Structure of PDB 7yq8 Chain A Binding Site BS03

Receptor Information
>7yq8 Chain A (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
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain7yq8 Chain A Residue 1701 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB7yq8 ERK2-topoisomerase II regulatory axis is important for gene activation in immediate early genes.
Resolution3.9 Å
Binding residue
(original residue number in PDB)		D562 D564
Binding residue
(residue number reindexed from 1)		D106 D108
Annotation score4
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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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7yq8, PDBe:7yq8, PDBj:7yq8
PDBsum7yq8
PubMed38097570
UniProtQ02880|TOP2B_HUMAN DNA topoisomerase 2-beta (Gene Name=TOP2B)

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