6KMB

Crystal structure of Sth1 bromodomain

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d6kmba_	All alpha proteins	Bromodomain-like	Bromodomain	automated matches	automated matches	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)
B	d6kmbb_	All alpha proteins	Bromodomain-like	Bromodomain	automated matches	automated matches	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)
C	d6kmbc_	All alpha proteins	Bromodomain-like	Bromodomain	automated matches	automated matches	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)
D	d6kmbd_	All alpha proteins	Bromodomain-like	Bromodomain	automated matches	automated matches	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Bromodomain	e6kmbA1	A: alpha bundles	X: Bromodomain-like	H: Bromodomain (From Topology)	T: Bromodomain	F: Bromodomain	ECOD (1.6)
B	Bromodomain	e6kmbB1	A: alpha bundles	X: Bromodomain-like	H: Bromodomain (From Topology)	T: Bromodomain	F: Bromodomain	ECOD (1.6)
C	Bromodomain	e6kmbC1	A: alpha bundles	X: Bromodomain-like	H: Bromodomain (From Topology)	T: Bromodomain	F: Bromodomain	ECOD (1.6)
D	Bromodomain	e6kmbD1	A: alpha bundles	X: Bromodomain-like	H: Bromodomain (From Topology)	T: Bromodomain	F: Bromodomain	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.920.10	Mainly Alpha	Up-down Bundle	Histone Acetyltransferase	Chain A	CATH (utative)
B	1.20.920.10	Mainly Alpha	Up-down Bundle	Histone Acetyltransferase	Chain A	CATH (utative)
C	1.20.920.10	Mainly Alpha	Up-down Bundle	Histone Acetyltransferase	Chain A	CATH (utative)
D	1.20.920.10	Mainly Alpha	Up-down Bundle	Histone Acetyltransferase	Chain A	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00439	Bromodomain (Bromodomain)	Bromodomain	Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine [3].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Nuclear protein STH1/NPS1	catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity protein binding binding modification-dependent protein binding lysine-acetylated histone binding histone binding acetylation-dependent protein binding ATP-dependent activity, acting on DNA catalytic activity, acting on DNA ATP-dependent chromatin remodeler activity adenyl ribonucleotide binding catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity protein binding binding modification-dependent protein binding lysine-acetylated histone binding histone binding acetylation-dependent protein binding ATP-dependent activity, acting on DNA catalytic activity, acting on DNA ATP-dependent chromatin remodeler activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding DNA translocase activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides	cellular process cell cycle chromosome segregation cell cycle process cellular component disassembly protein-containing complex organization protein-DNA complex disassembly protein-containing complex disassembly protein-DNA complex organization cellular component organization chromatin organization nucleosome disassembly chromatin remodeling cellular component organization or biogenesis cellular process cell cycle chromosome segregation cell cycle process cellular component disassembly protein-containing complex organization protein-DNA complex disassembly protein-containing complex disassembly protein-DNA complex organization cellular component organization chromatin organization nucleosome disassembly chromatin remodeling cellular component organization or biogenesis nucleosome organization organelle organization cytoskeleton organization chromatin remodeling at centromere regulation of cellular process cellular biosynthetic 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 organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process cellular metabolic process biological regulation primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process cellular response to stimulus response to stimulus DNA metabolic process base-excision repair cellular response to stress DNA damage response response to stress DNA repair transcription elongation by RNA polymerase II transcription by RNA polymerase II DNA-templated transcription elongation double-strand break repair sexual reproduction reproductive process meiotic cell cycle positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of macromolecule metabolic process regulation of transcription by RNA polymerase II positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of cellular metabolic process positive regulation of biosynthetic process positive regulation of cellular process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process	RSC-type complex membrane-bounded organelle ATPase complex protein-containing complex intracellular anatomical structure catalytic complex protein-DNA complex nucleus nuclear protein-containing complex chromatin chromosome intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle RSC-type complex membrane-bounded organelle ATPase complex protein-containing complex intracellular anatomical structure catalytic complex protein-DNA complex nucleus nuclear protein-containing complex chromatin chromosome intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle organelle intracellular non-membrane-bounded organelle SWI/SNF superfamily-type complex non-membrane-bounded organelle chromosome, centromeric region chromosomal region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR000330	SNF2, N-terminal	Domain
A, B, C, D	IPR018359	Bromodomain, conserved site	Conserved Site
A, B, C, D	IPR001487	Bromodomain	Domain
A, B, C, D	IPR049730	SNF2/RAD5-like, C-terminal helicase domain	Domain
A, B, C, D	IPR038718	SNF2-like, N-terminal domain superfamily	Homologous Superfamily
A, B, C, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C, D	IPR001650	Helicase, C-terminal domain-like	Domain
A, B, C, D	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A, B, C, D	IPR036427	Bromodomain-like superfamily	Homologous Superfamily
A, B, C, D	IPR014012	Helicase/SANT-associated domain	Domain
A, B, C, D	IPR029295	Snf2, ATP coupling domain	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.