7Y5K | pdb_00007y5k

Crystal structure of human CAF-1 core complex in spacegroup C2221

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth C]	SCOP2B Superfamily	WD40 repeat-like	8053350	3001694	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B [auth C]	WD40,CAF1C_H4-bd	e7y5kC1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: WD40,CAF1C_H4-bd	ECOD (develop294)
C [auth B]	PsbI	e7y5kB1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: PsbI	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth C]	PF12265	Histone-binding protein RBBP4 or subunit C of CAF1 complex (CAF1C_H4-bd)	Histone-binding protein RBBP4 or subunit C of CAF1 complex	-	Repeat
B [auth C]	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat
C [auth B]	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat
A	PF12253	Chromatin assembly factor 1 subunit A dimerization domain (CAF1A_dimeriz)	Chromatin assembly factor 1 subunit A dimerization domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth C]	Histone-binding protein RBBP4	protein binding binding histone binding histone deacetylase binding enzyme binding DNA binding sequence-specific DNA binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding protein binding binding histone binding histone deacetylase binding enzyme binding DNA binding sequence-specific DNA binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process DNA replication DNA metabolic process developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development regulation of developmental process cellular developmental process regulation of cell differentiation stem cell differentiation cell differentiation regulation of stem cell differentiation regulation of cell fate commitment cell fate specification regulation of cell fate specification cell fate commitment positive regulation of biological process regulation of stem cell population maintenance stem cell population maintenance positive regulation of developmental process positive regulation of stem cell population maintenance positive regulation of multicellular organismal process regulation of multicellular organismal process maintenance of cell number protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular component organization or biogenesis nucleosome assembly nucleosome organization cellular response to stimulus negative regulation of transforming growth factor beta receptor signaling pathway cell surface receptor protein serine/threonine kinase signaling pathway cellular response to growth factor stimulus response to stimulus negative regulation of signaling signaling cellular response to transforming growth factor beta stimulus regulation of transmembrane receptor protein serine/threonine kinase signaling pathway regulation of signal transduction negative regulation of cell communication cell communication regulation of transforming growth factor beta receptor signaling pathway cellular response to endogenous stimulus signal transduction enzyme-linked receptor protein signaling pathway regulation of signaling cell surface receptor signaling pathway negative regulation of response to stimulus regulation of cellular response to transforming growth factor beta stimulus response to endogenous stimulus regulation of cellular response to growth factor stimulus negative regulation of signal transduction response to transforming growth factor beta regulation of response to stimulus transforming growth factor beta receptor signaling pathway regulation of cell communication response to growth factor transforming growth factor beta receptor superfamily signaling pathway negative regulation of transmembrane receptor protein serine/threonine kinase signaling pathway cellular response to stress DNA damage response response to stress DNA repair DNA replication-dependent chromatin assembly negative regulation of locomotion regulation of cell motility regulation of locomotion regulation of cell migration negative regulation of cell motility cell migration cell motility negative regulation of cell migration locomotion negative regulation of cell population proliferation cell population proliferation regulation of cell population proliferation positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process negative regulation of developmental process negative regulation of stem cell population maintenance negative regulation of multicellular organismal process transcription by RNA polymerase II regulation of transcription by RNA polymerase II negative regulation of transcription by RNA polymerase II	protein-containing complex CAF-1 complex membrane-bounded organelle intracellular anatomical structure catalytic complex Sin3-type complex nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome intracellular membraneless organelle chromosome chromatin intracellular membrane-bounded organelle protein-containing complex CAF-1 complex membrane-bounded organelle intracellular anatomical structure catalytic complex Sin3-type complex nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome intracellular membraneless organelle chromosome chromatin intracellular membrane-bounded organelle intracellular organelle lumen histone deacetylase complex intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle membraneless organelle nuclear lumen cytoplasm cytosol histone methyltransferase complex transferase complex PcG protein complex methyltransferase complex ESC/E(Z) complex ATPase complex transcription regulator complex NuRD complex SWI/SNF superfamily-type complex CHD-type complex chromosome, telomeric region chromosomal region NURF complex ISWI-type complex
C [auth B]	Chromatin assembly factor 1 subunit B	protein binding binding histone binding unfolded protein binding chromatin binding	protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular process cellular component organization or biogenesis nucleosome assembly nucleosome organization nucleobase-containing compound metabolic process protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular process cellular component organization or biogenesis nucleosome assembly nucleosome organization nucleobase-containing compound metabolic process DNA replication metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus response to stimulus cellular response to stress DNA damage response response to stress DNA repair DNA replication-dependent chromatin assembly	protein-containing complex CAF-1 complex cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle protein-containing complex CAF-1 complex cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome
A	Chromatin assembly factor 1 subunit A	unfolded protein binding protein binding binding chromatin binding chromo shadow domain binding protein domain specific binding identical protein binding	protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular process cellular component organization or biogenesis nucleosome assembly nucleosome organization nucleobase-containing compound metabolic process protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular process cellular component organization or biogenesis nucleosome assembly nucleosome organization nucleobase-containing compound metabolic process DNA replication metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus response to stimulus cellular response to stress DNA damage response response to stress DNA repair DNA replication-dependent chromatin assembly	protein-containing complex CAF-1 complex intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth C]	IPR050459	WD repeat RBAP46/RBAP48/MSI1	Family
B [auth C]	IPR019775	WD40 repeat, conserved site	Conserved Site
B [auth C]	IPR020472	PAC1/LIS1-like, WD-40 repeat	Repeat
B [auth C]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B [auth C]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
B [auth C]	IPR022052	Histone-binding protein RBBP4-like, N-terminal	Domain
B [auth C]	IPR001680	WD40 repeat	Repeat
C [auth B]	IPR045145	Chromatin assembly factor 1 subunit Cac2/CHAF1B/FAS2	Family
C [auth B]	IPR019775	WD40 repeat, conserved site	Conserved Site
C [auth B]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
C [auth B]	IPR055410	CAF1B/HIR1, beta-propeller domain	Domain
C [auth B]	IPR029129	Chromatin assembly factor 1 subunit B, C-terminal	Domain
C [auth B]	IPR001632	G-protein beta subunit-like, WD40 repeats	Domain
C [auth B]	IPR001680	WD40 repeat	Repeat
C [auth B]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A	IPR029091	Chromatin assembly factor 1 subunit p150, N-terminal	Domain
A	IPR021644	Chromatin assembly factor 1 p150 subunit, acidic region	Domain
A	IPR029105	Chromatin assembly factor 1 subunit p150, C-terminal	Domain
A	IPR022043	Chromatin assembly factor 1 subunit A, dimerization domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth C]	Pharos: Q09028	medulloblastoma Pick disease osteosarcoma subependymal giant cell astrocytoma ovarian cancer
C [auth B]	Pharos: Q13112	mouth disease breast cancer lung adenocarcinoma Down syndrome hepatocellular carcinoma nephrolithiasis
A	Pharos: Q13111	mouth disease atypical teratoid rhabdoid tumor malignant colon neoplasm primitive neuroectodermal tumor large cell medulloblastoma malignant mesothelioma non-small cell lung carcinoma lung cancer medulloblastoma osteosarcoma

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.