4M6B

Crystal structure of yeast Swr1-Z domain in complex with H2A.Z-H2B dimer

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 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-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4m6ba1	All alpha proteins	Histone-fold	Histone-fold	Nucleosome core histones	automated matches	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ], Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)
C [auth D]	d4m6bd1	All alpha proteins	Histone-fold	Histone-fold	Nucleosome core histones	automated matches	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ], Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Core histone-like	8067142	3001387	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Core histone-like	8103853	3001387	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	Core histone-like	8103853	3001387	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	Core histone-like	8067142	3001387	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)
A	PF00125	e4m6bA2	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF00125	ECOD (1.6)
C [auth D]	PF00125	e4m6bD4	A: alpha arrays	X: Histone-like	H: Histone-related	T: Histone	F: PF00125	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)
C [auth D]	1.10.20.10	Mainly Alpha	Orthogonal Bundle	Histone, subunit A	Histone, subunit A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C [auth D]	PF16211	C-terminus of histone H2A (Histone_H2A_C)	C-terminus of histone H2A	-	Family
A, C [auth D]	PF00125	Core histone H2A/H2B/H3/H4 (Histone)	Core histone H2A/H2B/H3/H4	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C [auth D]	Chimera protein of Histone H2B.1 and Histone H2A.Z	DNA binding binding organic cyclic compound binding nucleic acid binding protein heterodimerization activity protein binding protein dimerization activity structural molecule activity structural constituent of chromatin protein-containing complex binding chromatin binding chromatin DNA binding sequence-specific DNA binding double-stranded DNA binding DNA binding binding organic cyclic compound binding nucleic acid binding protein heterodimerization activity protein binding protein dimerization activity structural molecule activity structural constituent of chromatin protein-containing complex binding chromatin binding chromatin DNA binding sequence-specific DNA binding double-stranded DNA 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 identical protein binding	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 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 cellular process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process negative regulation of biological process negative regulation of cellular metabolic process negative regulation of RNA biosynthetic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process negative regulation of cellular biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process negative regulation of cellular process negative regulation of macromolecule metabolic process negative regulation of biosynthetic process cellular response to stimulus postreplication repair response to stimulus DNA metabolic process cellular response to stress DNA damage response response to stress DNA repair protein-DNA complex organization cellular component organization protein-containing complex organization chromatin organization cellular component organization or biogenesis catabolic process macromolecule catabolic process RNA catabolic process mRNA catabolic process nuclear-transcribed mRNA catabolic process nuclear-transcribed mRNA catabolic process, non-stop decay mRNA metabolic process organic cyclic compound catabolic process nucleobase-containing compound catabolic process negative regulation of gene expression nucleic acid catabolic process organic substance catabolic process chromatin remodeling heterochromatin formation epigenetic regulation of gene expression constitutive heterochromatin formation silent mating-type cassette heterochromatin formation negative regulation of gene expression, epigenetic	membrane-bounded organelle replication fork protection complex protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear replication fork nuclear chromosome chromosome intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle membrane-bounded organelle replication fork protection complex protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear replication fork nuclear chromosome chromosome intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle organelle lumen organelle intracellular non-membrane-bounded organelle replication fork non-membrane-bounded organelle nuclear lumen protein-DNA complex nucleosome chromatin euchromatin
B [auth C], D [auth F]	Helicase SWR1	binding 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 binding 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 catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity protein binding histone binding 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 molecular adaptor activity structural molecule activity ATP-dependent activity, acting on DNA ATP-dependent chromatin remodeler activity catalytic activity, acting on DNA	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 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 cellular process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process cellular response to stimulus response to stimulus DNA recombination DNA metabolic process cellular response to stress DNA damage response response to stress recombinational repair DNA repair protein-DNA complex organization cellular component organization protein-containing complex organization chromatin organization chromatin remodeling cellular component organization or biogenesis	membrane-bounded organelle ATPase complex protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome intracellular organelle lumen histone deacetylase complex intracellular organelle nucleoplasm SWI/SNF superfamily-type complex membrane-bounded organelle ATPase complex protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome chromosome intracellular organelle lumen histone deacetylase complex intracellular organelle nucleoplasm SWI/SNF superfamily-type complex non-membrane-bounded organelle INO80-type complex catalytic complex protein-DNA complex chromatin intracellular membrane-bounded organelle cellular anatomical entity Swr1 complex organelle lumen organelle intracellular non-membrane-bounded organelle nuclear lumen cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C [auth D]	IPR009072	Histone-fold	Homologous Superfamily
A, C [auth D]	IPR007125	Histone H2A/H2B/H3	Domain
A, C [auth D]	IPR000558	Histone H2B	Family
A, C [auth D]	IPR009072	Histone-fold	Homologous Superfamily
A, C [auth D]	IPR007125	Histone H2A/H2B/H3	Domain
A, C [auth D]	IPR002119	Histone H2A	Family
A, C [auth D]	IPR032454	Histone H2A, C-terminal domain	Domain
A, C [auth D]	IPR032458	Histone H2A conserved site	Conserved Site
B [auth C], D [auth F]	IPR000330	SNF2, N-terminal	Domain
B [auth C], D [auth F]	IPR001650	Helicase, C-terminal domain-like	Domain
B [auth C], D [auth F]	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
B [auth C], D [auth F]	IPR049730	SNF2/RAD5-like, C-terminal helicase domain	Domain
B [auth C], D [auth F]	IPR014012	Helicase/SANT-associated domain	Domain
B [auth C], D [auth F]	IPR038718	SNF2-like, N-terminal domain superfamily	Homologous Superfamily
B [auth C], D [auth F]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

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 R01GM133198.