Structure of PDB 3sdk Chain F Binding Site BS02

Receptor Information

>3sdk Chain F (length=236) Species: 559292 (Saccharomyces cerevisiae S288C)

SVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQ
KNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAF
ADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKG
AATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDF
ELEISWCSLSETNGLHKFVKGDLLQEAIDFAQKEIN

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: 3sdk Chain F Residue 302

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3sdk Optimization of a series of dipeptides with a P3 threonine residue as non-covalent inhibitors of the chymotrypsin-like activity of the human 20S proteasome.
• Resolution: 2.7 Å
• Binding residue (original residue number in PDB): S13 N127
• Binding residue (residue number reindexed from 1): S1 N115
• Annotation score: 4

Enzymatic activity

• Catalytic site (original residue number in PDB): T35 E51 L53 K66 G80 K167
• Catalytic site (residue number reindexed from 1): T23 E39 L41 K54 G68 K155
• Enzyme Commision number: 3.4.25.1: proteasome endopeptidase complex.

Gene Ontology

Biological Process

• GO:0006511 ubiquitin-dependent protein catabolic process
• GO:0051603 proteolysis involved in protein catabolic process

Cellular Component

• GO:0005839 proteasome core complex
• GO:0019773 proteasome core complex, alpha-subunit complex

External links

• PDB: RCSB:3sdk, PDBe:3sdk, PDBj:3sdk
• PDBsum: 3sdk
• PubMed: 20875739
• UniProt: P21242|PSA7_YEAST Probable proteasome subunit alpha type-7 (Gene Name=PRE10)