SMTL ID : 4k5n.1

Phosphonic Arginine Mimetics as Inhibitors of the M1 Aminopeptidases from Plasmodium falciparum

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.91 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.301, H.305, E.324, Y.385 Ligands: 1OU.6 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.301, A:H.305, A:E.324, A:E.324

3 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.2: 1 residues within 4Å: Chain A: G.55 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:G.55, H2O.36, H2O.36, H2O.36, H2O.38, H2O.38 MG.3: 1 residues within 4Å: Chain A: E.762 No protein-ligand interaction detected (PLIP) MG.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 8 residues within 4Å: Chain A: V.264, G.265, N.276, N.278, S.279, R.294, N.799, R.802 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.276, A:N.278, A:N.278, A:S.279, A:R.294, A:R.294, A:R.802 GOL.5: 10 residues within 4Å: Chain A: K.284, Y.685, F.686, H.691, V.692, D.693, Q.696, M.697, R.700, Y.730 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.284, A:Y.685, A:D.693, A:R.700, A:R.700, A:Y.730 Water bridges: A:Y.685

1 x 1OU: [(R)-amino(4-carbamimidamidophenyl)methyl]phosphonic acid(Non-covalent)

1OU.6: 16 residues within 4Å: Chain A: Q.122, E.124, V.264, A.266, M.267, E.268, H.301, E.302, H.305, K.323, E.324, E.377, Y.380, Y.385, M.839 Ligands: ZN.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.264, A:Y.380 Hydrogen bonds: A:E.124, A:E.377, A:Y.385 Water bridges: A:A.266, A:A.266 pi-Cation interactions: A:Y.380

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kannan Sivaraman, K. et al., Synthesis and Structure-Activity Relationships of Phosphonic Arginine Mimetics as Inhibitors of the M1 and M17 Aminopeptidases from Plasmodium falciparum. J.Med.Chem. (2013)

Release Date

2013-06-12

Peptides

M1 family aminopeptidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

M1 family aminopeptidase

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