Structure of PDB 4qzf Chain A Binding Site BS04

Receptor Information

>4qzf Chain A (length=336) Species: 10090 (Mus musculus)

VKKISQYACQRRTTLNNYNQLFTDALDILAENDELRENEGSCLAFMRASS
VLKSLPFPITSMKDTEGIPCLGDKVKSIIEGIIEDGESSEAKAVLNDERY
KSFKLFTSVFGVGLKTAEKWFRMGFRTLSKIQSDKSLRFTQMQKAGFLYY
EDLVSCVNRPEAEAVSMLVKEAVVTFLPDALVTMTGGFRRGKMTGHDVDF
LITSPEATEDEEQQLLHKVTDFWKQQGLLLYCDILQKCFLILKLDHGRVH
GKGWKAIRVDLVMCPYDRRAFALLGWTGSRQFERDLRRYATHERKMMLDN
HALYDRTKRVFLEAESEEEIFAHLGLDYIEPWERNA

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: 4qzf Chain A Residue 601

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4qzf Structural basis for a novel mechanism of DNA bridging and alignment in eukaryotic DSB DNA repair.
• Resolution: 2.6 Å
• Binding residue (original residue number in PDB): D343 D345
• Binding residue (residue number reindexed from 1): D197 D199
• Annotation score: 1

Enzymatic activity

• Catalytic site (original residue number in PDB): D343 D345 D434
• Catalytic site (residue number reindexed from 1): D197 D199 D260
• Enzyme Commision number: 2.7.7.31: DNA nucleotidylexotransferase.
  3.1.11.-

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003887 DNA-directed DNA polymerase activity
• GO:0016779 nucleotidyltransferase activity
• GO:0034061 DNA polymerase activity

Biological Process

• GO:0006281 DNA repair

External links

• PDB: RCSB:4qzf, PDBe:4qzf, PDBj:4qzf
• PDBsum: 4qzf
• PubMed: 25762590
• UniProt: P09838|TDT_MOUSE DNA nucleotidylexotransferase (Gene Name=Dntt)