- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x 4TY: tert-butyl [(1R)-1-(4-bromophenyl)-2-(hydroxyamino)-2-oxoethyl]carbamate(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: 4TY.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: 4TY.1, ZN.2
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:D.298, A:D.378, A:D.378, A:E.380
ZN.14: 6 residues within 4Å:- Chain B: K.293, D.298, D.318, E.380
- Ligands: 4TY.13, ZN.15
4 PLIP interactions:3 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:D.298, B:D.318, B:E.380, H2O.9
ZN.15: 6 residues within 4Å:- Chain B: D.298, K.305, D.378, E.380
- Ligands: 4TY.13, ZN.14
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:D.298, B:D.378, B:D.378, B:E.380
ZN.20: 5 residues within 4Å:- Chain C: D.298, D.378, E.380
- Ligands: 4TY.19, ZN.21
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 C: K.293, D.298, D.318, E.380
- Ligands: 4TY.19, ZN.20
3 PLIP interactions:3 interactions with chain C- Metal complexes: C:D.298, C:D.318, C:E.380
ZN.27: 6 residues within 4Å:- Chain D: D.298, K.305, D.378, E.380
- Ligands: 4TY.26, ZN.28
4 PLIP interactions:4 interactions with chain D- Metal complexes: D:D.298, D:D.378, D:D.378, D:E.380
ZN.28: 6 residues within 4Å:- Chain D: K.293, D.298, D.318, E.380
- Ligands: 4TY.26, ZN.27
4 PLIP interactions:4 interactions with chain D- Metal complexes: D:D.298, D:D.318, D:D.318, D:E.380
ZN.34: 6 residues within 4Å:- Chain E: K.293, D.298, D.318, E.380
- Ligands: 4TY.33, ZN.35
4 PLIP interactions:4 interactions with chain E- Metal complexes: E:D.298, E:D.318, E:D.318, E:E.380
ZN.35: 6 residues within 4Å:- Chain E: D.298, K.305, D.378, E.380
- Ligands: 4TY.33, ZN.34
4 PLIP interactions:4 interactions with chain E- Metal complexes: E:D.298, E:D.378, E:D.378, E:E.380
ZN.43: 6 residues within 4Å:- Chain F: K.293, D.298, D.318, E.380
- Ligands: 4TY.42, ZN.44
5 PLIP interactions:4 interactions with chain F, 1 Ligand-Water interactions- Metal complexes: F:D.298, F:D.318, F:D.318, F:E.380, H2O.33
ZN.44: 6 residues within 4Å:- Chain F: D.298, K.305, D.378, E.380
- Ligands: 4TY.42, ZN.43
4 PLIP interactions:4 interactions with chain F- Metal complexes: F:D.298, F:D.378, F:D.378, F:E.380
- 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: 4TY.1
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:K.293, A:A.379, A:G.381, A:R.382, A:L.406
CO3.16: 7 residues within 4Å:- Chain B: K.293, A.379, E.380, G.381, R.382, L.406
- Ligands: 4TY.13
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:K.293, B:G.381, B:R.382, B:R.382, B:R.382
CO3.22: 8 residues within 4Å:- Chain C: K.293, A.379, E.380, G.381, R.382, L.406, T.407
- Ligands: 4TY.19
4 PLIP interactions:4 interactions with chain C- Hydrogen bonds: C:A.379, C:G.381, C:R.382, C:L.406
CO3.29: 7 residues within 4Å:- Chain D: K.293, A.379, E.380, G.381, R.382, L.406
- Ligands: 4TY.26
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:R.382, D:R.382, D:R.382
CO3.36: 7 residues within 4Å:- Chain E: K.293, A.379, G.381, R.382, L.406, T.407
- Ligands: 4TY.33
3 PLIP interactions:3 interactions with chain E- Hydrogen bonds: E:G.381, E:R.382, E:L.406
CO3.45: 6 residues within 4Å:- Chain F: K.293, A.379, G.381, R.382, L.406
- Ligands: 4TY.42
3 PLIP interactions:3 interactions with chain F- Hydrogen bonds: F:R.382, F:R.382, F:L.406
- 5 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 3 residues within 4Å:- Chain A: E.44, G.45, S.139
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:E.44, A:G.45, A:S.139
GOL.6: 5 residues within 4Å:- Chain A: M.311, L.411, T.416, F.502
- Chain F: K.471
1 PLIP interactions:1 interactions with chain F- Hydrogen bonds: F:K.471
GOL.23: 4 residues within 4Å:- Chain C: N.53, K.56, P.60, K.62
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:N.53
GOL.37: 4 residues within 4Å:- Chain E: E.44, G.45, N.102, S.139
4 PLIP interactions:4 interactions with chain E- Hydrogen bonds: E:G.45, E:S.139, E:S.139, E:S.139
GOL.46: 4 residues within 4Å:- Chain F: G.248, V.249, K.250, E.251
4 PLIP interactions:4 interactions with chain F- Hydrogen bonds: F:G.248, F:K.250, F:E.251, F:E.251
- 1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
- 15 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
1PE.8: 4 residues within 4Å:- Chain A: Y.22, E.235, K.239
- Ligands: SO4.12
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.239
1PE.9: 5 residues within 4Å:- Chain A: Y.22, N.23, H.27, K.239, Y.330
No protein-ligand interaction detected (PLIP)1PE.10: 5 residues within 4Å:- Chain A: Y.34, N.41, E.43, Y.189
- Ligands: 1PE.11
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Y.34
1PE.11: 3 residues within 4Å:- Chain A: N.41, N.68
- Ligands: 1PE.10
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:G.39
1PE.17: 3 residues within 4Å:- Chain B: Y.22, E.235, K.239
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:K.239
1PE.24: 4 residues within 4Å:- Chain C: Y.22, N.23, E.235, K.239
2 PLIP interactions:2 interactions with chain C- Hydrophobic interactions: C:K.239
- Hydrogen bonds: C:K.239
1PE.25: 6 residues within 4Å:- Chain C: Y.22, N.23, H.27, F.208, K.239, Y.330
No protein-ligand interaction detected (PLIP)1PE.30: 3 residues within 4Å:- Chain D: Y.22, E.235, K.239
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:K.239
1PE.31: 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:H.27
1PE.38: 4 residues within 4Å:- Chain E: Y.22, E.235, K.239
- Ligands: SO4.41
1 PLIP interactions:1 interactions with chain E- Hydrogen bonds: E:K.239
1PE.39: 5 residues within 4Å:- Chain E: Y.22, H.27, F.208, K.239, Y.330
1 PLIP interactions:1 interactions with chain E- Water bridges: E:T.334
1PE.47: 5 residues within 4Å:- Chain D: S.173
- Chain F: N.368, K.370, D.462, Q.486
No protein-ligand interaction detected (PLIP)1PE.48: 5 residues within 4Å:- Chain A: Y.418
- Chain F: I.448, I.449, N.450, E.451
4 PLIP interactions:3 interactions with chain F, 1 interactions with chain A- Hydrogen bonds: F:N.450, F:E.451, A:Y.418
- Water bridges: F:I.448
1PE.49: 6 residues within 4Å:- Chain F: Y.22, N.23, H.27, F.208, K.239, Y.330
2 PLIP interactions:2 interactions with chain F- Hydrogen bonds: F:N.23, F:K.239
1PE.50: 5 residues within 4Å:- Chain F: Y.22, N.23, E.235, K.239
- Ligands: SO4.52
1 PLIP interactions:1 interactions with chain F- Hydrogen bonds: F:K.239
- 7 x SO4: SULFATE ION(Non-functional Binders)
SO4.12: 4 residues within 4Å:- Chain A: E.21, Y.22, N.23
- Ligands: 1PE.8
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Y.22, A:N.23, A:N.23
SO4.18: 6 residues within 4Å:- Chain A: S.354, K.355
- Chain B: S.354, K.355
- Chain C: S.354, K.355
8 PLIP interactions:3 interactions with chain C, 3 interactions with chain B, 2 interactions with chain A- Hydrogen bonds: C:S.354, C:K.355, B:S.354, B:K.355, A:K.355
- Salt bridges: C:K.355, B:K.355, A:K.355
SO4.32: 8 residues within 4Å:- Chain A: F.75, N.80, M.81, F.84
- Chain D: Y.95, M.96, F.97, S.103
3 PLIP interactions:1 interactions with chain A, 2 interactions with chain D- Hydrogen bonds: A:N.80, D:S.103, D:S.103
SO4.40: 9 residues within 4Å:- Chain C: F.75, N.80, K.83, F.84, F.94
- Chain E: Y.95, M.96, F.97, S.103
3 PLIP interactions:2 interactions with chain E, 1 interactions with chain C- Hydrogen bonds: E:S.103, E:S.103
- Salt bridges: C:K.83
SO4.41: 5 residues within 4Å:- Chain E: I.20, E.21, Y.22, N.23
- Ligands: 1PE.38
3 PLIP interactions:3 interactions with chain E- Hydrogen bonds: E:I.20, E:Y.22, E:N.23
SO4.51: 6 residues within 4Å:- Chain D: S.354, K.355
- Chain E: S.354, K.355
- Chain F: S.354, K.355
7 PLIP interactions:3 interactions with chain D, 2 interactions with chain F, 2 interactions with chain E- Hydrogen bonds: D:S.354, D:K.355, F:K.355, E:K.355
- Salt bridges: D:K.355, F:K.355, E:K.355
SO4.52: 5 residues within 4Å:- Chain F: I.20, E.21, Y.22, N.23
- Ligands: 1PE.50
3 PLIP interactions:3 interactions with chain F- Hydrogen bonds: F:I.20, F:Y.22, 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 2.70 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x 4TY: tert-butyl [(1R)-1-(4-bromophenyl)-2-(hydroxyamino)-2-oxoethyl]carbamate(Non-covalent)
- 12 x ZN: ZINC ION(Non-covalent)
- 6 x CO3: CARBONATE ION(Non-functional Binders)
- 5 x GOL: GLYCEROL(Non-functional Binders)
- 1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
- 15 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
- 7 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