SMTL ID : 5yid.1

Crystal Structure of KNI-10395 bound Plasmepsin II (PMII) from Plasmodium falciparum

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x K95: (4R)-N-[(1S,2R)-2-hydroxy-2,3-dihydro-1H-inden-1-yl]-3-[(2S,3S)-2-hydroxy-3-{[S-methyl-N-(phenylacetyl)-L-cysteinyl]amino}-4-phenylbutanoyl]-5,5-dimethyl-1,3-thiazolidine-4-carboxamide(Non-covalent)

K95.1: 20 residues within 4Å: Chain A: I.30, D.32, G.34, S.35, N.74, Y.75, V.76, S.77, I.121, L.129, D.212, G.214, T.215, S.216, I.288, L.290, F.292, I.298 Ligands: CPS.2, NA.3 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:I.30, A:V.76, A:I.121, A:T.215, A:I.288, A:L.290, A:F.292, A:F.292, A:I.298 Hydrogen bonds: A:D.32, A:G.34, A:V.76, A:S.77, A:S.77, A:G.214, A:G.214, A:T.215, A:S.216 Water bridges: A:G.34, A:N.74

1 x CPS: 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE(Non-covalent)

CPS.2: 7 residues within 4Å: Chain A: V.76, S.77, P.241, F.242, I.288, L.290 Ligands: K95.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.242, A:I.288, A:L.290 Hydrogen bonds: A:V.76 Water bridges: A:S.77, A:T.112

1 x NA: SODIUM ION(Non-functional Binders)

NA.3: 6 residues within 4Å: Chain A: D.32, G.34, D.212, G.214, T.215 Ligands: K95.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.32, A:G.34, A:G.214, A:T.215

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mishra, V. et al., Deciphering the mechanism of potent peptidomimetic inhibitors targeting plasmepsins - biochemical and structural insights. Febs J. (2018)

Release Date

2018-07-11

Peptides

Plasmepsin II: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Plasmepsin II

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