SMTL ID : 5y1r.1

Crystal structure of Plasmodium falciparum aminopeptidase N in complex with (S)-N-hydroxy-4-methyl-2-(3-( o-tolyl)ureido)pentanamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.325, H.329, E.348 Ligands: 8KR.6 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.325, A:H.329, A:E.348, A:E.348

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 1 residues within 4Å: Chain A: G.79 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:G.79, H2O.8, H2O.20, H2O.20 MG.3: 1 residues within 4Å: Chain A: E.786 No protein-ligand interaction detected (PLIP) MG.4: 1 residues within 4Å: Chain A: E.355 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:E.355, H2O.2, H2O.17, H2O.18, H2O.20, H2O.23

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: Y.682, S.732, L.733, K.736, Y.767 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.732, A:Y.767

1 x 8KR: (2R)-4-methyl-2-[(2-methylphenyl)carbamoylamino]-N-oxidanyl-pentanamide(Non-covalent)

8KR.6: 14 residues within 4Å: Chain A: Q.146, E.148, V.288, G.289, A.290, M.291, E.292, H.325, E.326, H.329, E.348, Y.404, Y.409 Ligands: ZN.1 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:E.148, A:V.288, A:V.288, A:Y.404 Hydrogen bonds: A:G.289, A:A.290, A:A.290, A:Y.409, A:Y.409 Water bridges: A:R.318 pi-Stacking: A:Y.409

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marapaka, A.K. et al., Crystal structure of Plasmodium falciparum aminopeptidase N in complex with (S)-N-hydroxy-4-methyl-2-(3-( o-tolyl)ureido)pentanamide. To Be Published

Release Date

2018-08-01

Peptides

M1 family aminopeptidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

M1 family aminopeptidase

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