SMTL ID : 4zw3.1

X-ray crystal structure of PfA-M1 in complex with hydroxamic acid-based inhibitor 9b

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x 4S9: tert-butyl [(1S)-1-(4-bromophenyl)-2-(hydroxyamino)-2-oxoethyl]carbamate(Non-covalent)

4S9.1: 15 residues within 4Å: Chain A: E.125, A.126, V.265, G.266, A.267, E.269, R.295, H.302, E.303, H.306, E.325, Y.381, Y.386 Ligands: ZN.2, GOL.4 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.265, A:V.265, A:H.302, A:Y.381, A:Y.386 Hydrogen bonds: A:G.266, A:A.267, A:A.267, A:A.267, A:E.303, A:Y.386

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.302, H.306, E.325 Ligands: 4S9.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.302, A:H.306, A:E.325, A:E.325

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: Y.205, K.208, A.240, E.243, D.244 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.205, A:D.244 Water bridges: A:Y.205 GOL.4: 5 residues within 4Å: Chain A: Y.381, T.382, T.383, Y.386 Ligands: 4S9.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.382 Water bridges: A:Y.381

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 2 residues within 4Å: Chain A: E.763, N.798 No protein-ligand interaction detected (PLIP)

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.6: 4 residues within 4Å: Chain A: N.379, Y.381, T.382, T.843 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.379, A:Y.883 Water bridges: A:E.360, A:E.360, A:T.843, A:K.850, A:Y.883

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

M1 family aminopeptidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

M1 family aminopeptidase

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