Structure of PDB 5gwj Chain A

Receptor sequence

>5gwjA (length=677) Species: 9606 (Homo sapiens) [Search protein sequence]

KGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSGLGVIGRDRYGVFP
LRGKILNVREASHKQIMENAEINNIIKIVGLQYKKSYDDAESLKTLRYGK
IMIMTDQDQDGSHIKGLLINFIHHNWPSLLKHGFLEEFITPITSTAKEAK
EYFADMERHRILFRYAGPEDDAAITLAFSKKKIDDRKEWLTNFMEDRRQR
RLHGLKHLTYNDFINKELILFSNSDNERSIPSLVDGFKPGQRKVLFTCFK
RNDKREVKVAQLAGSVAEMSAYHHGEQALMMTIVNLAQNFVGSNNINLLQ
PIGQFGTRLHGGKDAASPRYIFTMLSTLARLLFPAVDDNLLKFLYDDNQR
VEPEWYIPIIPMVLINGAEGIGTGWACKLPNYDAREIVNNVRRMLDGLDP
HPMLPNYKNFKGTIQELGQNQYAVSGEIFVVDRNTVEITELPVRTWTQVY
KEQVLEPMLNGTDKTPALISDYKEYHTDTTVKFVVKMTEEKLAQAEAAGL
HKVFKLQTTLTCNSMVLFDHMGCLKKYETVQDILKEFFDLRLSYYGLRKE
WLVGMLGAESTKLNNQARFILEKIQGKITIENRSKKDLIQMLVQRGYESD
PVKAWKEAQEGPDFNYILNMSLWSLTKEKVEELIKQRDAKGREVNDLKRK
SPSDLWKEDLAAFVEELDKVESQERED

3D structure

PDB

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

Chain

Resolution

2.566 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	A	E477 G504 K505 D561 R729 K739 Y773 H775 G776 T783 N786 I872 R945 W947	E26 G53 K54 D110 R228 K238 Y272 H274 G275 T282 N285 I371 R444 W446
BS02	dna	A	K456 D479 Q778	K5 D28 Q277
BS03	dna	A	K505 L507 N508 Q516 H564 F669 I674 R677 K678 R820 Y821 I872 G873 G875 W876 T1010 T1012 N1014 S1015	K54 L56 N57 Q65 H113 F178 I183 R186 K187 R319 Y320 I371 G372 G374 W375 T509 T511 N513 S514
BS04	N2S	A	G478 D479 R503 Q778 M782	G27 D28 R52 Q277 M281
BS05	N2W	A	G478 D479 R503 Q778 M782	G27 D28 R52 Q277 M281
BS06	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:5gwj, PDBe:5gwj, PDBj:5gwj
PDBsum	5gwj
PubMed	28977631
UniProt	Q02880\|TOP2B_HUMAN DNA topoisomerase 2-beta (Gene Name=TOP2B)

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