SMTL ID : 6sbr.1

The crystal structure of PfA-M1 in complex with 7-amino-1,4-dibromo-5,7,8,9-tetrahydrobenzocyclohepten-6-one

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.335, H.339, E.358, Y.419 Ligands: L5E.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.335, A:H.339, A:E.358, A:E.358

1 x L5E: [(7~{S})-1,4-bis(bromanyl)-6,6-bis(oxidanyl)-5,7,8,9-tetrahydrobenzo[7]annulen-7-yl]azanium(Non-covalent)

L5E.2: 15 residues within 4Å: Chain A: E.158, V.298, G.299, A.300, M.301, E.302, H.335, E.336, H.339, K.357, E.358, Y.414, Y.419 Ligands: ZN.1, GOL.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.298 Hydrogen bonds: A:E.158, A:E.336, A:Y.419 pi-Stacking: A:Y.419

1 x B3P: 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)

B3P.3: 8 residues within 4Å: Chain A: M.175, R.349, N.449, N.452, T.453, A.454, T.455, D.458 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.453, A:T.455 Water bridges: A:G.451, A:N.452, A:D.458, A:D.458

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: L.385, Y.414, T.415, T.416, Y.419, D.420 Ligands: L5E.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.414, A:D.420 Water bridges: A:D.420

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 3 residues within 4Å: Chain A: N.200, F.202, R.212 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Salomon, E. et al., Aminobenzosuberone derivatives as PfA-M1 inhibitors: Molecular recognition and antiplasmodial evaluation. Bioorg.Chem. (2020)

Release Date

2020-03-25

Peptides

M1-family alanyl aminopeptidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

M1-family alanyl aminopeptidase

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