- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.79 Å
- Oligo State
- homo-hexamer
- Ligands
- 3 x F0V: 2-benzyl-7-[(3-chloro-4-methylphenyl)amino]-5-methyl-3H-[1,2,4]triazolo[1,5-a]pyrimidin-8-ium(Non-covalent)
- 15 x SO4: SULFATE ION(Non-functional Binders)
SO4.2: 4 residues within 4Å:- Chain A: S.121, K.122
- Chain B: H.104, R.107
7 PLIP interactions:3 interactions with chain A, 4 interactions with chain B- Hydrogen bonds: A:K.122
- Water bridges: A:R.24, B:H.104, B:H.104
- Salt bridges: A:K.122, B:H.104, B:R.107
SO4.5: 4 residues within 4Å:- Chain A: H.18, R.91, S.128, S.129
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:S.129
- Water bridges: A:R.91, A:S.128
- Salt bridges: A:H.18, A:R.91
SO4.6: 4 residues within 4Å:- Chain A: H.104, R.107
- Chain B: S.121, K.122
10 PLIP interactions:4 interactions with chain A, 6 interactions with chain B- Water bridges: A:H.104, A:H.104, B:R.24, B:E.123, B:E.123
- Salt bridges: A:H.104, A:R.107, B:K.122
- Hydrogen bonds: B:S.121, B:K.122
SO4.7: 5 residues within 4Å:- Chain B: R.137, H.138
- Chain D: S.39, P.40, S.41
5 PLIP interactions:3 interactions with chain D, 2 interactions with chain B- Hydrogen bonds: D:S.41, D:S.41
- Water bridges: D:S.39
- Salt bridges: B:R.137, B:H.138
SO4.10: 5 residues within 4Å:- Chain B: H.18, R.91, S.128, S.129
- Ligands: DMS.9
8 PLIP interactions:8 interactions with chain B- Hydrogen bonds: B:S.129
- Water bridges: B:H.18, B:R.91, B:S.128, B:S.129, B:S.130
- Salt bridges: B:H.18, B:R.91
SO4.12: 4 residues within 4Å:- Chain C: S.121, K.122
- Chain D: H.104, R.107
7 PLIP interactions:3 interactions with chain C, 4 interactions with chain D- Hydrogen bonds: C:K.122
- Water bridges: C:R.24, D:H.104, D:H.104
- Salt bridges: C:K.122, D:H.104, D:R.107
SO4.15: 4 residues within 4Å:- Chain C: H.18, R.91, S.128, S.129
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:S.129
- Water bridges: C:R.91, C:S.128
- Salt bridges: C:H.18, C:R.91
SO4.16: 4 residues within 4Å:- Chain C: H.104, R.107
- Chain D: S.121, K.122
10 PLIP interactions:7 interactions with chain D, 3 interactions with chain C- Hydrogen bonds: D:S.121, D:K.122
- Water bridges: D:R.24, D:K.122, D:E.123, D:E.123, C:H.104
- Salt bridges: D:K.122, C:H.104, C:R.107
SO4.17: 5 residues within 4Å:- Chain D: R.137, H.138
- Chain F: S.39, P.40, S.41
5 PLIP interactions:2 interactions with chain D, 3 interactions with chain F- Salt bridges: D:R.137, D:H.138
- Hydrogen bonds: F:S.41, F:S.41
- Water bridges: F:S.39
SO4.20: 5 residues within 4Å:- Chain D: H.18, R.91, S.128, S.129
- Ligands: DMS.19
8 PLIP interactions:8 interactions with chain D- Hydrogen bonds: D:S.129
- Water bridges: D:H.18, D:R.91, D:S.128, D:S.129, D:S.130
- Salt bridges: D:H.18, D:R.91
SO4.22: 4 residues within 4Å:- Chain E: S.121, K.122
- Chain F: H.104, R.107
7 PLIP interactions:3 interactions with chain F, 4 interactions with chain E- Water bridges: F:H.104, E:R.24, E:K.122
- Salt bridges: F:H.104, F:R.107, E:K.122
- Hydrogen bonds: E:K.122
SO4.25: 4 residues within 4Å:- Chain E: H.18, R.91, S.128, S.129
5 PLIP interactions:5 interactions with chain E- Hydrogen bonds: E:S.129
- Water bridges: E:R.91, E:S.128
- Salt bridges: E:H.18, E:R.91
SO4.26: 4 residues within 4Å:- Chain E: H.104, R.107
- Chain F: S.121, K.122
10 PLIP interactions:7 interactions with chain F, 3 interactions with chain E- Hydrogen bonds: F:S.121, F:K.122
- Water bridges: F:R.24, F:K.122, F:E.123, F:E.123, E:H.104
- Salt bridges: F:K.122, E:H.104, E:R.107
SO4.27: 5 residues within 4Å:- Chain B: S.39, P.40, S.41
- Chain F: R.137, H.138
5 PLIP interactions:2 interactions with chain F, 3 interactions with chain B- Salt bridges: F:R.137, F:H.138
- Hydrogen bonds: B:S.41, B:S.41
- Water bridges: B:S.39
SO4.30: 5 residues within 4Å:- Chain F: H.18, R.91, S.128, S.129
- Ligands: DMS.29
8 PLIP interactions:8 interactions with chain F- Hydrogen bonds: F:S.129
- Water bridges: F:H.18, F:R.91, F:S.128, F:S.129, F:S.130
- Salt bridges: F:H.18, F:R.91
- 6 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
DMS.3: 4 residues within 4Å:- Chain A: T.26, Q.27, F.29, D.30
1 PLIP interactions:1 interactions with chain A- Salt bridges: A:D.30
DMS.9: 6 residues within 4Å:- Chain B: Y.7, P.8, G.9, R.88, G.89
- Ligands: SO4.10
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:G.89
- Water bridges: B:R.88
DMS.13: 4 residues within 4Å:- Chain C: T.26, Q.27, F.29, D.30
1 PLIP interactions:1 interactions with chain C- Salt bridges: C:D.30
DMS.19: 6 residues within 4Å:- Chain D: Y.7, P.8, G.9, R.88, G.89
- Ligands: SO4.20
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:G.89
- Water bridges: D:R.88
DMS.23: 4 residues within 4Å:- Chain E: T.26, Q.27, F.29, D.30
1 PLIP interactions:1 interactions with chain E- Salt bridges: E:D.30
DMS.29: 6 residues within 4Å:- Chain F: Y.7, P.8, G.9, R.88, G.89
- Ligands: SO4.30
2 PLIP interactions:2 interactions with chain F- Hydrogen bonds: F:G.89
- Water bridges: F:R.88
- 6 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
PG4.4: 7 residues within 4Å:- Chain A: N.16, I.19, D.20, T.23, R.24, Q.27, W.124
3 PLIP interactions:3 interactions with chain A- Water bridges: A:R.24, A:Q.27, A:Q.27
PG4.8: 10 residues within 4Å:- Chain B: A.37, F.70, D.72, L.73, M.74, R.88, N.106
- Chain F: E.134, V.135, H.138
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain F- Hydrogen bonds: B:M.74, B:N.106, F:E.134
- Water bridges: B:A.75
PG4.14: 7 residues within 4Å:- Chain C: N.16, I.19, D.20, T.23, R.24, Q.27, W.124
4 PLIP interactions:4 interactions with chain C- Water bridges: C:D.20, C:R.24, C:Q.27, C:Q.27
PG4.18: 10 residues within 4Å:- Chain B: E.134, V.135, H.138
- Chain D: A.37, F.70, D.72, L.73, M.74, R.88, N.106
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:M.74, D:N.106
- Water bridges: D:A.75
PG4.24: 7 residues within 4Å:- Chain E: N.16, I.19, D.20, T.23, R.24, Q.27, W.124
3 PLIP interactions:3 interactions with chain E- Water bridges: E:R.24, E:Q.27, E:Q.27
PG4.28: 10 residues within 4Å:- Chain D: E.134, V.135, H.138
- Chain F: A.37, F.70, D.72, L.73, M.74, R.88, N.106
3 PLIP interactions:3 interactions with chain F- Hydrogen bonds: F:M.74, F:N.106
- Water bridges: F:A.75
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Skepper, C.K. et al., Discovery and Optimization of Phosphopantetheine Adenylyltransferase Inhibitors with Gram-Negative Antibacterial Activity. J. Med. Chem. (2018)
- Release Date
- 2018-04-04
- Peptides
- Phosphopantetheine adenylyltransferase: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
BE
AF
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.79 Å
- Oligo State
- homo-hexamer
- Ligands
- 3 x F0V: 2-benzyl-7-[(3-chloro-4-methylphenyl)amino]-5-methyl-3H-[1,2,4]triazolo[1,5-a]pyrimidin-8-ium(Non-covalent)
- 15 x SO4: SULFATE ION(Non-functional Binders)
- 6 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
- 6 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Skepper, C.K. et al., Discovery and Optimization of Phosphopantetheine Adenylyltransferase Inhibitors with Gram-Negative Antibacterial Activity. J. Med. Chem. (2018)
- Release Date
- 2018-04-04
- Peptides
- Phosphopantetheine adenylyltransferase: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
BE
AF
B