SMTL ID : 3wis.1

Crystal structure of Burkholderia xenovorans DmrB in complex with FMN: A Cubic Protein Cage for Redox Transfer

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-24-mer

Ligands

48 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 22 residues within 4Å: Chain A: A.83, S.84, S.117, D.118, N.123, K.130 Chain K: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Ligands: FMN.2 21 PLIP interactions: 15 interactions with chain K, 6 interactions with chain A Hydrophobic interactions: K:V.60, K:L.63 Hydrogen bonds: K:G.31, K:G.31, K:G.33, K:H.34, K:S.54, K:T.105, K:S.106, K:N.107, K:T.108, K:T.108, A:N.123, A:N.123, A:Q.127, A:K.130 Water bridges: K:A.55, K:A.56, K:N.107, A:S.117, A:S.117 FMN.2: 14 residues within 4Å: Chain A: V.88, G.89, Y.92, Q.127, K.130 Chain K: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Ligands: FMN.1 7 PLIP interactions: 4 interactions with chain K, 3 interactions with chain A Hydrogen bonds: K:G.33, K:T.148, K:Q.149, A:Y.92, A:Q.127 Water bridges: K:T.148 Hydrophobic interactions: A:Y.92 FMN.7: 22 residues within 4Å: Chain B: A.83, S.84, S.117, D.118, N.123, K.130 Chain J: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Ligands: FMN.8 21 PLIP interactions: 15 interactions with chain J, 6 interactions with chain B Hydrophobic interactions: J:V.60, J:L.63 Hydrogen bonds: J:G.31, J:G.31, J:G.33, J:H.34, J:S.54, J:T.105, J:S.106, J:N.107, J:T.108, J:T.108, B:N.123, B:N.123, B:Q.127, B:K.130 Water bridges: J:A.55, J:A.56, J:N.107, B:S.117, B:S.117 FMN.8: 14 residues within 4Å: Chain B: V.88, G.89, Y.92, Q.127, K.130 Chain J: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Ligands: FMN.7 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain J Hydrophobic interactions: B:Y.92 Hydrogen bonds: B:Y.92, B:Q.127, J:G.33, J:T.148, J:Q.149 Water bridges: J:T.148 FMN.13: 22 residues within 4Å: Chain C: A.83, S.84, S.117, D.118, N.123, K.130 Chain L: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Ligands: FMN.14 19 PLIP interactions: 13 interactions with chain L, 6 interactions with chain C Hydrophobic interactions: L:V.60, L:L.63 Hydrogen bonds: L:G.31, L:G.31, L:G.33, L:H.34, L:S.54, L:S.106, L:N.107, L:T.108, C:N.123, C:N.123, C:Q.127, C:K.130 Water bridges: L:A.55, L:A.56, L:N.107, C:S.117, C:S.117 FMN.14: 14 residues within 4Å: Chain C: V.88, G.89, Y.92, Q.127, K.130 Chain L: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Ligands: FMN.13 6 PLIP interactions: 2 interactions with chain C, 4 interactions with chain L Hydrophobic interactions: C:Y.92 Hydrogen bonds: C:Q.127, L:G.33, L:T.148, L:Q.149 Water bridges: L:T.148 FMN.19: 22 residues within 4Å: Chain D: A.83, S.84, S.117, D.118, N.123, K.130 Chain I: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Ligands: FMN.20 19 PLIP interactions: 6 interactions with chain D, 13 interactions with chain I Hydrogen bonds: D:N.123, D:N.123, D:Q.127, D:K.130, I:G.31, I:G.31, I:G.33, I:H.34, I:S.54, I:S.106, I:N.107, I:T.108 Water bridges: D:S.117, D:S.117, I:A.55, I:A.56, I:N.107 Hydrophobic interactions: I:V.60, I:L.63 FMN.20: 14 residues within 4Å: Chain D: V.88, G.89, Y.92, Q.127, K.130 Chain I: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Ligands: FMN.19 6 PLIP interactions: 4 interactions with chain I, 2 interactions with chain D Hydrogen bonds: I:G.33, I:T.148, I:Q.149, D:Q.127 Water bridges: I:T.148 Hydrophobic interactions: D:Y.92 FMN.25: 22 residues within 4Å: Chain E: A.83, S.84, S.117, D.118, N.123, K.130 Chain W: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Ligands: FMN.26 19 PLIP interactions: 6 interactions with chain E, 13 interactions with chain W Hydrogen bonds: E:N.123, E:N.123, E:Q.127, E:K.130, W:G.31, W:G.31, W:G.33, W:H.34, W:S.54, W:S.106, W:N.107, W:T.108 Water bridges: E:S.117, E:S.117, W:A.55, W:A.56, W:N.107 Hydrophobic interactions: W:V.60, W:L.63 FMN.26: 14 residues within 4Å: Chain E: V.88, G.89, Y.92, Q.127, K.130 Chain W: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Ligands: FMN.25 6 PLIP interactions: 4 interactions with chain W, 2 interactions with chain E Hydrogen bonds: W:G.33, W:T.148, W:Q.149, E:Q.127 Water bridges: W:T.148 Hydrophobic interactions: E:Y.92 FMN.31: 22 residues within 4Å: Chain F: A.83, S.84, S.117, D.118, N.123, K.130 Chain V: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Ligands: FMN.32 19 PLIP interactions: 6 interactions with chain F, 13 interactions with chain V Hydrogen bonds: F:N.123, F:N.123, F:Q.127, F:K.130, V:G.31, V:G.31, V:G.33, V:H.34, V:S.54, V:S.106, V:N.107, V:T.108 Water bridges: F:S.117, F:S.117, V:A.55, V:A.56, V:N.107 Hydrophobic interactions: V:V.60, V:L.63 FMN.32: 14 residues within 4Å: Chain F: V.88, G.89, Y.92, Q.127, K.130 Chain V: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Ligands: FMN.31 6 PLIP interactions: 4 interactions with chain V, 2 interactions with chain F Hydrogen bonds: V:G.33, V:T.148, V:Q.149, F:Q.127 Water bridges: V:T.148 Hydrophobic interactions: F:Y.92 FMN.37: 22 residues within 4Å: Chain G: A.83, S.84, S.117, D.118, N.123, K.130 Chain X: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Ligands: FMN.38 21 PLIP interactions: 15 interactions with chain X, 6 interactions with chain G Hydrophobic interactions: X:V.60, X:L.63 Hydrogen bonds: X:G.31, X:G.31, X:G.33, X:H.34, X:S.54, X:T.105, X:S.106, X:N.107, X:T.108, X:T.108, G:N.123, G:N.123, G:Q.127, G:K.130 Water bridges: X:A.55, X:A.56, X:N.107, G:S.117, G:S.117 FMN.38: 14 residues within 4Å: Chain G: V.88, G.89, Y.92, Q.127, K.130 Chain X: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Ligands: FMN.37 7 PLIP interactions: 4 interactions with chain X, 3 interactions with chain G Hydrogen bonds: X:G.33, X:T.148, X:Q.149, G:Y.92, G:Q.127 Water bridges: X:T.148 Hydrophobic interactions: G:Y.92 FMN.43: 22 residues within 4Å: Chain H: A.83, S.84, S.117, D.118, N.123, K.130 Chain U: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Ligands: FMN.44 21 PLIP interactions: 15 interactions with chain U, 6 interactions with chain H Hydrophobic interactions: U:V.60, U:L.63 Hydrogen bonds: U:G.31, U:G.31, U:G.33, U:H.34, U:S.54, U:T.105, U:S.106, U:N.107, U:T.108, U:T.108, H:N.123, H:N.123, H:Q.127, H:K.130 Water bridges: U:A.55, U:A.56, U:N.107, H:S.117, H:S.117 FMN.44: 14 residues within 4Å: Chain H: V.88, G.89, Y.92, Q.127, K.130 Chain U: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Ligands: FMN.43 7 PLIP interactions: 4 interactions with chain U, 3 interactions with chain H Hydrogen bonds: U:G.33, U:T.148, U:Q.149, H:Y.92, H:Q.127 Water bridges: U:T.148 Hydrophobic interactions: H:Y.92 FMN.49: 22 residues within 4Å: Chain I: A.83, S.84, S.117, D.118, N.123, K.130 Chain S: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Ligands: FMN.50 20 PLIP interactions: 6 interactions with chain I, 14 interactions with chain S Hydrogen bonds: I:N.123, I:N.123, I:Q.127, I:K.130, S:G.31, S:G.31, S:G.33, S:H.34, S:S.54, S:S.106, S:N.107, S:T.108, S:T.108 Water bridges: I:S.117, I:S.117, S:A.55, S:A.56, S:N.107 Hydrophobic interactions: S:V.60, S:L.63 FMN.50: 14 residues within 4Å: Chain I: V.88, G.89, Y.92, Q.127, K.130 Chain S: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Ligands: FMN.49 7 PLIP interactions: 4 interactions with chain S, 3 interactions with chain I Hydrogen bonds: S:G.33, S:T.148, S:Q.149, I:Y.92, I:Q.127 Water bridges: S:T.148 Hydrophobic interactions: I:Y.92 FMN.55: 22 residues within 4Å: Chain J: A.83, S.84, S.117, D.118, N.123, K.130 Chain R: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Ligands: FMN.56 20 PLIP interactions: 14 interactions with chain R, 6 interactions with chain J Hydrophobic interactions: R:V.60, R:L.63 Hydrogen bonds: R:G.31, R:G.31, R:G.33, R:H.34, R:S.54, R:T.105, R:S.106, R:N.107, R:T.108, J:N.123, J:N.123, J:Q.127, J:K.130 Water bridges: R:A.55, R:A.56, R:N.107, J:S.117, J:S.117 FMN.56: 14 residues within 4Å: Chain J: V.88, G.89, Y.92, Q.127, K.130 Chain R: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Ligands: FMN.55 6 PLIP interactions: 4 interactions with chain R, 2 interactions with chain J Hydrogen bonds: R:G.33, R:T.148, R:Q.149, J:Q.127 Water bridges: R:T.148 Hydrophobic interactions: J:Y.92 FMN.61: 22 residues within 4Å: Chain K: A.83, S.84, S.117, D.118, N.123, K.130 Chain T: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Ligands: FMN.62 20 PLIP interactions: 6 interactions with chain K, 14 interactions with chain T Hydrogen bonds: K:N.123, K:N.123, K:Q.127, K:K.130, T:G.31, T:G.31, T:G.33, T:H.34, T:S.54, T:T.105, T:S.106, T:N.107, T:T.108 Water bridges: K:S.117, K:S.117, T:A.55, T:A.56, T:N.107 Hydrophobic interactions: T:V.60, T:L.63 FMN.62: 14 residues within 4Å: Chain K: V.88, G.89, Y.92, Q.127, K.130 Chain T: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Ligands: FMN.61 6 PLIP interactions: 4 interactions with chain T, 2 interactions with chain K Hydrogen bonds: T:G.33, T:T.148, T:Q.149, K:Q.127 Water bridges: T:T.148 Hydrophobic interactions: K:Y.92 FMN.67: 22 residues within 4Å: Chain L: A.83, S.84, S.117, D.118, N.123, K.130 Chain Q: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Ligands: FMN.68 20 PLIP interactions: 6 interactions with chain L, 14 interactions with chain Q Hydrogen bonds: L:N.123, L:N.123, L:Q.127, L:K.130, Q:G.31, Q:G.31, Q:G.33, Q:H.34, Q:S.54, Q:S.106, Q:N.107, Q:T.108, Q:T.108 Water bridges: L:S.117, L:S.117, Q:A.55, Q:A.56, Q:N.107 Hydrophobic interactions: Q:V.60, Q:L.63 FMN.68: 14 residues within 4Å: Chain L: V.88, G.89, Y.92, Q.127, K.130 Chain Q: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Ligands: FMN.67 7 PLIP interactions: 4 interactions with chain Q, 3 interactions with chain L Hydrogen bonds: Q:G.33, Q:T.148, Q:Q.149, L:Y.92, L:Q.127 Water bridges: Q:T.148 Hydrophobic interactions: L:Y.92 FMN.73: 22 residues within 4Å: Chain G: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Chain M: A.83, S.84, S.117, D.118, N.123, K.130 Ligands: FMN.74 21 PLIP interactions: 15 interactions with chain G, 6 interactions with chain M Hydrophobic interactions: G:V.60, G:L.63 Hydrogen bonds: G:G.31, G:G.31, G:G.33, G:H.34, G:S.54, G:T.105, G:S.106, G:N.107, G:T.108, G:T.108, M:N.123, M:N.123, M:Q.127, M:K.130 Water bridges: G:A.55, G:A.56, G:N.107, M:S.117, M:S.117 FMN.74: 14 residues within 4Å: Chain G: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Chain M: V.88, G.89, Y.92, Q.127, K.130 Ligands: FMN.73 6 PLIP interactions: 4 interactions with chain G, 2 interactions with chain M Hydrogen bonds: G:G.33, G:T.148, G:Q.149, M:Q.127 Water bridges: G:T.148 Hydrophobic interactions: M:Y.92 FMN.79: 22 residues within 4Å: Chain F: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Chain N: A.83, S.84, S.117, D.118, N.123, K.130 Ligands: FMN.80 19 PLIP interactions: 6 interactions with chain N, 13 interactions with chain F Hydrogen bonds: N:N.123, N:N.123, N:Q.127, N:K.130, F:G.31, F:G.31, F:G.33, F:H.34, F:S.54, F:S.106, F:N.107, F:T.108 Water bridges: N:S.117, N:S.117, F:A.55, F:A.56, F:N.107 Hydrophobic interactions: F:V.60, F:L.63 FMN.80: 14 residues within 4Å: Chain F: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Chain N: V.88, G.89, Y.92, Q.127, K.130 Ligands: FMN.79 7 PLIP interactions: 3 interactions with chain N, 4 interactions with chain F Hydrophobic interactions: N:Y.92 Hydrogen bonds: N:Y.92, N:Q.127, F:G.33, F:T.148, F:Q.149 Water bridges: F:T.148 FMN.85: 22 residues within 4Å: Chain H: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Chain O: A.83, S.84, S.117, D.118, N.123, K.130 Ligands: FMN.86 21 PLIP interactions: 15 interactions with chain H, 6 interactions with chain O Hydrophobic interactions: H:V.60, H:L.63 Hydrogen bonds: H:G.31, H:G.31, H:G.33, H:H.34, H:S.54, H:T.105, H:S.106, H:N.107, H:T.108, H:T.108, O:N.123, O:N.123, O:Q.127, O:K.130 Water bridges: H:A.55, H:A.56, H:N.107, O:S.117, O:S.117 FMN.86: 14 residues within 4Å: Chain H: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Chain O: V.88, G.89, Y.92, Q.127, K.130 Ligands: FMN.85 6 PLIP interactions: 4 interactions with chain H, 2 interactions with chain O Hydrogen bonds: H:G.33, H:T.148, H:Q.149, O:Q.127 Water bridges: H:T.148 Hydrophobic interactions: O:Y.92 FMN.91: 22 residues within 4Å: Chain E: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Chain P: A.83, S.84, S.117, D.118, N.123, K.130 Ligands: FMN.92 19 PLIP interactions: 13 interactions with chain E, 6 interactions with chain P Hydrophobic interactions: E:V.60, E:L.63 Hydrogen bonds: E:G.31, E:G.31, E:G.33, E:H.34, E:S.54, E:S.106, E:N.107, E:T.108, P:N.123, P:N.123, P:Q.127, P:K.130 Water bridges: E:A.55, E:A.56, E:N.107, P:S.117, P:S.117 FMN.92: 14 residues within 4Å: Chain E: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Chain P: V.88, G.89, Y.92, Q.127, K.130 Ligands: FMN.91 7 PLIP interactions: 4 interactions with chain E, 3 interactions with chain P Hydrogen bonds: E:G.33, E:T.148, E:Q.149, P:Y.92, P:Q.127 Water bridges: E:T.148 Hydrophobic interactions: P:Y.92 FMN.97: 22 residues within 4Å: Chain C: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Chain Q: A.83, S.84, S.117, D.118, N.123, K.130 Ligands: FMN.98 19 PLIP interactions: 13 interactions with chain C, 6 interactions with chain Q Hydrophobic interactions: C:V.60, C:L.63 Hydrogen bonds: C:G.31, C:G.31, C:G.33, C:H.34, C:S.54, C:S.106, C:N.107, C:T.108, Q:N.123, Q:N.123, Q:Q.127, Q:K.130 Water bridges: C:A.55, C:A.56, C:N.107, Q:S.117, Q:S.117 FMN.98: 14 residues within 4Å: Chain C: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Chain Q: V.88, G.89, Y.92, Q.127, K.130 Ligands: FMN.97 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain Q Hydrogen bonds: C:G.33, C:T.148, C:Q.149, Q:Y.92, Q:Q.127 Water bridges: C:T.148 Hydrophobic interactions: Q:Y.92 FMN.103: 22 residues within 4Å: Chain B: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Chain R: A.83, S.84, S.117, D.118, N.123, K.130 Ligands: FMN.104 21 PLIP interactions: 15 interactions with chain B, 6 interactions with chain R Hydrophobic interactions: B:V.60, B:L.63 Hydrogen bonds: B:G.31, B:G.31, B:G.33, B:H.34, B:S.54, B:T.105, B:S.106, B:N.107, B:T.108, B:T.108, R:N.123, R:N.123, R:Q.127, R:K.130 Water bridges: B:A.55, B:A.56, B:N.107, R:S.117, R:S.117 FMN.104: 14 residues within 4Å: Chain B: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Chain R: V.88, G.89, Y.92, Q.127, K.130 Ligands: FMN.103 6 PLIP interactions: 2 interactions with chain R, 4 interactions with chain B Hydrophobic interactions: R:Y.92 Hydrogen bonds: R:Q.127, B:G.33, B:T.148, B:Q.149 Water bridges: B:T.148 FMN.109: 22 residues within 4Å: Chain D: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Chain S: A.83, S.84, S.117, D.118, N.123, K.130 Ligands: FMN.110 19 PLIP interactions: 13 interactions with chain D, 6 interactions with chain S Hydrophobic interactions: D:V.60, D:L.63 Hydrogen bonds: D:G.31, D:G.31, D:G.33, D:H.34, D:S.54, D:S.106, D:N.107, D:T.108, S:N.123, S:N.123, S:Q.127, S:K.130 Water bridges: D:A.55, D:A.56, D:N.107, S:S.117, S:S.117 FMN.110: 14 residues within 4Å: Chain D: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Chain S: V.88, G.89, Y.92, Q.127, K.130 Ligands: FMN.109 7 PLIP interactions: 3 interactions with chain S, 4 interactions with chain D Hydrophobic interactions: S:Y.92 Hydrogen bonds: S:Y.92, S:Q.127, D:G.33, D:T.148, D:Q.149 Water bridges: D:T.148 FMN.115: 22 residues within 4Å: Chain A: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Chain T: A.83, S.84, S.117, D.118, N.123, K.130 Ligands: FMN.116 21 PLIP interactions: 6 interactions with chain T, 15 interactions with chain A Hydrogen bonds: T:N.123, T:N.123, T:Q.127, T:K.130, A:G.31, A:G.31, A:G.33, A:H.34, A:S.54, A:T.105, A:S.106, A:N.107, A:T.108, A:T.108 Water bridges: T:S.117, T:S.117, A:A.55, A:A.56, A:N.107 Hydrophobic interactions: A:V.60, A:L.63 FMN.116: 14 residues within 4Å: Chain A: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Chain T: V.88, G.89, Y.92, Q.127, K.130 Ligands: FMN.115 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain T Hydrogen bonds: A:G.33, A:T.148, A:Q.149, T:Q.127 Water bridges: A:T.148 Hydrophobic interactions: T:Y.92 FMN.121: 22 residues within 4Å: Chain O: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Chain U: A.83, S.84, S.117, D.118, N.123, K.130 Ligands: FMN.122 20 PLIP interactions: 14 interactions with chain O, 6 interactions with chain U Hydrophobic interactions: O:V.60, O:L.63 Hydrogen bonds: O:G.31, O:G.31, O:G.33, O:H.34, O:S.54, O:T.105, O:S.106, O:N.107, O:T.108, U:N.123, U:N.123, U:Q.127, U:K.130 Water bridges: O:A.55, O:A.56, O:N.107, U:S.117, U:S.117 FMN.122: 14 residues within 4Å: Chain O: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Chain U: V.88, G.89, Y.92, Q.127, K.130 Ligands: FMN.121 6 PLIP interactions: 4 interactions with chain O, 2 interactions with chain U Hydrogen bonds: O:G.33, O:T.148, O:Q.149, U:Q.127 Water bridges: O:T.148 Hydrophobic interactions: U:Y.92 FMN.127: 22 residues within 4Å: Chain N: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Chain V: A.83, S.84, S.117, D.118, N.123, K.130 Ligands: FMN.128 20 PLIP interactions: 14 interactions with chain N, 6 interactions with chain V Hydrophobic interactions: N:V.60, N:L.63 Hydrogen bonds: N:G.31, N:G.31, N:G.33, N:H.34, N:S.54, N:S.106, N:N.107, N:T.108, N:T.108, V:N.123, V:N.123, V:Q.127, V:K.130 Water bridges: N:A.55, N:A.56, N:N.107, V:S.117, V:S.117 FMN.128: 14 residues within 4Å: Chain N: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Chain V: V.88, G.89, Y.92, Q.127, K.130 Ligands: FMN.127 7 PLIP interactions: 4 interactions with chain N, 3 interactions with chain V Hydrogen bonds: N:G.33, N:T.148, N:Q.149, V:Y.92, V:Q.127 Water bridges: N:T.148 Hydrophobic interactions: V:Y.92 FMN.133: 22 residues within 4Å: Chain P: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Chain W: A.83, S.84, S.117, D.118, N.123, K.130 Ligands: FMN.134 20 PLIP interactions: 6 interactions with chain W, 14 interactions with chain P Hydrogen bonds: W:N.123, W:N.123, W:Q.127, W:K.130, P:G.31, P:G.31, P:G.33, P:H.34, P:S.54, P:S.106, P:N.107, P:T.108, P:T.108 Water bridges: W:S.117, W:S.117, P:A.55, P:A.56, P:N.107 Hydrophobic interactions: P:V.60, P:L.63 FMN.134: 14 residues within 4Å: Chain P: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Chain W: V.88, G.89, Y.92, Q.127, K.130 Ligands: FMN.133 7 PLIP interactions: 4 interactions with chain P, 3 interactions with chain W Hydrogen bonds: P:G.33, P:T.148, P:Q.149, W:Y.92, W:Q.127 Water bridges: P:T.148 Hydrophobic interactions: W:Y.92 FMN.139: 22 residues within 4Å: Chain M: T.30, G.31, S.32, G.33, H.34, S.54, A.56, V.60, L.63, Y.64, T.105, S.106, N.107, T.108, T.119 Chain X: A.83, S.84, S.117, D.118, N.123, K.130 Ligands: FMN.140 20 PLIP interactions: 14 interactions with chain M, 6 interactions with chain X Hydrophobic interactions: M:V.60, M:L.63 Hydrogen bonds: M:G.31, M:G.31, M:G.33, M:H.34, M:S.54, M:T.105, M:S.106, M:N.107, M:T.108, X:N.123, X:N.123, X:Q.127, X:K.130 Water bridges: M:A.55, M:A.56, M:N.107, X:S.117, X:S.117 FMN.140: 14 residues within 4Å: Chain M: G.33, H.34, Y.64, T.145, V.147, T.148, Q.149, L.157 Chain X: V.88, G.89, Y.92, Q.127, K.130 Ligands: FMN.139 6 PLIP interactions: 2 interactions with chain X, 4 interactions with chain M Hydrophobic interactions: X:Y.92 Hydrogen bonds: X:Q.127, M:G.33, M:T.148, M:Q.149 Water bridges: M:T.148

96 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 2 residues within 4Å: Chain A: R.72, R.79 Ligand excluded by PLIP SO4.4: 2 residues within 4Å: Chain A: R.79, N.81 Ligand excluded by PLIP SO4.5: 4 residues within 4Å: Chain A: K.186, G.190, L.193 Chain O: W.154 Ligand excluded by PLIP SO4.6: 3 residues within 4Å: Chain A: R.70, K.73, H.74 Ligand excluded by PLIP SO4.9: 2 residues within 4Å: Chain B: R.72, R.79 Ligand excluded by PLIP SO4.10: 2 residues within 4Å: Chain B: R.79, N.81 Ligand excluded by PLIP SO4.11: 4 residues within 4Å: Chain B: K.186, G.190, L.193 Chain M: W.154 Ligand excluded by PLIP SO4.12: 3 residues within 4Å: Chain B: R.70, K.73, H.74 Ligand excluded by PLIP SO4.15: 2 residues within 4Å: Chain C: R.72, R.79 Ligand excluded by PLIP SO4.16: 2 residues within 4Å: Chain C: R.79, N.81 Ligand excluded by PLIP SO4.17: 4 residues within 4Å: Chain C: K.186, G.190, L.193 Chain P: W.154 Ligand excluded by PLIP SO4.18: 3 residues within 4Å: Chain C: R.70, K.73, H.74 Ligand excluded by PLIP SO4.21: 2 residues within 4Å: Chain D: R.72, R.79 Ligand excluded by PLIP SO4.22: 2 residues within 4Å: Chain D: R.79, N.81 Ligand excluded by PLIP SO4.23: 4 residues within 4Å: Chain D: K.186, G.190, L.193 Chain N: W.154 Ligand excluded by PLIP SO4.24: 3 residues within 4Å: Chain D: R.70, K.73, H.74 Ligand excluded by PLIP SO4.27: 2 residues within 4Å: Chain E: R.72, R.79 Ligand excluded by PLIP SO4.28: 2 residues within 4Å: Chain E: R.79, N.81 Ligand excluded by PLIP SO4.29: 4 residues within 4Å: Chain E: K.186, G.190, L.193 Chain S: W.154 Ligand excluded by PLIP SO4.30: 3 residues within 4Å: Chain E: R.70, K.73, H.74 Ligand excluded by PLIP SO4.33: 2 residues within 4Å: Chain F: R.72, R.79 Ligand excluded by PLIP SO4.34: 2 residues within 4Å: Chain F: R.79, N.81 Ligand excluded by PLIP SO4.35: 4 residues within 4Å: Chain F: K.186, G.190, L.193 Chain Q: W.154 Ligand excluded by PLIP SO4.36: 3 residues within 4Å: Chain F: R.70, K.73, H.74 Ligand excluded by PLIP SO4.39: 2 residues within 4Å: Chain G: R.72, R.79 Ligand excluded by PLIP SO4.40: 2 residues within 4Å: Chain G: R.79, N.81 Ligand excluded by PLIP SO4.41: 4 residues within 4Å: Chain G: K.186, G.190, L.193 Chain T: W.154 Ligand excluded by PLIP SO4.42: 3 residues within 4Å: Chain G: R.70, K.73, H.74 Ligand excluded by PLIP SO4.45: 2 residues within 4Å: Chain H: R.72, R.79 Ligand excluded by PLIP SO4.46: 2 residues within 4Å: Chain H: R.79, N.81 Ligand excluded by PLIP SO4.47: 4 residues within 4Å: Chain H: K.186, G.190, L.193 Chain R: W.154 Ligand excluded by PLIP SO4.48: 3 residues within 4Å: Chain H: R.70, K.73, H.74 Ligand excluded by PLIP SO4.51: 2 residues within 4Å: Chain I: R.72, R.79 Ligand excluded by PLIP SO4.52: 2 residues within 4Å: Chain I: R.79, N.81 Ligand excluded by PLIP SO4.53: 4 residues within 4Å: Chain I: K.186, G.190, L.193 Chain X: W.154 Ligand excluded by PLIP SO4.54: 3 residues within 4Å: Chain I: R.70, K.73, H.74 Ligand excluded by PLIP SO4.57: 2 residues within 4Å: Chain J: R.72, R.79 Ligand excluded by PLIP SO4.58: 2 residues within 4Å: Chain J: R.79, N.81 Ligand excluded by PLIP SO4.59: 4 residues within 4Å: Chain J: K.186, G.190, L.193 Chain V: W.154 Ligand excluded by PLIP SO4.60: 3 residues within 4Å: Chain J: R.70, K.73, H.74 Ligand excluded by PLIP SO4.63: 2 residues within 4Å: Chain K: R.72, R.79 Ligand excluded by PLIP SO4.64: 2 residues within 4Å: Chain K: R.79, N.81 Ligand excluded by PLIP SO4.65: 4 residues within 4Å: Chain K: K.186, G.190, L.193 Chain W: W.154 Ligand excluded by PLIP SO4.66: 3 residues within 4Å: Chain K: R.70, K.73, H.74 Ligand excluded by PLIP SO4.69: 2 residues within 4Å: Chain L: R.72, R.79 Ligand excluded by PLIP SO4.70: 2 residues within 4Å: Chain L: R.79, N.81 Ligand excluded by PLIP SO4.71: 4 residues within 4Å: Chain L: K.186, G.190, L.193 Chain U: W.154 Ligand excluded by PLIP SO4.72: 3 residues within 4Å: Chain L: R.70, K.73, H.74 Ligand excluded by PLIP SO4.75: 2 residues within 4Å: Chain M: R.72, R.79 Ligand excluded by PLIP SO4.76: 2 residues within 4Å: Chain M: R.79, N.81 Ligand excluded by PLIP SO4.77: 4 residues within 4Å: Chain B: W.154 Chain M: K.186, G.190, L.193 Ligand excluded by PLIP SO4.78: 3 residues within 4Å: Chain M: R.70, K.73, H.74 Ligand excluded by PLIP SO4.81: 2 residues within 4Å: Chain N: R.72, R.79 Ligand excluded by PLIP SO4.82: 2 residues within 4Å: Chain N: R.79, N.81 Ligand excluded by PLIP SO4.83: 4 residues within 4Å: Chain D: W.154 Chain N: K.186, G.190, L.193 Ligand excluded by PLIP SO4.84: 3 residues within 4Å: Chain N: R.70, K.73, H.74 Ligand excluded by PLIP SO4.87: 2 residues within 4Å: Chain O: R.72, R.79 Ligand excluded by PLIP SO4.88: 2 residues within 4Å: Chain O: R.79, N.81 Ligand excluded by PLIP SO4.89: 4 residues within 4Å: Chain A: W.154 Chain O: K.186, G.190, L.193 Ligand excluded by PLIP SO4.90: 3 residues within 4Å: Chain O: R.70, K.73, H.74 Ligand excluded by PLIP SO4.93: 2 residues within 4Å: Chain P: R.72, R.79 Ligand excluded by PLIP SO4.94: 2 residues within 4Å: Chain P: R.79, N.81 Ligand excluded by PLIP SO4.95: 4 residues within 4Å: Chain C: W.154 Chain P: K.186, G.190, L.193 Ligand excluded by PLIP SO4.96: 3 residues within 4Å: Chain P: R.70, K.73, H.74 Ligand excluded by PLIP SO4.99: 2 residues within 4Å: Chain Q: R.72, R.79 Ligand excluded by PLIP SO4.100: 2 residues within 4Å: Chain Q: R.79, N.81 Ligand excluded by PLIP SO4.101: 4 residues within 4Å: Chain F: W.154 Chain Q: K.186, G.190, L.193 Ligand excluded by PLIP SO4.102: 3 residues within 4Å: Chain Q: R.70, K.73, H.74 Ligand excluded by PLIP SO4.105: 2 residues within 4Å: Chain R: R.72, R.79 Ligand excluded by PLIP SO4.106: 2 residues within 4Å: Chain R: R.79, N.81 Ligand excluded by PLIP SO4.107: 4 residues within 4Å: Chain H: W.154 Chain R: K.186, G.190, L.193 Ligand excluded by PLIP SO4.108: 3 residues within 4Å: Chain R: R.70, K.73, H.74 Ligand excluded by PLIP SO4.111: 2 residues within 4Å: Chain S: R.72, R.79 Ligand excluded by PLIP SO4.112: 2 residues within 4Å: Chain S: R.79, N.81 Ligand excluded by PLIP SO4.113: 4 residues within 4Å: Chain E: W.154 Chain S: K.186, G.190, L.193 Ligand excluded by PLIP SO4.114: 3 residues within 4Å: Chain S: R.70, K.73, H.74 Ligand excluded by PLIP SO4.117: 2 residues within 4Å: Chain T: R.72, R.79 Ligand excluded by PLIP SO4.118: 2 residues within 4Å: Chain T: R.79, N.81 Ligand excluded by PLIP SO4.119: 4 residues within 4Å: Chain G: W.154 Chain T: K.186, G.190, L.193 Ligand excluded by PLIP SO4.120: 3 residues within 4Å: Chain T: R.70, K.73, H.74 Ligand excluded by PLIP SO4.123: 2 residues within 4Å: Chain U: R.72, R.79 Ligand excluded by PLIP SO4.124: 2 residues within 4Å: Chain U: R.79, N.81 Ligand excluded by PLIP SO4.125: 4 residues within 4Å: Chain L: W.154 Chain U: K.186, G.190, L.193 Ligand excluded by PLIP SO4.126: 3 residues within 4Å: Chain U: R.70, K.73, H.74 Ligand excluded by PLIP SO4.129: 2 residues within 4Å: Chain V: R.72, R.79 Ligand excluded by PLIP SO4.130: 2 residues within 4Å: Chain V: R.79, N.81 Ligand excluded by PLIP SO4.131: 4 residues within 4Å: Chain J: W.154 Chain V: K.186, G.190, L.193 Ligand excluded by PLIP SO4.132: 3 residues within 4Å: Chain V: R.70, K.73, H.74 Ligand excluded by PLIP SO4.135: 2 residues within 4Å: Chain W: R.72, R.79 Ligand excluded by PLIP SO4.136: 2 residues within 4Å: Chain W: R.79, N.81 Ligand excluded by PLIP SO4.137: 4 residues within 4Å: Chain K: W.154 Chain W: K.186, G.190, L.193 Ligand excluded by PLIP SO4.138: 3 residues within 4Å: Chain W: R.70, K.73, H.74 Ligand excluded by PLIP SO4.141: 2 residues within 4Å: Chain X: R.72, R.79 Ligand excluded by PLIP SO4.142: 2 residues within 4Å: Chain X: R.79, N.81 Ligand excluded by PLIP SO4.143: 4 residues within 4Å: Chain I: W.154 Chain X: K.186, G.190, L.193 Ligand excluded by PLIP SO4.144: 3 residues within 4Å: Chain X: R.70, K.73, H.74 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mcnamara, D.E. et al., Structure of dihydromethanopterin reductase, a cubic protein cage for redox transfer. J.Biol.Chem. (2014)

Release Date

2014-02-19

Peptides

Putative dihydromethanopterin reductase (AfpA): ABCDEFGHIJKLMNOPQRSTUVWX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

I
A

J
A

K
A

L
A

M
A

N
A

O
A

P
A

Q
A

R
A

S
A

T
A

U
A

V
A

W
A

X
A

Putative dihydromethanopterin reductase (AfpA)

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