- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.60 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x 4U6: N-{(1R)-2-(hydroxyamino)-1-[3'-(N'-hydroxycarbamimidoyl)biphenyl-4-yl]-2-oxoethyl}-2,2-dimethylpropanamide(Non-covalent)
- 12 x ZN: ZINC ION(Non-covalent)
ZN.2: 6 residues within 4Å:- Chain A: K.293, D.298, D.318, E.380
- Ligands: 4U6.1, ZN.3
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:D.298, A:D.318, A:D.318, A:E.380
ZN.3: 6 residues within 4Å:- Chain A: D.298, K.305, D.378, E.380
- Ligands: 4U6.1, ZN.2
5 PLIP interactions:4 interactions with chain A, 1 Ligand-Ligand interactions- Metal complexes: A:D.298, A:D.378, A:D.378, A:E.380, 4U6.1
ZN.9: 6 residues within 4Å:- Chain B: K.293, D.298, D.318, E.380
- Ligands: 4U6.8, ZN.10
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:D.298, B:D.318, B:D.318, B:E.380
ZN.10: 6 residues within 4Å:- Chain B: D.298, K.305, D.378, E.380
- Ligands: 4U6.8, ZN.9
5 PLIP interactions:4 interactions with chain B, 1 Ligand-Ligand interactions- Metal complexes: B:D.298, B:D.378, B:D.378, B:E.380, 4U6.8
ZN.15: 6 residues within 4Å:- Chain C: K.293, D.298, D.318, E.380
- Ligands: 4U6.14, ZN.16
4 PLIP interactions:4 interactions with chain C- Metal complexes: C:D.298, C:D.318, C:D.318, C:E.380
ZN.16: 6 residues within 4Å:- Chain C: D.298, K.305, D.378, E.380
- Ligands: 4U6.14, ZN.15
4 PLIP interactions:4 interactions with chain C- Metal complexes: C:D.298, C:D.378, C:D.378, C:E.380
ZN.21: 6 residues within 4Å:- Chain D: K.293, D.298, D.318, E.380
- Ligands: 4U6.20, ZN.22
4 PLIP interactions:4 interactions with chain D- Metal complexes: D:D.298, D:D.318, D:D.318, D:E.380
ZN.22: 6 residues within 4Å:- Chain D: D.298, K.305, D.378, E.380
- Ligands: 4U6.20, ZN.21
5 PLIP interactions:4 interactions with chain D, 1 Ligand-Ligand interactions- Metal complexes: D:D.298, D:D.378, D:D.378, D:E.380, 4U6.20
ZN.28: 7 residues within 4Å:- Chain E: K.293, D.298, D.318, E.380
- Ligands: 4U6.27, ZN.29, CO3.30
4 PLIP interactions:4 interactions with chain E- Metal complexes: E:D.298, E:D.318, E:D.318, E:E.380
ZN.29: 6 residues within 4Å:- Chain E: D.298, K.305, D.378, E.380
- Ligands: 4U6.27, ZN.28
5 PLIP interactions:4 interactions with chain E, 1 Ligand-Ligand interactions- Metal complexes: E:D.298, E:D.378, E:D.378, E:E.380, 4U6.27
ZN.34: 6 residues within 4Å:- Chain F: K.293, D.298, D.318, E.380
- Ligands: 4U6.33, ZN.35
4 PLIP interactions:4 interactions with chain F- Metal complexes: F:D.298, F:D.318, F:D.318, F:E.380
ZN.35: 5 residues within 4Å:- Chain F: D.298, D.378, E.380
- Ligands: 4U6.33, ZN.34
5 PLIP interactions:4 interactions with chain F, 1 Ligand-Ligand interactions- Metal complexes: F:D.298, F:D.378, F:D.378, F:E.380, 4U6.33
- 6 x CO3: CARBONATE ION(Non-functional Binders)
CO3.4: 7 residues within 4Å:- Chain A: K.293, A.379, E.380, G.381, R.382, L.406
- Ligands: 4U6.1
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.382, A:R.382, A:L.406
CO3.11: 7 residues within 4Å:- Chain B: K.293, A.379, E.380, G.381, R.382, L.406
- Ligands: 4U6.8
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:K.293, B:G.381, B:R.382, B:L.406
CO3.17: 8 residues within 4Å:- Chain C: K.293, A.379, E.380, G.381, R.382, L.406, T.407
- Ligands: 4U6.14
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:R.382, C:R.382, C:L.406
CO3.23: 7 residues within 4Å:- Chain D: K.293, A.379, E.380, G.381, R.382, L.406
- Ligands: 4U6.20
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:K.293, D:G.381, D:R.382, D:L.406
CO3.30: 8 residues within 4Å:- Chain E: K.293, A.379, E.380, G.381, R.382, L.406
- Ligands: 4U6.27, ZN.28
4 PLIP interactions:4 interactions with chain E- Hydrogen bonds: E:K.293, E:R.382, E:R.382, E:R.382
CO3.36: 7 residues within 4Å:- Chain F: K.293, A.379, E.380, G.381, R.382, L.406
- Ligands: 4U6.33
4 PLIP interactions:4 interactions with chain F- Hydrogen bonds: F:G.381, F:R.382, F:R.382, F:R.382
- 11 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
1PE.5: 6 residues within 4Å:- Chain A: Y.22, N.23, H.27, F.208, K.239, Y.330
No protein-ligand interaction detected (PLIP)1PE.6: 5 residues within 4Å:- Chain A: Y.22, N.23, E.235, K.239
- Ligands: SO4.7
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.23, A:K.239
1PE.12: 5 residues within 4Å:- Chain B: Y.22, H.27, K.239, L.240, Y.330
No protein-ligand interaction detected (PLIP)1PE.18: 5 residues within 4Å:- Chain C: Y.22, E.235, Q.238, K.239
- Ligands: 1PE.19
3 PLIP interactions:3 interactions with chain C- Hydrophobic interactions: C:Q.238, C:K.239
- Hydrogen bonds: C:K.239
1PE.19: 7 residues within 4Å:- Chain C: Y.22, N.23, H.27, F.208, K.239, Y.330
- Ligands: 1PE.18
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:N.23
1PE.24: 3 residues within 4Å:- Chain D: Y.22, E.235, K.239
2 PLIP interactions:2 interactions with chain D- Hydrophobic interactions: D:K.239
- Hydrogen bonds: D:K.239
1PE.25: 6 residues within 4Å:- Chain D: Y.22, N.23, H.27, F.208, K.239, Y.330
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:Y.330
1PE.31: 4 residues within 4Å:- Chain E: Y.22, E.235, Q.238, K.239
1 PLIP interactions:1 interactions with chain E- Hydrogen bonds: E:K.239
1PE.32: 5 residues within 4Å:- Chain E: Y.22, H.27, K.239, L.240, Y.330
2 PLIP interactions:2 interactions with chain E- Hydrogen bonds: E:K.239
- Water bridges: E:Y.330
1PE.37: 6 residues within 4Å:- Chain F: Y.22, N.23, H.27, F.208, K.239, Y.330
1 PLIP interactions:1 interactions with chain F- Hydrogen bonds: F:Y.330
1PE.38: 6 residues within 4Å:- Chain F: Y.22, N.23, E.235, Q.238, K.239
- Ligands: SO4.39
1 PLIP interactions:1 interactions with chain F- Hydrogen bonds: F:K.239
- 4 x SO4: SULFATE ION(Non-functional Binders)
SO4.7: 5 residues within 4Å:- Chain A: I.20, E.21, Y.22, N.23
- Ligands: 1PE.6
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:Y.22, A:N.23, A:N.23, A:N.23
SO4.13: 6 residues within 4Å:- Chain A: S.354, K.355
- Chain B: S.354, K.355
- Chain C: S.354, K.355
6 PLIP interactions:3 interactions with chain C, 2 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: C:S.354, C:K.355, B:K.355, A:K.355
- Salt bridges: C:K.355, B:K.355
SO4.26: 6 residues within 4Å:- Chain D: S.354, K.355
- Chain E: S.354, K.355
- Chain F: S.354, K.355
8 PLIP interactions:2 interactions with chain D, 3 interactions with chain E, 3 interactions with chain F- Hydrogen bonds: D:K.355, E:S.354, E:K.355, F:S.354, F:K.355
- Salt bridges: D:K.355, E:K.355, F:K.355
SO4.39: 5 residues within 4Å:- Chain F: I.20, E.21, Y.22, N.23
- Ligands: 1PE.38
3 PLIP interactions:3 interactions with chain F- Hydrogen bonds: F:Y.22, F:N.23, F:N.23
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Drinkwater, N. et al., Potent dual inhibitors of Plasmodium falciparum M1 and M17 aminopeptidases through optimization of S1 pocket interactions. Eur.J.Med.Chem. (2016)
- Release Date
- 2016-03-30
- Peptides
- Probable M17 family aminopeptidase: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
F
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.60 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x 4U6: N-{(1R)-2-(hydroxyamino)-1-[3'-(N'-hydroxycarbamimidoyl)biphenyl-4-yl]-2-oxoethyl}-2,2-dimethylpropanamide(Non-covalent)
- 12 x ZN: ZINC ION(Non-covalent)
- 6 x CO3: CARBONATE ION(Non-functional Binders)
- 11 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
- 4 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Drinkwater, N. et al., Potent dual inhibitors of Plasmodium falciparum M1 and M17 aminopeptidases through optimization of S1 pocket interactions. Eur.J.Med.Chem. (2016)
- Release Date
- 2016-03-30
- Peptides
- Probable M17 family aminopeptidase: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
F