaction center unknown polypeptide

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