Structure of PDB 5yid Chain A

Receptor sequence
>5yidA (length=327) Species: 36329 (Plasmodium falciparum 3D7) [Search protein sequence]
NDNIELVDFQNIMFYGDAEVGDNQQPFTFILDTGSANLWVPSVKCTTAGC
LTKHLYDSSKSRTYEKDGTKVEMNYVSGTVSGFFSKDLVTVGNLSLPYKF
IEVIDTNGFEPTYTASTFDGILGLGWKDLSIGSVDPIVVELKNQNKIENA
LFTFYLPVHDKHTGFLTIGGIEERFYEGPLTYEKLNHDLYWQITLDAHVG
NIMLEKANCIVDSGTSAITVPTDFLNKMLQNLDVIKVPFLPFYVTLCNNS
KLPTFEFTSENGKYTLEPEYYLQHIEDVGPGLCMLNIIGLDFPVPTFILG
DPFMRKYFTVFDYDNQSVGIALAKKNL
3D structure
PDB5yid Deciphering the mechanism of potent peptidomimetic inhibitors targeting plasmepsins - biochemical and structural insights.
ChainA
Resolution2.1 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.4.23.39: plasmepsin II.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 K95 A D36 G38 Y79 V80 S81 I125 G218 T219 S220 L294 F296 I302 D32 G34 Y75 V76 S77 I121 G214 T215 S216 L290 F292 I298 MOAD: Ki=4nM
PDBbind-CN: -logKd/Ki=5.40,Ki=4.0uM
Gene Ontology
Molecular Function
GO:0004190 aspartic-type endopeptidase activity
Biological Process
GO:0006508 proteolysis

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:5yid, PDBe:5yid, PDBj:5yid
PDBsum5yid
PubMed29943906
UniProtQ8I6V3|PLM2_PLAF7 Plasmepsin II (Gene Name=PMII)

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