Structure of PDB 5oaf Chain D

Receptor sequence

>5oafD (length=411) Species: 9606 (Homo sapiens) [Search protein sequence]

VTRIERIGAHSHIRGLGLDDALEPRQASQGMVGQLAARRAAGVVLEMIRE
GKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSK
TEALTQAFRRSIGVRIKEETEIIEGEVVEIQGKLTLKTTEMETIYDLGTK
MIESLTKDKVQAGDVITIDKATGKISKLGRSFTTKFVQCPDGELQKRKEV
VHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGK
AEIIPGVLFIDEVHMLDIESFSFLNRALESDMAPVLIMATNRGITRIRGT
SYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEMSEDAYT
VLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSLFLDESR
STQYMKEYQDA

3D structure

PDB

5oaf Cryo-EM structures of the human INO80 chromatin-remodeling complex.

Chain

Resolution

4.06 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

3.6.4.12: DNA helicase.

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	ADP	D	H25 P79 G80 T81 G82 K83 T84 A85 Y362 R400 I403	H10 P64 G65 T66 G67 K68 T69 A70 Y324 R362 I365

Gene Ontology

	Molecular Function
GO:0000978	RNA polymerase II cis-regulatory region sequence-specific DNA binding
GO:0000979	RNA polymerase II core promoter sequence-specific DNA binding
GO:0001094	TFIID-class transcription factor complex binding
GO:0003678	DNA helicase activity
GO:0003714	transcription corepressor activity
GO:0004386	helicase activity
GO:0005515	protein binding
GO:0005524	ATP binding
GO:0008013	beta-catenin binding
GO:0008094	ATP-dependent activity, acting on DNA
GO:0016787	hydrolase activity
GO:0016887	ATP hydrolysis activity
GO:0017025	TBP-class protein binding
GO:0031490	chromatin DNA binding
GO:0042802	identical protein binding
GO:0042803	protein homodimerization activity
GO:0043531	ADP binding
GO:0051082	unfolded protein binding
GO:0051117	ATPase binding
GO:0140585	promoter-enhancer loop anchoring activity

	Biological Process
GO:0000492	box C/D snoRNP assembly
GO:0000723	telomere maintenance
GO:0006275	regulation of DNA replication
GO:0006281	DNA repair
GO:0006282	regulation of DNA repair
GO:0006310	DNA recombination
GO:0006325	chromatin organization
GO:0006338	chromatin remodeling
GO:0006355	regulation of DNA-templated transcription
GO:0006357	regulation of transcription by RNA polymerase II
GO:0006457	protein folding
GO:0032508	DNA duplex unwinding
GO:0033044	regulation of chromosome organization
GO:0034644	cellular response to UV
GO:0042981	regulation of apoptotic process
GO:0045739	positive regulation of DNA repair
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:0045995	regulation of embryonic development
GO:0050821	protein stabilization
GO:0051276	chromosome organization
GO:0051726	regulation of cell cycle
GO:0060382	regulation of DNA strand elongation
GO:0071169	establishment of protein localization to chromatin
GO:0071392	cellular response to estradiol stimulus
GO:0090090	negative regulation of canonical Wnt signaling pathway
GO:0090671	telomerase RNA localization to Cajal body
GO:1904507	positive regulation of telomere maintenance in response to DNA damage
GO:1905168	positive regulation of double-strand break repair via homologous recombination
GO:2000779	regulation of double-strand break repair

	Cellular Component
GO:0000786	nucleosome
GO:0000791	euchromatin
GO:0000812	Swr1 complex
GO:0005634	nucleus
GO:0005654	nucleoplasm
GO:0005737	cytoplasm
GO:0005813	centrosome
GO:0005829	cytosol
GO:0016020	membrane
GO:0016363	nuclear matrix
GO:0031011	Ino80 complex
GO:0035267	NuA4 histone acetyltransferase complex
GO:0070062	extracellular exosome
GO:0071339	MLL1 complex
GO:0097255	R2TP complex
GO:0101031	protein folding chaperone complex
GO:0120293	dynein axonemal particle
GO:1990062	RPAP3/R2TP/prefoldin-like complex
GO:1990904	ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:5oaf, PDBe:5oaf, PDBj:5oaf
PDBsum	5oaf
PubMed	29323271
UniProt	Q9Y230\|RUVB2_HUMAN RuvB-like 2 (Gene Name=RUVBL2)

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