Structure of PDB 5yib Chain A

Receptor sequence
>5yibA (length=328) Species: 36329 (Plasmodium falciparum 3D7) [Search protein sequence]
SNDNIELVDFQNIMFYGDAEVGDNQQPFTFILDTGSANLWVPSVKCTTAG
CLTKHLYDSSKSRTYEKDGTKVEMNYVSGTVSGFFSKDLVTVGNLSLPYK
FIEVIDTNGFEPTYTASTFDGILGLGWKDLSIGSVDPIVVELKNQNKIEN
ALFTFYLPVHDKHTGFLTIGGIEERFYEGPLTYEKLNHDLYWQITLDAHV
GNIMLEKANCIVDSGTSAITVPTDFLNKMLQNLDVIKVPFLPFYVTLCNN
SKLPTFEFTSENGKYTLEPEYYLQHIEDVGPGLCMLNIIGLDFPVPTFIL
GDPFMRKYFTVFDYDNQSVGIALAKKNL
3D structure
PDB5yib Deciphering the mechanism of potent peptidomimetic inhibitors targeting plasmepsins - biochemical and structural insights.
ChainA
Resolution2.15 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 8VC A D36 G38 Y79 V80 S81 S134 D216 G218 T219 S220 I292 F296 I302 D33 G35 Y76 V77 S78 S131 D213 G215 T216 S217 I289 F293 I299 MOAD: Ki=3.3nM
PDBbind-CN: -logKd/Ki=5.48,Ki=3.3uM
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:5yib, PDBe:5yib, PDBj:5yib
PDBsum5yib
PubMed29943906
UniProtQ8I6V3|PLM2_PLAF7 Plasmepsin II (Gene Name=PMII)

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