Structure of PDB 8eza Chain J Binding Site BS01

Receptor Information

>8eza Chain J (length=497) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

YKYSGRDSLIFLVDASKAMFESQSEDELTPFDMSIQCIQSVYISKIISSD
RDLLAVVFYGTEKDKNSVNFKNIYVLQELDNPGAKRILELDQFKGQQGQK
RFQDMMGHGSDYSLSEVLWVCANLFSDVQFKMSHKRIMLFTNEDNPHGND
SAKASRARTKAGDLRDTGIFLDLMHLKKPGGFDISLFYRDIISVHFEESS
KLEDLLRKVRAKETRKRALSRLKLKLNKDIVISVGIYNLVQKALKPPPIK
LYRETNEPVKTKTRTFNTSTGGLLLPSDTKRSQIYGSRQIILEKEETEEL
KRFDDPGLMLMGFKPLVLLKKHHYLRPSLFVYPEESLVIGSSTLFSALLI
KCLEKEVAALCRYTPRRNIPPYFVALVPQEEELDDQKIQVTPPGFQLVFL
PFADDKRKMPFTEKIMATPEQVGKMKAIVEKLRFTYRSDSFENPVLQQHF
RNLEALALDLMEPEQAVDLTLPKVEAMNKRLGSLVDEFKELVYPPDY

Ligand information

>8eza Chain M (length=31) [Search DNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

tctaagaactctgatgtcagtagattacact

Receptor-Ligand Complex Structure

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Structure summary

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PDB	8eza Cryo-EM visualization of DNA-PKcs structural intermediates in NHEJ.
Resolution	4.39 Å
Binding residue (original residue number in PDB)	Y32 K160 S257 R258 R444
Binding residue (residue number reindexed from 1)	Y3 K131 S220 R221 R407

Enzymatic activity

Enzyme Commision number

3.6.4.-
4.2.99.-

Gene Ontology

	Molecular Function
GO:0000976	transcription cis-regulatory region binding
GO:0003677	DNA binding
GO:0003678	DNA helicase activity
GO:0003684	damaged DNA binding
GO:0003690	double-stranded DNA binding
GO:0003691	double-stranded telomeric DNA binding
GO:0003723	RNA binding
GO:0004386	helicase activity
GO:0005515	protein binding
GO:0005524	ATP binding
GO:0008094	ATP-dependent activity, acting on DNA
GO:0016787	hydrolase activity
GO:0016829	lyase activity
GO:0016887	ATP hydrolysis activity
GO:0030332	cyclin binding
GO:0042162	telomeric DNA binding
GO:0044877	protein-containing complex binding
GO:0045027	DNA end binding
GO:0051575	5'-deoxyribose-5-phosphate lyase activity
GO:0097110	scaffold protein binding

	Biological Process
GO:0000723	telomere maintenance
GO:0000725	recombinational repair
GO:0002218	activation of innate immune response
GO:0006266	DNA ligation
GO:0006281	DNA repair
GO:0006303	double-strand break repair via nonhomologous end joining
GO:0006310	DNA recombination
GO:0010558	negative regulation of macromolecule biosynthetic process
GO:0032508	DNA duplex unwinding
GO:0045087	innate immune response
GO:0045621	positive regulation of lymphocyte differentiation
GO:0045860	positive regulation of protein kinase activity
GO:0045892	negative regulation of DNA-templated transcription
GO:0045893	positive regulation of DNA-templated transcription
GO:0045944	positive regulation of transcription by RNA polymerase II
GO:0048660	regulation of smooth muscle cell proliferation
GO:0071475	cellular hyperosmotic salinity response
GO:0071480	cellular response to gamma radiation
GO:0071481	cellular response to X-ray
GO:0097680	double-strand break repair via classical nonhomologous end joining

	Cellular Component
GO:0000781	chromosome, telomeric region
GO:0000783	nuclear telomere cap complex
GO:0005576	extracellular region
GO:0005634	nucleus
GO:0005654	nucleoplasm
GO:0005667	transcription regulator complex
GO:0005694	chromosome
GO:0005730	nucleolus
GO:0005829	cytosol
GO:0005958	DNA-dependent protein kinase-DNA ligase 4 complex
GO:0016020	membrane
GO:0032991	protein-containing complex
GO:0032993	protein-DNA complex
GO:0034774	secretory granule lumen
GO:0043564	Ku70:Ku80 complex
GO:0070418	DNA-dependent protein kinase complex
GO:0070419	nonhomologous end joining complex
GO:1904813	ficolin-1-rich granule lumen

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Cellular Component

External links

PDB	RCSB:8eza, PDBe:8eza, PDBj:8eza
PDBsum	8eza
PubMed	37256947
UniProt	P12956\|XRCC6_HUMAN X-ray repair cross-complementing protein 6 (Gene Name=XRCC6)

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