9IM4 | pdb_00009im4

Crystal Structure of AF9 YEATS domain F28R mutant in complex with histone H3K9la

External Resource: Annotation

Domain Annotation: SCOP2 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)
C [auth B]	SCOP2B Superfamily	YEATS domain-like	8053743	3002221	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	YEATS domain-like	8053743	3002221	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C [auth B]	PF03366	YEATS family (YEATS)	YEATS family	We have named this family the YEATS family, after `YNK7', `ENL', `AF-9', and `TFIIF small subunit'. This family also contains the GAS41 protein. All these proteins are thought to have a transcription stimulatory activity	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth P], D [auth C]	Histone H3.3C	DNA binding protein-containing complex binding binding chromatin 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	regulation of growth regulation of biological process regulation of cellular process regulation of cellular component organization biological regulation growth positive regulation of biological process positive regulation of cell growth regulation of cell growth cell growth cellular component organization positive regulation of growth cellular process cellular component organization or biogenesis regulation of growth regulation of biological process regulation of cellular process regulation of cellular component organization biological regulation growth positive regulation of biological process positive regulation of cell growth regulation of cell growth cell growth cellular component organization positive regulation of growth cellular process cellular component organization or biogenesis positive regulation of cellular process	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle euchromatin membraneless organelle intracellular membraneless organelle chromatin chromosome protein-containing complex protein-DNA complex nucleosome membrane-bounded organelle nucleus intracellular organelle cellular anatomical structure intracellular anatomical structure organelle euchromatin membraneless organelle intracellular membraneless organelle chromatin chromosome protein-containing complex protein-DNA complex nucleosome membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
A, C [auth B]	Protein AF-9	protein binding binding histone binding chromatin binding histone reader activity histone H3 reader activity chromatin-protein adaptor activity protein-macromolecule adaptor activity histone H3K27ac reader activity molecular adaptor activity histone H3K18ac reader activity histone H3K9ac reader activity DNA binding nucleic acid binding protein binding binding histone binding chromatin binding histone reader activity histone H3 reader activity chromatin-protein adaptor activity protein-macromolecule adaptor activity histone H3K27ac reader activity molecular adaptor activity histone H3K18ac reader activity histone H3K9ac reader activity DNA binding nucleic acid binding modification-dependent protein binding	developmental process multicellular organism development multicellular organismal process segmentation anatomical structure development pattern specification process regionalization segment specification cellular response to stimulus regulation of cellular process response to stimulus signaling negative regulation of signaling regulation of canonical Wnt signaling pathway developmental process multicellular organism development multicellular organismal process segmentation anatomical structure development pattern specification process regionalization segment specification cellular response to stimulus regulation of cellular process response to stimulus signaling negative regulation of signaling regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway negative regulation of biological process regulation of signal transduction negative regulation of cell communication cell communication negative regulation of Wnt signaling pathway negative regulation of cellular process signal transduction Wnt signaling pathway regulation of biological process regulation of signaling cell surface receptor signaling pathway regulation of Wnt signaling pathway negative regulation of response to stimulus biological regulation negative regulation of signal transduction negative regulation of canonical Wnt signaling pathway regulation of response to stimulus regulation of cell communication cellular process positive regulation of cell communication positive regulation of signal transduction positive regulation of biological process Wnt signaling pathway, planar cell polarity pathway positive regulation of response to stimulus positive regulation of non-canonical Wnt signaling pathway positive regulation of Wnt signaling pathway non-canonical Wnt signaling pathway positive regulation of cellular process positive regulation of Wnt signaling pathway, planar cell polarity pathway regulation of Wnt signaling pathway, planar cell polarity pathway regulation of non-canonical Wnt signaling pathway positive regulation of signaling cellular component organization regulation of chromatin organization regulation of cellular component organization chromatin organization cellular component organization or biogenesis biosynthetic process metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process stem cell differentiation cellular developmental process cell differentiation hemopoiesis hematopoietic stem cell differentiation cell development hematopoietic progenitor cell differentiation positive regulation of DNA-templated transcription 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 regulation of RNA biosynthetic process regulation of biosynthetic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process stem cell division regulation of stem cell division cell division regulation of cell division anterior/posterior pattern specification	membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cytoplasm cytosol membraneless organelle intracellular membraneless organelle chromosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth P], D [auth C]	IPR009072	Histone-fold	Homologous Superfamily
B [auth P], D [auth C]	IPR000164	Histone H3/CENP-A	Family
B [auth P], D [auth C]	IPR007125	Core Histone H2A/H2B/H3 domain	Domain
A, C [auth B]	IPR052790	YEATS domain-containing	Family
A, C [auth B]	IPR038704	YEATS superfamily	Homologous Superfamily
A, C [auth B]	IPR055129	YEATS domain	Domain
A, C [auth B]	IPR040930	AF-9, ANC1 homology domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B [auth P], D [auth C]	Pharos: Q6NXT2	acute myeloid leukemia diabetes mellitus
A, C [auth B]	Pharos: P42568	acute myeloid leukemia breast cancer malignant ependymoma oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis astrocytic tumor cancer malignant mesothelioma ovarian cancer pituitary cancer sarcoidosis bipolar disorder leukemia medulloblastoma acute myeloid leukemia breast cancer malignant ependymoma oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis astrocytic tumor cancer malignant mesothelioma ovarian cancer pituitary cancer sarcoidosis bipolar disorder leukemia medulloblastoma pancreatic intraductal papillary-mucinous carcinoma progressive supranuclear palsy ulcerative colitis

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.