- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.61 Å
- Oligo State
- homo-24-mer
- Ligands
- 24 x EXJ: (3R)-3-(3-chlorophenyl)-3-[(5-methyl-7-oxo-6,7-dihydro[1,2,4]triazolo[1,5-a]pyrimidin-2-yl)amino]propanenitrile(Non-covalent)
- 24 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
ATP.2: 20 residues within 4Å:- Chain A: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, D.95, E.99, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.3
20 PLIP interactions:20 interactions with chain A- Hydrogen bonds: A:Y.7, A:T.10, A:F.11, A:R.88, A:G.89, A:R.91, A:E.99, A:W.124, A:S.129, A:S.130, A:S.130
- Water bridges: A:T.15, A:R.88, A:R.88, A:S.129, A:S.129
- Salt bridges: A:H.18, A:H.18, A:R.91
- pi-Cation interactions: A:R.91
ATP.6: 20 residues within 4Å:- Chain B: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, D.95, E.99, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.7
20 PLIP interactions:20 interactions with chain B- Hydrogen bonds: B:Y.7, B:T.10, B:F.11, B:R.88, B:G.89, B:R.91, B:E.99, B:W.124, B:S.129, B:S.130, B:S.130
- Water bridges: B:T.15, B:R.88, B:R.88, B:S.129, B:S.129
- Salt bridges: B:H.18, B:H.18, B:R.91
- pi-Cation interactions: B:R.91
ATP.10: 20 residues within 4Å:- Chain C: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, D.95, E.99, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.11
20 PLIP interactions:20 interactions with chain C- Hydrogen bonds: C:T.10, C:F.11, C:R.88, C:G.89, C:R.91, C:E.99, C:E.99, C:W.124, C:S.129, C:S.130, C:S.130
- Water bridges: C:T.10, C:R.88, C:R.88, C:S.129, C:S.129
- Salt bridges: C:H.18, C:H.18, C:R.91
- pi-Cation interactions: C:R.91
ATP.14: 20 residues within 4Å:- Chain D: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, D.95, E.99, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.15
20 PLIP interactions:20 interactions with chain D- Hydrogen bonds: D:T.10, D:F.11, D:R.88, D:G.89, D:R.91, D:E.99, D:E.99, D:W.124, D:S.129, D:S.130, D:S.130
- Water bridges: D:T.10, D:R.88, D:R.88, D:S.129, D:S.129
- Salt bridges: D:H.18, D:H.18, D:R.91
- pi-Cation interactions: D:R.91
ATP.18: 20 residues within 4Å:- Chain E: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, D.95, E.99, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.19
20 PLIP interactions:20 interactions with chain E- Hydrogen bonds: E:Y.7, E:T.10, E:F.11, E:R.88, E:G.89, E:R.91, E:E.99, E:W.124, E:S.129, E:S.130, E:S.130
- Water bridges: E:T.15, E:R.88, E:R.88, E:S.129, E:S.129
- Salt bridges: E:H.18, E:H.18, E:R.91
- pi-Cation interactions: E:R.91
ATP.22: 20 residues within 4Å:- Chain F: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, D.95, E.99, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.23
20 PLIP interactions:20 interactions with chain F- Hydrogen bonds: F:T.10, F:F.11, F:R.88, F:G.89, F:R.91, F:E.99, F:E.99, F:W.124, F:S.129, F:S.130, F:S.130
- Water bridges: F:T.10, F:R.88, F:R.88, F:S.129, F:S.129
- Salt bridges: F:H.18, F:H.18, F:R.91
- pi-Cation interactions: F:R.91
ATP.26: 20 residues within 4Å:- Chain G: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, D.95, E.99, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.27
20 PLIP interactions:20 interactions with chain G- Hydrogen bonds: G:Y.7, G:T.10, G:F.11, G:R.88, G:G.89, G:R.91, G:E.99, G:W.124, G:S.129, G:S.130, G:S.130
- Water bridges: G:T.15, G:R.88, G:R.88, G:S.129, G:S.129
- Salt bridges: G:H.18, G:H.18, G:R.91
- pi-Cation interactions: G:R.91
ATP.30: 20 residues within 4Å:- Chain H: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, D.95, E.99, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.31
20 PLIP interactions:20 interactions with chain H- Hydrogen bonds: H:T.10, H:F.11, H:R.88, H:G.89, H:R.91, H:E.99, H:E.99, H:W.124, H:S.129, H:S.130, H:S.130
- Water bridges: H:T.10, H:R.88, H:R.88, H:S.129, H:S.129
- Salt bridges: H:H.18, H:H.18, H:R.91
- pi-Cation interactions: H:R.91
ATP.34: 20 residues within 4Å:- Chain I: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, D.95, E.99, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.35
18 PLIP interactions:18 interactions with chain I- Hydrogen bonds: I:T.10, I:F.11, I:R.88, I:G.89, I:R.91, I:E.99, I:W.124, I:S.129, I:S.130, I:S.130
- Water bridges: I:R.88, I:R.88, I:S.129, I:S.129
- Salt bridges: I:H.18, I:H.18, I:R.91
- pi-Cation interactions: I:R.91
ATP.38: 20 residues within 4Å:- Chain J: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, D.95, E.99, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.39
22 PLIP interactions:22 interactions with chain J- Hydrogen bonds: J:Y.7, J:T.10, J:F.11, J:R.88, J:G.89, J:R.91, J:E.99, J:E.99, J:W.124, J:S.129, J:S.130, J:S.130
- Water bridges: J:T.10, J:T.15, J:R.88, J:R.88, J:S.129, J:S.129
- Salt bridges: J:H.18, J:H.18, J:R.91
- pi-Cation interactions: J:R.91
ATP.42: 20 residues within 4Å:- Chain K: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, D.95, E.99, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.43
22 PLIP interactions:22 interactions with chain K- Hydrogen bonds: K:Y.7, K:T.10, K:F.11, K:R.88, K:G.89, K:R.91, K:E.99, K:E.99, K:W.124, K:S.129, K:S.130, K:S.130
- Water bridges: K:T.10, K:T.15, K:R.88, K:R.88, K:S.129, K:S.129
- Salt bridges: K:H.18, K:H.18, K:R.91
- pi-Cation interactions: K:R.91
ATP.46: 20 residues within 4Å:- Chain L: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, D.95, E.99, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.47
18 PLIP interactions:18 interactions with chain L- Hydrogen bonds: L:T.10, L:F.11, L:R.88, L:G.89, L:R.91, L:E.99, L:W.124, L:S.129, L:S.130, L:S.130
- Water bridges: L:R.88, L:R.88, L:S.129, L:S.129
- Salt bridges: L:H.18, L:H.18, L:R.91
- pi-Cation interactions: L:R.91
ATP.50: 18 residues within 4Å:- Chain M: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.51
22 PLIP interactions:22 interactions with chain M- Hydrogen bonds: M:Y.7, M:T.10, M:T.10, M:F.11, M:R.88, M:G.89, M:R.91, M:W.124, M:S.129, M:S.130, M:S.130
- Water bridges: M:T.15, M:R.88, M:R.88, M:R.88, M:S.129, M:S.129, M:K.133
- Salt bridges: M:H.18, M:H.18, M:R.91
- pi-Cation interactions: M:R.91
ATP.54: 18 residues within 4Å:- Chain N: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.55
22 PLIP interactions:22 interactions with chain N- Hydrogen bonds: N:Y.7, N:T.10, N:T.10, N:F.11, N:R.88, N:G.89, N:R.91, N:W.124, N:S.129, N:S.130, N:S.130
- Water bridges: N:T.15, N:R.88, N:R.88, N:R.88, N:S.129, N:S.129, N:K.133
- Salt bridges: N:H.18, N:H.18, N:R.91
- pi-Cation interactions: N:R.91
ATP.58: 18 residues within 4Å:- Chain O: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.59
21 PLIP interactions:21 interactions with chain O- Hydrogen bonds: O:T.10, O:T.10, O:T.10, O:F.11, O:R.88, O:G.89, O:R.91, O:W.124, O:S.129, O:S.130, O:S.130
- Water bridges: O:R.88, O:R.88, O:R.88, O:S.129, O:S.129, O:K.133
- Salt bridges: O:H.18, O:H.18, O:R.91
- pi-Cation interactions: O:R.91
ATP.62: 18 residues within 4Å:- Chain P: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.63
21 PLIP interactions:21 interactions with chain P- Hydrogen bonds: P:T.10, P:T.10, P:T.10, P:F.11, P:R.88, P:G.89, P:R.91, P:W.124, P:S.129, P:S.130, P:S.130
- Water bridges: P:R.88, P:R.88, P:R.88, P:S.129, P:S.129, P:K.133
- Salt bridges: P:H.18, P:H.18, P:R.91
- pi-Cation interactions: P:R.91
ATP.66: 18 residues within 4Å:- Chain Q: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.67
22 PLIP interactions:22 interactions with chain Q- Hydrogen bonds: Q:Y.7, Q:T.10, Q:T.10, Q:F.11, Q:R.88, Q:G.89, Q:R.91, Q:W.124, Q:S.129, Q:S.130, Q:S.130
- Water bridges: Q:T.15, Q:R.88, Q:R.88, Q:R.88, Q:S.129, Q:S.129, Q:K.133
- Salt bridges: Q:H.18, Q:H.18, Q:R.91
- pi-Cation interactions: Q:R.91
ATP.70: 18 residues within 4Å:- Chain R: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.71
21 PLIP interactions:21 interactions with chain R- Hydrogen bonds: R:T.10, R:T.10, R:T.10, R:F.11, R:R.88, R:G.89, R:R.91, R:W.124, R:S.129, R:S.130, R:S.130
- Water bridges: R:R.88, R:R.88, R:R.88, R:S.129, R:S.129, R:K.133
- Salt bridges: R:H.18, R:H.18, R:R.91
- pi-Cation interactions: R:R.91
ATP.74: 18 residues within 4Å:- Chain S: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.75
22 PLIP interactions:22 interactions with chain S- Hydrogen bonds: S:Y.7, S:T.10, S:T.10, S:F.11, S:R.88, S:G.89, S:R.91, S:W.124, S:S.129, S:S.130, S:S.130
- Water bridges: S:T.15, S:R.88, S:R.88, S:R.88, S:S.129, S:S.129, S:K.133
- Salt bridges: S:H.18, S:H.18, S:R.91
- pi-Cation interactions: S:R.91
ATP.78: 18 residues within 4Å:- Chain T: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.79
21 PLIP interactions:21 interactions with chain T- Hydrogen bonds: T:T.10, T:T.10, T:T.10, T:F.11, T:R.88, T:G.89, T:R.91, T:W.124, T:S.129, T:S.130, T:S.130
- Water bridges: T:R.88, T:R.88, T:R.88, T:S.129, T:S.129, T:K.133
- Salt bridges: T:H.18, T:H.18, T:R.91
- pi-Cation interactions: T:R.91
ATP.82: 18 residues within 4Å:- Chain U: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.83
22 PLIP interactions:22 interactions with chain U- Hydrogen bonds: U:Y.7, U:T.10, U:T.10, U:F.11, U:R.88, U:G.89, U:R.91, U:W.124, U:S.129, U:S.130, U:S.130
- Water bridges: U:T.15, U:R.88, U:R.88, U:R.88, U:S.129, U:S.129, U:K.133
- Salt bridges: U:H.18, U:H.18, U:R.91
- pi-Cation interactions: U:R.91
ATP.86: 18 residues within 4Å:- Chain V: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.87
21 PLIP interactions:21 interactions with chain V- Hydrogen bonds: V:T.10, V:T.10, V:T.10, V:F.11, V:R.88, V:G.89, V:R.91, V:W.124, V:S.129, V:S.130, V:S.130
- Water bridges: V:R.88, V:R.88, V:R.88, V:S.129, V:S.129, V:K.133
- Salt bridges: V:H.18, V:H.18, V:R.91
- pi-Cation interactions: V:R.91
ATP.90: 18 residues within 4Å:- Chain W: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.91
21 PLIP interactions:21 interactions with chain W- Hydrogen bonds: W:T.10, W:T.10, W:T.10, W:F.11, W:R.88, W:G.89, W:R.91, W:W.124, W:S.129, W:S.130, W:S.130
- Water bridges: W:R.88, W:R.88, W:R.88, W:S.129, W:S.129, W:K.133
- Salt bridges: W:H.18, W:H.18, W:R.91
- pi-Cation interactions: W:R.91
ATP.94: 18 residues within 4Å:- Chain X: Y.7, P.8, G.9, T.10, F.11, G.17, H.18, I.21, R.88, G.89, R.91, P.120, W.124, I.127, S.128, S.129, S.130
- Ligands: MG.95
22 PLIP interactions:22 interactions with chain X- Hydrogen bonds: X:Y.7, X:T.10, X:T.10, X:F.11, X:R.88, X:G.89, X:R.91, X:W.124, X:S.129, X:S.130, X:S.130
- Water bridges: X:T.15, X:R.88, X:R.88, X:R.88, X:S.129, X:S.129, X:K.133
- Salt bridges: X:H.18, X:H.18, X:R.91
- pi-Cation interactions: X:R.91
- 24 x MG: MAGNESIUM ION(Non-functional Binders)
MG.3: 1 residues within 4Å:- Ligands: ATP.2
No protein-ligand interaction detected (PLIP)MG.7: 1 residues within 4Å:- Ligands: ATP.6
No protein-ligand interaction detected (PLIP)MG.11: 1 residues within 4Å:- Ligands: ATP.10
No protein-ligand interaction detected (PLIP)MG.15: 1 residues within 4Å:- Ligands: ATP.14
No protein-ligand interaction detected (PLIP)MG.19: 1 residues within 4Å:- Ligands: ATP.18
No protein-ligand interaction detected (PLIP)MG.23: 1 residues within 4Å:- Ligands: ATP.22
No protein-ligand interaction detected (PLIP)MG.27: 1 residues within 4Å:- Ligands: ATP.26
No protein-ligand interaction detected (PLIP)MG.31: 1 residues within 4Å:- Ligands: ATP.30
No protein-ligand interaction detected (PLIP)MG.35: 1 residues within 4Å:- Ligands: ATP.34
No protein-ligand interaction detected (PLIP)MG.39: 1 residues within 4Å:- Ligands: ATP.38
No protein-ligand interaction detected (PLIP)MG.43: 1 residues within 4Å:- Ligands: ATP.42
No protein-ligand interaction detected (PLIP)MG.47: 1 residues within 4Å:- Ligands: ATP.46
No protein-ligand interaction detected (PLIP)MG.51: 1 residues within 4Å:- Ligands: ATP.50
No protein-ligand interaction detected (PLIP)MG.55: 1 residues within 4Å:- Ligands: ATP.54
No protein-ligand interaction detected (PLIP)MG.59: 1 residues within 4Å:- Ligands: ATP.58
No protein-ligand interaction detected (PLIP)MG.63: 1 residues within 4Å:- Ligands: ATP.62
No protein-ligand interaction detected (PLIP)MG.67: 1 residues within 4Å:- Ligands: ATP.66
No protein-ligand interaction detected (PLIP)MG.71: 1 residues within 4Å:- Ligands: ATP.70
No protein-ligand interaction detected (PLIP)MG.75: 1 residues within 4Å:- Ligands: ATP.74
No protein-ligand interaction detected (PLIP)MG.79: 1 residues within 4Å:- Ligands: ATP.78
No protein-ligand interaction detected (PLIP)MG.83: 1 residues within 4Å:- Ligands: ATP.82
No protein-ligand interaction detected (PLIP)MG.87: 1 residues within 4Å:- Ligands: ATP.86
No protein-ligand interaction detected (PLIP)MG.91: 1 residues within 4Å:- Ligands: ATP.90
No protein-ligand interaction detected (PLIP)MG.95: 1 residues within 4Å:- Ligands: ATP.94
No protein-ligand interaction detected (PLIP)- 24 x SO4: SULFATE ION(Non-functional Binders)
SO4.4: 2 residues within 4Å:- Chain A: S.121, K.122
Ligand excluded by PLIPSO4.8: 2 residues within 4Å:- Chain B: S.121, K.122
Ligand excluded by PLIPSO4.12: 2 residues within 4Å:- Chain C: S.121, K.122
Ligand excluded by PLIPSO4.16: 2 residues within 4Å:- Chain D: S.121, K.122
Ligand excluded by PLIPSO4.20: 2 residues within 4Å:- Chain E: S.121, K.122
Ligand excluded by PLIPSO4.24: 2 residues within 4Å:- Chain F: S.121, K.122
Ligand excluded by PLIPSO4.28: 2 residues within 4Å:- Chain G: S.121, K.122
Ligand excluded by PLIPSO4.32: 2 residues within 4Å:- Chain H: S.121, K.122
Ligand excluded by PLIPSO4.36: 2 residues within 4Å:- Chain I: S.121, K.122
Ligand excluded by PLIPSO4.40: 2 residues within 4Å:- Chain J: S.121, K.122
Ligand excluded by PLIPSO4.44: 2 residues within 4Å:- Chain K: S.121, K.122
Ligand excluded by PLIPSO4.48: 2 residues within 4Å:- Chain L: S.121, K.122
Ligand excluded by PLIPSO4.52: 2 residues within 4Å:- Chain M: S.121, K.122
Ligand excluded by PLIPSO4.56: 2 residues within 4Å:- Chain N: S.121, K.122
Ligand excluded by PLIPSO4.60: 2 residues within 4Å:- Chain O: S.121, K.122
Ligand excluded by PLIPSO4.64: 2 residues within 4Å:- Chain P: S.121, K.122
Ligand excluded by PLIPSO4.68: 2 residues within 4Å:- Chain Q: S.121, K.122
Ligand excluded by PLIPSO4.72: 2 residues within 4Å:- Chain R: S.121, K.122
Ligand excluded by PLIPSO4.76: 2 residues within 4Å:- Chain S: S.121, K.122
Ligand excluded by PLIPSO4.80: 2 residues within 4Å:- Chain T: S.121, K.122
Ligand excluded by PLIPSO4.84: 2 residues within 4Å:- Chain U: S.121, K.122
Ligand excluded by PLIPSO4.88: 2 residues within 4Å:- Chain V: S.121, K.122
Ligand excluded by PLIPSO4.92: 2 residues within 4Å:- Chain W: S.121, K.122
Ligand excluded by PLIPSO4.96: 2 residues within 4Å:- Chain X: S.121, K.122
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Moreau, R.J. et al., Fragment-Based Drug Discovery of Inhibitors of Phosphopantetheine Adenylyltransferase from Gram-Negative Bacteria. J. Med. Chem. (2018)
- Release Date
- 2018-03-14
- Peptides
- Phosphopantetheine adenylyltransferase: ABCDEFGHIJKLMNOPQRSTUVWX
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
AI
AJ
AK
AL
AM
BN
BO
BP
BQ
BR
BS
BT
BU
BV
BW
BX
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.61 Å
- Oligo State
- homo-24-mer
- Ligands
- 24 x EXJ: (3R)-3-(3-chlorophenyl)-3-[(5-methyl-7-oxo-6,7-dihydro[1,2,4]triazolo[1,5-a]pyrimidin-2-yl)amino]propanenitrile(Non-covalent)
- 24 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 24 x MG: MAGNESIUM ION(Non-functional Binders)
- 24 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Moreau, R.J. et al., Fragment-Based Drug Discovery of Inhibitors of Phosphopantetheine Adenylyltransferase from Gram-Negative Bacteria. J. Med. Chem. (2018)
- Release Date
- 2018-03-14
- Peptides
- Phosphopantetheine adenylyltransferase: ABCDEFGHIJKLMNOPQRSTUVWX
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
AI
AJ
AK
AL
AM
BN
BO
BP
BQ
BR
BS
BT
BU
BV
BW
BX
B