Structure of PDB 5t88 Chain B

Receptor sequence

>5t88B (length=616) Species: 2261 (Pyrococcus furiosus)

MEDPYIWMENLEDERVLKIIEEENKRFREFIGELSDKLFPEVWEQFSQPT
IGMARITKKGIIASYSEKDRVVIKWFNGDVIVDSKELEREVGDEVLLQGF
TTDEEGEKLAYSFSIGGADEGITRIIDLKTGEVIEEIKPSIWNITFLKDG
YYFTRFYRKEKTPDGVNPPAARMFWKDREGERMVFGEGLTSGYFMSIRKS
SDGKFAIVTLTYGWNQGEVYIGPIDNPQEWKKVYSASVPVEAIDVVNGKL
YILTKEGKGLGKIIAIKNGKIDEVIPEGEFPLEWAVIVRDKILAGRLVHA
SYKLEVYTLNGEKIKEITFDVPGSLYPLDKDEERVLLRYTSFTIPYRLYE
FKDDLRLIEERKVEGEFRVEEDFATSKDGTKVHYFIVKGERDEKRAWVFG
YGGFNIALTPMFFPQVIPFLKRGGTFIMANLRGGSEYGEEWHRAGMRENK
QNVFDDFIAVLEKLKKEGYKVAAWGRSNGGLLVSATLTQRPDVMDSALIG
YPVIDMLRFHKLYIGSVWIPEYGNPEDPKDREFLLKYSPYHNVDPKKKYP
PTLIYTGLHDDRVHPAHALKFFMKLKEIGAPVYLRVETKSGHMGASPETR
ARELTDLLAFVLKTLS

3D structure

• PDB: 5t88 Crystal Structure and Conformational Dynamics of Pyrococcus furiosus Prolyl Oligopeptidase.
• Chain: B
• Resolution: 1.902 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): Y401 S477 D560 H592
• Catalytic site (residue number reindexed from 1): Y401 S477 D560 H592
• Enzyme Commision number: 3.4.21.26: prolyl oligopeptidase.

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	CL	B	R476 Y555 R600	R476 Y555 R600
BS02	CL	B	R476 Y501 R600 E603	R476 Y501 R600 E603
BS03	PRO	B	W518 R562	W518 R562
BS04	PRO	B	Y401 F404 S477 N478 W518 R562	Y401 F404 S477 N478 W518 R562

Gene Ontology

Molecular Function

• GO:0004252 serine-type endopeptidase activity
• GO:0008236 serine-type peptidase activity
• GO:0070012 oligopeptidase activity

Biological Process

• GO:0006508 proteolysis

Cellular Component

• GO:0005829 cytosol

External links

• PDB: RCSB:5t88, PDBe:5t88, PDBj:5t88
• PDBsum: 5t88
• PubMed: 30786206
• UniProt: Q51714