SMTL ID : 3ebh.1

Structure of the M1 Alanylaminopeptidase from malaria complexed with bestatin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.301, E.302, H.305, E.324 Ligands: BES.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.301, A:H.305, A:E.324, A:E.324

1 x BES: 2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC ACID(Non-covalent)

BES.2: 18 residues within 4Å: Chain A: Q.122, E.124, V.264, G.265, A.266, M.267, E.268, V.298, H.301, E.302, H.305, K.323, E.324, Y.380, Y.385, M.839 Ligands: ZN.1, GOL.8 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:E.124, A:V.264, A:V.264, A:V.298, A:H.301, A:Y.380, A:Y.385 Hydrogen bonds: A:E.124, A:G.265, A:A.266, A:A.266, A:K.323, A:Y.385 Water bridges: A:R.294 Salt bridges: A:R.294 pi-Stacking: A:Y.380

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 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:D.693, A:R.700, A:R.700 Water bridges: A:Y.730 GOL.4: 9 residues within 4Å: Chain A: D.350, Y.570, C.573, T.574, Y.577, Y.628, S.631, L.632, P.633 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.570 Water bridges: A:S.631, A:L.632 GOL.5: 5 residues within 4Å: Chain A: H.458, K.481, Y.546, N.640, F.641 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.481, A:E.548 GOL.6: 8 residues within 4Å: Chain A: V.264, G.265, N.276, N.278, S.279, R.294, N.799, R.802 9 PLIP interactions: 9 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 Water bridges: A:G.265, A:Q.843 GOL.7: 5 residues within 4Å: Chain A: I.288, L.735, T.736, S.739, T.771 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.739, A:S.739 Water bridges: A:E.767, A:E.767 GOL.8: 5 residues within 4Å: Chain A: Y.380, T.381, T.382, Y.385 Ligands: BES.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.381 Water bridges: A:G.265

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

MG.9: 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.1, H2O.8, H2O.12, H2O.24, H2O.24 MG.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.11: 1 residues within 4Å: Chain A: E.762 No protein-ligand interaction detected (PLIP) MG.12: 1 residues within 4Å: Chain A: D.243 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McGowan, S. et al., Structural basis for the inhibition of the essential Plasmodium falciparum M1 neutral aminopeptidase. Proc.Natl.Acad.Sci.USA (2009)

Release Date

2009-01-27

Peptides

M1 family aminopeptidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

M1 family aminopeptidase

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