SMTL ID : 8jc9.1

Cryo-EM structure of the LH1 complex from thermochromatium tepidum

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-14-14-mer

Ligands

28 x BCL: BACTERIOCHLOROPHYLL A(Non-covalent)

BCL.1: 17 residues within 4Å: Chain 0: S.23, F.27, I.35 Chain A: V.25, Q.28, I.29, G.32, H.36, W.46 Chain B: W.29, V.33, A.36, H.37 Ligands: CRT.4, BCL.5, D12.7, BCL.69 9 PLIP interactions: 5 interactions with chain A, 3 interactions with chain 0, 1 interactions with chain B, Hydrophobic interactions: A:Q.28, A:I.29, A:I.29, A:W.46, 0:F.27, 0:F.27, 0:I.35, B:W.29 Metal complexes: A:H.36 BCL.5: 18 residues within 4Å: Chain A: Q.28, L.31, G.32, I.35, H.36 Chain B: W.29, F.30, V.33, V.34, H.37, W.41, W.46, L.47 Chain C: L.47 Ligands: BCL.1, CRT.6, BCL.8, D12.11 11 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C, 8 interactions with chain B, Hydrophobic interactions: A:I.35, C:L.47, B:F.30, B:V.33, B:V.34, B:W.41, B:W.46, B:W.46, B:L.47 Hydrogen bonds: A:Q.28 Metal complexes: B:H.37 BCL.8: 12 residues within 4Å: Chain A: I.35 Chain C: Q.28, G.32, H.36, W.46 Chain D: W.29, A.36, H.37 Ligands: BCL.5, CRT.6, BCL.10, D12.11 6 PLIP interactions: 1 interactions with chain A, 5 interactions with chain C, Hydrophobic interactions: A:I.35, C:Q.28, C:W.46, C:W.46 pi-Stacking: C:H.36 Metal complexes: C:H.36 BCL.10: 15 residues within 4Å: Chain C: Q.28, L.31, G.32, I.35, H.36 Chain D: F.30, V.33, H.37, L.38, W.46 Chain E: L.47 Ligands: CRT.3, BCL.8, BCL.12, D12.15 10 PLIP interactions: 7 interactions with chain D, 1 interactions with chain E, 2 interactions with chain C, Hydrophobic interactions: D:V.33, D:H.37, D:L.38, D:W.46, D:W.46, D:W.46, E:L.47, C:I.35 Metal complexes: D:H.37 Hydrogen bonds: C:Q.28 BCL.12: 14 residues within 4Å: Chain C: I.35 Chain E: Q.28, G.32, H.36, W.46 Chain F: W.29, V.33, A.36, H.37, A.40 Ligands: CRT.3, BCL.10, BCL.14, D12.15 9 PLIP interactions: 6 interactions with chain E, 2 interactions with chain F, 1 interactions with chain C, Hydrophobic interactions: E:Q.28, E:W.46, E:W.46, E:W.46, E:W.46, F:W.29, F:A.40, C:I.35 Metal complexes: E:H.36 BCL.14: 18 residues within 4Å: Chain E: Q.28, L.31, G.32, I.35, H.36 Chain F: W.29, F.30, V.33, V.34, H.37, W.41, W.46, L.47 Chain G: L.47 Ligands: BCL.12, CRT.16, BCL.17, D12.21 12 PLIP interactions: 10 interactions with chain F, 1 interactions with chain G, 1 interactions with chain E, Hydrophobic interactions: F:F.30, F:V.33, F:V.34, F:H.37, F:W.41, F:W.46, F:W.46, F:W.46, F:L.47, G:L.47, E:I.35 Metal complexes: F:H.37 BCL.17: 15 residues within 4Å: Chain E: I.35 Chain G: V.25, Q.28, H.36, W.46 Chain H: W.29, V.33, A.36, H.37, A.40 Ligands: BCL.14, CRT.16, BCL.20, D12.21, CRT.22 8 PLIP interactions: 2 interactions with chain H, 5 interactions with chain G, 1 interactions with chain E, Hydrophobic interactions: H:W.29, H:A.40, G:V.25, G:Q.28, G:W.46, G:W.46, E:I.35 Metal complexes: G:H.36 BCL.20: 16 residues within 4Å: Chain G: Q.28, L.31, G.32, I.35, H.36 Chain H: W.29, F.30, V.33, H.37, W.46, L.47 Chain I: L.47 Ligands: BCL.17, CRT.22, BCL.23, D12.25 11 PLIP interactions: 1 interactions with chain I, 3 interactions with chain G, 7 interactions with chain H, Hydrophobic interactions: I:L.47, G:I.35, G:I.35, H:F.30, H:H.37, H:W.46, H:W.46, H:W.46, H:L.47 Hydrogen bonds: G:Q.28 Metal complexes: H:H.37 BCL.23: 14 residues within 4Å: Chain G: I.35 Chain I: Q.28, G.32, H.36, W.46 Chain J: W.29, V.33, A.36, H.37, A.40 Ligands: BCL.20, CRT.22, D12.25, BCL.26 5 PLIP interactions: 1 interactions with chain J, 1 interactions with chain G, 3 interactions with chain I, Hydrophobic interactions: J:A.40, G:I.35, I:Q.28, I:W.46 Metal complexes: I:H.36 BCL.26: 18 residues within 4Å: Chain I: Q.28, L.31, G.32, I.35, H.36 Chain J: W.29, F.30, V.33, V.34, H.37, W.41, W.46, L.47 Chain K: L.47 Ligands: CRT.19, BCL.23, BCL.27, D12.29 11 PLIP interactions: 1 interactions with chain I, 9 interactions with chain J, 1 interactions with chain K, Hydrophobic interactions: I:I.35, J:F.30, J:V.33, J:V.34, J:W.41, J:W.46, J:W.46, J:W.46, J:L.47, K:L.47 Metal complexes: J:H.37 BCL.27: 15 residues within 4Å: Chain I: I.35 Chain K: Q.28, I.29, G.32, H.36, W.46 Chain L: W.29, V.33, A.36, H.37, A.40 Ligands: CRT.19, BCL.26, D12.29, BCL.30 10 PLIP interactions: 6 interactions with chain K, 3 interactions with chain L, 1 interactions with chain I, Hydrophobic interactions: K:Q.28, K:I.29, K:W.46, K:W.46, L:W.29, L:W.29, L:A.40, I:I.35 pi-Stacking: K:H.36 Metal complexes: K:H.36 BCL.30: 15 residues within 4Å: Chain K: Q.28, L.31, G.32, I.35, H.36 Chain L: W.29, F.30, V.33, H.37, W.46 Chain M: L.47 Ligands: BCL.27, CRT.31, BCL.32, D12.34 10 PLIP interactions: 1 interactions with chain M, 2 interactions with chain K, 7 interactions with chain L, Hydrophobic interactions: M:L.47, K:I.35, L:F.30, L:V.33, L:H.37, L:W.46, L:W.46, L:W.46 Hydrogen bonds: K:Q.28 Metal complexes: L:H.37 BCL.32: 15 residues within 4Å: Chain K: I.35 Chain M: Q.28, I.29, G.32, H.36, W.46 Chain N: W.29, V.33, A.36, H.37, A.40 Ligands: BCL.30, CRT.31, D12.34, BCL.35 8 PLIP interactions: 3 interactions with chain N, 4 interactions with chain M, 1 interactions with chain K, Hydrophobic interactions: N:W.29, N:W.29, N:A.40, M:Q.28, M:I.29, M:W.46, M:W.46, K:I.35 BCL.35: 18 residues within 4Å: Chain M: Q.28, L.31, G.32, I.35, H.36 Chain N: W.29, F.30, V.33, V.34, H.37, W.46, L.47 Chain O: L.47 Chain P: L.39 Ligands: BCL.32, CRT.36, BCL.37, D12.40 12 PLIP interactions: 9 interactions with chain N, 1 interactions with chain P, 1 interactions with chain M, 1 interactions with chain O, Hydrophobic interactions: N:F.30, N:V.33, N:V.34, N:H.37, N:W.46, N:W.46, N:W.46, N:L.47, P:L.39, M:I.35, O:L.47 Metal complexes: N:H.37 BCL.37: 14 residues within 4Å: Chain M: I.35 Chain O: Q.28, G.32, H.36, W.46 Chain P: W.29, V.33, A.36, H.37, A.40 Ligands: BCL.35, CRT.36, BCL.39, D12.40 6 PLIP interactions: 3 interactions with chain P, 2 interactions with chain O, 1 interactions with chain M, Hydrophobic interactions: P:W.29, P:W.29, P:A.40, O:Q.28, O:W.46, M:I.35 BCL.39: 15 residues within 4Å: Chain O: Q.28, L.31, G.32, I.35, H.36 Chain P: W.29, F.30, V.33, H.37, W.46 Chain Q: L.47 Ligands: BCL.37, CRT.41, BCL.42, D12.45 10 PLIP interactions: 7 interactions with chain P, 2 interactions with chain O, 1 interactions with chain Q, Hydrophobic interactions: P:F.30, P:V.33, P:H.37, P:W.46, P:W.46, P:W.46, O:I.35, Q:L.47 Metal complexes: P:H.37 Hydrogen bonds: O:Q.28 BCL.42: 15 residues within 4Å: Chain O: I.35 Chain Q: Q.28, I.29, G.32, H.36, W.46 Chain R: W.29, L.32, V.33, A.36, H.37 Ligands: BCL.39, CRT.41, D12.45, BCL.46 6 PLIP interactions: 1 interactions with chain O, 4 interactions with chain Q, 1 interactions with chain R, Hydrophobic interactions: O:I.35, Q:Q.28, Q:I.29, Q:W.46, R:W.29 Metal complexes: Q:H.36 BCL.46: 17 residues within 4Å: Chain Q: Q.28, L.31, G.32, I.35, H.36 Chain R: W.29, F.30, V.33, H.37, L.38, W.41, W.46 Chain S: L.47 Ligands: BCL.42, CRT.47, BCL.48, D12.51 9 PLIP interactions: 6 interactions with chain R, 1 interactions with chain S, 2 interactions with chain Q, Hydrophobic interactions: R:F.30, R:L.38, R:W.41, R:W.46, R:W.46, S:L.47, Q:I.35 Metal complexes: R:H.37 Hydrogen bonds: Q:Q.28 BCL.48: 11 residues within 4Å: Chain S: Q.28, H.36, W.46 Chain T: W.29, V.33, A.36, H.37 Ligands: BCL.46, CRT.47, BCL.50, D12.51 6 PLIP interactions: 5 interactions with chain S, 1 interactions with chain T, Hydrophobic interactions: S:Q.28, S:W.46, S:W.46, S:W.46, S:W.46, T:A.36 BCL.50: 16 residues within 4Å: Chain S: Q.28, L.31, G.32, I.35, H.36 Chain T: F.30, V.33, H.37, W.41, W.46, L.47 Chain U: L.47 Ligands: CRT.44, BCL.48, BCL.52, D12.55 11 PLIP interactions: 2 interactions with chain S, 8 interactions with chain T, 1 interactions with chain U, Hydrophobic interactions: S:I.35, T:V.33, T:H.37, T:W.41, T:W.41, T:W.46, T:W.46, T:L.47, U:L.47 Hydrogen bonds: S:Q.28 Metal complexes: T:H.37 BCL.52: 14 residues within 4Å: Chain S: I.35 Chain U: Q.28, I.29, H.36, W.46 Chain V: W.29, V.33, A.36, H.37, A.40 Ligands: CRT.44, BCL.50, BCL.54, D12.55 7 PLIP interactions: 3 interactions with chain U, 1 interactions with chain S, 3 interactions with chain V, Hydrophobic interactions: U:Q.28, U:I.29, U:W.46, S:I.35, V:W.29, V:W.29, V:A.40 BCL.54: 17 residues within 4Å: Chain U: Q.28, L.31, G.32, I.35, H.36 Chain V: W.29, F.30, V.33, H.37, W.41, W.46, L.47 Chain W: L.47 Ligands: BCL.52, CRT.56, BCL.57, D12.61 10 PLIP interactions: 1 interactions with chain W, 8 interactions with chain V, 1 interactions with chain U, Hydrophobic interactions: W:L.47, V:F.30, V:V.33, V:W.41, V:W.46, V:W.46, V:W.46, V:W.46, U:I.35 Metal complexes: V:H.37 BCL.57: 14 residues within 4Å: Chain U: I.35 Chain W: Q.28, G.32, H.36, W.46 Chain X: W.29, V.33, A.36, H.37, A.40 Ligands: BCL.54, CRT.56, BCL.60, D12.61 5 PLIP interactions: 3 interactions with chain W, 1 interactions with chain U, 1 interactions with chain X, Hydrophobic interactions: W:W.46, W:W.46, U:I.35, X:A.40 pi-Stacking: W:H.36 BCL.60: 17 residues within 4Å: Chain W: Q.28, L.31, G.32, I.35, H.36 Chain X: W.29, F.30, V.33, V.34, H.37, W.41, W.46 Chain Y: L.47 Ligands: BCL.57, CRT.59, BCL.62, D12.64 10 PLIP interactions: 8 interactions with chain X, 1 interactions with chain W, 1 interactions with chain Y, Hydrophobic interactions: X:F.30, X:V.33, X:V.34, X:W.41, X:W.46, X:W.46, X:W.46, W:I.35, Y:L.47 Metal complexes: X:H.37 BCL.62: 14 residues within 4Å: Chain W: I.35 Chain Y: Q.28, I.29, G.32, H.36, W.46 Chain Z: W.29, A.36, H.37, A.40 Ligands: CRT.59, BCL.60, D12.64, BCL.65 9 PLIP interactions: 5 interactions with chain Y, 3 interactions with chain Z, 1 interactions with chain W, Hydrophobic interactions: Y:Q.28, Y:I.29, Y:W.46, Y:W.46, Z:W.29, Z:W.29, Z:A.40, W:I.35 Metal complexes: Y:H.36 BCL.65: 17 residues within 4Å: Chain 0: L.47 Chain Y: Q.28, L.31, G.32, I.35, H.36 Chain Z: F.30, V.33, V.34, H.37, W.41, W.46, L.47 Ligands: BCL.62, CRT.66, BCL.67, D12.70 13 PLIP interactions: 2 interactions with chain Y, 10 interactions with chain Z, 1 interactions with chain 0, Hydrophobic interactions: Y:I.35, Z:F.30, Z:V.33, Z:V.34, Z:W.41, Z:W.46, Z:W.46, Z:W.46, Z:W.46, Z:L.47, 0:L.47 Hydrogen bonds: Y:Q.28 Metal complexes: Z:H.37 BCL.67: 14 residues within 4Å: Chain 0: Q.28, I.29, H.36, W.46 Chain 1: W.29, V.33, A.36, H.37, A.40 Chain Y: I.35 Ligands: BCL.65, CRT.66, BCL.69, D12.70 7 PLIP interactions: 4 interactions with chain 0, 2 interactions with chain 1, 1 interactions with chain Y, Hydrophobic interactions: 0:Q.28, 0:I.29, 0:W.46, 1:W.29, 1:A.40, Y:I.35 pi-Stacking: 0:H.36 BCL.69: 16 residues within 4Å: Chain 0: Q.28, L.31, G.32, I.35, H.36 Chain 1: F.30, V.33, H.37, W.41, W.46, L.47 Chain A: L.47 Ligands: BCL.1, CRT.4, D12.7, BCL.67 13 PLIP interactions: 10 interactions with chain 1, 2 interactions with chain 0, 1 interactions with chain A, Hydrophobic interactions: 1:F.30, 1:V.33, 1:H.37, 1:W.41, 1:W.46, 1:W.46, 1:W.46, 1:W.46, 1:L.47, 0:I.35, A:L.47 Metal complexes: 1:H.37 Hydrogen bonds: 0:Q.28

14 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain 1: W.46 Chain A: W.46, D.49, I.51 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain 1 Metal complexes: A:W.46, A:D.49, A:I.51, 1:W.46 CA.9: 4 residues within 4Å: Chain B: W.46 Chain C: W.46, D.49, I.51 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain C Metal complexes: B:W.46, C:W.46, C:D.49, C:I.51 CA.13: 4 residues within 4Å: Chain D: W.46 Chain E: W.46, D.49, I.51 4 PLIP interactions: 3 interactions with chain E, 1 interactions with chain D Metal complexes: E:W.46, E:D.49, E:I.51, D:W.46 CA.18: 4 residues within 4Å: Chain F: W.46 Chain G: W.46, D.49, I.51 4 PLIP interactions: 3 interactions with chain G, 1 interactions with chain F Metal complexes: G:W.46, G:D.49, G:I.51, F:W.46 CA.24: 4 residues within 4Å: Chain H: W.46 Chain I: W.46, D.49, I.51 4 PLIP interactions: 3 interactions with chain I, 1 interactions with chain H Metal complexes: I:W.46, I:D.49, I:I.51, H:W.46 CA.28: 4 residues within 4Å: Chain J: W.46 Chain K: W.46, D.49, I.51 4 PLIP interactions: 3 interactions with chain K, 1 interactions with chain J Metal complexes: K:W.46, K:D.49, K:I.51, J:W.46 CA.33: 4 residues within 4Å: Chain L: W.46 Chain M: W.46, D.49, I.51 4 PLIP interactions: 3 interactions with chain M, 1 interactions with chain L Metal complexes: M:W.46, M:D.49, M:I.51, L:W.46 CA.38: 4 residues within 4Å: Chain N: W.46 Chain O: W.46, D.49, I.51 4 PLIP interactions: 1 interactions with chain N, 3 interactions with chain O Metal complexes: N:W.46, O:W.46, O:D.49, O:I.51 CA.43: 4 residues within 4Å: Chain P: W.46 Chain Q: W.46, D.49, I.51 4 PLIP interactions: 3 interactions with chain Q, 1 interactions with chain P Metal complexes: Q:W.46, Q:D.49, Q:I.51, P:W.46 CA.49: 4 residues within 4Å: Chain R: W.46 Chain S: W.46, D.49, I.51 4 PLIP interactions: 3 interactions with chain S, 1 interactions with chain R Metal complexes: S:W.46, S:D.49, S:I.51, R:W.46 CA.53: 4 residues within 4Å: Chain T: W.46 Chain U: W.46, D.49, I.51 4 PLIP interactions: 3 interactions with chain U, 1 interactions with chain T Metal complexes: U:W.46, U:D.49, U:I.51, T:W.46 CA.58: 4 residues within 4Å: Chain V: W.46 Chain W: W.46, D.49, I.51 4 PLIP interactions: 3 interactions with chain W, 1 interactions with chain V Metal complexes: W:W.46, W:D.49, W:I.51, V:W.46 CA.63: 4 residues within 4Å: Chain X: W.46 Chain Y: W.46, D.49, I.51 4 PLIP interactions: 3 interactions with chain Y, 1 interactions with chain X Metal complexes: Y:W.46, Y:D.49, Y:I.51, X:W.46 CA.68: 4 residues within 4Å: Chain 0: W.46, D.49, I.51 Chain Z: W.46 4 PLIP interactions: 3 interactions with chain 0, 1 interactions with chain Z Metal complexes: 0:W.46, 0:D.49, 0:I.51, Z:W.46

14 x CRT: SPIRILLOXANTHIN(Non-covalent)

CRT.3: 20 residues within 4Å: Chain A: K.10, I.11, I.14 Chain C: L.21, I.24, F.27, Q.28, L.31, I.35, I.38 Chain D: F.18, I.21, F.22, S.25, M.26 Chain E: L.33, H.36, M.37 Ligands: BCL.10, BCL.12 16 PLIP interactions: 6 interactions with chain C, 7 interactions with chain D, 1 interactions with chain E, 2 interactions with chain A Hydrophobic interactions: C:L.21, C:I.24, C:F.27, C:L.31, C:I.35, C:I.38, D:F.18, D:F.18, D:I.21, D:I.21, D:F.22, D:F.22, D:F.22, E:L.33, A:I.11, A:I.11 CRT.4: 22 residues within 4Å: Chain 0: L.21, I.24, F.27, Q.28, L.34, I.35, I.38 Chain 1: E.14, F.18, I.21, F.22, S.25, M.26 Chain A: L.33, H.36, M.37 Chain Y: L.8, K.10, I.11, I.14 Ligands: BCL.1, BCL.69 13 PLIP interactions: 4 interactions with chain 0, 7 interactions with chain 1, 2 interactions with chain Y Hydrophobic interactions: 0:L.21, 0:I.24, 0:F.27, 0:I.35, 1:E.14, 1:F.18, 1:F.18, 1:I.21, 1:I.21, 1:F.22, 1:F.22, Y:I.11, Y:I.11 CRT.6: 20 residues within 4Å: Chain 0: L.8, K.10, I.11, I.14 Chain A: L.21, I.24, F.27, Q.28, I.35, I.38 Chain B: F.18, I.21, F.22, S.25, M.26 Chain C: L.33, H.36, M.37 Ligands: BCL.5, BCL.8 14 PLIP interactions: 5 interactions with chain A, 6 interactions with chain B, 1 interactions with chain C, 2 interactions with chain 0 Hydrophobic interactions: A:L.21, A:I.24, A:F.27, A:I.35, A:I.38, B:F.18, B:F.18, B:I.21, B:I.21, B:F.22, B:F.22, C:H.36, 0:I.11, 0:I.11 CRT.16: 22 residues within 4Å: Chain C: K.10, I.11, I.14 Chain E: L.21, I.24, F.27, Q.28, L.31, I.35, I.38 Chain F: E.14, F.18, I.21, F.22, S.25, M.26 Chain G: L.33, H.36, M.37, L.40 Ligands: BCL.14, BCL.17 14 PLIP interactions: 7 interactions with chain F, 5 interactions with chain E, 2 interactions with chain C Hydrophobic interactions: F:E.14, F:F.18, F:F.18, F:I.21, F:I.21, F:F.22, F:F.22, E:L.21, E:I.24, E:F.27, E:L.31, E:I.35, C:I.11, C:I.11 CRT.19: 20 residues within 4Å: Chain G: K.10, I.11, I.14 Chain I: I.24, F.27, Q.28, L.31, I.35, I.38 Chain J: E.14, F.18, I.21, F.22, S.25, M.26 Chain K: L.33, H.36, M.37 Ligands: BCL.26, BCL.27 15 PLIP interactions: 6 interactions with chain J, 2 interactions with chain K, 5 interactions with chain I, 2 interactions with chain G Hydrophobic interactions: J:E.14, J:F.18, J:F.18, J:I.21, J:I.21, J:F.22, K:L.33, K:H.36, I:I.24, I:F.27, I:L.31, I:I.35, I:I.38, G:I.11, G:I.11 CRT.22: 23 residues within 4Å: Chain E: L.8, K.10, I.11, I.14 Chain G: L.21, I.24, F.27, Q.28, L.34, I.35, I.38 Chain H: E.14, F.18, I.21, F.22, S.25, M.26 Chain I: L.33, H.36, M.37 Ligands: BCL.17, BCL.20, BCL.23 14 PLIP interactions: 6 interactions with chain H, 5 interactions with chain G, 1 interactions with chain I, 2 interactions with chain E Hydrophobic interactions: H:E.14, H:F.18, H:F.18, H:I.21, H:I.21, H:F.22, G:L.21, G:I.24, G:F.27, G:I.35, G:I.38, I:H.36, E:I.11, E:I.11 CRT.31: 21 residues within 4Å: Chain I: L.8, K.10, I.11, I.14 Chain K: L.21, I.24, F.27, Q.28, L.31, I.35, I.38 Chain L: F.18, I.21, F.22, S.25, M.26 Chain M: L.33, H.36, M.37 Ligands: BCL.30, BCL.32 14 PLIP interactions: 2 interactions with chain I, 5 interactions with chain L, 6 interactions with chain K, 1 interactions with chain M Hydrophobic interactions: I:K.10, I:I.11, L:F.18, L:F.18, L:I.21, L:I.21, L:F.22, K:L.21, K:I.24, K:F.27, K:L.31, K:I.35, K:I.38, M:H.36 CRT.36: 21 residues within 4Å: Chain K: K.10, I.11, I.14 Chain M: L.21, I.24, F.27, Q.28, L.34, I.35, I.38 Chain N: E.14, F.18, I.21, F.22, S.25, M.26 Chain O: L.33, H.36, M.37 Ligands: BCL.35, BCL.37 12 PLIP interactions: 6 interactions with chain N, 4 interactions with chain M, 2 interactions with chain K Hydrophobic interactions: N:E.14, N:F.18, N:F.18, N:I.21, N:I.21, N:F.22, M:L.21, M:I.24, M:F.27, M:I.35, K:I.11, K:I.11 CRT.41: 20 residues within 4Å: Chain M: L.8, K.10, I.11, I.14 Chain O: I.24, F.27, Q.28, L.34, I.35, I.38 Chain P: F.18, I.21, F.22, S.25, M.26 Chain Q: L.33, H.36, M.37 Ligands: BCL.39, BCL.42 12 PLIP interactions: 5 interactions with chain P, 4 interactions with chain O, 2 interactions with chain M, 1 interactions with chain Q Hydrophobic interactions: P:F.18, P:F.18, P:I.21, P:I.21, P:F.22, O:I.24, O:F.27, O:I.35, O:I.38, M:I.11, M:I.11, Q:H.36 CRT.44: 22 residues within 4Å: Chain Q: L.8, K.10, I.11, I.14 Chain S: L.21, I.24, F.27, Q.28, L.31, I.35, I.38 Chain T: E.14, F.18, I.21, F.22, S.25, M.26 Chain U: L.33, H.36, M.37 Ligands: BCL.50, BCL.52 15 PLIP interactions: 6 interactions with chain S, 7 interactions with chain T, 2 interactions with chain Q Hydrophobic interactions: S:L.21, S:I.24, S:F.27, S:L.31, S:I.35, S:I.38, T:E.14, T:F.18, T:F.18, T:I.21, T:I.21, T:F.22, T:F.22, Q:I.11, Q:I.11 CRT.47: 20 residues within 4Å: Chain O: K.10, I.11, I.14 Chain Q: L.21, I.24, F.27, Q.28, L.34, I.35, I.38 Chain R: F.18, I.21, F.22, S.25, M.26 Chain S: L.33, H.36, M.37 Ligands: BCL.46, BCL.48 12 PLIP interactions: 2 interactions with chain O, 6 interactions with chain R, 4 interactions with chain Q Hydrophobic interactions: O:I.11, O:I.11, R:F.18, R:F.18, R:I.21, R:I.21, R:F.22, R:F.22, Q:L.21, Q:I.24, Q:F.27, Q:I.35 CRT.56: 22 residues within 4Å: Chain S: L.8, K.10, I.11, I.14 Chain U: L.21, I.24, F.27, Q.28, I.35, I.38 Chain V: E.14, E.17, F.18, I.21, F.22, S.25, M.26 Chain W: L.33, H.36, M.37 Ligands: BCL.54, BCL.57 13 PLIP interactions: 4 interactions with chain U, 7 interactions with chain V, 2 interactions with chain S Hydrophobic interactions: U:L.21, U:I.24, U:F.27, U:I.35, V:E.14, V:E.17, V:F.18, V:F.18, V:I.21, V:I.21, V:F.22, S:I.11, S:I.11 CRT.59: 20 residues within 4Å: Chain U: K.10, I.11, I.14 Chain W: L.21, I.24, F.27, Q.28, L.31, I.35, I.38 Chain X: F.18, I.21, F.22, S.25, M.26 Chain Y: L.33, H.36, M.37 Ligands: BCL.60, BCL.62 14 PLIP interactions: 5 interactions with chain X, 5 interactions with chain W, 2 interactions with chain U, 2 interactions with chain Y Hydrophobic interactions: X:F.18, X:F.18, X:I.21, X:I.21, X:F.22, W:L.21, W:I.24, W:F.27, W:L.31, W:I.35, U:I.11, U:I.11, Y:L.33, Y:H.36 CRT.66: 21 residues within 4Å: Chain 0: L.33, H.36, M.37 Chain W: L.8, K.10, I.11, I.14 Chain Y: L.21, I.24, F.27, Q.28, L.31, I.35, I.38 Chain Z: F.18, I.21, F.22, S.25, M.26 Ligands: BCL.65, BCL.67 12 PLIP interactions: 5 interactions with chain Y, 5 interactions with chain Z, 2 interactions with chain W Hydrophobic interactions: Y:L.21, Y:I.24, Y:F.27, Y:L.31, Y:I.35, Z:F.18, Z:F.18, Z:I.21, Z:I.21, Z:F.22, W:I.11, W:I.11

14 x D12: DODECANE(Non-covalent)

D12.7: 5 residues within 4Å: Chain 1: L.47 Chain B: L.39, Y.43 Ligands: BCL.1, BCL.69 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain 1 Hydrophobic interactions: B:L.39, B:Y.43, 1:L.47 D12.11: 3 residues within 4Å: Chain D: A.40 Ligands: BCL.5, BCL.8 No protein-ligand interaction detected (PLIP) D12.15: 4 residues within 4Å: Chain D: L.47 Chain F: A.36 Ligands: BCL.10, BCL.12 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain D Hydrophobic interactions: F:A.36, D:L.47 D12.21: 3 residues within 4Å: Chain H: Y.43 Ligands: BCL.14, BCL.17 No protein-ligand interaction detected (PLIP) D12.25: 6 residues within 4Å: Chain H: L.47 Chain J: L.39, A.40, Y.43 Ligands: BCL.20, BCL.23 2 PLIP interactions: 1 interactions with chain J, 1 interactions with chain H Hydrophobic interactions: J:Y.43, H:L.47 D12.29: 4 residues within 4Å: Chain J: L.47 Chain L: A.40 Ligands: BCL.26, BCL.27 No protein-ligand interaction detected (PLIP) D12.34: 6 residues within 4Å: Chain L: L.47 Chain N: A.36, L.39, A.40 Ligands: BCL.30, BCL.32 3 PLIP interactions: 3 interactions with chain N Hydrophobic interactions: N:L.39, N:L.39, N:A.40 D12.40: 5 residues within 4Å: Chain N: L.47 Chain P: L.39, Y.43 Ligands: BCL.35, BCL.37 1 PLIP interactions: 1 interactions with chain N Hydrophobic interactions: N:L.47 D12.45: 4 residues within 4Å: Chain P: L.47 Chain R: Y.43 Ligands: BCL.39, BCL.42 2 PLIP interactions: 1 interactions with chain R, 1 interactions with chain P Hydrophobic interactions: R:Y.43, P:L.47 D12.51: 4 residues within 4Å: Chain T: L.39, Y.43 Ligands: BCL.46, BCL.48 No protein-ligand interaction detected (PLIP) D12.55: 3 residues within 4Å: Chain T: L.47 Ligands: BCL.50, BCL.52 1 PLIP interactions: 1 interactions with chain T Hydrophobic interactions: T:L.47 D12.61: 3 residues within 4Å: Chain X: A.36 Ligands: BCL.54, BCL.57 1 PLIP interactions: 1 interactions with chain X Hydrophobic interactions: X:A.36 D12.64: 5 residues within 4Å: Chain X: L.47 Chain Z: A.36, L.39 Ligands: BCL.60, BCL.62 2 PLIP interactions: 1 interactions with chain X, 1 interactions with chain Z Hydrophobic interactions: X:L.47, Z:L.39 D12.70: 5 residues within 4Å: Chain 1: L.39, Y.43 Chain Z: L.47 Ligands: BCL.65, BCL.67 3 PLIP interactions: 2 interactions with chain 1, 1 interactions with chain Z Hydrophobic interactions: 1:L.39, 1:Y.43, Z:L.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yan, Y.H. et al., Molecular structure and characterization of the Thermochromatium tepidum light-harvesting 1 photocomplex produced in a foreign host. Biochim Biophys Acta Bioenerg (2024)

Release Date

2024-11-13

Peptides

LH1 alpha polypeptide: ACEGIKMOQSUWY0
LH1 beta polypeptide: BDFHJLNPRTVXZ1

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
1

C
3

E
5

G
7

I
A

K
D

M
F

O
I

Q
K

S
O

U
Q

W
S

Y
U

0
Y

B
2

D
4

F
6

H
8

J
B

L
E

N
G

P
J

R
N

T
P

V
R

X
T

Z
V

1
Z

Membrane

We predict this structure to be a membrane protein.
Show / Hide

LH1 alpha polypeptide

LH1 beta polypeptide

Related Entries With Identical Sequence