Structure of PDB 5gwk Chain A Binding Site BS03

Receptor Information

>5gwk Chain A (length=724) Species: 9606 (Homo sapiens)

KGIPKLDDANDAGGRNSTECTLILTEGDSAKTLAVSGLGVVGRDKYGVFP
LRGKILNVREASHKQIMENAEINNIIKIVGLQYKKNYEDEDSLKTLRYGK
IMIMTDQDQDGSHIKGLLINFIHHNWPSLLRHRFLEEFITPIVKVSKNKQ
EMAFYSLPEFEEWKSSTPNHKKWKVKYYKGLGTSTSKEAKEYFADMKRHR
IQFKYSGPEDDAAISLAFSKKQIDDRKEWLTNFMEDRRQRKLLGLPEDYL
YGQTTTYLTYNDFINKELILFSNSDNERSIPSMVDGLKPGQRKVLFTCFK
RNDKREVKVAQLAGSVAEMSSYHHGEMSLMMTIINLAQNFVGSNNLNLLQ
PIGQFGTRLHGGKDSASPRYIFTMLSSLARLLFPPKDDHTLKFLYDDNQR
VEPEWYIPIIPMVLINGAEGIGTGWSCKIPNFDVREIVNNIRRLMDGEEP
LPMLPSYKNFKGTIEELAPNQYVISGEVAILNSTTIEISELPVRTWTQTY
KEQVLEPMLNGTPPLITDYREYHTDTTVKFVVKMTEEKLAEAERVGLHKV
FKLQTSLTCNSMVLFDHVGCLKKYDTVLDILRDFFELRLKYYGLRKEWLL
GMLGAESAKLNNQARFILEKIDGKIIIENKPKKELIKVLIQRGYDSDPVK
AWKEAQQSGPTFNYLLDMPLWYLTKEKKDELCRLRNEKEQELDTLKRKSP
SDLWKEDLATFIEELEAVEAKEKQ

Ligand information

>5gwk Chain F (length=12)

tgcagctcggct

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5gwk Producing irreversible topoisomerase II-mediated DNA breaks by site-specific Pt(II)-methionine coordination chemistry
• Resolution: 3.152 Å
• Binding residue (original residue number in PDB): R487 G488 K489 L491 N492 H548 F653 I658 R661 K662 R804 Y805 I856 G857 G859 W860 S861 S994 T996 N998 S999
• Binding residue (residue number reindexed from 1): R52 G53 K54 L56 N57 H113 F218 I223 R226 K227 R369 Y370 I421 G422 G424 W425 S426 S556 T558 N560 S561

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:5gwk, PDBe:5gwk, PDBj:5gwk
• PDBsum: 5gwk
• PubMed: 28977631
• UniProt: P11388|TOP2A_HUMAN DNA topoisomerase 2-alpha (Gene Name=TOP2A)