Structure of PDB 3qx3 Chain A

Receptor sequence

>3qx3A (length=671) Species: 9606 (Homo sapiens) [Search protein sequence]

KGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSGLGVIGRDRYGVFP
LRGKILNVREASHKQIMENAEINNIIKIVGLQYKKSYDDAESLKTLRYGK
IMIMTDQDQDGSHIKGLLINFIHHNWPSLLKHGFLEEFITKEAKEYFADM
ERHRILFRYAGPEDDAAITLAFSKKKIDDRKEWLTNFMEDRRQRRLHGLK
HLTYNDFINKELILFSNSDNERSIPSLVDGFKPGQRKVLFTCFKRNDKRE
VKVAQLAGSVAEMSAYHHGEQALMMTIVNLAQNFVGSNNINLLQPIGQFG
TRLHGGKDAASPRYIFTMLSTLARLLFPAVDDNLLKFLYDDNQRVEPEWY
IPIIPMVLINGAEGIGTGWACKLPNYDAREIVNNVRRMLDGLDPHPMLPN
YKNFKGTIQELGQNQYAVSGEIFVVDRNTVEITELPVRTWTQVYKEQVLE
PMLNGTDKTPALISDYKEYHTDTTVKFVVKMTEEKLAQAEAAGLHKVFKL
QTTLTCNSMVLFDHMGCLKKYETVQDILKEFFDLRLSYYGLRKEWLVGML
GAESTKLNNQARFILEKIQGKITIENRSKKDLIQMLVQRGYESDPVKAWK
EAQEGPDFNYILNMSLWSLTKEKVEELIKQRDAKGREVNDLKRKSPSDLW
KEDLAAFVEELDKVESQERED

3D structure

PDB

3qx3 Structural basis of type II topoisomerase inhibition by the anticancer drug etoposide

Chain

Resolution

2.162 Å

3D
structure

[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]

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 K814 E870 I872 W947	E26 G53 K54 D110 R222 K232 Y266 H268 G269 T276 K307 E363 I365 W440
BS02	dna	A	K456 D479 Q778	K5 D28 Q271
BS03	dna	A	R503 K505 L507 N508 Q516 H564 F669 I674 R677 K678 R820 Y821 I872 G873 T874 G875 W876 T1010 T1012 N1014 S1015	R52 K54 L56 N57 Q65 H113 F172 I177 R180 K181 R313 Y314 I365 G366 T367 G368 W369 T503 T505 N507 S508
BS04	EVP	A	G478 D479 R503 M782	G27 D28 R52 M275	BindingDB: IC50=70nM,EC50=>70000nM
BS05	MG	A	D557 D559	D106 D108

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:3qx3, PDBe:3qx3, PDBj:3qx3
PDBsum	3qx3
PubMed	21778401
UniProt	Q02880\|TOP2B_HUMAN DNA topoisomerase 2-beta (Gene Name=TOP2B)

[Back to BioLiP]