SMTL ID : 8t7p.1

X-ray crystal structure of PfA-M1(M462S)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.303, H.307, E.326, Y.387 Ligands: MG.8 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.303, A:H.307, A:E.326, H2O.4, H2O.7

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 9 residues within 4Å: Chain A: K.286, Y.687, H.693, V.694, D.695, Q.698, M.699, R.702, Y.732 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:K.286, A:Y.687, A:D.695, A:D.695, A:R.702, A:R.702, A:Y.732 Water bridges: A:Y.687 GOL.3: 7 residues within 4Å: Chain A: V.266, G.267, N.278, N.280, S.281, R.296, R.804 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:N.278, A:N.280, A:S.281, A:S.281, A:R.296, A:N.801, A:R.804 Water bridges: A:G.267 GOL.4: 5 residues within 4Å: Chain A: H.460, K.483, Y.548, N.642, F.643 No protein-ligand interaction detected (PLIP) GOL.5: 5 residues within 4Å: Chain A: Y.382, T.383, T.384, Y.387, D.388 5 PLIP interactions: 5 interactions with chain A Water bridges: A:G.267, A:G.267, A:Y.382, A:D.388, A:D.388 GOL.6: 4 residues within 4Å: Chain A: E.764, S.797, N.799, D.802 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:E.764, A:E.764, A:S.797, A:N.799 Water bridges: A:K.118, A:S.262, A:E.764, A:Q.768, A:N.799

2 x MG: MAGNESIUM ION(Non-covalent)

MG.7: 1 residues within 4Å: Chain A: G.57 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:G.57, H2O.11, H2O.12, H2O.18, H2O.22 MG.8: 4 residues within 4Å: Chain A: A.268, E.270, Y.387 Ligands: ZN.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Webb, C.T. et al., Conformational dynamics of the Plasmodium falciparum M1 aminopeptidase. To Be Published

Release Date

2024-06-26

Peptides

Aminopeptidase N: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Aminopeptidase N