SMTL ID : 5zqn.1

Crystal structure of Mycobacterium tuberculosis HisB in complex with a ligand

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-24-mer

Ligands

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

MN.1: 5 residues within 4Å: Chain A: H.80, E.84, H.159 Chain P: H.184 Ligands: IYP.64 5 PLIP interactions: 3 interactions with chain A, 1 interactions with chain P, 1 Ligand-Water interactions Metal complexes: A:H.80, A:E.84, A:H.159, P:H.184, H2O.2 MN.2: 6 residues within 4Å: Chain A: H.54, M.114, H.183, E.187 Chain O: H.81 Ligands: IYP.4 4 PLIP interactions: 1 interactions with chain O, 3 interactions with chain A Metal complexes: O:H.81, A:H.54, A:H.183, A:E.187 MN.5: 5 residues within 4Å: Chain B: H.80, E.84, H.159 Chain O: H.184 Ligands: IYP.60 5 PLIP interactions: 1 interactions with chain O, 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: O:H.184, B:H.80, B:E.84, B:H.159, H2O.8 MN.6: 6 residues within 4Å: Chain B: H.54, M.114, H.183, E.187 Chain P: H.81 Ligands: IYP.8 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain P Metal complexes: B:H.54, B:H.183, B:E.187, P:H.81 MN.9: 5 residues within 4Å: Chain C: H.80, E.84, H.159 Chain M: H.184 Ligands: IYP.52 5 PLIP interactions: 1 interactions with chain M, 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: M:H.184, C:H.80, C:E.84, C:H.159, H2O.15 MN.10: 6 residues within 4Å: Chain C: H.54, M.114, H.183, E.187 Chain N: H.81 Ligands: IYP.12 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain N Metal complexes: C:H.54, C:H.183, C:E.187, N:H.81 MN.13: 5 residues within 4Å: Chain D: H.80, E.84, H.159 Chain N: H.184 Ligands: IYP.56 5 PLIP interactions: 3 interactions with chain D, 1 interactions with chain N, 1 Ligand-Water interactions Metal complexes: D:H.80, D:E.84, D:H.159, N:H.184, H2O.21 MN.14: 6 residues within 4Å: Chain D: H.54, M.114, H.183, E.187 Chain M: H.81 Ligands: IYP.16 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain M Metal complexes: D:H.54, D:H.183, D:E.187, M:H.81 MN.17: 5 residues within 4Å: Chain E: H.80, E.84, H.159 Chain V: H.184 Ligands: IYP.88 5 PLIP interactions: 3 interactions with chain E, 1 interactions with chain V, 1 Ligand-Water interactions Metal complexes: E:H.80, E:E.84, E:H.159, V:H.184, H2O.28 MN.18: 6 residues within 4Å: Chain E: H.54, M.114, H.183, E.187 Chain U: H.81 Ligands: IYP.20 4 PLIP interactions: 3 interactions with chain E, 1 interactions with chain U Metal complexes: E:H.54, E:H.183, E:E.187, U:H.81 MN.21: 5 residues within 4Å: Chain F: H.80, E.84, H.159 Chain U: H.184 Ligands: IYP.84 5 PLIP interactions: 3 interactions with chain F, 1 interactions with chain U, 1 Ligand-Water interactions Metal complexes: F:H.80, F:E.84, F:H.159, U:H.184, H2O.34 MN.22: 6 residues within 4Å: Chain F: H.54, M.114, H.183, E.187 Chain V: H.81 Ligands: IYP.24 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain V Metal complexes: F:H.54, F:H.183, F:E.187, V:H.81 MN.25: 5 residues within 4Å: Chain G: H.80, E.84, H.159 Chain W: H.184 Ligands: IYP.92 5 PLIP interactions: 3 interactions with chain G, 1 interactions with chain W, 1 Ligand-Water interactions Metal complexes: G:H.80, G:E.84, G:H.159, W:H.184, H2O.41 MN.26: 6 residues within 4Å: Chain G: H.54, M.114, H.183, E.187 Chain X: H.81 Ligands: IYP.28 4 PLIP interactions: 3 interactions with chain G, 1 interactions with chain X Metal complexes: G:H.54, G:H.183, G:E.187, X:H.81 MN.29: 5 residues within 4Å: Chain H: H.80, E.84, H.159 Chain X: H.184 Ligands: IYP.96 5 PLIP interactions: 3 interactions with chain H, 1 interactions with chain X, 1 Ligand-Water interactions Metal complexes: H:H.80, H:E.84, H:H.159, X:H.184, H2O.47 MN.30: 6 residues within 4Å: Chain H: H.54, M.114, H.183, E.187 Chain W: H.81 Ligands: IYP.32 4 PLIP interactions: 3 interactions with chain H, 1 interactions with chain W Metal complexes: H:H.54, H:H.183, H:E.187, W:H.81 MN.33: 5 residues within 4Å: Chain I: H.80, E.84, H.159 Chain Q: H.184 Ligands: IYP.68 5 PLIP interactions: 1 interactions with chain Q, 3 interactions with chain I, 1 Ligand-Water interactions Metal complexes: Q:H.184, I:H.80, I:E.84, I:H.159, H2O.54 MN.34: 6 residues within 4Å: Chain I: H.54, M.114, H.183, E.187 Chain R: H.81 Ligands: IYP.36 4 PLIP interactions: 3 interactions with chain I, 1 interactions with chain R Metal complexes: I:H.54, I:H.183, I:E.187, R:H.81 MN.37: 5 residues within 4Å: Chain J: H.80, E.84, H.159 Chain R: H.184 Ligands: IYP.72 5 PLIP interactions: 3 interactions with chain J, 1 interactions with chain R, 1 Ligand-Water interactions Metal complexes: J:H.80, J:E.84, J:H.159, R:H.184, H2O.60 MN.38: 6 residues within 4Å: Chain J: H.54, M.114, H.183, E.187 Chain Q: H.81 Ligands: IYP.40 4 PLIP interactions: 3 interactions with chain J, 1 interactions with chain Q Metal complexes: J:H.54, J:H.183, J:E.187, Q:H.81 MN.41: 5 residues within 4Å: Chain K: H.80, E.84, H.159 Chain T: H.184 Ligands: IYP.80 5 PLIP interactions: 3 interactions with chain K, 1 interactions with chain T, 1 Ligand-Water interactions Metal complexes: K:H.80, K:E.84, K:H.159, T:H.184, H2O.67 MN.42: 6 residues within 4Å: Chain K: H.54, M.114, H.183, E.187 Chain S: H.81 Ligands: IYP.44 4 PLIP interactions: 3 interactions with chain K, 1 interactions with chain S Metal complexes: K:H.54, K:H.183, K:E.187, S:H.81 MN.45: 5 residues within 4Å: Chain L: H.80, E.84, H.159 Chain S: H.184 Ligands: IYP.76 5 PLIP interactions: 3 interactions with chain L, 1 interactions with chain S, 1 Ligand-Water interactions Metal complexes: L:H.80, L:E.84, L:H.159, S:H.184, H2O.73 MN.46: 6 residues within 4Å: Chain L: H.54, M.114, H.183, E.187 Chain T: H.81 Ligands: IYP.48 4 PLIP interactions: 1 interactions with chain T, 3 interactions with chain L Metal complexes: T:H.81, L:H.54, L:H.183, L:E.187 MN.49: 5 residues within 4Å: Chain D: H.184 Chain M: H.80, E.84, H.159 Ligands: IYP.16 5 PLIP interactions: 3 interactions with chain M, 1 interactions with chain D, 1 Ligand-Water interactions Metal complexes: M:H.80, M:E.84, M:H.159, D:H.184, H2O.80 MN.50: 6 residues within 4Å: Chain C: H.81 Chain M: H.54, M.114, H.183, E.187 Ligands: IYP.52 4 PLIP interactions: 3 interactions with chain M, 1 interactions with chain C Metal complexes: M:H.54, M:H.183, M:E.187, C:H.81 MN.53: 5 residues within 4Å: Chain C: H.184 Chain N: H.80, E.84, H.159 Ligands: IYP.12 5 PLIP interactions: 3 interactions with chain N, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: N:H.80, N:E.84, N:H.159, C:H.184, H2O.86 MN.54: 6 residues within 4Å: Chain D: H.81 Chain N: H.54, M.114, H.183, E.187 Ligands: IYP.56 4 PLIP interactions: 3 interactions with chain N, 1 interactions with chain D Metal complexes: N:H.54, N:H.183, N:E.187, D:H.81 MN.57: 5 residues within 4Å: Chain A: H.184 Chain O: H.80, E.84, H.159 Ligands: IYP.4 5 PLIP interactions: 3 interactions with chain O, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: O:H.80, O:E.84, O:H.159, A:H.184, H2O.93 MN.58: 6 residues within 4Å: Chain B: H.81 Chain O: H.54, M.114, H.183, E.187 Ligands: IYP.60 4 PLIP interactions: 3 interactions with chain O, 1 interactions with chain B Metal complexes: O:H.54, O:H.183, O:E.187, B:H.81 MN.61: 5 residues within 4Å: Chain B: H.184 Chain P: H.80, E.84, H.159 Ligands: IYP.8 5 PLIP interactions: 1 interactions with chain B, 3 interactions with chain P, 1 Ligand-Water interactions Metal complexes: B:H.184, P:H.80, P:E.84, P:H.159, H2O.99 MN.62: 6 residues within 4Å: Chain A: H.81 Chain P: H.54, M.114, H.183, E.187 Ligands: IYP.64 4 PLIP interactions: 3 interactions with chain P, 1 interactions with chain A Metal complexes: P:H.54, P:H.183, P:E.187, A:H.81 MN.65: 5 residues within 4Å: Chain J: H.184 Chain Q: H.80, E.84, H.159 Ligands: IYP.40 5 PLIP interactions: 3 interactions with chain Q, 1 interactions with chain J, 1 Ligand-Water interactions Metal complexes: Q:H.80, Q:E.84, Q:H.159, J:H.184, H2O.106 MN.66: 6 residues within 4Å: Chain I: H.81 Chain Q: H.54, M.114, H.183, E.187 Ligands: IYP.68 4 PLIP interactions: 1 interactions with chain I, 3 interactions with chain Q Metal complexes: I:H.81, Q:H.54, Q:H.183, Q:E.187 MN.69: 5 residues within 4Å: Chain I: H.184 Chain R: H.80, E.84, H.159 Ligands: IYP.36 5 PLIP interactions: 3 interactions with chain R, 1 interactions with chain I, 1 Ligand-Water interactions Metal complexes: R:H.80, R:E.84, R:H.159, I:H.184, H2O.112 MN.70: 6 residues within 4Å: Chain J: H.81 Chain R: H.54, M.114, H.183, E.187 Ligands: IYP.72 4 PLIP interactions: 3 interactions with chain R, 1 interactions with chain J Metal complexes: R:H.54, R:H.183, R:E.187, J:H.81 MN.73: 5 residues within 4Å: Chain K: H.184 Chain S: H.80, E.84, H.159 Ligands: IYP.44 5 PLIP interactions: 1 interactions with chain K, 3 interactions with chain S, 1 Ligand-Water interactions Metal complexes: K:H.184, S:H.80, S:E.84, S:H.159, H2O.119 MN.74: 6 residues within 4Å: Chain L: H.81 Chain S: H.54, M.114, H.183, E.187 Ligands: IYP.76 4 PLIP interactions: 3 interactions with chain S, 1 interactions with chain L Metal complexes: S:H.54, S:H.183, S:E.187, L:H.81 MN.77: 5 residues within 4Å: Chain L: H.184 Chain T: H.80, E.84, H.159 Ligands: IYP.48 5 PLIP interactions: 1 interactions with chain L, 3 interactions with chain T, 1 Ligand-Water interactions Metal complexes: L:H.184, T:H.80, T:E.84, T:H.159, H2O.125 MN.78: 6 residues within 4Å: Chain K: H.81 Chain T: H.54, M.114, H.183, E.187 Ligands: IYP.80 4 PLIP interactions: 3 interactions with chain T, 1 interactions with chain K Metal complexes: T:H.54, T:H.183, T:E.187, K:H.81 MN.81: 5 residues within 4Å: Chain E: H.184 Chain U: H.80, E.84, H.159 Ligands: IYP.20 5 PLIP interactions: 3 interactions with chain U, 1 interactions with chain E, 1 Ligand-Water interactions Metal complexes: U:H.80, U:E.84, U:H.159, E:H.184, H2O.132 MN.82: 6 residues within 4Å: Chain F: H.81 Chain U: H.54, M.114, H.183, E.187 Ligands: IYP.84 4 PLIP interactions: 3 interactions with chain U, 1 interactions with chain F Metal complexes: U:H.54, U:H.183, U:E.187, F:H.81 MN.85: 5 residues within 4Å: Chain F: H.184 Chain V: H.80, E.84, H.159 Ligands: IYP.24 5 PLIP interactions: 3 interactions with chain V, 1 interactions with chain F, 1 Ligand-Water interactions Metal complexes: V:H.80, V:E.84, V:H.159, F:H.184, H2O.138 MN.86: 6 residues within 4Å: Chain E: H.81 Chain V: H.54, M.114, H.183, E.187 Ligands: IYP.88 4 PLIP interactions: 3 interactions with chain V, 1 interactions with chain E Metal complexes: V:H.54, V:H.183, V:E.187, E:H.81 MN.89: 5 residues within 4Å: Chain H: H.184 Chain W: H.80, E.84, H.159 Ligands: IYP.32 5 PLIP interactions: 3 interactions with chain W, 1 interactions with chain H, 1 Ligand-Water interactions Metal complexes: W:H.80, W:E.84, W:H.159, H:H.184, H2O.145 MN.90: 6 residues within 4Å: Chain G: H.81 Chain W: H.54, M.114, H.183, E.187 Ligands: IYP.92 4 PLIP interactions: 3 interactions with chain W, 1 interactions with chain G Metal complexes: W:H.54, W:H.183, W:E.187, G:H.81 MN.93: 5 residues within 4Å: Chain G: H.184 Chain X: H.80, E.84, H.159 Ligands: IYP.28 5 PLIP interactions: 3 interactions with chain X, 1 interactions with chain G, 1 Ligand-Water interactions Metal complexes: X:H.80, X:E.84, X:H.159, G:H.184, H2O.151 MN.94: 6 residues within 4Å: Chain H: H.81 Chain X: H.54, M.114, H.183, E.187 Ligands: IYP.96 4 PLIP interactions: 3 interactions with chain X, 1 interactions with chain H Metal complexes: X:H.54, X:H.183, X:E.187, H:H.81

24 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 11 residues within 4Å: Chain A: F.111, R.175, L.177 Chain G: F.111, R.175, L.177 Chain J: F.111, R.175, L.177 Ligands: CL.27, CL.39 Ligand excluded by PLIP CL.7: 11 residues within 4Å: Chain B: F.111, R.175, L.177 Chain E: F.111, R.175, L.177 Chain K: F.111, R.175, L.177 Ligands: CL.19, CL.43 Ligand excluded by PLIP CL.11: 11 residues within 4Å: Chain C: F.111, R.175, L.177 Chain F: F.111, R.175, L.177 Chain I: F.111, R.175, L.177 Ligands: CL.23, CL.35 Ligand excluded by PLIP CL.15: 11 residues within 4Å: Chain D: F.111, R.175, L.177 Chain H: F.111, R.175, L.177 Chain L: F.111, R.175, L.177 Ligands: CL.31, CL.47 Ligand excluded by PLIP CL.19: 11 residues within 4Å: Chain B: F.111, R.175, L.177 Chain E: F.111, R.175, L.177 Chain K: F.111, R.175, L.177 Ligands: CL.7, CL.43 Ligand excluded by PLIP CL.23: 11 residues within 4Å: Chain C: F.111, R.175, L.177 Chain F: F.111, R.175, L.177 Chain I: F.111, R.175, L.177 Ligands: CL.11, CL.35 Ligand excluded by PLIP CL.27: 11 residues within 4Å: Chain A: F.111, R.175, L.177 Chain G: F.111, R.175, L.177 Chain J: F.111, R.175, L.177 Ligands: CL.3, CL.39 Ligand excluded by PLIP CL.31: 11 residues within 4Å: Chain D: F.111, R.175, L.177 Chain H: F.111, R.175, L.177 Chain L: F.111, R.175, L.177 Ligands: CL.15, CL.47 Ligand excluded by PLIP CL.35: 11 residues within 4Å: Chain C: F.111, R.175, L.177 Chain F: F.111, R.175, L.177 Chain I: F.111, R.175, L.177 Ligands: CL.11, CL.23 Ligand excluded by PLIP CL.39: 11 residues within 4Å: Chain A: F.111, R.175, L.177 Chain G: F.111, R.175, L.177 Chain J: F.111, R.175, L.177 Ligands: CL.3, CL.27 Ligand excluded by PLIP CL.43: 11 residues within 4Å: Chain B: F.111, R.175, L.177 Chain E: F.111, R.175, L.177 Chain K: F.111, R.175, L.177 Ligands: CL.7, CL.19 Ligand excluded by PLIP CL.47: 11 residues within 4Å: Chain D: F.111, R.175, L.177 Chain H: F.111, R.175, L.177 Chain L: F.111, R.175, L.177 Ligands: CL.15, CL.31 Ligand excluded by PLIP CL.51: 11 residues within 4Å: Chain M: F.111, R.175, L.177 Chain S: F.111, R.175, L.177 Chain V: F.111, R.175, L.177 Ligands: CL.75, CL.87 Ligand excluded by PLIP CL.55: 11 residues within 4Å: Chain N: F.111, R.175, L.177 Chain Q: F.111, R.175, L.177 Chain W: F.111, R.175, L.177 Ligands: CL.67, CL.91 Ligand excluded by PLIP CL.59: 11 residues within 4Å: Chain O: F.111, R.175, L.177 Chain R: F.111, R.175, L.177 Chain U: F.111, R.175, L.177 Ligands: CL.71, CL.83 Ligand excluded by PLIP CL.63: 11 residues within 4Å: Chain P: F.111, R.175, L.177 Chain T: F.111, R.175, L.177 Chain X: F.111, R.175, L.177 Ligands: CL.79, CL.95 Ligand excluded by PLIP CL.67: 11 residues within 4Å: Chain N: F.111, R.175, L.177 Chain Q: F.111, R.175, L.177 Chain W: F.111, R.175, L.177 Ligands: CL.55, CL.91 Ligand excluded by PLIP CL.71: 11 residues within 4Å: Chain O: F.111, R.175, L.177 Chain R: F.111, R.175, L.177 Chain U: F.111, R.175, L.177 Ligands: CL.59, CL.83 Ligand excluded by PLIP CL.75: 11 residues within 4Å: Chain M: F.111, R.175, L.177 Chain S: F.111, R.175, L.177 Chain V: F.111, R.175, L.177 Ligands: CL.51, CL.87 Ligand excluded by PLIP CL.79: 11 residues within 4Å: Chain P: F.111, R.175, L.177 Chain T: F.111, R.175, L.177 Chain X: F.111, R.175, L.177 Ligands: CL.63, CL.95 Ligand excluded by PLIP CL.83: 11 residues within 4Å: Chain O: F.111, R.175, L.177 Chain R: F.111, R.175, L.177 Chain U: F.111, R.175, L.177 Ligands: CL.59, CL.71 Ligand excluded by PLIP CL.87: 11 residues within 4Å: Chain M: F.111, R.175, L.177 Chain S: F.111, R.175, L.177 Chain V: F.111, R.175, L.177 Ligands: CL.51, CL.75 Ligand excluded by PLIP CL.91: 11 residues within 4Å: Chain N: F.111, R.175, L.177 Chain Q: F.111, R.175, L.177 Chain W: F.111, R.175, L.177 Ligands: CL.55, CL.67 Ligand excluded by PLIP CL.95: 11 residues within 4Å: Chain P: F.111, R.175, L.177 Chain T: F.111, R.175, L.177 Chain X: F.111, R.175, L.177 Ligands: CL.63, CL.79 Ligand excluded by PLIP

24 x IYP: (2R,3S)-2,3-dihydroxy-3-(1H-imidazol-5-yl)propyl dihydrogen phosphate(Non-covalent)

IYP.4: 16 residues within 4Å: Chain A: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain J: R.106, R.128 Chain O: E.28, H.80, H.81, E.84, H.159 Ligands: MN.2, MN.57 14 PLIP interactions: 4 interactions with chain O, 6 interactions with chain A, 4 interactions with chain J Hydrogen bonds: O:E.28, O:H.80, O:H.81, A:H.54, A:H.183, A:H.184, A:E.187, J:R.128 Water bridges: O:H.159, J:R.106, J:R.106 Salt bridges: A:H.62, A:K.191, J:R.106 IYP.8: 16 residues within 4Å: Chain B: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain K: R.106, R.128 Chain P: E.28, H.80, H.81, E.84, H.159 Ligands: MN.6, MN.61 17 PLIP interactions: 4 interactions with chain K, 9 interactions with chain B, 4 interactions with chain P Hydrogen bonds: K:R.128, B:H.54, B:H.183, B:H.184, B:E.187, B:E.187, P:E.28, P:H.80, P:H.81 Water bridges: K:R.106, K:R.106, B:E.187, B:E.187, P:H.159 Salt bridges: K:R.106, B:H.62, B:K.191 IYP.12: 16 residues within 4Å: Chain C: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain I: R.106, R.128 Chain N: E.28, H.80, H.81, E.84, H.159 Ligands: MN.10, MN.53 16 PLIP interactions: 7 interactions with chain C, 5 interactions with chain N, 4 interactions with chain I Hydrogen bonds: C:H.54, C:H.183, C:H.184, C:E.187, C:E.187, N:E.28, N:H.80, N:H.81, I:R.128 Salt bridges: C:H.62, C:K.191, I:R.106 Water bridges: N:E.28, N:H.159, I:R.106, I:R.106 IYP.16: 16 residues within 4Å: Chain D: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain L: R.106, R.128 Chain M: E.28, H.80, H.81, E.84, H.159 Ligands: MN.14, MN.49 16 PLIP interactions: 5 interactions with chain M, 7 interactions with chain D, 4 interactions with chain L Hydrogen bonds: M:E.28, M:H.80, M:H.81, D:H.54, D:H.183, D:H.184, D:E.187, D:E.187, L:R.128 Water bridges: M:E.28, M:H.159, L:R.106, L:R.106 Salt bridges: D:H.62, D:K.191, L:R.106 IYP.20: 16 residues within 4Å: Chain B: R.106, R.128 Chain E: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain U: E.28, H.80, H.81, E.84, H.159 Ligands: MN.18, MN.81 17 PLIP interactions: 4 interactions with chain U, 9 interactions with chain E, 4 interactions with chain B Hydrogen bonds: U:E.28, U:H.80, U:H.81, E:H.54, E:H.183, E:H.184, E:E.187, E:E.187, B:R.128 Water bridges: U:H.159, E:E.187, E:E.187, B:R.106, B:R.106 Salt bridges: E:H.62, E:K.191, B:R.106 IYP.24: 16 residues within 4Å: Chain C: R.106, R.128 Chain F: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain V: E.28, H.80, H.81, E.84, H.159 Ligands: MN.22, MN.85 16 PLIP interactions: 7 interactions with chain F, 4 interactions with chain C, 5 interactions with chain V Hydrogen bonds: F:H.54, F:H.183, F:H.184, F:E.187, F:E.187, C:R.128, V:E.28, V:H.80, V:H.81 Salt bridges: F:H.62, F:K.191, C:R.106 Water bridges: C:R.106, C:R.106, V:E.28, V:H.159 IYP.28: 16 residues within 4Å: Chain A: R.106, R.128 Chain G: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain X: E.28, H.80, H.81, E.84, H.159 Ligands: MN.26, MN.93 17 PLIP interactions: 9 interactions with chain G, 4 interactions with chain A, 4 interactions with chain X Hydrogen bonds: G:H.54, G:H.183, G:H.184, G:E.187, G:E.187, A:R.128, X:E.28, X:H.80, X:H.81 Water bridges: G:E.187, G:E.187, A:R.106, A:R.106, X:H.159 Salt bridges: G:H.62, G:K.191, A:R.106 IYP.32: 16 residues within 4Å: Chain D: R.106, R.128 Chain H: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain W: E.28, H.80, H.81, E.84, H.159 Ligands: MN.30, MN.89 16 PLIP interactions: 7 interactions with chain H, 5 interactions with chain W, 4 interactions with chain D Hydrogen bonds: H:H.54, H:H.183, H:H.184, H:E.187, H:E.187, W:E.28, W:H.80, W:H.81, D:R.128 Salt bridges: H:H.62, H:K.191, D:R.106 Water bridges: W:E.28, W:H.159, D:R.106, D:R.106 IYP.36: 16 residues within 4Å: Chain F: R.106, R.128 Chain I: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain R: E.28, H.80, H.81, E.84, H.159 Ligands: MN.34, MN.69 16 PLIP interactions: 7 interactions with chain I, 4 interactions with chain F, 5 interactions with chain R Hydrogen bonds: I:H.54, I:H.183, I:H.184, I:E.187, I:E.187, F:R.128, R:E.28, R:H.80, R:H.81 Salt bridges: I:H.62, I:K.191, F:R.106 Water bridges: F:R.106, F:R.106, R:E.28, R:H.159 IYP.40: 16 residues within 4Å: Chain G: R.106, R.128 Chain J: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain Q: E.28, H.80, H.81, E.84, H.159 Ligands: MN.38, MN.65 17 PLIP interactions: 4 interactions with chain Q, 4 interactions with chain G, 9 interactions with chain J Hydrogen bonds: Q:E.28, Q:H.80, Q:H.81, G:R.128, J:H.54, J:H.183, J:H.184, J:E.187, J:E.187 Water bridges: Q:H.159, G:R.106, G:R.106, J:E.187, J:E.187 Salt bridges: G:R.106, J:H.62, J:K.191 IYP.44: 16 residues within 4Å: Chain E: R.106, R.128 Chain K: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain S: E.28, H.80, H.81, E.84, H.159 Ligands: MN.42, MN.73 17 PLIP interactions: 9 interactions with chain K, 4 interactions with chain S, 4 interactions with chain E Hydrogen bonds: K:H.54, K:H.183, K:H.184, K:E.187, K:E.187, S:E.28, S:H.80, S:H.81, E:R.128 Water bridges: K:E.187, K:E.187, S:H.159, E:R.106, E:R.106 Salt bridges: K:H.62, K:K.191, E:R.106 IYP.48: 16 residues within 4Å: Chain H: R.106, R.128 Chain L: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain T: E.28, H.80, H.81, E.84, H.159 Ligands: MN.46, MN.77 16 PLIP interactions: 5 interactions with chain T, 4 interactions with chain H, 7 interactions with chain L Hydrogen bonds: T:E.28, T:H.80, T:H.81, H:R.128, L:H.54, L:H.183, L:H.184, L:E.187, L:E.187 Water bridges: T:E.28, T:H.159, H:R.106, H:R.106 Salt bridges: H:R.106, L:H.62, L:K.191 IYP.52: 16 residues within 4Å: Chain C: E.28, H.80, H.81, E.84, H.159 Chain M: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain V: R.106, R.128 Ligands: MN.9, MN.50 16 PLIP interactions: 7 interactions with chain M, 5 interactions with chain C, 4 interactions with chain V Hydrogen bonds: M:H.54, M:H.183, M:H.184, M:E.187, M:E.187, C:E.28, C:H.80, C:H.81, V:R.128 Salt bridges: M:H.62, M:K.191, V:R.106 Water bridges: C:E.28, C:H.159, V:R.106, V:R.106 IYP.56: 16 residues within 4Å: Chain D: E.28, H.80, H.81, E.84, H.159 Chain N: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain W: R.106, R.128 Ligands: MN.13, MN.54 16 PLIP interactions: 4 interactions with chain W, 7 interactions with chain N, 5 interactions with chain D Hydrogen bonds: W:R.128, N:H.54, N:H.183, N:H.184, N:E.187, N:E.187, D:E.28, D:H.80, D:H.81 Water bridges: W:R.106, W:R.106, D:E.28, D:H.159 Salt bridges: W:R.106, N:H.62, N:K.191 IYP.60: 16 residues within 4Å: Chain B: E.28, H.80, H.81, E.84, H.159 Chain O: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain U: R.106, R.128 Ligands: MN.5, MN.58 17 PLIP interactions: 9 interactions with chain O, 4 interactions with chain U, 4 interactions with chain B Hydrogen bonds: O:H.54, O:H.183, O:H.184, O:E.187, O:E.187, U:R.128, B:E.28, B:H.80, B:H.81 Water bridges: O:E.187, O:E.187, U:R.106, U:R.106, B:H.159 Salt bridges: O:H.62, O:K.191, U:R.106 IYP.64: 16 residues within 4Å: Chain A: E.28, H.80, H.81, E.84, H.159 Chain P: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Chain X: R.106, R.128 Ligands: MN.1, MN.62 17 PLIP interactions: 9 interactions with chain P, 4 interactions with chain A, 4 interactions with chain X Hydrogen bonds: P:H.54, P:H.183, P:H.184, P:E.187, P:E.187, A:E.28, A:H.80, A:H.81, X:R.128 Water bridges: P:E.187, P:E.187, A:H.159, X:R.106, X:R.106 Salt bridges: P:H.62, P:K.191, X:R.106 IYP.68: 16 residues within 4Å: Chain I: E.28, H.80, H.81, E.84, H.159 Chain N: R.106, R.128 Chain Q: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Ligands: MN.33, MN.66 16 PLIP interactions: 7 interactions with chain Q, 4 interactions with chain N, 5 interactions with chain I Hydrogen bonds: Q:H.54, Q:H.183, Q:H.184, Q:E.187, Q:E.187, N:R.128, I:E.28, I:H.80, I:H.81 Salt bridges: Q:H.62, Q:K.191, N:R.106 Water bridges: N:R.106, N:R.106, I:E.28, I:H.159 IYP.72: 16 residues within 4Å: Chain J: E.28, H.80, H.81, E.84, H.159 Chain O: R.106, R.128 Chain R: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Ligands: MN.37, MN.70 17 PLIP interactions: 4 interactions with chain O, 9 interactions with chain R, 4 interactions with chain J Hydrogen bonds: O:R.128, R:H.54, R:H.183, R:H.184, R:E.187, R:E.187, J:E.28, J:H.80, J:H.81 Water bridges: O:R.106, O:R.106, R:E.187, R:E.187, J:H.159 Salt bridges: O:R.106, R:H.62, R:K.191 IYP.76: 16 residues within 4Å: Chain L: E.28, H.80, H.81, E.84, H.159 Chain M: R.106, R.128 Chain S: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Ligands: MN.45, MN.74 16 PLIP interactions: 4 interactions with chain M, 7 interactions with chain S, 5 interactions with chain L Hydrogen bonds: M:R.128, S:H.54, S:H.183, S:H.184, S:E.187, S:E.187, L:E.28, L:H.80, L:H.81 Water bridges: M:R.106, M:R.106, L:E.28, L:H.159 Salt bridges: M:R.106, S:H.62, S:K.191 IYP.80: 16 residues within 4Å: Chain K: E.28, H.80, H.81, E.84, H.159 Chain P: R.106, R.128 Chain T: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Ligands: MN.41, MN.78 17 PLIP interactions: 4 interactions with chain K, 9 interactions with chain T, 4 interactions with chain P Hydrogen bonds: K:E.28, K:H.80, K:H.81, T:H.54, T:H.183, T:H.184, T:E.187, T:E.187, P:R.128 Water bridges: K:H.159, T:E.187, T:E.187, P:R.106, P:R.106 Salt bridges: T:H.62, T:K.191, P:R.106 IYP.84: 16 residues within 4Å: Chain F: E.28, H.80, H.81, E.84, H.159 Chain R: R.106, R.128 Chain U: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Ligands: MN.21, MN.82 17 PLIP interactions: 4 interactions with chain F, 4 interactions with chain R, 9 interactions with chain U Hydrogen bonds: F:E.28, F:H.80, F:H.81, R:R.128, U:H.54, U:H.183, U:H.184, U:E.187, U:E.187 Water bridges: F:H.159, R:R.106, R:R.106, U:E.187, U:E.187 Salt bridges: R:R.106, U:H.62, U:K.191 IYP.88: 16 residues within 4Å: Chain E: E.28, H.80, H.81, E.84, H.159 Chain S: R.106, R.128 Chain V: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Ligands: MN.17, MN.86 16 PLIP interactions: 5 interactions with chain E, 4 interactions with chain S, 7 interactions with chain V Hydrogen bonds: E:E.28, E:H.80, E:H.81, S:R.128, V:H.54, V:H.183, V:H.184, V:E.187, V:E.187 Water bridges: E:E.28, E:H.159, S:R.106, S:R.106 Salt bridges: S:R.106, V:H.62, V:K.191 IYP.92: 16 residues within 4Å: Chain G: E.28, H.80, H.81, E.84, H.159 Chain Q: R.106, R.128 Chain W: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Ligands: MN.25, MN.90 16 PLIP interactions: 5 interactions with chain G, 7 interactions with chain W, 4 interactions with chain Q Hydrogen bonds: G:E.28, G:H.80, G:H.81, W:H.54, W:H.183, W:H.184, W:E.187, W:E.187, Q:R.128 Water bridges: G:E.28, G:H.159, Q:R.106, Q:R.106 Salt bridges: W:H.62, W:K.191, Q:R.106 IYP.96: 16 residues within 4Å: Chain H: E.28, H.80, H.81, E.84, H.159 Chain T: R.106, R.128 Chain X: H.54, H.62, M.114, H.183, H.184, E.187, K.191 Ligands: MN.29, MN.94 17 PLIP interactions: 9 interactions with chain X, 4 interactions with chain T, 4 interactions with chain H Hydrogen bonds: X:H.54, X:H.183, X:H.184, X:E.187, X:E.187, T:R.128, H:E.28, H:H.80, H:H.81 Water bridges: X:E.187, X:E.187, T:R.106, T:R.106, H:H.159 Salt bridges: X:H.62, X:K.191, T:R.106

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, D. et al., Characterization of a triazole scaffold compound as an inhibitor of Mycobacterium tuberculosis imidazoleglycerol-phosphate dehydratase. Proteins (2021)

Release Date

2018-05-16

Peptides

Imidazoleglycerol-phosphate dehydratase: 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

Imidazoleglycerol-phosphate dehydratase