Structure of PDB 6a9v Chain A

Receptor sequence

>6a9vA (length=393) Species: 559292 (Saccharomyces cerevisiae S288C)

GELTPGISALEYYERRIRLAETLPPKSCVILAGNDIFQQENDLFYLSGWN
EPNSVMILEKPTDSLSDTIFHMLVPPGVQEIFNADESASINDLSKYLPKI
INRNDFIYFDMLSSSNFKHIKSLLTIKPISKRIAEFRKIKSPQELRIMRR
AGQISGRSFNQAFAKRFRNERTLDSFLHYKFISGGCDKDAYIPVVATGSN
SLCIHYTRNDDVMFDDEMVLVDAAGSLGGYCADISRTWPNSGKFTDAQRD
LYEAVLNVQRDCIKLCKASNNYSLHDIHEKSITLMKQELKNLGIDKVSGW
NVEKLYPHYIGHNLGLDVHDVPKVSRYEPLKVGQVITIEPGLYIPNEESF
PSYFRNVGIRIEDDIAIGEDTYTNLTVEAVKEIDDLENVMQNG

3D structure

• PDB: 6a9v Crystal structures and biochemical analyses of intermediate cleavage peptidase: role of dynamics in enzymatic function.
• Chain: A
• Resolution: 2.9 Å

Enzymatic activity

• Enzyme Commision number: 3.4.11.26: intermediate cleaving peptidase 55.

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	MN	A	Y296 D327 D338 E467	Y191 D222 D233 E362
BS02	MN	A	D338 H417 E444 E467	D233 H312 E339 E362
BS03	GLY	A	Y296 D327 D338 H417 H424 E444	Y191 D222 D233 H312 H319 E339

Gene Ontology

Molecular Function

• GO:0004177 aminopeptidase activity
• GO:0008237 metallopeptidase activity
• GO:0030145 manganese ion binding
• GO:0046872 metal ion binding
• GO:0070006 metalloaminopeptidase activity

Biological Process

• GO:0006508 proteolysis
• GO:0016485 protein processing
• GO:0050821 protein stabilization

Cellular Component

• GO:0005634 nucleus
• GO:0005739 mitochondrion
• GO:0005743 mitochondrial inner membrane

External links

• PDB: RCSB:6a9v, PDBe:6a9v, PDBj:6a9v
• PDBsum: 6a9v
• PubMed: 30582634
• UniProt: P40051|ICP55_YEAST Intermediate cleaving peptidase 55 (Gene Name=ICP55)