Structure of PDB 4g0w Chain B

Receptor sequence

>4g0wB (length=664) Species: 9606 (Homo sapiens) [Search protein sequence]

SKIKGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSGLGVIGRDRYG
VFPLRGKILNVREASHKQIMENAEINNIIKIVGLQYKKSYDDAESLKTLR
YGKIMIMTDQDQDGSHIKGLLINFIHHNWPSLLKHGFLEEFITPFADMER
HRILFRYAGPEDDAAITLAFSKKKIDDRKEWLTNFMEDRRQRRLHGTKHL
TYNDFINKELILFSNSDNERSIPSLVDGFKPGQRKVLFTCFKRNDKREVK
VAQLAGSVAEMSAYHHGEQALMMTIVNLAQNFVGSNNINLLQPIGQFGTR
LHGGKDAASPRYIFTMLSTLARLLFPAVDDNLLKFLYDDNQRVEPEWYIP
IIPMVLINGAEGIGTGWACKLPNYDAREIVNNVRRMLDGLDPHPMLPNYK
NFKGTIQELGQNQYAVSGEIFVVDRNTVEITELPVRTWTQVYKEQVLEPM
LNGPALISDYKEYHTDTTVKFVVKMTEEKLAQAEAAGLHKVFKLQTTLTC
NSMVLFDHMGCLKKYETVQDILKEFFDLRLSYYGLRKEWLVGMLGAESTK
LNNQARFILEKIQGKITIENRSKKDLIQMLVQRGYESDPVKAWKEAQGPD
FNYILNMSLWSLTKEKVEELIKQRDAKGREVNDLKRKSPSDLWKEDLAAF
VEELDKVESQERED

3D structure

PDB

4g0w On the structural basis and design guidelines for type II topoisomerase-targeting anticancer drugs

Chain

Resolution

2.696 Å

3D
structure

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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	B	K505 L507 N508 N520 H564 F669 I674 R677 K678 S818 Y821 I872 G873 G875 W876 T1010 T1012 N1014 S1015	K57 L59 N60 N72 H116 F170 I175 R178 K179 S309 Y312 I363 G364 G366 W367 T497 T499 N501 S502
BS02	dna	B	E477 G504 K505 D561 R729 K739 Y773 H775 T783 N786 I872 W947	E29 G56 K57 D113 R220 K230 Y264 H266 T274 N277 I363 W438
BS03	dna	B	K456 D479 R503	K8 D31 R55
BS04	MG	B	D557 D559	D109 D111
BS05	AKE	B	R503 N520 E522 Q778	R55 N72 E74 Q269	BindingDB: IC50=30nM

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

View graph for
Molecular Function

View graph for
Biological Process

External links

PDB	RCSB:4g0w, PDBe:4g0w, PDBj:4g0w
PDBsum	4g0w
PubMed	24038465
UniProt	Q02880\|TOP2B_HUMAN DNA topoisomerase 2-beta (Gene Name=TOP2B)

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