Structure of PDB 5zqf Chain A Binding Site BS01

Receptor Information

>5zqf Chain A (length=708) Species: 9606 (Homo sapiens)

KGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSGLGVIGRDRYGVFP
LRGKILNVREASHKQIMENAEINNIIKIVGLQYKKSYDDAESLKTLRYGK
IMIMTDQDQDGSHIKGLLINFIHHNWPSLLKHGFLEEFITPIVKALSFYS
IPEFDEWKKIKYYKGLGTSTAKEAKEYFADMERHRILFRYAGPEDDAAIT
LAFSKKKIDDRKEWLTNFMEDRRQRRLHGLPEQFLYKHLTYNDFINKELI
LFSNSDNERSIPSLVDGFKPGQRKVLFTCFKRNDKREVKVAQLAGSVAEM
SAYHHGEQALMMTIVNLAQNFVGSNNINLLQPIGQFGTRLHGGKDAASPR
YIFTMLSTLARLLFPAVDDNLLKFLYDDNQRVEPEWYIPIIPMVLINGAE
GIGTGWACKLPNYDAREIVNNVRRMLDGLDPHPMLPNYKNFKGTIQELGQ
NQYAVSGEIFVVDRNTVEITELPVRTWTQVYKEQVLEPMLNGTDKTPALI
SDYKEYHTDTTVKFVVKMTEEKLAQAEAAGLHKVFKLQTTLTCNSMVLFD
HMGCLKKYETVQDILKEFFDLRLSYYGLRKEWLVGMLGAESTKLNNQARF
ILEKIQGKITIENRSKKDLIQMLVQRGYESDPVKAWKEAQEGPDFNYILN
MSLWSLTKEKVEELIKQRDAKGREVNDLKRKSPSDLWKEDLAAFVEELDK
VESQERED

Ligand information

>5zqf Chain B (length=8)

agccgagc

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5zqf Structural insights into the gating of DNA passage by the topoisomerase II DNA-gate.
• Resolution: 3.873 Å
• Binding residue (original residue number in PDB): E477 G504 K505 S513 D561 R729 K739 Y773 H775 G776 T783 N786 K814 I872 R945 W947
• Binding residue (residue number reindexed from 1): E26 G53 K54 S62 D110 R259 K269 Y303 H305 G306 T313 N316 K344 I402 R475 W477

Enzymatic activity

• Enzyme Commision number: 5.6.2.2: DNA topoisomerase (ATP-hydrolyzing).

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003918 DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
• GO:0005524 ATP binding

Biological Process

• GO:0006259 DNA metabolic process
• GO:0006265 DNA topological change

External links

• PDB: RCSB:5zqf, PDBe:5zqf, PDBj:5zqf
• PDBsum: 5zqf
• PubMed: 30082834
• UniProt: Q02880|TOP2B_HUMAN DNA topoisomerase 2-beta (Gene Name=TOP2B)