Structure of PDB 7oy3 Chain A Binding Site BS03

Receptor Information

>7oy3 Chain A (length=471) Species: 28049 (Acidothermus cellulolyticus)

MHRVMGIETEYGISVPHQPNANAMAASSQVVNAYAQARWDFGLANVILTN
GARLYVDHAHPEYSTPEVTNPRDAVLWDKAGERIMAEAARRAADLPMGWT
IQLYKNNTDNKGASYGCHENYLMNRSTPFADIVRHLIPFFVTRQVFCGAG
RVGIGADGRGEGFQLSQRADFFEVEVGLETTLKRPIINTRDEPHADPEKY
RRLHVIIGDANMSEIATYLKLGTTALVLAMIEDGFLSQDFSVESPVGALR
AVSHDPTLRYQLRLHDGRRLTAVQLQMEYLEQARKYVEDRFGTDVDDMTR
DVLDRWETTLVRLADDPMQLSRDLDWVAKLSILEGYRQRENLPWSAHKLQ
LVDLQYHDVRPDRGLYNRLVARGRMNLLVDEAAVRTAMHEPPNDTRAYFR
GRCLAKFGAEIAAASWDSVIFDLPGRDSLQRVPTLEPLRGTRAHVGDLLD
RCRSATELVAALTGGENLYFQ

Ligand information

• Ligand ID: MG
• InChI: InChI=1S/Mg/q+2
• InChIKey: JLVVSXFLKOJNIY-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mg+2]
  CACTVS 3.341: [Mg++]
• Formula: Mg
• Name: MAGNESIUM ION
• DrugBank: DB01378
• PDB chain: 7oy3 Chain A Residue 603

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7oy3 Structures of prokaryotic ubiquitin-like protein Pup in complex with depupylase Dop reveal the mechanism of catalytic phosphate formation.
• Resolution: 1.78 Å
• Binding residue (original residue number in PDB): E10 D94 E99
• Binding residue (residue number reindexed from 1): E10 D57 E62
• Annotation score: 4

Enzymatic activity

• Enzyme Commision number: 3.4.-.-

Gene Ontology

Molecular Function

• GO:0005524 ATP binding
• GO:0008233 peptidase activity
• GO:0016787 hydrolase activity
• GO:0016811 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides
• GO:0046872 metal ion binding

Biological Process

• GO:0010498 proteasomal protein catabolic process
• GO:0019941 modification-dependent protein catabolic process
• GO:0070490 protein pupylation

External links

• PDB: RCSB:7oy3, PDBe:7oy3, PDBj:7oy3
• PDBsum: 7oy3
• PubMed: 34789727
• UniProt: A0LU48|DOP_ACIC1 Depupylase (Gene Name=dop)