Structure of PDB 7yq8 Chain B Binding Site BS01

Receptor Information

>7yq8 Chain B (length=730) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

KGIPKLDDANDAGGKHSLECTLILTEGDSAKSLAVSGLGVIGRDRYGVFP
LRGKILNVREASHKQIMENAEINNIIKIVGLQYKKSYDDAESLKTLRYGK
IMIMTDQDQDGSHIKGLLINFIHHNWPSLLKHGFLEEFITPIVKASKNKQ
ELSFYSIPEFDEWKKHIENQKAWKIKYYKGLGTSTAKEAKEYFADMERHR
ILFRYAGPEDDAAITLAFSKKKIDDRKEWLTNFMEDRRQRRLHGLPEQFL
YGTATKHLTYNDFINKELILFSNSDNERSIPSLVDGFKPGQRKVLFTCFK
RNDKREVKVAQLAGSVAEMSAYHHGEQALMMTIVNLAQNFVGSNNINLLQ
PIGQFGTRLHGGKDAASPRYIFTMLSTLARLLFPAVDDNLLKFLYDDNQR
VEPEWYIPIIPMVLINGAEGIGTGWACKLPNYDAREIVNNVRRMLDGLDP
HPMLPNYKNFKGTIQELGQNQYAVSGEIFVVDRNTVEITELPVRTWTQVY
KEQVLEPMLNGTDKTPALISDYKEYHTDTTVKFVVKMTEEKLAQAEAAGL
HKVFKLQTTLTCNSMVLFDHMGCLKKYETVQDILKEFFDLRLSYYGLRKE
WLVGMLGAESTKLNNQARFILEKIQGKITIENRSKKDLIQMLVQRGYESD
PVKAWKEAQEKAGPDFNYILNMSLWSLTKEKVEELIKQRDAKGREVNDLK
RKSPSDLWKEDLAAFVEELDKVESQEREDV

Ligand information

>7yq8 Chain D (length=16) [Search DNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

cagaacttggggagcc

Receptor-Ligand Complex Structure

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Structure summary

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PDB	7yq8 ERK2-topoisomerase II regulatory axis is important for gene activation in immediate early genes.
Resolution	3.9 Å
Binding residue (original residue number in PDB)	R508 L512 N513 I679 R682 K683 Y826 I877 G878 K970 K1011 T1015 T1017
Binding residue (residue number reindexed from 1)	R52 L56 N57 I223 R226 K227 Y370 I421 G422 K514 K555 T559 T561

Enzymatic activity

Enzyme Commision number

5.6.2.2: DNA topoisomerase (ATP-hydrolyzing).

Gene Ontology

	Molecular Function
GO:0003677	DNA binding
GO:0003682	chromatin binding
GO:0003916	DNA topoisomerase activity
GO:0003918	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
GO:0005515	protein binding
GO:0005524	ATP binding
GO:0043021	ribonucleoprotein complex binding
GO:0046872	metal ion binding

	Biological Process
GO:0000712	resolution of meiotic recombination intermediates
GO:0000819	sister chromatid segregation
GO:0001764	neuron migration
GO:0006259	DNA metabolic process
GO:0006265	DNA topological change
GO:0007409	axonogenesis
GO:0030183	B cell differentiation
GO:0030900	forebrain development
GO:0045870	positive regulation of single stranded viral RNA replication via double stranded DNA intermediate
GO:0060255	regulation of macromolecule metabolic process
GO:0070301	cellular response to hydrogen peroxide
GO:0071318	cellular response to ATP
GO:0090398	cellular senescence
GO:2001034	positive regulation of double-strand break repair via nonhomologous end joining

	Cellular Component
GO:0000792	heterochromatin
GO:0005634	nucleus
GO:0005654	nucleoplasm
GO:0005730	nucleolus
GO:0005829	cytosol
GO:1990904	ribonucleoprotein complex

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Cellular Component

External links

PDB	RCSB:7yq8, PDBe:7yq8, PDBj:7yq8
PDBsum	7yq8
PubMed	38097570
UniProt	Q02880\|TOP2B_HUMAN DNA topoisomerase 2-beta (Gene Name=TOP2B)

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