SMTL ID : 7eqd.1

STRUCTURE OF PHOTOSYNTHETIC LH1-RC SUPER-COMPLEX OF RHODOSPIRILLUM RUBRUM

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

36 x 07D: Trans-Geranyl BACTERIOCHLOROPHYLL A(Non-covalent)

07D.1: 29 residues within 4Å: Chain A: F.97, A.124, I.125, A.127, Y.128, L.131, W.156, V.157, S.158, T.160, Y.162, F.167, H.168, H.173, G.176, I.177, F.180, F.181, S.244, I.245, C.247, M.248 Chain B: T.184, Y.208 Ligands: 08I.2, 07D.7, 07D.10, 07D.11, RQ0.13 16 PLIP interactions: 15 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:F.97, A:F.97, A:Y.128, A:L.131, A:V.157, A:Y.162, A:F.167, A:F.167, A:I.177, A:I.177, A:I.177, A:F.180, A:F.181, B:Y.208 Hydrogen bonds: A:S.244 Metal complexes: A:H.173 07D.7: 23 residues within 4Å: Chain A: F.61, Y.128, L.131, F.146, F.150, H.153, L.154, W.156, V.157 Chain B: F.195, M.201, I.204, A.205, Y.208, G.209, L.212 Ligands: 07D.1, 08I.2, PGV.4, 07D.11, RQ0.13, PGV.20, CDL.21 16 PLIP interactions: 10 interactions with chain A, 6 interactions with chain B, Hydrophobic interactions: A:Y.128, A:L.131, A:F.146, A:F.146, A:F.150, A:F.150, A:L.154, A:W.156, A:V.157, B:F.195, B:I.204, B:I.204, B:A.205, B:L.212 Metal complexes: A:H.153 pi-Stacking: B:Y.208 07D.10: 21 residues within 4Å: Chain A: H.168, M.174, I.177, T.178, T.182, L.185 Chain B: F.88, F.155, L.158, V.173, I.177, H.180, L.181, W.183, T.184 Ligands: 07D.1, U10.3, U10.8, 07D.11, 08I.12, CRT.14 14 PLIP interactions: 8 interactions with chain B, 6 interactions with chain A, Hydrophobic interactions: B:F.88, B:F.155, B:L.158, B:V.173, B:I.177, B:L.181, B:W.183, A:I.177, A:I.177, A:T.182, A:L.185 Metal complexes: B:H.180 Hydrogen bonds: A:T.178, A:T.182 07D.11: 28 residues within 4Å: Chain A: V.157, Y.162, H.168, F.181 Chain B: I.66, L.120, F.148, A.151, L.154, L.158, F.175, T.184, N.185, F.187, S.188, F.194, F.195, H.200, S.203, I.204, Y.208, G.278, I.282 Ligands: 07D.1, 07D.7, 07D.10, 08I.12, CRT.14 16 PLIP interactions: 16 interactions with chain B, Hydrophobic interactions: B:I.66, B:L.120, B:L.120, B:F.148, B:A.151, B:L.154, B:F.175, B:T.184, B:F.187, B:F.194, B:F.194, B:F.195, B:I.204, B:Y.208 Hydrogen bonds: B:S.203 Metal complexes: B:H.200 07D.25: 20 residues within 4Å: Chain 7: I.28 Chain D: A.18, L.21, F.22, A.25, H.29, L.32, F.38, W.40 Chain E: V.29, F.30, V.33, A.34, A.37, H.38, V.41, W.44 Ligands: 07D.27, CRT.90, 07D.91 14 PLIP interactions: 8 interactions with chain D, 4 interactions with chain E, 2 interactions with chain 7, Hydrophobic interactions: D:A.18, D:L.21, D:L.32, D:W.40, D:W.40, D:W.40, D:W.40, E:V.29, E:F.30, E:A.37, E:W.44, 7:I.28, 7:I.28 Metal complexes: D:H.29 07D.27: 21 residues within 4Å: Chain D: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain E: F.30, F.31, A.34, H.38, V.41, W.47 Chain F: W.40 Chain G: V.33, A.37, V.41 Ligands: 07D.25, CRT.26, LMT.28, 07D.29 14 PLIP interactions: 2 interactions with chain G, 8 interactions with chain E, 4 interactions with chain D, Hydrophobic interactions: G:V.33, G:A.37, E:F.30, E:A.34, E:V.41, E:W.47, E:W.47, E:W.47, E:W.47, D:I.28, D:I.28, D:L.32, D:F.38 Metal complexes: E:H.38 07D.29: 20 residues within 4Å: Chain D: I.28 Chain E: F.31 Chain F: A.18, L.21, F.22, A.25, H.29, L.32, F.38, W.40 Chain G: F.30, V.33, A.34, A.37, H.38, V.41, W.44 Ligands: CRT.26, 07D.27, 07D.31 13 PLIP interactions: 1 interactions with chain E, 3 interactions with chain G, 2 interactions with chain D, 7 interactions with chain F, Hydrophobic interactions: E:F.31, G:F.30, G:A.37, G:W.44, D:I.28, D:I.28, F:L.21, F:L.32, F:W.40, F:W.40, F:W.40, F:W.40 Metal complexes: F:H.29 07D.31: 24 residues within 4Å: Chain F: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain G: F.30, F.31, A.34, H.38, V.41, W.47 Chain H: W.40, L.41 Chain I: V.33, A.37, L.40, V.41, W.44 Ligands: 07D.29, CRT.30, LMT.32, 07D.33 17 PLIP interactions: 1 interactions with chain H, 8 interactions with chain G, 6 interactions with chain I, 2 interactions with chain F, Hydrophobic interactions: H:L.41, G:F.30, G:A.34, G:V.41, G:W.47, G:W.47, G:W.47, G:W.47, I:V.33, I:A.37, I:L.40, I:L.40, I:V.41, I:W.44, F:I.28, F:F.38 Metal complexes: G:H.38 07D.33: 21 residues within 4Å: Chain F: M.1, I.28 Chain H: A.18, L.21, F.22, A.25, H.29, L.32, F.38, W.40 Chain I: S.26, V.29, F.30, A.34, A.37, H.38, V.41, W.44 Ligands: CRT.30, 07D.31, 07D.35 11 PLIP interactions: 6 interactions with chain H, 2 interactions with chain F, 3 interactions with chain I, Hydrophobic interactions: H:L.32, H:W.40, H:W.40, H:W.40, H:W.40, F:I.28, F:I.28, I:V.29, I:A.37, I:W.44 Metal complexes: H:H.29 07D.35: 23 residues within 4Å: Chain H: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain I: F.30, F.31, A.34, H.38, V.41, W.47, V.48 Chain J: W.40 Chain K: A.37, L.40, V.41, W.44 Ligands: 07D.33, CRT.34, LMT.36, 07D.37 18 PLIP interactions: 4 interactions with chain K, 10 interactions with chain I, 4 interactions with chain H, Hydrophobic interactions: K:A.37, K:L.40, K:V.41, K:W.44, I:F.30, I:F.31, I:A.34, I:V.41, I:W.47, I:W.47, I:W.47, I:W.47, I:V.48, H:I.28, H:I.28, H:L.32, H:F.38 Metal complexes: I:H.38 07D.37: 20 residues within 4Å: Chain H: I.28 Chain J: L.21, F.22, A.25, H.29, L.32, F.38, W.40 Chain K: S.26, V.29, F.30, V.33, A.34, A.37, H.38, V.41, W.44 Ligands: CRT.34, 07D.35, 07D.39 15 PLIP interactions: 7 interactions with chain J, 6 interactions with chain K, 2 interactions with chain H, Hydrophobic interactions: J:L.21, J:L.32, J:W.40, J:W.40, J:W.40, J:W.40, K:V.29, K:F.30, K:F.30, K:V.33, K:A.37, K:W.44, H:I.28, H:I.28 Metal complexes: J:H.29 07D.39: 22 residues within 4Å: Chain J: L.21, A.25, I.28, H.29, L.32, F.38 Chain K: F.30, F.31, A.34, H.38, V.41, W.47, V.48 Chain L: W.40 Chain M: A.37, L.40, V.41, W.44 Ligands: 07D.37, CRT.38, LMT.40, 07D.41 16 PLIP interactions: 9 interactions with chain K, 3 interactions with chain J, 4 interactions with chain M, Hydrophobic interactions: K:F.30, K:A.34, K:V.41, K:W.47, K:W.47, K:W.47, K:W.47, K:V.48, J:I.28, J:L.32, J:F.38, M:A.37, M:L.40, M:V.41, M:W.44 Metal complexes: K:H.38 07D.41: 16 residues within 4Å: Chain J: I.28 Chain L: L.21, F.22, A.25, H.29, W.40 Chain M: F.30, V.33, A.34, A.37, H.38, V.41, W.44 Ligands: CRT.38, 07D.39, 07D.45 10 PLIP interactions: 6 interactions with chain L, 2 interactions with chain M, 2 interactions with chain J, Hydrophobic interactions: L:L.21, L:W.40, L:W.40, L:W.40, L:W.40, M:A.37, M:W.44, J:I.28, J:I.28 Metal complexes: L:H.29 07D.45: 24 residues within 4Å: Chain L: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain M: F.30, F.31, A.34, H.38, V.41, W.47 Chain N: W.40, L.41 Chain O: V.33, A.37, L.40, V.41, W.44 Ligands: 07D.41, CRT.44, LMT.46, 07D.47 17 PLIP interactions: 3 interactions with chain L, 8 interactions with chain M, 5 interactions with chain O, 1 interactions with chain N, Hydrophobic interactions: L:I.28, L:L.32, L:F.38, M:F.30, M:A.34, M:V.41, M:W.47, M:W.47, M:W.47, M:W.47, O:V.33, O:A.37, O:V.41, O:W.44, O:W.44, N:L.41 Metal complexes: M:H.38 07D.47: 18 residues within 4Å: Chain L: I.28 Chain N: L.21, F.22, A.25, H.29, L.32, W.40 Chain O: V.29, F.30, V.33, A.34, A.37, H.38, V.41, W.44 Ligands: CRT.44, 07D.45, 07D.49 14 PLIP interactions: 8 interactions with chain N, 4 interactions with chain O, 2 interactions with chain L, Hydrophobic interactions: N:L.21, N:A.25, N:L.32, N:W.40, N:W.40, N:W.40, N:W.40, O:V.33, O:A.37, O:V.41, O:W.44, L:I.28, L:I.28 Metal complexes: N:H.29 07D.49: 24 residues within 4Å: Chain N: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain O: F.30, F.31, A.34, H.38, V.41, W.47, V.48 Chain P: W.40, L.41 Chain Q: A.37, L.40, V.41, W.44 Ligands: 07D.47, CRT.48, LMT.50, 07D.51 21 PLIP interactions: 5 interactions with chain Q, 5 interactions with chain N, 10 interactions with chain O, 1 interactions with chain P, Hydrophobic interactions: Q:A.37, Q:L.40, Q:L.40, Q:W.44, Q:W.44, N:I.28, N:I.28, N:L.32, N:L.32, N:F.38, O:F.30, O:F.31, O:F.31, O:A.34, O:V.41, O:W.47, O:W.47, O:W.47, O:W.47, P:L.41 Metal complexes: O:H.38 07D.51: 18 residues within 4Å: Chain N: I.28 Chain P: A.18, L.21, A.25, H.29, L.32, W.40 Chain Q: V.29, F.30, V.33, A.34, A.37, H.38, V.41, W.44 Ligands: CRT.48, 07D.49, 07D.52 15 PLIP interactions: 8 interactions with chain P, 5 interactions with chain Q, 2 interactions with chain N, Hydrophobic interactions: P:A.18, P:A.25, P:L.32, P:W.40, P:W.40, P:W.40, P:W.40, Q:V.29, Q:F.30, Q:V.33, Q:A.37, Q:W.44, N:I.28, N:I.28 Metal complexes: P:H.29 07D.52: 24 residues within 4Å: Chain P: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain Q: F.30, F.31, A.34, H.38, V.41, W.47, V.48 Chain R: W.40 Chain S: V.33, A.37, L.40, V.41, W.44 Ligands: 07D.51, CRT.53, LMT.54, 07D.55 17 PLIP interactions: 4 interactions with chain S, 9 interactions with chain Q, 4 interactions with chain P, Hydrophobic interactions: S:V.33, S:A.37, S:V.41, S:W.44, Q:F.30, Q:A.34, Q:V.41, Q:W.47, Q:W.47, Q:W.47, Q:W.47, Q:V.48, P:I.28, P:I.28, P:L.32, P:F.38 Metal complexes: Q:H.38 07D.55: 19 residues within 4Å: Chain P: I.28 Chain R: L.21, F.22, A.25, H.29, L.32, F.38, W.40 Chain S: V.29, F.30, V.33, A.34, A.37, H.38, V.41, W.44 Ligands: 07D.52, CRT.53, 07D.57 14 PLIP interactions: 5 interactions with chain S, 7 interactions with chain R, 2 interactions with chain P, Hydrophobic interactions: S:V.29, S:F.30, S:V.33, S:A.37, S:W.44, R:F.22, R:L.32, R:W.40, R:W.40, R:W.40, R:W.40, P:I.28, P:I.28 Metal complexes: R:H.29 07D.57: 22 residues within 4Å: Chain R: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain S: F.31, A.34, H.38, V.41, W.47, V.48 Chain T: W.40, L.41 Chain U: A.37, V.41, W.44 Ligands: 07D.55, CRT.56, LMT.58, 07D.59 12 PLIP interactions: 7 interactions with chain S, 1 interactions with chain T, 2 interactions with chain R, 2 interactions with chain U, Hydrophobic interactions: S:A.34, S:V.41, S:W.47, S:W.47, S:W.47, S:V.48, T:L.41, R:I.28, R:F.38, U:W.44, U:W.44 Metal complexes: S:H.38 07D.59: 19 residues within 4Å: Chain R: I.28 Chain T: L.21, F.22, A.25, H.29, L.32, F.38, W.40 Chain U: F.30, V.33, A.34, A.37, H.38, V.41, W.44 Ligands: CRT.56, 07D.57, CRT.60, 07D.61 15 PLIP interactions: 2 interactions with chain R, 5 interactions with chain U, 8 interactions with chain T, Hydrophobic interactions: R:I.28, R:I.28, U:F.30, U:V.33, U:V.33, U:A.37, U:W.44, T:L.21, T:A.25, T:L.32, T:W.40, T:W.40, T:W.40, T:W.40 Metal complexes: T:H.29 07D.61: 23 residues within 4Å: Chain T: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain U: F.30, F.31, A.34, H.38, V.41, W.47 Chain V: W.40, L.41 Chain W: A.37, L.40, V.41, W.44 Ligands: 07D.59, CRT.60, LMT.62, 07D.63 18 PLIP interactions: 4 interactions with chain T, 5 interactions with chain W, 8 interactions with chain U, 1 interactions with chain V, Hydrophobic interactions: T:I.28, T:I.28, T:L.32, T:F.38, W:A.37, W:L.40, W:L.40, W:V.41, W:W.44, U:F.30, U:A.34, U:V.41, U:W.47, U:W.47, U:W.47, U:W.47, V:L.41 Metal complexes: U:H.38 07D.63: 17 residues within 4Å: Chain T: I.28 Chain V: L.21, A.25, H.29, L.32, F.38, W.40 Chain W: F.30, V.33, A.34, A.37, H.38, V.41, W.44 Ligands: CRT.60, 07D.61, 07D.65 12 PLIP interactions: 7 interactions with chain V, 3 interactions with chain W, 2 interactions with chain T, Hydrophobic interactions: V:L.21, V:L.32, V:W.40, V:W.40, V:W.40, V:W.40, W:F.30, W:A.37, W:W.44, T:I.28, T:I.28 Metal complexes: V:H.29 07D.65: 23 residues within 4Å: Chain V: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain W: F.30, F.31, A.34, H.38, V.41, W.47 Chain X: W.40, L.41 Chain Y: V.33, A.37, L.40, V.41 Ligands: 07D.63, CRT.64, LMT.66, 07D.67 18 PLIP interactions: 1 interactions with chain X, 3 interactions with chain V, 9 interactions with chain W, 5 interactions with chain Y, Hydrophobic interactions: X:L.41, V:I.28, V:I.28, V:F.38, W:F.30, W:F.31, W:A.34, W:V.41, W:W.47, W:W.47, W:W.47, W:W.47, Y:V.33, Y:A.37, Y:L.40, Y:L.40, Y:V.41 Metal complexes: W:H.38 07D.67: 21 residues within 4Å: Chain V: M.1, I.28 Chain X: L.21, F.22, A.25, H.29, L.32, F.38, W.40 Chain Y: S.26, F.30, V.33, A.34, A.37, H.38, V.41, W.44 Ligands: CRT.64, 07D.65, CRT.68, 07D.69 11 PLIP interactions: 7 interactions with chain X, 2 interactions with chain Y, 2 interactions with chain V, Hydrophobic interactions: X:L.21, X:L.32, X:W.40, X:W.40, X:W.40, X:W.40, Y:A.37, Y:W.44, V:I.28, V:I.28 Metal complexes: X:H.29 07D.69: 24 residues within 4Å: Chain 0: A.37, L.40, V.41, W.44 Chain X: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain Y: F.30, F.31, A.34, H.38, V.41, W.47, V.48 Chain Z: W.40, L.41 Ligands: 07D.67, CRT.68, LMT.70, 07D.71 19 PLIP interactions: 3 interactions with chain X, 10 interactions with chain Y, 5 interactions with chain 0, 1 interactions with chain Z, Hydrophobic interactions: X:I.28, X:L.32, X:F.38, Y:F.30, Y:F.31, Y:A.34, Y:V.41, Y:W.47, Y:W.47, Y:W.47, Y:W.47, Y:V.48, 0:A.37, 0:L.40, 0:L.40, 0:W.44, 0:W.44, Z:L.41 Metal complexes: Y:H.38 07D.71: 18 residues within 4Å: Chain 0: V.29, F.30, V.33, A.34, A.37, H.38, V.41 Chain X: M.1, I.28 Chain Z: L.21, A.25, H.29, L.32, W.40 Ligands: CRT.68, 07D.69, CRT.72, 07D.73 9 PLIP interactions: 6 interactions with chain Z, 2 interactions with chain 0, 1 interactions with chain X, Hydrophobic interactions: Z:L.32, Z:W.40, Z:W.40, Z:W.40, Z:W.40, 0:V.29, 0:A.37, X:I.28 Metal complexes: Z:H.29 07D.73: 20 residues within 4Å: Chain 0: F.30, F.31, H.38, V.41, W.47, V.48 Chain 1: W.40 Chain 2: A.37, L.40, W.44 Chain Z: L.21, A.25, I.28, H.29, L.32, F.38 Ligands: 07D.71, CRT.72, LMT.74, 07D.75 15 PLIP interactions: 3 interactions with chain Z, 7 interactions with chain 0, 5 interactions with chain 2, Hydrophobic interactions: Z:I.28, Z:L.32, Z:F.38, 0:F.30, 0:V.41, 0:W.47, 0:W.47, 0:V.48, 0:V.48, 2:A.37, 2:L.40, 2:L.40, 2:W.44, 2:W.44 Metal complexes: 0:H.38 07D.75: 19 residues within 4Å: Chain 1: L.21, F.22, A.25, H.29, L.32, F.38, W.40 Chain 2: V.29, F.30, V.33, A.34, A.37, H.38, V.41, W.44 Chain Z: I.28 Ligands: CRT.72, 07D.73, 07D.77 14 PLIP interactions: 8 interactions with chain 1, 2 interactions with chain Z, 4 interactions with chain 2, Hydrophobic interactions: 1:L.21, 1:A.25, 1:L.32, 1:W.40, 1:W.40, 1:W.40, 1:W.40, Z:I.28, Z:I.28, 2:V.29, 2:F.30, 2:A.37, 2:W.44 Metal complexes: 1:H.29 07D.77: 22 residues within 4Å: Chain 1: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain 2: F.30, F.31, H.38, V.41, W.47 Chain 3: W.40, L.41 Chain 4: A.37, L.40, V.41, W.44 Ligands: 07D.75, CRT.76, LMT.78, 07D.80 15 PLIP interactions: 7 interactions with chain 2, 4 interactions with chain 4, 1 interactions with chain 3, 3 interactions with chain 1, Hydrophobic interactions: 2:F.30, 2:V.41, 2:W.47, 2:W.47, 2:W.47, 2:W.47, 4:A.37, 4:L.40, 4:V.41, 4:W.44, 3:L.41, 1:I.28, 1:I.28, 1:F.38 Metal complexes: 2:H.38 07D.80: 17 residues within 4Å: Chain 1: I.28 Chain 3: A.18, L.21, A.25, H.29, L.32, F.38, W.40 Chain 4: F.30, V.33, A.34, A.37, H.38, W.44 Ligands: CRT.76, 07D.77, 07D.83 13 PLIP interactions: 2 interactions with chain 4, 9 interactions with chain 3, 2 interactions with chain 1, Hydrophobic interactions: 4:A.37, 4:W.44, 3:A.18, 3:A.25, 3:L.32, 3:W.40, 3:W.40, 3:W.40, 3:W.40, 3:W.40, 1:I.28, 1:I.28 Metal complexes: 3:H.29 07D.83: 22 residues within 4Å: Chain 3: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain 4: F.30, F.31, A.34, H.38, V.41, W.47 Chain 5: W.40, L.41 Chain 6: A.37, L.40, V.41 Ligands: 07D.80, CRT.82, LMT.84, 07D.85 17 PLIP interactions: 9 interactions with chain 4, 4 interactions with chain 6, 3 interactions with chain 3, 1 interactions with chain 5, Hydrophobic interactions: 4:F.30, 4:F.31, 4:A.34, 4:V.41, 4:W.47, 4:W.47, 4:W.47, 4:W.47, 6:A.37, 6:L.40, 6:L.40, 6:V.41, 3:I.28, 3:L.32, 3:F.38, 5:L.41 Metal complexes: 4:H.38 07D.85: 18 residues within 4Å: Chain 3: I.28 Chain 5: L.21, A.25, H.29, F.38, W.40 Chain 6: S.26, V.29, F.30, V.33, A.34, A.37, H.38, V.41, W.44 Ligands: CRT.82, 07D.83, 07D.87 13 PLIP interactions: 6 interactions with chain 5, 5 interactions with chain 6, 2 interactions with chain 3, Hydrophobic interactions: 5:A.25, 5:W.40, 5:W.40, 5:W.40, 5:W.40, 6:V.29, 6:V.29, 6:F.30, 6:A.37, 6:W.44, 3:I.28, 3:I.28 Metal complexes: 5:H.29 07D.87: 24 residues within 4Å: Chain 5: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain 6: F.30, F.31, A.34, H.38, V.41, W.47, V.48 Chain 7: W.40, L.41 Chain 8: A.37, L.40, V.41, W.44 Ligands: 07D.85, CRT.86, LMT.88, 07D.89 16 PLIP interactions: 4 interactions with chain 8, 2 interactions with chain 5, 9 interactions with chain 6, 1 interactions with chain 7, Hydrophobic interactions: 8:L.40, 8:L.40, 8:V.41, 8:W.44, 5:I.28, 5:F.38, 6:F.30, 6:F.31, 6:A.34, 6:V.41, 6:W.47, 6:W.47, 6:W.47, 6:V.48, 7:L.41 Metal complexes: 6:H.38 07D.89: 19 residues within 4Å: Chain 5: I.28 Chain 7: L.21, F.22, A.25, H.29, L.32, F.38, W.40 Chain 8: V.29, F.30, V.33, A.34, A.37, H.38, V.41, W.44 Ligands: CRT.86, 07D.87, 07D.91 14 PLIP interactions: 8 interactions with chain 7, 4 interactions with chain 8, 2 interactions with chain 5, Hydrophobic interactions: 7:L.21, 7:A.25, 7:L.32, 7:W.40, 7:W.40, 7:W.40, 7:W.40, 8:F.30, 8:V.33, 8:A.37, 8:W.44, 5:I.28, 5:I.28 Metal complexes: 7:H.29 07D.91: 25 residues within 4Å: Chain 7: L.21, L.24, A.25, I.28, H.29, L.32, F.38 Chain 8: F.30, F.31, A.34, H.38, V.41, W.47, V.48 Chain D: W.40, L.41 Chain E: V.33, A.37, L.40, V.41, W.44 Ligands: 07D.25, 07D.89, CRT.90, LMT.92 18 PLIP interactions: 6 interactions with chain E, 9 interactions with chain 8, 2 interactions with chain 7, 1 interactions with chain D, Hydrophobic interactions: E:V.33, E:A.37, E:L.40, E:V.41, E:W.44, E:W.44, 8:F.30, 8:A.34, 8:V.41, 8:W.47, 8:W.47, 8:W.47, 8:W.47, 8:V.48, 7:I.28, 7:F.38, D:L.41 Metal complexes: 8:H.38

2 x 08I: Trans-Geranyl BACTERIOPHEOPHYTIN A(Non-covalent)

08I.2: 33 residues within 4Å: Chain A: T.38, F.41, T.42, G.45, I.49, S.92, A.93, A.96, W.100, E.104, I.117, A.120, F.121, F.123, A.124, F.146, Y.148, G.149, F.150, H.153, F.180, L.238, V.241 Chain B: Y.208, A.211, L.212, A.215, M.216, W.250, M.254 Ligands: 07D.1, 07D.7, RQ0.13 16 PLIP interactions: 13 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:T.42, A:A.93, A:A.120, A:F.121, A:F.121, A:F.123, A:F.146, A:Y.148, A:Y.148, A:F.180, A:L.238, A:V.241, A:V.241, B:Y.208, B:A.211, B:A.215 08I.12: 23 residues within 4Å: Chain A: F.181, C.184, L.185, A.188, L.189, I.220 Chain B: S.58, L.59, G.62, F.63, I.66, S.123, I.124, W.127, M.131, T.144, A.147, F.148, A.151, A.271, T.275 Ligands: 07D.10, 07D.11 13 PLIP interactions: 10 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:L.59, B:F.63, B:I.66, B:W.127, B:A.147, B:F.148, B:F.148, B:F.148, B:A.271, B:T.275, A:F.181, A:L.185, A:L.189

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

U10.3: 14 residues within 4Å: Chain A: T.182, L.189, H.190, L.193, E.212, N.213, F.216, I.220, S.223, V.224, G.225, T.226, I.229 Ligands: 07D.10 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.189, A:L.193, A:F.216, A:F.216, A:I.220, A:V.224, A:I.229 Hydrogen bonds: A:V.224, A:G.225 U10.8: 8 residues within 4Å: Chain A: M.174, L.175, T.178, W.263 Chain B: F.89, I.177, F.178 Ligands: 07D.10 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:M.174, A:L.175, A:T.178

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

PGV.4: 19 residues within 4Å: Chain A: T.46, I.49, V.50, G.56, P.57, S.58, W.59, T.60, F.61, I.64 Chain D: L.27, I.31, S.34 Chain F: F.30, L.33, E.42 Ligands: 07D.7, RQ0.13, CDL.19 11 PLIP interactions: 7 interactions with chain A, 2 interactions with chain F, 2 interactions with chain D Hydrophobic interactions: A:V.50, A:W.59, A:W.59, A:F.61, A:I.64, F:F.30, F:F.30, D:L.27, D:I.31 Hydrogen bonds: A:S.58, A:W.59 PGV.20: 16 residues within 4Å: Chain A: W.62 Chain B: P.198, M.201, L.202, W.295, H.299, G.300, L.301 Chain C: Y.8, Q.13, L.16, Y.17, W.20 Ligands: 07D.7, CDL.19, CDL.21 12 PLIP interactions: 5 interactions with chain B, 7 interactions with chain C Hydrophobic interactions: B:M.201, B:L.202, B:L.301, C:Y.17, C:W.20, C:W.20, C:W.20 Hydrogen bonds: B:H.299, C:Y.8, C:Q.13, C:Y.17 Salt bridges: B:H.299

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

LMT.5: 5 residues within 4Å: Chain A: D.261, W.262, W.265, K.268 Ligands: LMT.6 Ligand excluded by PLIP LMT.6: 7 residues within 4Å: Chain A: P.171, W.243, L.250, I.254, Y.255, W.262 Ligands: LMT.5 Ligand excluded by PLIP LMT.17: 21 residues within 4Å: Chain B: Y.50, G.52, T.53, T.54, L.57, F.118, T.122, L.126, R.133, R.134 Chain N: Q.12, V.15, G.16, T.19, F.20, V.23, L.24, L.27 Chain P: F.22, L.26 Ligands: CDL.16 Ligand excluded by PLIP LMT.18: 10 residues within 4Å: Chain B: L.165, M.166, I.280, L.283, L.284, G.286, T.287, V.288 Ligands: LMT.24, PEF.42 Ligand excluded by PLIP LMT.24: 16 residues within 4Å: Chain C: N.1, K.2, G.3, D.4, I.5, V.11, V.14, V.15 Chain J: V.23, L.26, L.27, F.30, S.34 Chain L: E.42 Ligands: LMT.18, PEF.42 Ligand excluded by PLIP LMT.28: 7 residues within 4Å: Chain E: H.38, W.42, V.48, G.50, P.51 Chain G: W.44 Ligands: 07D.27 Ligand excluded by PLIP LMT.32: 8 residues within 4Å: Chain G: H.38, W.42, W.47, V.48, P.49, G.50, G.53 Ligands: 07D.31 Ligand excluded by PLIP LMT.36: 10 residues within 4Å: Chain I: H.38, W.42, W.47, V.48, P.49, G.50, G.53, Y.54 Chain K: W.44 Ligands: 07D.35 Ligand excluded by PLIP LMT.40: 7 residues within 4Å: Chain K: A.35, H.38, W.42, V.48, G.50 Chain M: W.44 Ligands: 07D.39 Ligand excluded by PLIP LMT.46: 9 residues within 4Å: Chain M: A.35, H.38, W.42, W.47, V.48, G.50, P.51 Chain O: W.44 Ligands: 07D.45 Ligand excluded by PLIP LMT.50: 10 residues within 4Å: Chain O: H.38, W.42, W.47, V.48, P.49, G.50, G.53, Y.54 Chain Q: W.44 Ligands: 07D.49 Ligand excluded by PLIP LMT.54: 9 residues within 4Å: Chain Q: A.35, H.38, W.42, P.46, W.47, V.48, G.50, P.51 Ligands: 07D.52 Ligand excluded by PLIP LMT.58: 8 residues within 4Å: Chain S: H.38, W.42, W.47, V.48, G.50, G.53, Y.54 Ligands: 07D.57 Ligand excluded by PLIP LMT.62: 10 residues within 4Å: Chain U: A.34, A.35, H.38, W.42, W.47, V.48, P.49, G.50, G.53 Ligands: 07D.61 Ligand excluded by PLIP LMT.66: 9 residues within 4Å: Chain W: A.34, H.38, W.42, W.47, V.48, G.50, P.51 Chain Y: W.44 Ligands: 07D.65 Ligand excluded by PLIP LMT.70: 7 residues within 4Å: Chain 0: W.44 Chain Y: A.35, H.38, W.42, W.47, V.48 Ligands: 07D.69 Ligand excluded by PLIP LMT.74: 5 residues within 4Å: Chain 0: H.38, W.42, W.47, V.48 Ligands: 07D.73 Ligand excluded by PLIP LMT.78: 8 residues within 4Å: Chain 2: H.38, W.42, W.47, V.48, G.50, P.51 Chain 4: W.44 Ligands: 07D.77 Ligand excluded by PLIP LMT.79: 7 residues within 4Å: Chain 1: F.30, I.31 Chain 3: L.33, S.34, N.39, E.42 Ligands: LMT.81 Ligand excluded by PLIP LMT.81: 10 residues within 4Å: Chain 3: V.23, F.30, S.34 Chain A: S.72, Y.73, G.74, L.75, A.76, V.137 Ligands: LMT.79 Ligand excluded by PLIP LMT.84: 10 residues within 4Å: Chain 4: H.38, W.42, W.47, V.48, P.49, G.50, G.53, Y.54 Chain 6: W.44 Ligands: 07D.83 Ligand excluded by PLIP LMT.88: 8 residues within 4Å: Chain 6: H.38, W.42, P.46, W.47, V.48, P.49, G.50 Ligands: 07D.87 Ligand excluded by PLIP LMT.92: 7 residues within 4Å: Chain 8: H.38, W.42, W.47, V.48, G.50 Chain E: W.44 Ligands: 07D.91 Ligand excluded by PLIP

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

FE.9: 5 residues within 4Å: Chain A: H.190, H.230 Chain B: H.217, E.232, H.264 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Metal complexes: A:H.190, A:H.230, B:E.232, B:E.232, B:H.264

1 x RQ0: 2-azanyl-5-[(2~{E},6~{E},8~{E},10~{E},12~{E},14~{E},18~{E},22~{E},26~{E},30~{E},34~{E})-3,7,11,15,19,23,27,31,35,39-decamethyltetraconta-2,6,8,10,12,14,18,22,26,30,34,38-dodecaenyl]-3-methoxy-6-methyl-cyclohexa-2,5-diene-1,4-dione(Non-covalent)

RQ0.13: 32 residues within 4Å: Chain A: F.29, L.39, V.43, A.47, V.50, W.100, R.103 Chain B: L.213, M.216, H.217, T.220, A.246, A.247, W.250, T.253, M.254, F.256, N.257, A.258, T.259, I.263, W.266, F.270 Chain D: T.19, F.22, V.23, L.26 Ligands: 07D.1, 08I.2, PGV.4, 07D.7, CDL.21 26 PLIP interactions: 8 interactions with chain A, 13 interactions with chain B, 5 interactions with chain D Hydrophobic interactions: A:F.29, A:F.29, A:L.39, A:L.39, A:V.43, A:V.50, A:W.100, A:W.100, B:L.213, B:M.216, B:W.250, B:F.256, B:F.256, B:A.258, B:I.263, B:W.266, B:W.266, B:F.270, D:T.19, D:F.22, D:V.23, D:V.23, D:L.26 Hydrogen bonds: B:H.217, B:T.220, B:A.258

17 x CRT: SPIRILLOXANTHIN(Non-covalent)

CRT.14: 27 residues within 4Å: Chain B: I.66, E.67, I.69, G.70, L.102, F.104, W.113, Q.114, G.117, F.118, T.121, F.155, G.159, F.160, F.169, V.173, P.174, F.175, G.176, I.177, H.180 Chain N: L.27, F.30, I.31 Chain P: F.30 Ligands: 07D.10, 07D.11 20 PLIP interactions: 19 interactions with chain B, 1 interactions with chain N Hydrophobic interactions: B:I.66, B:I.69, B:F.104, B:F.104, B:W.113, B:W.113, B:Q.114, B:F.118, B:F.155, B:F.155, B:F.155, B:F.160, B:F.160, B:F.169, B:F.169, B:F.169, B:V.173, B:F.175, B:I.177, N:I.31 CRT.26: 26 residues within 4Å: Chain 7: R.3, I.4, Q.6, L.7 Chain D: L.14, L.17, F.20, L.21, L.24, L.27, I.28, I.31 Chain E: E.15, F.19, I.22, F.23, S.26, I.27, F.31 Chain F: F.22, L.26, H.29, F.30, W.40 Ligands: 07D.27, 07D.29 19 PLIP interactions: 9 interactions with chain E, 5 interactions with chain D, 1 interactions with chain 7, 4 interactions with chain F Hydrophobic interactions: E:E.15, E:F.19, E:F.19, E:I.22, E:F.23, E:F.23, E:I.27, E:I.27, E:F.31, D:L.14, D:L.17, D:F.20, D:L.21, D:L.24, 7:I.4, F:F.22, F:L.26, F:F.30, F:W.40 CRT.30: 26 residues within 4Å: Chain D: R.3, I.4, L.7 Chain F: L.14, L.17, F.20, L.21, L.24, I.28, I.31 Chain G: E.15, E.18, F.19, I.22, F.23, S.26, I.27, F.30 Chain H: F.22, A.25, L.26, H.29, F.30, W.40 Ligands: 07D.31, 07D.33 19 PLIP interactions: 6 interactions with chain F, 11 interactions with chain G, 2 interactions with chain H Hydrophobic interactions: F:L.14, F:L.17, F:F.20, F:F.20, F:I.28, F:I.31, G:E.18, G:F.19, G:F.19, G:I.22, G:I.22, G:F.23, G:F.23, G:F.23, G:I.27, G:I.27, G:F.30, H:A.25, H:W.40 CRT.34: 24 residues within 4Å: Chain F: M.1, R.3, I.4, L.7 Chain H: L.14, L.17, F.20, L.21, L.24, I.28 Chain I: E.18, F.19, I.22, F.23, S.26, I.27 Chain J: F.22, L.26, H.29, F.30, L.33, W.40 Ligands: 07D.35, 07D.37 26 PLIP interactions: 11 interactions with chain H, 3 interactions with chain J, 8 interactions with chain I, 4 interactions with chain F Hydrophobic interactions: H:L.14, H:L.14, H:L.17, H:L.17, H:F.20, H:F.20, H:L.21, H:L.21, H:L.24, H:L.24, H:I.28, J:H.29, J:L.33, J:W.40, I:F.19, I:F.19, I:F.19, I:I.22, I:F.23, I:F.23, I:F.23, I:I.27, F:R.3, F:I.4, F:L.7, F:L.7 CRT.38: 27 residues within 4Å: Chain H: R.3, I.4, Q.6, L.7 Chain J: L.17, F.20, L.21, L.24, L.27, I.28, I.31 Chain K: E.15, E.18, F.19, I.22, F.23, S.26, I.27, F.30, F.31 Chain L: F.22, A.25, L.26, H.29, F.30 Ligands: 07D.39, 07D.41 23 PLIP interactions: 13 interactions with chain K, 5 interactions with chain J, 3 interactions with chain L, 2 interactions with chain H Hydrophobic interactions: K:E.15, K:E.18, K:F.19, K:F.19, K:I.22, K:F.23, K:F.23, K:F.23, K:I.27, K:I.27, K:I.27, K:F.30, K:F.31, J:L.17, J:L.17, J:F.20, J:L.21, J:L.24, L:A.25, L:H.29, L:F.30, H:R.3, H:I.4 CRT.44: 24 residues within 4Å: Chain J: R.3, I.4, L.7 Chain L: L.14, L.17, L.21, L.24, L.27 Chain M: E.18, F.19, I.22, F.23, S.26, I.27, F.31 Chain N: F.22, A.25, L.26, H.29, F.30, L.33 Ligands: PEF.43, 07D.45, 07D.47 22 PLIP interactions: 3 interactions with chain J, 11 interactions with chain M, 6 interactions with chain L, 2 interactions with chain N Hydrophobic interactions: J:R.3, J:I.4, J:L.7, M:F.19, M:F.19, M:F.19, M:I.22, M:I.22, M:F.23, M:F.23, M:F.23, M:I.27, M:I.27, M:F.31, L:L.14, L:L.14, L:L.17, L:L.21, L:L.24, L:L.27, N:A.25, N:L.33 CRT.48: 24 residues within 4Å: Chain L: R.3, I.4, L.7 Chain N: L.14, L.17, F.20, L.21, L.24, L.27, I.28, I.31 Chain O: E.15, F.19, I.22, F.23, S.26, I.27 Chain P: F.22, L.26, H.29, F.30, L.33 Ligands: 07D.49, 07D.51 23 PLIP interactions: 7 interactions with chain O, 4 interactions with chain P, 5 interactions with chain L, 7 interactions with chain N Hydrophobic interactions: O:F.19, O:F.19, O:F.19, O:I.22, O:F.23, O:F.23, O:I.27, P:F.22, P:L.26, P:F.30, P:L.33, L:R.3, L:I.4, L:I.4, L:L.7, L:L.7, N:L.14, N:L.17, N:F.20, N:F.20, N:L.24, N:L.27, N:I.28 CRT.53: 21 residues within 4Å: Chain N: R.3, I.4, L.7 Chain P: L.14, L.17, F.20, L.21, L.24, L.27 Chain Q: E.15, E.18, F.19, I.22, F.23, S.26, I.27 Chain R: F.22, L.26, H.29 Ligands: 07D.52, 07D.55 20 PLIP interactions: 9 interactions with chain P, 2 interactions with chain N, 8 interactions with chain Q, 1 interactions with chain R Hydrophobic interactions: P:L.14, P:L.14, P:L.17, P:L.17, P:F.20, P:F.20, P:L.21, P:L.21, P:L.27, N:R.3, N:I.4, Q:E.18, Q:F.19, Q:F.19, Q:I.22, Q:I.22, Q:F.23, Q:F.23, Q:I.27, R:H.29 CRT.56: 23 residues within 4Å: Chain P: R.3, I.4, L.7 Chain R: L.14, L.17, F.20, L.21, L.24, I.28 Chain S: E.18, F.19, I.22, F.23, S.26, I.27 Chain T: F.22, A.25, L.26, H.29, F.30, W.40 Ligands: 07D.57, 07D.59 20 PLIP interactions: 7 interactions with chain S, 3 interactions with chain P, 2 interactions with chain T, 8 interactions with chain R Hydrophobic interactions: S:E.18, S:F.19, S:F.19, S:F.23, S:F.23, S:F.23, S:I.27, P:R.3, P:I.4, P:L.7, T:A.25, T:W.40, R:L.14, R:L.17, R:F.20, R:F.20, R:L.21, R:L.21, R:L.24, R:I.28 CRT.60: 23 residues within 4Å: Chain R: R.3, I.4, L.7 Chain T: L.17, F.20, L.21, L.24, L.27, I.28, I.31 Chain U: E.15, F.19, I.22, F.23, S.26, I.27 Chain V: F.22, A.25, L.26, H.29 Ligands: 07D.59, 07D.61, 07D.63 16 PLIP interactions: 6 interactions with chain T, 6 interactions with chain U, 2 interactions with chain R, 2 interactions with chain V Hydrophobic interactions: T:L.17, T:F.20, T:F.20, T:L.21, T:L.21, T:L.24, U:F.19, U:F.19, U:F.19, U:I.22, U:F.23, U:I.27, R:L.7, R:L.7, V:F.22, V:A.25 CRT.64: 24 residues within 4Å: Chain T: R.3, I.4, L.7 Chain V: P.10, L.14, L.17, F.20, L.21, L.24, I.28 Chain W: E.15, F.19, I.22, F.23, S.26, I.27 Chain X: F.22, L.26, H.29, F.30, L.33, W.40 Ligands: 07D.65, 07D.67 17 PLIP interactions: 2 interactions with chain X, 7 interactions with chain V, 2 interactions with chain T, 6 interactions with chain W Hydrophobic interactions: X:L.33, X:W.40, V:L.14, V:L.17, V:F.20, V:F.20, V:L.21, V:L.24, V:I.28, T:R.3, T:I.4, W:F.19, W:F.19, W:F.19, W:I.22, W:F.23, W:F.23 CRT.68: 28 residues within 4Å: Chain V: R.3, I.4, Q.6, L.7 Chain X: L.14, L.17, F.20, L.21, L.24, L.27, I.28, I.31 Chain Y: E.15, E.18, F.19, I.22, F.23, S.26, I.27, F.31 Chain Z: F.22, L.26, H.29, F.30, W.40 Ligands: 07D.67, 07D.69, 07D.71 21 PLIP interactions: 6 interactions with chain X, 3 interactions with chain Z, 8 interactions with chain Y, 4 interactions with chain V Hydrophobic interactions: X:L.14, X:L.17, X:F.20, X:L.21, X:L.21, X:L.24, Z:F.22, Z:F.30, Z:W.40, Y:F.19, Y:F.19, Y:I.22, Y:F.23, Y:F.23, Y:I.27, Y:I.27, Y:F.31, V:R.3, V:I.4, V:Q.6, V:L.7 CRT.72: 24 residues within 4Å: Chain 0: E.15, F.19, I.22, F.23, S.26, I.27 Chain 1: F.22, L.26, H.29, F.30, L.33 Chain X: R.3, I.4, L.7 Chain Z: L.14, L.17, F.20, L.21, L.24, L.27, I.31 Ligands: 07D.71, 07D.73, 07D.75 21 PLIP interactions: 7 interactions with chain 0, 11 interactions with chain Z, 2 interactions with chain X, 1 interactions with chain 1 Hydrophobic interactions: 0:F.19, 0:F.19, 0:F.19, 0:I.22, 0:F.23, 0:F.23, 0:I.27, Z:L.14, Z:L.14, Z:L.17, Z:L.17, Z:F.20, Z:F.20, Z:L.21, Z:L.21, Z:L.24, Z:L.27, Z:I.31, X:R.3, X:I.4, 1:F.30 CRT.76: 21 residues within 4Å: Chain 1: L.14, L.17, F.20, L.21, L.24, I.28, I.31 Chain 2: E.15, E.18, F.19, I.22, F.23, S.26, I.27 Chain 3: F.22, H.29, F.30 Chain Z: R.3, L.7 Ligands: 07D.77, 07D.80 14 PLIP interactions: 5 interactions with chain 2, 2 interactions with chain 3, 6 interactions with chain 1, 1 interactions with chain Z Hydrophobic interactions: 2:F.19, 2:F.19, 2:F.23, 2:F.23, 2:I.27, 3:F.22, 3:F.30, 1:L.14, 1:L.17, 1:L.17, 1:F.20, 1:L.21, 1:L.24, Z:R.3 CRT.82: 23 residues within 4Å: Chain 1: I.4, L.7 Chain 3: P.10, L.14, L.17, F.20, L.21, L.24, I.28, I.31 Chain 4: E.15, F.19, I.22, F.23, S.26, I.27 Chain 5: F.22, L.26, H.29, F.30, L.33 Ligands: 07D.83, 07D.85 21 PLIP interactions: 3 interactions with chain 5, 8 interactions with chain 3, 7 interactions with chain 4, 3 interactions with chain 1 Hydrophobic interactions: 5:F.22, 5:F.30, 5:L.33, 3:P.10, 3:L.14, 3:L.14, 3:L.17, 3:F.20, 3:L.21, 3:L.21, 3:L.24, 4:F.19, 4:F.19, 4:F.19, 4:I.22, 4:F.23, 4:F.23, 4:I.27, 1:I.4, 1:I.4, 1:L.7 CRT.86: 22 residues within 4Å: Chain 3: R.3, I.4, L.7 Chain 5: P.10, L.14, L.21, L.24, I.28 Chain 6: E.15, F.19, I.22, F.23, S.26, I.27, F.31 Chain 7: F.22, L.26, H.29, F.30, L.33 Ligands: 07D.87, 07D.89 15 PLIP interactions: 2 interactions with chain 7, 4 interactions with chain 5, 1 interactions with chain 3, 8 interactions with chain 6 Hydrophobic interactions: 7:F.22, 7:H.29, 5:L.14, 5:L.21, 5:L.24, 5:I.28, 3:I.4, 6:F.19, 6:F.19, 6:F.19, 6:I.22, 6:F.23, 6:F.23, 6:I.27, 6:F.31 CRT.90: 25 residues within 4Å: Chain 5: M.1, W.2, R.3, I.4 Chain 7: L.14, L.17, L.21, L.24, I.28, I.31 Chain 8: F.19, I.22, F.23, S.26, I.27, F.30 Chain D: F.22, A.25, L.26, H.29, F.30, L.33, W.40 Ligands: 07D.25, 07D.91 20 PLIP interactions: 6 interactions with chain 8, 8 interactions with chain 7, 5 interactions with chain D, 1 interactions with chain 5 Hydrophobic interactions: 8:F.19, 8:I.22, 8:F.23, 8:F.23, 8:I.27, 8:F.30, 7:L.14, 7:L.14, 7:L.17, 7:L.17, 7:L.21, 7:L.21, 7:I.28, 7:I.31, D:F.22, D:A.25, D:H.29, D:L.33, D:W.40 Hydrogen bonds: 5:W.2

5 x CDL: CARDIOLIPIN(Non-covalent)

CDL.15: 14 residues within 4Å: Chain A: N.199, G.201 Chain B: R.136, G.141, T.142, H.143, W.146, R.265, W.268, W.269 Chain C: G.25, L.26, Y.29 Ligands: CDL.16 15 PLIP interactions: 12 interactions with chain B, 1 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: B:W.146, B:W.146, B:W.146, B:W.268, B:W.269, B:W.269, C:Y.29 Hydrogen bonds: B:T.142, A:G.201, A:G.201 Salt bridges: B:R.136, B:H.143, B:H.143, B:H.143, B:R.265 CDL.16: 16 residues within 4Å: Chain B: L.125, W.128, V.129, Y.132, R.133, R.136, W.146, A.149 Chain L: Q.12, G.16, T.19, F.20 Chain N: T.19 Ligands: CDL.15, LMT.17, PEF.43 10 PLIP interactions: 8 interactions with chain B, 1 interactions with chain L, 1 interactions with chain N Hydrophobic interactions: B:W.128, B:V.129, B:Y.132, B:W.146, B:A.149, L:F.20, N:T.19 Hydrogen bonds: B:Y.132 Salt bridges: B:R.133, B:R.136 CDL.19: 19 residues within 4Å: Chain A: F.61, W.62 Chain C: Y.8, M.9, Q.13, V.14, Y.17 Chain F: L.27, F.30, I.31, S.34 Chain H: L.26, L.27, F.30, L.33, S.34 Chain J: F.30 Ligands: PGV.4, PGV.20 21 PLIP interactions: 5 interactions with chain F, 7 interactions with chain C, 4 interactions with chain H, 4 interactions with chain A, 1 interactions with chain J Hydrophobic interactions: F:L.27, F:L.27, F:F.30, F:I.31, C:M.9, C:Q.13, C:V.14, C:V.14, C:Y.17, C:Y.17, C:Y.17, H:L.27, H:F.30, H:F.30, H:F.30, A:F.61, A:W.62, A:W.62, J:F.30 Hydrogen bonds: F:S.34, A:F.61 CDL.21: 29 residues within 4Å: Chain A: A.1, V.26, G.27, P.28, F.29 Chain B: L.202, A.205, F.206, R.251, M.254, G.255, F.256, W.266, F.270 Chain C: W.20, F.23, I.27, R.31, R.35, Y.39, L.41, S.51, L.52, Q.53 Ligands: 07D.7, RQ0.13, PGV.20, CDL.22, PEF.23 24 PLIP interactions: 10 interactions with chain B, 3 interactions with chain A, 11 interactions with chain C Hydrophobic interactions: B:L.202, B:A.205, B:F.206, B:F.206, B:F.256, B:F.256, B:F.256, B:W.266, B:F.270, A:V.26, A:F.29, C:W.20, C:F.23, C:F.23, C:I.27, C:R.31 Salt bridges: B:R.251, C:R.31, C:R.31 Hydrogen bonds: A:A.1, C:R.35, C:Y.39, C:S.51, C:L.52 CDL.22: 12 residues within 4Å: Chain C: I.28, R.31, R.35, L.55, G.56, F.59 Chain F: G.16, T.19, F.20 Chain H: T.19 Ligands: CDL.21, PEF.23 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain F Salt bridges: C:R.35 Hydrophobic interactions: F:T.19 Hydrogen bonds: F:G.16

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

PEF.23: 9 residues within 4Å: Chain C: R.35, Q.53, G.54, L.55, G.56, S.60 Chain F: T.19 Ligands: CDL.21, CDL.22 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:Q.53, C:G.54, C:G.56 PEF.42: 12 residues within 4Å: Chain B: F.153, I.161, L.283 Chain J: I.31 Chain L: F.30, L.33, S.34, N.39, E.42 Ligands: LMT.18, LMT.24, PEF.43 7 PLIP interactions: 3 interactions with chain B, 3 interactions with chain L, 1 interactions with chain J Hydrophobic interactions: B:F.153, B:I.161, B:L.283, L:F.30, L:F.30, J:I.31 Hydrogen bonds: L:N.39 PEF.43: 16 residues within 4Å: Chain B: F.160, L.164, L.165, G.167 Chain L: V.23, L.27, I.31, S.34 Chain N: F.22, L.26, F.30, L.33, E.42 Ligands: CDL.16, PEF.42, CRT.44 10 PLIP interactions: 4 interactions with chain L, 3 interactions with chain B, 3 interactions with chain N Hydrophobic interactions: L:V.23, L:L.27, L:I.31, B:F.160, B:L.164, B:L.165, N:F.22, N:L.26 Hydrogen bonds: L:S.34, N:L.33

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tani, K. et al., Cryo-EM Structure of the Photosynthetic LH1-RC Complex from Rhodospirillum rubrum . Biochemistry (2021)

Release Date

2021-08-18

Peptides

Reaction center protein L chain: A
Reaction center protein M chain: B
Photoreaction center protein H: C
Light-harvesting protein B-870 alpha chain: DFHJLNPRTVXZ1357
Light-harvesting protein B-870 beta chain: EGIKMOQSUWY02468

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
M

C
H

D
A

F
D

H
F

J
I

L
K

N
O

P
Q

R
S

T
U

V
W

X
Y

Z
1

1
3

3
5

5
7

7
9

E
B

G
E

I
G

K
J

M
N

O
P

Q
R

S
T

U
V

W
X

Y
Z

0
2

2
4

4
6

6
8

8
0

Membrane

We predict this structure to be a membrane protein.
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Reaction center protein L chain

Reaction center protein M chain

Photoreaction center protein H

Light-harvesting protein B-870 alpha chain

Light-harvesting protein B-870 beta chain

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