Structure of PDB 8a5a Chain U

Receptor sequence

>8a5aU (length=690) Species: 559292 (Saccharomyces cerevisiae S288C)

KAAEEFAKTLKKIGIEKVETTTLPATGLFQPLMLINQKNYSSDYLKKDDQ
IFALRDRKFLRNNNLNDEIDLNDPTATIVIHPGSNSIKIGFPKDDHPVVV
PNCVAVPKKWLDLENSEHVENVCLQREQSEEFNNIKSEMEKNFRERMRYY
KRKVPGNAHEQVVSFNENSKPEIISEKNDPSPIEWIFDDSKLYYGSDALR
CVDEKFVIRKPFRGGSFNVKSPYYKSLAELISDVTKLLEHALNSETLNVK
PTKFNQYKVVLVIPDIFKKSHVETFIRVLLTELQFQAVAIIQESLATCYG
AGISTSTCVVNIGAAETRIACVDEGTVLEHSAITLDYGGDDITRLFALFL
LQSDFPLQDWKIDSKHGWLLAERLKKNFTTFQDADVAVQLYNFMNRSPNQ
PTEKYEFKLFDEVMLAPLALFFPQIFKLIRTSSHKNSSLEFQLPESRDLF
TNELNDWNSLSQFESKEGNLYCDLNDDLKILNRILDAHNIIDQLQDKPEN
YGNTLKENFAPLEKAIVQSIANASITADVTRMNSFYSNILIVGGSSKIPA
LDFILTDRINIWRPSLLSSASFPQFYKKLTKEIKDLEGHYVNAPDKTEDE
NKQILQAQIKEKIVEELEEQHQNIEHQNGNEHIFPVSIIPPPRDMNPALI
IWKGASVLAQIKLVEELFITNSDWDVHGSRILQYKCIFTY

3D structure

• PDB: 8a5a Structural mechanism of extranucleosomal DNA readout by the INO80 complex.
• Chain: U
• Resolution: 3.3 Å

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)	Binding affinity
BS01	ATP	U	G274 S275 N276 K279 G405 G504 A505 D531 E563 K567 G735 K738	G83 S84 N85 K88 G214 G313 A314 D340 E372 K376 G544 K547

Gene Ontology

Molecular Function

• GO:0003729 mRNA binding
• GO:0005515 protein binding
• GO:0005524 ATP binding

Biological Process

• GO:0006281 DNA repair
• GO:0006302 double-strand break repair
• GO:0006312 mitotic recombination
• GO:0006338 chromatin remodeling
• GO:0006355 regulation of DNA-templated transcription
• GO:0006974 DNA damage response

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005856 cytoskeleton
• GO:0031011 Ino80 complex
• GO:0043232 intracellular non-membrane-bounded organelle

External links

• PDB: RCSB:8a5a, PDBe:8a5a, PDBj:8a5a
• PDBsum: 8a5a
• PubMed: 36490333
• UniProt: Q12386|ARP8_YEAST Actin-like protein ARP8 (Gene Name=ARP8)