Structure of PDB 6a9v Chain A Binding Site BS02

Receptor Information

>6a9v Chain A (length=393) Species: 559292 (Saccharomyces cerevisiae S288C)

GELTPGISALEYYERRIRLAETLPPKSCVILAGNDIFQQENDLFYLSGWN
EPNSVMILEKPTDSLSDTIFHMLVPPGVQEIFNADESASINDLSKYLPKI
INRNDFIYFDMLSSSNFKHIKSLLTIKPISKRIAEFRKIKSPQELRIMRR
AGQISGRSFNQAFAKRFRNERTLDSFLHYKFISGGCDKDAYIPVVATGSN
SLCIHYTRNDDVMFDDEMVLVDAAGSLGGYCADISRTWPNSGKFTDAQRD
LYEAVLNVQRDCIKLCKASNNYSLHDIHEKSITLMKQELKNLGIDKVSGW
NVEKLYPHYIGHNLGLDVHDVPKVSRYEPLKVGQVITIEPGLYIPNEESF
PSYFRNVGIRIEDDIAIGEDTYTNLTVEAVKEIDDLENVMQNG

Ligand information

• Ligand ID: MN
• InChI: InChI=1S/Mn/q+2
• InChIKey: WAEMQWOKJMHJLA-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mn+2]
  CACTVS 3.341: [Mn++]
• Formula: Mn
• Name: MANGANESE (II) ION
• DrugBank: DB06757
• PDB chain: 6a9v Chain A Residue 602

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6a9v Crystal structures and biochemical analyses of intermediate cleavage peptidase: role of dynamics in enzymatic function.
• Resolution: 2.9 Å
• Binding residue (original residue number in PDB): D338 H417 E444 E467
• Binding residue (residue number reindexed from 1): D233 H312 E339 E362
• Annotation score: 4

Enzymatic activity

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

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)