Structure of PDB 5gwi Chain B

Receptor sequence

>5gwiB (length=671) Species: 9606 (Homo sapiens) [Search protein sequence]

SKIKGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSGLGVIGRDRYG
VFPLRGKILNVREASHKQIMENAEINNIIKIVGLQYKKSYDDAESLKTLR
YGKIMIMTDQDQDGSHIKGLLINFIHHNWPSLLKHGFLEEFITPAKEAKE
YFADMERHRILFRYAGPEDDAAITLAFSKKKIDDRKEWLTNFMEDRRQRR
LHGTKHLTYNDFINKELILFSNSDNERSIPSLVDGFKPGQRKVLFTCFKR
NDKREVKVAQLAGSVAEMSAYHHGEQALMMTIVNLAQNFVGSNNINLLQP
IGQFGTRLHGGKDAASPRYIFTMLSTLARLLFPAVDDNLLKFLYDDNQRV
EPEWYIPIIPMVLINGAEGIGTGWACKLPNYDAREIVNNVRRMLDGLDPH
PMLPNYKNFKGTIQELGQNQYAVSGEIFVVDRNTVEITELPVRTWTQVYK
EQVLEPMLNGPALISDYKEYHTDTTVKFVVKMTEEKLAQAEAAGLHKVFK
LQTTLTCNSMVLFDHMGCLKKYETVQDILKEFFDLRLSYYGLRKEWLVGM
LGAESTKLNNQARFILEKIQGKITIENRSKKDLIQMLVQRGYESDPVKAW
KEAQGPDFNYILNMSLWSLTKEKVEELIKQRDAKGREVNDLKRKSPSDLW
KEDLAAFVEELDKVESQERED

3D structure

PDB

5gwi Producing irreversible topoisomerase II-mediated DNA breaks by site-specific Pt(II)-methionine coordination chemistry

Chain

Resolution

2.737 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	K505 L507 N508 Q516 H564 F669 R677 K678 Y821 I872 G873 G875 W876 A877 K879 T1010 T1012 N1014 S1015	K57 L59 N60 Q68 H116 F177 R185 K186 Y319 I370 G371 G373 W374 A375 K377 T504 T506 N508 S509
BS02	dna	B	E477 G504 K505 D561 R729 K739 Y773 H775 G776 Q778 A779 E870 I872 R945 W947	E29 G56 K57 D113 R227 K237 Y271 H273 G274 Q276 A277 E368 I370 R443 W445
BS03	N2R	B	G478 R503 Q778 M782	G30 R55 Q276 M280
BS04	MG	B	D557 D559	D109 D111
BS05	N2N	B	G478 R503 Q778 M782	G30 R55 Q276 M280

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:5gwi, PDBe:5gwi, PDBj:5gwi
PDBsum	5gwi
PubMed	28977631
UniProt	Q02880\|TOP2B_HUMAN DNA topoisomerase 2-beta (Gene Name=TOP2B)

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