Structure of PDB 6p4f Chain C Binding Site BS03

Receptor Information

>6p4f Chain C (length=436) Species: 273063 (Sulfurisphaera tokodaii str. 7)

GSVYLRYFKGLILSDAYAPGLKWSDELKAYSALAFKYRDVRKYFLEKEIE
VEENVIDSLPFPLIKDKIELRDYQAEAVKAWLKEKRGIIVLPTGAGKTQV
ALKIVSIMKVATLIVVPTIDLITQWKERINKYLDFDPGIIGGGEDSLKGI
TVITYDSAYTRAEELGNKFPLLIFDEVHHLPSEGYSIMAQLFASPYRLGL
TATPERDDGKHELYPILVGPIVYRKSVEELAGKYIAKYKIKKLYVSLTNE
EKKRYDGLRKKLKDFLSSRGLKLQNLDDFHRLVKLAAKDKEAREALLAWH
ESLNIAVNSQSKIEKLREILQEYKNEKIIVFTRDTQMAYRISKTFLIPVV
TYKTDKDEREEILQKFRDGEYRVIVASTVFDEGVDVPDATLAIVMGGYGT
KRQFLQRLGRILRKKDKEALLIEIVTKGTADYRLSR

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: 6p4f Chain C Residue 504

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6p4f Structural basis of the XPB helicase-Bax1 nuclease complex interacting with the repair bubble DNA.
• Resolution: 3.55 Å
• Binding residue (original residue number in PDB): F330 F403
• Binding residue (residue number reindexed from 1): F331 F404
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 5.6.2.4: DNA 3'-5' helicase.

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0004386 helicase activity
• GO:0005524 ATP binding
• GO:0016787 hydrolase activity
• GO:0016853 isomerase activity
• GO:0140097 catalytic activity, acting on DNA

Biological Process

• GO:0006281 DNA repair
• GO:0071103 DNA conformation change

External links

• PDB: RCSB:6p4f, PDBe:6p4f, PDBj:6p4f
• PDBsum: 6p4f
• PubMed: 32986831
• UniProt: Q970I2|XPB2_SULTO DNA 3'-5' translocase XPB2 (Gene Name=xpb2)