Structure of PDB 6i9a Chain A

Receptor sequence
>6i9aA (length=453) Species: 837 (Porphyromonas gingivalis) [Search protein sequence]
DVYTDHGDLYNTPVRMLVVAGAKFKEALKPWLTWKAQKGFYLDVHYTDEA
EVGTTNASIKAFIHKKYNDGLAASAAPVFLALVGDTDVISGEKGKKTKKV
TDLYYSAVDGDYFPEMYTFRMSASSPEELTNIIDKVLMYEKATMPDKSYL
EKVLLIAGADYSWNSQVGQPTIKYGMQYYYNQEHGYTDVYNYLKAPYTGC
YSHLNTGVSFANYTAHGSETAWADPLLTTSQLKALTNKDKYFLAIGNCCI
TAQFDYVQPCFGEVITRVKEKGAYAYIGSSPNSYWGEDYYWSVGANAVFG
VQPTFEGTSMGSYDATFLEDSYNTVNSIMWAGNLAATHAGNIGNITHIGA
HYYWEAYHVLGDGSVMPYRAMPKTNTYTLPASLPQNQASYSIQASAGSYV
AISKDGVLYGTGVANASGVATVSMTKQITENGNYDVVITRSNYLPVIKQI
QVG
3D structure
PDB6i9a Structural determinants of inhibition of Porphyromonas gingivalis gingipain K by KYT-36, a potent, selective, and bioavailable peptidase inhibitor.
ChainA
Resolution1.2 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) D388 H444 G445 C477
Catalytic site (residue number reindexed from 1) D160 H216 G217 C249
Enzyme Commision number 3.4.22.47: gingipain K.
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 CA A D337 D339 F341 E343 D109 D111 F113 E115
BS02 CA A D313 F482 E491 D85 F254 E263
BS03 H8E A A443 H444 G445 N475 C477 I478 N510 S511 Y512 W513 D516 H575 A215 H216 G217 N247 C249 I250 N282 S283 Y284 W285 D288 H347 PDBbind-CN: -logKd/Ki=10.00,Ki=0.1nM
Gene Ontology
Molecular Function
GO:0008233 peptidase activity
GO:0008234 cysteine-type peptidase activity
Biological Process
GO:0006508 proteolysis

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Molecular Function
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Biological Process
External links
PDB RCSB:6i9a, PDBe:6i9a, PDBj:6i9a
PDBsum6i9a
PubMed30894633
UniProtQ51817|KGP83_PORGN Lys-gingipain W83 (Gene Name=kgp)

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