1KNA

Chromo domain of HP1 complexed with histone H3 tail containing dimethyllysine 9.

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
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1knaa_	All beta proteins	SH3-like barrel	Chromo domain-like	Chromo domain	Heterochromatin protein 1, HP1	fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Chromo domain-like	8042163	3000161	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	Chromo	e1knaA1	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: Chromo	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.50.40	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00385	Chromo (CHRromatin Organisation MOdifier) domain (Chromo)	Chromo (CHRromatin Organisation MOdifier) domain	-	Domain
B [auth P]	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	HETEROCHROMATIN PROTEIN 1	basal transcription machinery binding RNA polymerase binding protein binding binding RNA polymerase II complex binding basal RNA polymerase II transcription machinery binding RNA polymerase II C-terminal domain binding RNA polymerase core enzyme binding enzyme binding histone binding protein-containing complex binding chromatin binding Hsp70 protein binding protein-folding chaperone binding basal transcription machinery binding RNA polymerase binding protein binding binding RNA polymerase II complex binding basal RNA polymerase II transcription machinery binding RNA polymerase II C-terminal domain binding RNA polymerase core enzyme binding enzyme binding histone binding protein-containing complex binding chromatin binding Hsp70 protein binding protein-folding chaperone binding heat shock protein binding RNA binding organic cyclic compound binding nucleic acid binding protein-macromolecule adaptor activity molecular adaptor activity mRNA binding DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding double-stranded DNA binding rDNA binding satellite DNA binding methylated histone binding modification-dependent protein binding methylation-dependent protein binding	regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process negative regulation of metabolic process primary metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process negative regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process negative regulation of biosynthetic process cellular process cell cycle mitotic cell cycle protein localization localization protein localization to chromatin cellular localization protein localization to chromosome protein localization to organelle cellular macromolecule localization macromolecule localization protein localization to euchromatin cellular component organization organelle organization chromosome organization cellular component organization or biogenesis regulation of localization regulation of protein localization regulation of cellular localization regulation of protein localization to chromatin protein-DNA complex organization chromatin organization chromatin remodeling heterochromatin formation protein-containing complex organization epigenetic regulation of gene expression pericentric heterochromatin formation negative regulation of gene expression constitutive heterochromatin formation negative regulation of gene expression, epigenetic regulation of cellular component organization positive regulation of cellular component organization positive regulation of cellular component biogenesis positive regulation of biological process regulation of cellular component biogenesis regulation of FACT complex assembly cellular component biogenesis regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly cellular component assembly FACT complex assembly protein-containing complex assembly positive regulation of FACT complex assembly positive regulation of cellular process telomere organization DNA metabolic process telomere maintenance positive regulation of organelle organization regulation of heterochromatin formation regulation of chromatin organization regulation of DNA methylation-dependent heterochromatin formation regulation of chromosome organization regulation of organelle organization positive regulation of chromosome organization positive regulation of DNA methylation-dependent heterochromatin formation positive regulation of heterochromatin formation DNA methylation-dependent heterochromatin formation positive regulation of chromatin organization facultative heterochromatin formation positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of macromolecule metabolic process positive regulation of nucleobase-containing compound metabolic process positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of cellular metabolic process positive regulation of biosynthetic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process transcription by RNA polymerase II regulation of transcription by RNA polymerase II negative regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle polytene chromosome chromosome cellular anatomical entity non-membrane-bounded organelle condensed chromosome polytene chromosome chromocenter chromocenter chromosomal region polytene chromosome puff chromosome, centromeric region intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle polytene chromosome chromosome cellular anatomical entity non-membrane-bounded organelle condensed chromosome polytene chromosome chromocenter chromocenter chromosomal region polytene chromosome puff chromosome, centromeric region membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen protein-containing complex pericentric heterochromatin protein-DNA complex chromatin heterochromatin condensed chromosome, centromeric region euchromatin chromosome, telomeric region
B [auth P]	METHYLATED Histone H3	DNA binding protein-containing complex binding binding chromatin binding organic cyclic compound binding nucleic acid binding nucleosome binding nucleosomal DNA binding chromatin DNA binding protein heterodimerization activity protein binding protein dimerization activity structural molecule activity structural constituent of chromatin	protein-containing complex organization protein-DNA complex assembly protein-DNA complex organization cellular component 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	intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle polytene chromosome chromosome cellular anatomical entity non-membrane-bounded organelle membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle RCAF complex intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle polytene chromosome chromosome cellular anatomical entity non-membrane-bounded organelle membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle RCAF complex protein-DNA complex nucleosome chromatin

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR023780	Chromo domain	Domain
A	IPR016197	Chromo-like domain superfamily	Homologous Superfamily
A	IPR023779	Chromo domain, conserved site	Conserved Site
A	IPR008251	Chromo shadow domain	Domain
A	IPR000953	Chromo/chromo shadow domain	Domain
A	IPR017984	Chromo domain subgroup	Domain
B [auth P]	IPR009072	Histone-fold	Homologous Superfamily
B [auth P]	IPR007125	Histone H2A/H2B/H3	Domain
B [auth P]	IPR000164	Histone H3/CENP-A	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B [auth P]	MLY	Parent Component: LYS RESID: AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084

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.