Structure of PDB 4j3n Chain A

Receptor sequence

>4j3nA (length=666) Species: 9606 (Homo sapiens)

PKLDDANDAGGKHSLECTLILTEGDSAKSLAVSGLGVIGRDRYGVFPLRG
KILNVREASHKQIMENAEINNIIKIVGLQYKKSYDDAESLKTLRYGKIMI
MTDQDQDGSHIKGLLINFIHHNWPSLLKHGFLEEFITAKEYFADMERHRI
LFRYAGPEDDAAITLAFSKKKIDDRKEWLTNFMEDRRQRRLHGLKHLTYN
DFINKELILFSNSDNERSIPSLVDGFKPGQRKVLFTCFKRNDKREVKVAQ
LAGSVAEMSAYHHGEQALMMTIVNLAQNFVGSNNINLLQPIGQFGTRLHG
GKDAASPRYIFTMLSTLARLLFPAVDDNLLKFLYDDNQRVEPEWYIPIIP
MVLINGAEGIGTGWACKLPNYDAREIVNNVRRMLDGLDPHPMLPNYKNFK
GTIQELGQNQYAVSGEIFVVDRNTVEITELPVRTWTQVYKEQVLEPMLNG
TDKTPALISDYKEYHTDTTVKFVVKMTEEKLAQAEAAGLHKVFKLQTTLT
CNSMVLFDHMGCLKKYETVQDILKEFFDLRLSYYGLRKEWLVGMLGAEST
KLNNQARFILEKIQGKITIENRSKKDLIQMLVQRGYESDPVKAWKEAQEG
PDFNYILNMSLWSLTKEKVEELIKQRDAKGREVNDLKRKSPSDLWKEDLA
AFVEELDKVESQERED

3D structure

• PDB: 4j3n On the structural basis and design guidelines for type II topoisomerase-targeting anticancer drugs
• Chain: A
• Resolution: 2.3 Å

Enzymatic activity

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

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	A	E477 G504 K505 D561 R729 K739 Y773 H775 G776 T783 N786 I872 R945 W947	E23 G50 K51 D107 R217 K227 Y261 H263 G264 T271 N274 I360 R433 W435
BS02	dna	A	R503 K505 L507 N508 H564 F669 I674 R677 K678 R820 Y821 I872 G873 G875 W876 T1010 T1012 N1014 S1015	R49 K51 L53 N54 H110 F167 I172 R175 K176 R308 Y309 I360 G361 G363 W364 T498 T500 N502 S503
BS03	MG	A	D557 D559	D103 D105

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:4j3n, PDBe:4j3n, PDBj:4j3n
• PDBsum: 4j3n
• PubMed: 24038465
• UniProt: Q02880|TOP2B_HUMAN DNA topoisomerase 2-beta (Gene Name=TOP2B)