Annotations: 23FJ

Cryo-EM structure of SWI/SNF complex from Chaetomium thermophilum

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth K]	PF07529	HSA domain (HSA)	HSA domain	-	Family
B [auth N], C [auth O]	PF00249	Myb-like DNA-binding domain (Myb_DNA-binding)	Myb-like DNA-binding domain	This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family [1].	Domain
B [auth N], C [auth O]	PF16495	SWIRM-associated region 1 (SWIRM-assoc_1)	SWIRM-associated region 1	-	Family
B [auth N], C [auth O]	PF04433	SWIRM domain (SWIRM)	SWIRM domain	This SWIRM domain is a small alpha-helical domain of about 85 amino acid residues found in chromosomal proteins. It contains a helix-turn helix motif and binds to DNA [1].	Domain
D [auth P]	PF02201	SWIB/MDM2 domain (SWIB)	SWIB/MDM2 domain	This family includes the SWIB domain and the MDM2 domain [1]. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. Thi ...	This family includes the SWIB domain and the MDM2 domain [1]. The p53-associated protein (MDM2) is an inhibitor of the p53 tumour suppressor gene binding the transactivation domain and down regulating the ability of p53 to activate transcription. This family contains the p53 binding domain of MDM2 [2].	Domain
E [auth Q]	PF20497	SWI/SNF and RSC complexes subunit Ssr4 C-terminal (SWI-SNF_Ssr4_C)	SWI/SNF and RSC complexes subunit Ssr4 C-terminal	This entry represents the C-temrinal domain of Ssr4 (SWI/SNF and RSC complexes subunit ssr4), an essential component of the chromatin-remodelling SWI/SNF and RSC (remodelling the structure of chromatin) complexes only found in S. pombe [1]. This doma ...	This entry represents the C-temrinal domain of Ssr4 (SWI/SNF and RSC complexes subunit ssr4), an essential component of the chromatin-remodelling SWI/SNF and RSC (remodelling the structure of chromatin) complexes only found in S. pombe [1]. This domain contains a conserved RYxxxHEWMEEI/V motif. RSC is involved in transcription regulation and nucleosome positioning which controls, particularly, membrane and organelle development genes. The ATP-dependent chromatin remodelling complex SWI/SNF is required for the positive and negative regulation of gene expression of a large number of genes through the regulation of nucleosome remodelling.	Domain
G [auth S]	PF04855	SNF5 / SMARCB1 / INI1 (SNF5)	SNF5 / SMARCB1 / INI1	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth K]	WD40 repeat-containing protein	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein binding histone binding catalytic activity	regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological 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 cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process transcription by RNA polymerase II cellular component organization chromatin organization chromatin remodeling cellular component organization or biogenesis	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle
B [auth N], C [auth O]	Ssr1	DNA binding binding nucleic acid binding protein binding histone binding	regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological 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 positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process cellular component organization chromatin organization chromatin remodeling cellular component organization or biogenesis	membrane-bounded organelle SWI/SNF complex ATPase complex protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex intracellular membraneless organelle chromatin chromosome intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure membrane-bounded organelle SWI/SNF complex ATPase complex protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex intracellular membraneless organelle chromatin chromosome intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle membraneless organelle SWI/SNF superfamily-type complex
D [auth P]	DM2 domain-containing protein	-	-	-
E [auth Q]	DUF1750-domain-containing protein	-	cellular component organization chromatin organization chromatin remodeling cellular process cellular component organization or biogenesis	-
F [auth R]	ARID domain-containing protein	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding	regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process regulation of biological process regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process regulation of biological 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 cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process	membrane-bounded organelle SWI/SNF complex ATPase complex protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex intracellular membraneless organelle chromatin chromosome intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure membrane-bounded organelle SWI/SNF complex ATPase complex protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex intracellular membraneless organelle chromatin chromosome intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle membraneless organelle SWI/SNF superfamily-type complex
G [auth S]	Snf5	-	cellular component organization chromatin organization chromatin remodeling cellular process cellular component organization or biogenesis	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen nuclear chromosome intracellular membraneless organelle chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen nuclear chromosome intracellular membraneless organelle chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen
H [auth T]	Nuclear localization protein	DNA binding binding chromatin binding nucleic acid binding chromatin DNA binding	cellular component organization chromatin organization cellular process cellular component organization or biogenesis	RSC-type complex membrane-bounded organelle ATPase complex protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex intracellular membraneless organelle chromatin chromosome intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure RSC-type complex membrane-bounded organelle ATPase complex protein-containing complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex intracellular membraneless organelle chromatin chromosome intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle membraneless organelle SWI/SNF superfamily-type complex
I [auth U]	LYR family protein	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth K]	IPR019775	WD40 repeat, conserved site	Conserved Site
A [auth K]	IPR001650	Helicase, C-terminal domain-like	Domain
A [auth K]	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A [auth K]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A [auth K]	IPR001487	Bromodomain	Domain
A [auth K]	IPR036427	Bromodomain-like superfamily	Homologous Superfamily
A [auth K]	IPR001680	WD40 repeat	Repeat
A [auth K]	IPR049730	SNF2/RAD5-like, C-terminal helicase domain	Domain
A [auth K]	IPR014012	Helicase/SANT-associated domain	Domain
A [auth K]	IPR014978	Glutamine-Leucine-Glutamine, QLQ	Domain
A [auth K]	IPR029295	Snf2, ATP coupling domain	Domain
A [auth K]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A [auth K]	IPR038718	SNF2-like, N-terminal domain superfamily	Homologous Superfamily
A [auth K]	IPR000330	SNF2, N-terminal domain	Domain
A [auth K]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B [auth N], C [auth O]	IPR009057	Homeodomain-like superfamily	Homologous Superfamily
B [auth N], C [auth O]	IPR017884	SANT domain	Domain
B [auth N], C [auth O]	IPR001005	SANT/Myb domain	Domain
B [auth N], C [auth O]	IPR007526	SWIRM domain	Domain
B [auth N], C [auth O]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
B [auth N], C [auth O]	IPR032451	SMARCC, C-terminal	Domain
B [auth N], C [auth O]	IPR041984	Rsc8/Ssr1/Ssr2, zinc finger, ZZ-type	Domain
D [auth P]	IPR003121	SWIB/MDM2 domain	Domain
D [auth P]	IPR036885	SWIB/MDM2 domain superfamily	Homologous Superfamily
D [auth P]	IPR019835	SWIB domain	Domain
D [auth P]	IPR063302	SWIFT domain	Domain
E [auth Q]	IPR013859	SWI/SNF and RSC complexes subunit Ssr4, N-terminal	Domain
E [auth Q]	IPR046464	SWI/SNF and RSC complexes subunit Ssr4, C-terminal	Domain
F [auth R]	IPR051232	ARID/SWI1_ChromRemod	Unknown
F [auth R]	IPR001606	ARID DNA-binding domain	Domain
F [auth R]	IPR036431	ARID DNA-binding domain superfamily	Homologous Superfamily
G [auth S]	IPR006939	SNF5/SMARCB1/INI1	Family
H [auth T]	IPR013933	Chromatin-remodelling complex, RSC SWI/SNF subunit Rsc7/Swp82	Family

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

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.

23FJ | pdb_000023fj

Cryo-EM structure of SWI/SNF complex from Chaetomium thermophilum

External Resource: Annotation

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage