SMTL ID : 9gkl.1

Structure of the octameric pore of Fragaceotxin C (FraC or DELTA-actitoxin-Afr1a) in large unilamellar vesicles.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-octamer

Ligands

72 x FO4: sphingomyelin(Non-covalent)

FO4.1: 8 residues within 4Å: Chain A: R.52, Y.112, Q.129, Y.132, E.133, Y.137 Ligands: FO4.3, FO4.6 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.52, A:Y.112, A:Q.129, A:Y.132 Salt bridges: A:R.52, A:E.133 FO4.2: 7 residues within 4Å: Chain A: W.111, Y.112, W.115, Y.136, Y.137, P.141 Ligands: CLR.9 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.111, A:W.111, A:W.111, A:W.111, A:Y.112 Hydrogen bonds: A:Y.136 pi-Cation interactions: A:W.115 FO4.3: 6 residues within 4Å: Chain A: Y.50, R.52, Q.129 Ligands: FO4.1, FO4.13, FO4.26 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.52 Salt bridges: A:R.52 FO4.4: 7 residues within 4Å: Chain A: A.1, A.4, I.8 Chain B: G.10, L.13 Ligands: FO4.11, FO4.19 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:L.13, A:I.8 Hydrogen bonds: A:A.4 FO4.5: 4 residues within 4Å: Chain A: V.7, G.10, A.11 Ligands: FO4.97 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.7 FO4.6: 16 residues within 4Å: Chain A: R.52, S.53, A.82, T.83, G.84, V.86, S.104, P.106, Y.107, Y.112, Y.132, Y.136, Y.137 Ligands: FO4.1, CLR.7, CLR.8 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:T.83 Hydrogen bonds: A:S.53, A:G.84, A:Y.107, A:Y.112, A:Y.112 Water bridges: A:R.52 pi-Cation interactions: A:Y.112 FO4.11: 21 residues within 4Å: Chain A: F.15, L.18, L.22, T.55, N.77, R.78, G.79, P.80, V.81 Chain B: V.17, A.24, V.28, R.30, Y.109, S.165, S.166, G.167 Ligands: FO4.4, CLR.7, FO4.13, CLR.24 14 PLIP interactions: 7 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:V.17, B:A.24, A:F.15, A:L.22, A:R.78, A:V.81 Hydrogen bonds: B:R.30, B:R.30, B:S.166, B:G.167, A:R.78, A:R.78 pi-Cation interactions: B:Y.109 Salt bridges: A:R.78 FO4.12: 8 residues within 4Å: Chain A: Y.109, N.110, W.111, Y.112, S.113 Ligands: CLR.9, FO4.95, FO4.96 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.110 FO4.13: 8 residues within 4Å: Chain A: N.77, V.81 Chain B: N.110 Ligands: FO4.3, CLR.7, FO4.11, CLR.23, FO4.26 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.77, A:T.83 FO4.14: 8 residues within 4Å: Chain B: R.52, Y.112, Q.129, Y.132, E.133, Y.137 Ligands: FO4.17, FO4.20 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:R.52, B:Y.112, B:Q.129, B:Y.132, B:Y.132 Salt bridges: B:R.52, B:E.133 FO4.15: 7 residues within 4Å: Chain B: W.111, Y.112, W.115, Y.136, Y.137, P.141 Ligands: CLR.23 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:W.111, B:W.111, B:W.111, B:W.111, B:Y.112 Hydrogen bonds: B:Y.136 pi-Cation interactions: B:W.115 FO4.16: 9 residues within 4Å: Chain B: N.77, V.81 Chain C: N.110 Ligands: FO4.17, CLR.21, FO4.25, CLR.36, CLR.37, FO4.39 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.77 FO4.17: 7 residues within 4Å: Chain B: Y.50, R.52, Q.129 Ligands: FO4.14, FO4.16, FO4.20, FO4.39 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.52 Salt bridges: B:R.52 FO4.18: 6 residues within 4Å: Chain B: A.1, A.4, I.8 Chain C: L.13 Ligands: FO4.25, FO4.32 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:L.13, B:I.8 Hydrogen bonds: B:A.4 FO4.19: 5 residues within 4Å: Chain B: V.3, V.7, G.10, A.11 Ligands: FO4.4 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:V.3, B:V.7 FO4.20: 17 residues within 4Å: Chain B: R.52, S.53, A.82, T.83, G.84, V.86, S.104, P.106, Y.107, Y.112, Y.132, Y.136, Y.137 Ligands: FO4.14, FO4.17, CLR.21, CLR.22 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:T.83 Hydrogen bonds: B:S.53, B:G.84, B:Y.107, B:Y.112, B:Y.112 Water bridges: B:R.52 pi-Cation interactions: B:Y.112 FO4.25: 19 residues within 4Å: Chain B: F.15, L.18, T.55, N.77, R.78, P.80, V.81 Chain C: V.17, A.24, V.28, R.30, Y.109, S.165, S.166, G.167 Ligands: FO4.16, FO4.18, CLR.21, CLR.37 13 PLIP interactions: 7 interactions with chain C, 6 interactions with chain B Hydrophobic interactions: C:V.17, C:A.24, B:F.15, B:R.78, B:V.81 Hydrogen bonds: C:R.30, C:R.30, C:S.166, C:G.167, B:R.78, B:R.78 pi-Cation interactions: C:Y.109 Salt bridges: B:R.78 FO4.26: 8 residues within 4Å: Chain B: Y.109, N.110, W.111, Y.112, S.113 Ligands: FO4.3, FO4.13, CLR.23 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.110 FO4.27: 8 residues within 4Å: Chain C: R.52, Y.112, Q.129, Y.132, E.133, Y.137 Ligands: FO4.30, FO4.33 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:R.52, C:Y.112, C:Q.129, C:Y.132 Salt bridges: C:R.52, C:E.133 FO4.28: 7 residues within 4Å: Chain C: W.111, Y.112, W.115, Y.136, Y.137, P.141 Ligands: CLR.36 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:W.111, C:W.111, C:W.111, C:W.111, C:Y.112 Hydrogen bonds: C:Y.136 pi-Cation interactions: C:W.115 FO4.29: 8 residues within 4Å: Chain C: N.77, V.81 Chain D: N.110 Ligands: FO4.30, CLR.34, FO4.38, CLR.49, FO4.52 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.77, C:T.83 FO4.30: 6 residues within 4Å: Chain C: Y.50, R.52, Q.129 Ligands: FO4.27, FO4.29, FO4.52 2 PLIP interactions: 2 interactions with chain C Water bridges: C:R.52 Salt bridges: C:R.52 FO4.31: 7 residues within 4Å: Chain C: A.1, A.4, I.8 Chain D: G.10, L.13 Ligands: FO4.38, FO4.45 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:I.8, D:L.13 Hydrogen bonds: C:A.4 FO4.32: 4 residues within 4Å: Chain C: V.7, G.10, A.11 Ligands: FO4.18 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:V.7 FO4.33: 16 residues within 4Å: Chain C: R.52, S.53, A.82, T.83, G.84, V.86, S.104, P.106, Y.107, Y.112, Y.132, Y.136, Y.137 Ligands: FO4.27, CLR.34, CLR.35 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:T.83 Hydrogen bonds: C:S.53, C:G.84, C:Y.107, C:Y.112, C:Y.112 Water bridges: C:R.52 pi-Cation interactions: C:Y.112 FO4.38: 21 residues within 4Å: Chain C: F.15, L.18, L.22, T.55, N.77, R.78, G.79, P.80, V.81 Chain D: V.17, A.24, V.28, R.30, Y.109, S.165, S.166, G.167 Ligands: FO4.29, FO4.31, CLR.34, CLR.50 14 PLIP interactions: 7 interactions with chain D, 7 interactions with chain C Hydrophobic interactions: D:V.17, D:A.24, C:F.15, C:L.22, C:R.78, C:V.81 Hydrogen bonds: D:R.30, D:R.30, D:S.166, D:G.167, C:R.78, C:R.78 pi-Cation interactions: D:Y.109 Salt bridges: C:R.78 FO4.39: 8 residues within 4Å: Chain C: Y.109, N.110, W.111, Y.112, S.113 Ligands: FO4.16, FO4.17, CLR.36 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.110 FO4.40: 9 residues within 4Å: Chain D: R.52, Y.112, Q.129, Y.132, E.133, Y.137 Ligands: FO4.43, FO4.46, CLR.48 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:R.52, D:Y.112, D:Q.129, D:Y.132, D:Y.132 Salt bridges: D:R.52, D:E.133 FO4.41: 7 residues within 4Å: Chain D: W.111, Y.112, W.115, Y.136, Y.137, P.141 Ligands: CLR.49 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:W.111, D:W.111, D:W.111, D:Y.112 Hydrogen bonds: D:Y.136 pi-Cation interactions: D:W.115 FO4.42: 9 residues within 4Å: Chain D: N.77, V.81 Chain E: N.110 Ligands: FO4.43, CLR.47, FO4.51, CLR.62, CLR.63, FO4.65 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.77 FO4.43: 7 residues within 4Å: Chain D: Y.50, R.52, Q.129 Ligands: FO4.40, FO4.42, FO4.46, FO4.65 2 PLIP interactions: 2 interactions with chain D Water bridges: D:R.52 Salt bridges: D:R.52 FO4.44: 6 residues within 4Å: Chain D: A.1, A.4, I.8 Chain E: L.13 Ligands: FO4.51, FO4.58 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain E Hydrophobic interactions: D:I.8, E:L.13 Hydrogen bonds: D:A.4 FO4.45: 4 residues within 4Å: Chain D: V.7, G.10, A.11 Ligands: FO4.31 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:V.7 FO4.46: 17 residues within 4Å: Chain D: R.52, S.53, A.82, T.83, G.84, V.86, S.104, P.106, Y.107, Y.112, Y.132, Y.136, Y.137 Ligands: FO4.40, FO4.43, CLR.47, CLR.48 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:T.83 Hydrogen bonds: D:S.53, D:G.84, D:Y.107, D:Y.112, D:Y.112 Water bridges: D:R.52 pi-Cation interactions: D:Y.112 FO4.51: 19 residues within 4Å: Chain D: F.15, L.18, T.55, N.77, R.78, P.80, V.81 Chain E: V.17, A.24, V.28, R.30, Y.109, S.165, S.166, G.167 Ligands: FO4.42, FO4.44, CLR.47, CLR.63 13 PLIP interactions: 7 interactions with chain E, 6 interactions with chain D Hydrophobic interactions: E:V.17, E:A.24, D:F.15, D:R.78, D:V.81 Hydrogen bonds: E:R.30, E:R.30, E:S.166, E:G.167, D:R.78, D:R.78 pi-Cation interactions: E:Y.109 Salt bridges: D:R.78 FO4.52: 8 residues within 4Å: Chain D: Y.109, N.110, W.111, Y.112, S.113 Ligands: FO4.29, FO4.30, CLR.49 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.110 FO4.53: 8 residues within 4Å: Chain E: R.52, Y.112, Q.129, Y.132, E.133, Y.137 Ligands: FO4.56, FO4.59 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:R.52, E:Y.112, E:Q.129, E:Y.132 Salt bridges: E:R.52, E:E.133 FO4.54: 7 residues within 4Å: Chain E: W.111, Y.112, W.115, Y.136, Y.137, P.141 Ligands: CLR.62 7 PLIP interactions: 7 interactions with chain E Hydrophobic interactions: E:W.111, E:W.111, E:W.111, E:W.111, E:Y.112 Hydrogen bonds: E:Y.136 pi-Cation interactions: E:W.115 FO4.55: 8 residues within 4Å: Chain E: N.77, V.81 Chain F: N.110 Ligands: FO4.56, CLR.60, FO4.64, CLR.75, FO4.78 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:N.77, E:T.83 FO4.56: 6 residues within 4Å: Chain E: Y.50, R.52, Q.129 Ligands: FO4.53, FO4.55, FO4.78 2 PLIP interactions: 2 interactions with chain E Water bridges: E:R.52 Salt bridges: E:R.52 FO4.57: 7 residues within 4Å: Chain E: A.1, A.4, I.8 Chain F: G.10, L.13 Ligands: FO4.64, FO4.71 3 PLIP interactions: 1 interactions with chain F, 2 interactions with chain E Hydrophobic interactions: F:L.13, E:I.8 Hydrogen bonds: E:A.4 FO4.58: 4 residues within 4Å: Chain E: V.7, G.10, A.11 Ligands: FO4.44 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:V.7 FO4.59: 16 residues within 4Å: Chain E: R.52, S.53, A.82, T.83, G.84, V.86, S.104, P.106, Y.107, Y.112, Y.132, Y.136, Y.137 Ligands: FO4.53, CLR.60, CLR.61 8 PLIP interactions: 8 interactions with chain E Hydrophobic interactions: E:T.83 Hydrogen bonds: E:S.53, E:G.84, E:Y.107, E:Y.112, E:Y.112 Water bridges: E:R.52 pi-Cation interactions: E:Y.112 FO4.64: 21 residues within 4Å: Chain E: F.15, L.18, L.22, T.55, N.77, R.78, G.79, P.80, V.81 Chain F: V.17, A.24, V.28, R.30, Y.109, S.165, S.166, G.167 Ligands: FO4.55, FO4.57, CLR.60, CLR.76 14 PLIP interactions: 7 interactions with chain E, 7 interactions with chain F Hydrophobic interactions: E:F.15, E:L.22, E:R.78, E:V.81, F:V.17, F:A.24 Hydrogen bonds: E:R.78, E:R.78, F:R.30, F:R.30, F:S.166, F:G.167 Salt bridges: E:R.78 pi-Cation interactions: F:Y.109 FO4.65: 8 residues within 4Å: Chain E: Y.109, N.110, W.111, Y.112, S.113 Ligands: FO4.42, FO4.43, CLR.62 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.110 FO4.66: 9 residues within 4Å: Chain F: R.52, Y.112, Q.129, Y.132, E.133, Y.137 Ligands: FO4.69, FO4.72, CLR.74 7 PLIP interactions: 7 interactions with chain F Hydrogen bonds: F:R.52, F:Y.112, F:Q.129, F:Y.132, F:Y.132 Salt bridges: F:R.52, F:E.133 FO4.67: 7 residues within 4Å: Chain F: W.111, Y.112, W.115, Y.136, Y.137, P.141 Ligands: CLR.75 7 PLIP interactions: 7 interactions with chain F Hydrophobic interactions: F:W.111, F:W.111, F:W.111, F:W.111, F:Y.112 Hydrogen bonds: F:Y.136 pi-Cation interactions: F:W.115 FO4.68: 9 residues within 4Å: Chain F: N.77, V.81 Chain G: N.110 Ligands: FO4.69, CLR.73, FO4.77, CLR.88, CLR.89, FO4.91 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:N.77 FO4.69: 7 residues within 4Å: Chain F: Y.50, R.52, Q.129 Ligands: FO4.66, FO4.68, FO4.72, FO4.91 2 PLIP interactions: 2 interactions with chain F Water bridges: F:R.52 Salt bridges: F:R.52 FO4.70: 6 residues within 4Å: Chain F: A.1, A.4, I.8 Chain G: L.13 Ligands: FO4.77, FO4.84 3 PLIP interactions: 2 interactions with chain F, 1 interactions with chain G Hydrophobic interactions: F:I.8, G:L.13 Hydrogen bonds: F:A.4 FO4.71: 4 residues within 4Å: Chain F: V.7, G.10, A.11 Ligands: FO4.57 1 PLIP interactions: 1 interactions with chain F Hydrophobic interactions: F:V.7 FO4.72: 17 residues within 4Å: Chain F: R.52, S.53, A.82, T.83, G.84, V.86, S.104, P.106, Y.107, Y.112, Y.132, Y.136, Y.137 Ligands: FO4.66, FO4.69, CLR.73, CLR.74 8 PLIP interactions: 8 interactions with chain F Hydrophobic interactions: F:T.83 Hydrogen bonds: F:S.53, F:G.84, F:Y.107, F:Y.112, F:Y.112 Water bridges: F:R.52 pi-Cation interactions: F:Y.112 FO4.77: 19 residues within 4Å: Chain F: F.15, L.18, T.55, N.77, R.78, P.80, V.81 Chain G: V.17, A.24, V.28, R.30, Y.109, S.165, S.166, G.167 Ligands: FO4.68, FO4.70, CLR.73, CLR.89 13 PLIP interactions: 7 interactions with chain G, 6 interactions with chain F Hydrophobic interactions: G:V.17, G:A.24, F:F.15, F:R.78, F:V.81 Hydrogen bonds: G:R.30, G:R.30, G:S.166, G:G.167, F:R.78, F:R.78 pi-Cation interactions: G:Y.109 Salt bridges: F:R.78 FO4.78: 8 residues within 4Å: Chain F: Y.109, N.110, W.111, Y.112, S.113 Ligands: FO4.55, FO4.56, CLR.75 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:N.110 FO4.79: 8 residues within 4Å: Chain G: R.52, Y.112, Q.129, Y.132, E.133, Y.137 Ligands: FO4.82, FO4.85 6 PLIP interactions: 6 interactions with chain G Hydrogen bonds: G:R.52, G:Y.112, G:Q.129, G:Y.132 Salt bridges: G:R.52, G:E.133 FO4.80: 7 residues within 4Å: Chain G: W.111, Y.112, W.115, Y.136, Y.137, P.141 Ligands: CLR.88 7 PLIP interactions: 7 interactions with chain G Hydrophobic interactions: G:W.111, G:W.111, G:W.111, G:W.111, G:Y.112 Hydrogen bonds: G:Y.136 pi-Cation interactions: G:W.115 FO4.81: 8 residues within 4Å: Chain G: N.77, V.81 Chain H: N.110 Ligands: FO4.82, CLR.86, FO4.90, CLR.102, FO4.104 2 PLIP interactions: 2 interactions with chain G Hydrogen bonds: G:N.77, G:T.83 FO4.82: 6 residues within 4Å: Chain G: Y.50, R.52, Q.129 Ligands: FO4.79, FO4.81, FO4.104 2 PLIP interactions: 2 interactions with chain G Water bridges: G:R.52 Salt bridges: G:R.52 FO4.83: 7 residues within 4Å: Chain G: A.1, A.4, I.8 Chain H: G.10, L.13 Ligands: FO4.90, FO4.98 3 PLIP interactions: 2 interactions with chain G, 1 interactions with chain H Hydrophobic interactions: G:I.8, H:L.13 Hydrogen bonds: G:A.4 FO4.84: 4 residues within 4Å: Chain G: V.7, G.10, A.11 Ligands: FO4.70 1 PLIP interactions: 1 interactions with chain G Hydrophobic interactions: G:V.7 FO4.85: 16 residues within 4Å: Chain G: R.52, S.53, A.82, T.83, G.84, V.86, S.104, P.106, Y.107, Y.112, Y.132, Y.136, Y.137 Ligands: FO4.79, CLR.86, CLR.87 8 PLIP interactions: 8 interactions with chain G Hydrophobic interactions: G:T.83 Hydrogen bonds: G:S.53, G:G.84, G:Y.107, G:Y.112, G:Y.112 Water bridges: G:R.52 pi-Cation interactions: G:Y.112 FO4.90: 21 residues within 4Å: Chain G: F.15, L.18, L.22, T.55, N.77, R.78, G.79, P.80, V.81 Chain H: V.17, A.24, V.28, R.30, Y.109, S.165, S.166, G.167 Ligands: FO4.81, FO4.83, CLR.86, CLR.103 14 PLIP interactions: 7 interactions with chain G, 7 interactions with chain H Hydrophobic interactions: G:F.15, G:L.22, G:R.78, G:V.81, H:V.17, H:A.24 Hydrogen bonds: G:R.78, G:R.78, H:R.30, H:R.30, H:S.166, H:G.167 Salt bridges: G:R.78 pi-Cation interactions: H:Y.109 FO4.91: 8 residues within 4Å: Chain G: Y.109, N.110, W.111, Y.112, S.113 Ligands: FO4.68, FO4.69, CLR.88 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:N.110 FO4.92: 20 residues within 4Å: Chain A: V.17, V.21, A.24, V.28, R.30, Y.109, S.165, S.166, G.167 Chain H: F.15, L.18, T.55, N.77, R.78, P.80, V.81 Ligands: CLR.10, FO4.95, FO4.97, CLR.100 14 PLIP interactions: 8 interactions with chain A, 6 interactions with chain H Hydrophobic interactions: A:V.17, A:V.21, A:A.24, H:F.15, H:R.78, H:V.81 Hydrogen bonds: A:R.30, A:R.30, A:S.166, A:G.167, H:R.78, H:R.78 pi-Cation interactions: A:Y.109 Salt bridges: H:R.78 FO4.93: 8 residues within 4Å: Chain H: R.52, Y.112, Q.129, Y.132, E.133, Y.137 Ligands: FO4.96, FO4.99 7 PLIP interactions: 7 interactions with chain H Hydrogen bonds: H:R.52, H:Y.112, H:Q.129, H:Y.132, H:Y.132 Salt bridges: H:R.52, H:E.133 FO4.94: 7 residues within 4Å: Chain H: W.111, Y.112, W.115, Y.136, Y.137, P.141 Ligands: CLR.102 6 PLIP interactions: 6 interactions with chain H Hydrophobic interactions: H:W.111, H:W.111, H:W.111, H:Y.112 Hydrogen bonds: H:Y.136 pi-Cation interactions: H:W.115 FO4.95: 9 residues within 4Å: Chain A: N.110 Chain H: N.77, V.81 Ligands: CLR.9, CLR.10, FO4.12, FO4.92, FO4.96, CLR.100 1 PLIP interactions: 1 interactions with chain H Hydrogen bonds: H:N.77 FO4.96: 7 residues within 4Å: Chain H: Y.50, R.52, Q.129 Ligands: FO4.12, FO4.93, FO4.95, FO4.99 2 PLIP interactions: 2 interactions with chain H Water bridges: H:R.52 Salt bridges: H:R.52 FO4.97: 6 residues within 4Å: Chain A: L.13 Chain H: A.1, A.4, I.8 Ligands: FO4.5, FO4.92 3 PLIP interactions: 2 interactions with chain H, 1 interactions with chain A Hydrophobic interactions: H:I.8, A:L.13 Hydrogen bonds: H:A.4 FO4.98: 4 residues within 4Å: Chain H: V.7, G.10, A.11 Ligands: FO4.83 1 PLIP interactions: 1 interactions with chain H Hydrophobic interactions: H:V.7 FO4.99: 17 residues within 4Å: Chain H: R.52, S.53, A.82, T.83, G.84, V.86, S.104, P.106, Y.107, Y.112, Y.132, Y.136, Y.137 Ligands: FO4.93, FO4.96, CLR.100, CLR.101 8 PLIP interactions: 8 interactions with chain H Hydrophobic interactions: H:T.83 Hydrogen bonds: H:S.53, H:G.84, H:Y.107, H:Y.112, H:Y.112 Water bridges: H:R.52 pi-Cation interactions: H:Y.112 FO4.104: 8 residues within 4Å: Chain H: Y.109, N.110, W.111, Y.112, S.113 Ligands: FO4.81, FO4.82, CLR.102 1 PLIP interactions: 1 interactions with chain H Hydrogen bonds: H:N.110

32 x CLR: CHOLESTEROL(Non-covalent)

CLR.7: 9 residues within 4Å: Chain A: L.18, L.22, P.80, V.81, A.82 Ligands: FO4.6, CLR.8, FO4.11, FO4.13 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.18, A:L.22 Hydrogen bonds: A:A.82 CLR.8: 6 residues within 4Å: Chain A: A.82, D.108 Ligands: FO4.6, CLR.7, CLR.9, CLR.10 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:A.82 Hydrogen bonds: A:D.108 CLR.9: 8 residues within 4Å: Chain A: D.108, N.110, W.111 Ligands: FO4.2, CLR.8, CLR.10, FO4.12, FO4.95 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.108, A:N.110 CLR.10: 11 residues within 4Å: Chain A: V.21, L.25, R.30, Y.107, D.108, Y.109, N.110 Ligands: CLR.8, CLR.9, FO4.92, FO4.95 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.21, A:L.25, A:Y.107 Hydrogen bonds: A:R.30, A:Y.109 CLR.21: 9 residues within 4Å: Chain B: L.18, L.22, P.80, V.81, A.82 Ligands: FO4.16, FO4.20, CLR.22, FO4.25 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.18, B:L.22 Hydrogen bonds: B:A.82 CLR.22: 6 residues within 4Å: Chain B: A.82, D.108 Ligands: FO4.20, CLR.21, CLR.23, CLR.24 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:A.82 Hydrogen bonds: B:D.108 CLR.23: 8 residues within 4Å: Chain B: D.108, N.110, W.111 Ligands: FO4.13, FO4.15, CLR.22, CLR.24, FO4.26 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.108, B:N.110 CLR.24: 11 residues within 4Å: Chain B: V.21, L.25, V.28, R.30, Y.107, D.108, Y.109, N.110 Ligands: FO4.11, CLR.22, CLR.23 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:V.21, B:L.25, B:V.28 Hydrogen bonds: B:R.30, B:Y.109 CLR.34: 9 residues within 4Å: Chain C: L.18, L.22, P.80, V.81, A.82 Ligands: FO4.29, FO4.33, CLR.35, FO4.38 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:L.18, C:L.22 Hydrogen bonds: C:A.82 CLR.35: 6 residues within 4Å: Chain C: A.82, D.108 Ligands: FO4.33, CLR.34, CLR.36, CLR.37 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:A.82 Hydrogen bonds: C:D.108 CLR.36: 8 residues within 4Å: Chain C: D.108, N.110, W.111 Ligands: FO4.16, FO4.28, CLR.35, CLR.37, FO4.39 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.108, C:N.110 CLR.37: 11 residues within 4Å: Chain C: V.21, L.25, R.30, Y.107, D.108, Y.109, N.110 Ligands: FO4.16, FO4.25, CLR.35, CLR.36 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:V.21, C:L.25, C:Y.107 Hydrogen bonds: C:R.30, C:Y.109 CLR.47: 9 residues within 4Å: Chain D: L.18, L.22, P.80, V.81, A.82 Ligands: FO4.42, FO4.46, CLR.48, FO4.51 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:L.18, D:L.22 Hydrogen bonds: D:A.82 CLR.48: 7 residues within 4Å: Chain D: A.82, D.108 Ligands: FO4.40, FO4.46, CLR.47, CLR.49, CLR.50 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:A.82 Hydrogen bonds: D:D.108 CLR.49: 8 residues within 4Å: Chain D: D.108, N.110, W.111 Ligands: FO4.29, FO4.41, CLR.48, CLR.50, FO4.52 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:D.108, D:N.110 CLR.50: 11 residues within 4Å: Chain D: V.21, L.25, V.28, R.30, Y.107, D.108, Y.109, N.110 Ligands: FO4.38, CLR.48, CLR.49 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:V.21, D:L.25, D:V.28 Hydrogen bonds: D:R.30, D:Y.109 CLR.60: 9 residues within 4Å: Chain E: L.18, L.22, P.80, V.81, A.82 Ligands: FO4.55, FO4.59, CLR.61, FO4.64 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:L.18, E:L.22 Hydrogen bonds: E:A.82 CLR.61: 6 residues within 4Å: Chain E: A.82, D.108 Ligands: FO4.59, CLR.60, CLR.62, CLR.63 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:A.82 Hydrogen bonds: E:D.108 CLR.62: 8 residues within 4Å: Chain E: D.108, N.110, W.111 Ligands: FO4.42, FO4.54, CLR.61, CLR.63, FO4.65 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:D.108, E:N.110 CLR.63: 11 residues within 4Å: Chain E: V.21, L.25, R.30, Y.107, D.108, Y.109, N.110 Ligands: FO4.42, FO4.51, CLR.61, CLR.62 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:V.21, E:Y.107 Hydrogen bonds: E:R.30, E:Y.109 CLR.73: 9 residues within 4Å: Chain F: L.18, L.22, P.80, V.81, A.82 Ligands: FO4.68, FO4.72, CLR.74, FO4.77 3 PLIP interactions: 3 interactions with chain F Hydrophobic interactions: F:L.18, F:L.22 Hydrogen bonds: F:A.82 CLR.74: 7 residues within 4Å: Chain F: A.82, D.108 Ligands: FO4.66, FO4.72, CLR.73, CLR.75, CLR.76 2 PLIP interactions: 2 interactions with chain F Hydrophobic interactions: F:A.82 Hydrogen bonds: F:D.108 CLR.75: 8 residues within 4Å: Chain F: D.108, N.110, W.111 Ligands: FO4.55, FO4.67, CLR.74, CLR.76, FO4.78 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:D.108, F:N.110 CLR.76: 11 residues within 4Å: Chain F: V.21, L.25, V.28, R.30, Y.107, D.108, Y.109, N.110 Ligands: FO4.64, CLR.74, CLR.75 5 PLIP interactions: 5 interactions with chain F Hydrophobic interactions: F:V.21, F:L.25, F:V.28 Hydrogen bonds: F:R.30, F:Y.109 CLR.86: 9 residues within 4Å: Chain G: L.18, L.22, P.80, V.81, A.82 Ligands: FO4.81, FO4.85, CLR.87, FO4.90 3 PLIP interactions: 3 interactions with chain G Hydrophobic interactions: G:L.18, G:L.22 Hydrogen bonds: G:A.82 CLR.87: 6 residues within 4Å: Chain G: A.82, D.108 Ligands: FO4.85, CLR.86, CLR.88, CLR.89 2 PLIP interactions: 2 interactions with chain G Hydrophobic interactions: G:A.82 Hydrogen bonds: G:D.108 CLR.88: 8 residues within 4Å: Chain G: D.108, N.110, W.111 Ligands: FO4.68, FO4.80, CLR.87, CLR.89, FO4.91 2 PLIP interactions: 2 interactions with chain G Hydrogen bonds: G:D.108, G:N.110 CLR.89: 11 residues within 4Å: Chain G: V.21, L.25, R.30, Y.107, D.108, Y.109, N.110 Ligands: FO4.68, FO4.77, CLR.87, CLR.88 5 PLIP interactions: 5 interactions with chain G Hydrophobic interactions: G:V.21, G:L.25, G:Y.107 Hydrogen bonds: G:R.30, G:Y.109 CLR.100: 9 residues within 4Å: Chain H: L.18, L.22, P.80, V.81, A.82 Ligands: FO4.92, FO4.95, FO4.99, CLR.101 3 PLIP interactions: 3 interactions with chain H Hydrophobic interactions: H:L.18, H:L.22 Hydrogen bonds: H:A.82 CLR.101: 6 residues within 4Å: Chain H: A.82, D.108 Ligands: FO4.99, CLR.100, CLR.102, CLR.103 2 PLIP interactions: 2 interactions with chain H Hydrophobic interactions: H:A.82 Hydrogen bonds: H:D.108 CLR.102: 8 residues within 4Å: Chain H: D.108, N.110, W.111 Ligands: FO4.81, FO4.94, CLR.101, CLR.103, FO4.104 2 PLIP interactions: 2 interactions with chain H Hydrogen bonds: H:D.108, H:N.110 CLR.103: 11 residues within 4Å: Chain H: V.21, L.25, V.28, R.30, Y.107, D.108, Y.109, N.110 Ligands: FO4.90, CLR.101, CLR.102 5 PLIP interactions: 5 interactions with chain H Hydrophobic interactions: H:V.21, H:L.25, H:V.28 Hydrogen bonds: H:R.30, H:Y.109

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arranz, R. et al., Elucidating the structure and assembly mechanism of actinoporin pores in complex membrane environments. Sci Adv (2025)

Release Date

2025-10-08

Peptides

DELTA-actitoxin-Afr1a: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
U

B
A

C
B

D
C

E
D

F
E

G
F

H
G

Membrane

We predict this structure to be a membrane protein.
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DELTA-actitoxin-Afr1a

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