- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.60 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x 4TK: N-[(1R)-1-(4-bromophenyl)-2-(hydroxyamino)-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: 4TK.1, ZN.3
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:D.298, A:D.318, A:E.380
ZN.3: 6 residues within 4Å:- Chain A: D.298, K.305, D.378, E.380
- Ligands: 4TK.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, 4TK.1
ZN.10: 6 residues within 4Å:- Chain B: K.293, D.298, D.318, E.380
- Ligands: 4TK.9, ZN.11
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:D.298, B:D.318, B:E.380
ZN.11: 5 residues within 4Å:- Chain B: D.298, D.378, E.380
- Ligands: 4TK.9, ZN.10
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, 4TK.9
ZN.17: 7 residues within 4Å:- Chain C: K.293, D.298, D.318, E.380
- Ligands: 4TK.16, ZN.18, CO3.19
4 PLIP interactions:4 interactions with chain C- Metal complexes: C:D.298, C:D.318, C:D.318, C:E.380
ZN.18: 5 residues within 4Å:- Chain C: D.298, D.378, E.380
- Ligands: 4TK.16, ZN.17
5 PLIP interactions:4 interactions with chain C, 1 Ligand-Ligand interactions- Metal complexes: C:D.298, C:D.378, C:D.378, C:E.380, 4TK.16
ZN.24: 6 residues within 4Å:- Chain D: K.293, D.298, D.318, E.380
- Ligands: 4TK.23, ZN.25
4 PLIP interactions:4 interactions with chain D- Metal complexes: D:D.298, D:D.318, D:D.318, D:E.380
ZN.25: 6 residues within 4Å:- Chain D: D.298, K.305, D.378, E.380
- Ligands: 4TK.23, ZN.24
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, 4TK.23
ZN.32: 6 residues within 4Å:- Chain E: K.293, D.298, D.318, E.380
- Ligands: 4TK.31, ZN.33
4 PLIP interactions:4 interactions with chain E- Metal complexes: E:D.298, E:D.318, E:D.318, E:E.380
ZN.33: 6 residues within 4Å:- Chain E: D.298, K.305, D.378, E.380
- Ligands: 4TK.31, ZN.32
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, 4TK.31
ZN.38: 7 residues within 4Å:- Chain F: K.293, D.298, D.318, E.380
- Ligands: 4TK.37, ZN.39, CO3.40
4 PLIP interactions:4 interactions with chain F- Metal complexes: F:D.298, F:D.318, F:D.318, F:E.380
ZN.39: 5 residues within 4Å:- Chain F: D.298, D.378, E.380
- Ligands: 4TK.37, ZN.38
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, 4TK.37
- 6 x CO3: CARBONATE ION(Non-functional Binders)
CO3.4: 8 residues within 4Å:- Chain A: K.293, A.379, E.380, G.381, R.382, L.406, T.407
- Ligands: 4TK.1
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.382, A:R.382, A:L.406
CO3.12: 7 residues within 4Å:- Chain B: K.293, A.379, E.380, G.381, R.382, L.406
- Ligands: 4TK.9
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:K.293, B:G.381, B:R.382, B:L.406
CO3.19: 9 residues within 4Å:- Chain C: K.293, A.379, E.380, G.381, R.382, L.406, T.407
- Ligands: 4TK.16, ZN.17
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:R.382, C:R.382, C:L.406
CO3.26: 8 residues within 4Å:- Chain D: K.293, D.378, A.379, E.380, G.381, R.382, L.406
- Ligands: 4TK.23
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:K.293, D:G.381, D:R.382, D:L.406
CO3.34: 7 residues within 4Å:- Chain E: K.293, A.379, E.380, G.381, R.382, L.406
- Ligands: 4TK.31
5 PLIP interactions:5 interactions with chain E- Hydrogen bonds: E:K.293, E:G.381, E:R.382, E:R.382, E:R.382
CO3.40: 8 residues within 4Å:- Chain F: K.293, A.379, E.380, G.381, R.382, L.406
- Ligands: 4TK.37, ZN.38
4 PLIP interactions:4 interactions with chain F- Hydrogen bonds: F:G.381, F:R.382, F:R.382, F:R.382
- 2 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 6 residues within 4Å:- Chain A: E.44, G.45, K.137, L.138, S.139
- Chain D: K.83
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:G.45, A:K.137, A:S.139, A:S.139
- Water bridges: A:G.45
GOL.13: 5 residues within 4Å:- Chain B: G.248, V.249, K.250, E.251, K.272
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:V.249, B:K.250, B:K.272, B:K.272
- 10 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
1PE.6: 6 residues within 4Å:- Chain A: Y.22, N.23, H.27, F.208, K.239, Y.330
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.239
1PE.7: 6 residues within 4Å:- Chain A: Y.22, N.23, E.235, Q.238, K.239
- Ligands: SO4.8
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.23, A:K.239
1PE.14: 5 residues within 4Å:- Chain B: Y.22, H.27, K.239, L.240, Y.330
No protein-ligand interaction detected (PLIP)1PE.21: 5 residues within 4Å:- Chain C: Y.22, E.235, Q.238, K.239
- Ligands: 1PE.22
3 PLIP interactions:3 interactions with chain C- Hydrophobic interactions: C:Q.238, C:K.239
- Hydrogen bonds: C:K.239
1PE.22: 7 residues within 4Å:- Chain C: Y.22, N.23, H.27, F.208, K.239, Y.330
- Ligands: 1PE.21
No protein-ligand interaction detected (PLIP)1PE.28: 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.29: 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.35: 4 residues within 4Å:- Chain E: Y.22, E.235, Q.238, K.239
3 PLIP interactions:3 interactions with chain E- Hydrophobic interactions: E:Y.22
- Hydrogen bonds: E:K.239
- Water bridges: E:N.23
1PE.36: 4 residues within 4Å:- Chain E: Y.22, H.27, K.239, Y.330
No protein-ligand interaction detected (PLIP)1PE.41: 5 residues within 4Å:- Chain F: Y.22, H.27, F.208, K.239, Y.330
2 PLIP interactions:2 interactions with chain F- Hydrogen bonds: F:K.239, F:Y.330
- 3 x SO4: SULFATE ION(Non-functional Binders)
SO4.8: 5 residues within 4Å:- Chain A: I.20, E.21, Y.22, N.23
- Ligands: 1PE.7
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:I.20, A:Y.22, A:N.23, A:N.23
SO4.15: 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:2 interactions with chain A, 2 interactions with chain C, 2 interactions with chain B- Hydrogen bonds: A:S.354, A:K.355, C:K.355, B:K.355
- Salt bridges: C:K.355, B:K.355
SO4.30: 6 residues within 4Å:- Chain D: S.354, K.355
- Chain E: S.354, K.355
- Chain F: S.354, K.355
5 PLIP interactions:2 interactions with chain F, 2 interactions with chain E, 1 interactions with chain D- Hydrogen bonds: F:S.354, F:K.355, E:S.354, E:K.355, D:K.355
- 2 x DMS: DIMETHYL SULFOXIDE(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
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.60 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x 4TK: N-[(1R)-1-(4-bromophenyl)-2-(hydroxyamino)-2-oxoethyl]-2,2-dimethylpropanamide(Non-covalent)
- 12 x ZN: ZINC ION(Non-covalent)
- 6 x CO3: CARBONATE ION(Non-functional Binders)
- 2 x GOL: GLYCEROL(Non-functional Binders)
- 10 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
- 3 x SO4: SULFATE ION(Non-functional Binders)
- 2 x DMS: DIMETHYL SULFOXIDE(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