Structure of PDB 4g0v Chain B

Receptor sequence

>4g0vB (length=666) Species: 9606 (Homo sapiens) [Search protein sequence]

SKIKGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSGLGVIGRDRYG
VFPLRGKILNVREASHKQIMENAEINNIIKIVGLQYKKSYDDAESLKTLR
YGKIMIMTDQDQDGSHIKGLLINFIHHNWPSLLKHGFLEEFIAKEAKEYF
ADMERHRILFRYAGPEDDAAITLAFSKKKIDDRKEWLTNFMEDRRQRRLK
HLTYNDFINKELILFSNSDNERSIPSLVDGFKPGQRKVLFTCFKRNDKRE
VKVAQLAGSVAEMSAYHHGEQALMMTIVNLAQNFVGSNNINLLQPIGQFG
TRLHGGKDAASPRYIFTMLSTLARLLFPAVDDNLLKFLYDDNQRVEPEWY
IPIIPMVLINGAEGIGTGWACKLPNYDAREIVNNVRRMLDGLDPHPMLPN
YKNFKGTIQELGQNQYAVSGEIFVVDRNTVEITELPVRTWTQVYKEQVLE
PMLNGPALISDYKEYHTDTTVKFVVKMTEEKLAQAEAAGLHKVFKLQTTL
TCNSMVLFDHMGCLKKYETVQDILKEFFDLRLSYYGLRKEWLVGMLGAES
TKLNNQARFILEKIQGKITIENRSKKDLIQMLVQRGYESDPVKAWKEAQG
PDFNYILNMSLWSLTKEKVEELIKQRDAKGREVNDLKRKSPSDLWKEDLA
AFVEELDKVESQERED

3D structure

PDB

4g0v On the structural basis and design guidelines for type II topoisomerase-targeting anticancer drugs

Chain

Resolution

2.548 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)
BS01	dna	B	G504 K505 L507 N508 H564 F669 I674 R677 K678 S818 Y821 I872 G873 T874 G875 W876 T1010 T1012 N1014 S1015	G56 K57 L59 N60 H116 F175 I180 R183 K184 S311 Y314 I365 G366 T367 G368 W369 T499 T501 N503 S504
BS02	dna	B	E477 G504 K505 D561 R729 K739 Y773 H775 G776 T783 N786 E870 I872 W947	E29 G56 K57 D113 R222 K232 Y266 H268 G269 T276 N279 E363 I365 W440
BS03	dna	B	K456 D479 R503	K8 D31 R55
BS04	MG	B	D557 D559	D109 D111
BS05	MIX	B	R503 G504 K505 E522 Q778	R55 G56 K57 E74 Q271

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:4g0v, PDBe:4g0v, PDBj:4g0v
PDBsum	4g0v
PubMed	24038465
UniProt	Q02880\|TOP2B_HUMAN DNA topoisomerase 2-beta (Gene Name=TOP2B)

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