2G9A

Structural basis for the specific recognition of methylated histone H3 lysine 4 by the WD-40 protein WDR5

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
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2g9aa1	All beta proteins	7-bladed beta-propeller	WD40 repeat-like	automated matches	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d2g9aa2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	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	PF00400	e2g9aA1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: PF00400	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	WD-repeat protein 5	protein binding binding histone binding protein-lysine N-methyltransferase activity histone H3 methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups transferase activity S-adenosylmethionine-dependent methyltransferase activity histone methyltransferase activity histone H3K4 methyltransferase activity lysine N-methyltransferase activity protein methyltransferase activity histone modifying activity protein binding binding histone binding protein-lysine N-methyltransferase activity histone H3 methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups transferase activity S-adenosylmethionine-dependent methyltransferase activity histone methyltransferase activity histone H3K4 methyltransferase activity lysine N-methyltransferase activity protein methyltransferase activity histone modifying activity N-methyltransferase activity methyltransferase activity catalytic activity methylated histone binding modification-dependent protein binding methylation-dependent protein binding	monosaccharide metabolic process regulation of cellular process cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process gluconeogenesis regulation of primary metabolic process positive regulation of metabolic process organic substance metabolic process regulation of small molecule metabolic process positive regulation of biosynthetic process organic substance biosynthetic process small molecule metabolic process regulation of carbohydrate metabolic process monosaccharide metabolic process regulation of cellular process cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process gluconeogenesis regulation of primary metabolic process positive regulation of metabolic process organic substance metabolic process regulation of small molecule metabolic process positive regulation of biosynthetic process organic substance biosynthetic process small molecule metabolic process regulation of carbohydrate metabolic process regulation of glucose metabolic process positive regulation of cellular process positive regulation of gluconeogenesis regulation of biosynthetic process carbohydrate metabolic process regulation of biological process small molecule biosynthetic process carbohydrate biosynthetic process cellular metabolic process biological regulation hexose metabolic process primary metabolic process monosaccharide biosynthetic process regulation of cellular metabolic process regulation of cellular biosynthetic process hexose biosynthetic process positive regulation of glucose metabolic process biosynthetic process regulation of gluconeogenesis metabolic process cellular process positive regulation of carbohydrate metabolic process regulation of carbohydrate biosynthetic process positive regulation of small molecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process glucose metabolic process positive regulation of macromolecule biosynthetic process positive regulation of gene expression, epigenetic cellular nitrogen compound biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription transcription by RNA polymerase II heterocycle metabolic process chromatin organization positive regulation of macromolecule metabolic process transcription initiation at RNA polymerase II promoter cellular nitrogen compound metabolic process regulation of gene expression organic cyclic compound metabolic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process transcription initiation-coupled chromatin remodeling regulation of macromolecule biosynthetic process macromolecule metabolic process RNA metabolic process protein-DNA complex organization cellular component organization RNA biosynthetic process chromatin remodeling nitrogen compound metabolic process cellular component organization or biogenesis protein-containing complex organization epigenetic regulation of gene expression regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process heterocycle biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation positive regulation of gene expression cellular aromatic compound metabolic process developmental process multicellular organism development multicellular organismal process skeletal system development anatomical structure development system development regulation of nitrogen compound metabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of DNA-templated transcription regulation of protein modification process macromolecule deacylation protein deacetylation regulation of protein deacetylation tubulin deacetylation protein metabolic process protein modification process organonitrogen compound metabolic process regulation of protein metabolic process regulation of tubulin deacetylation protein deacylation macromolecule modification positive regulation of nucleobase-containing compound metabolic process positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of nitrogen compound metabolic process positive regulation of RNA biosynthetic process cell division regulation of cell division regulation of embryonic development regulation of multicellular organismal development regulation of developmental process embryo development regulation of multicellular organismal process regulation of transcription by RNA polymerase II cell cycle regulation of cell cycle negative regulation of biological process negative regulation of nitrogen compound metabolic process negative regulation of cellular metabolic process negative regulation of RNA biosynthetic process negative regulation of nucleobase-containing compound metabolic process 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	protein-containing complex intracellular anatomical structure catalytic complex protein-DNA complex chromatin chromosome transferase complex cellular anatomical entity histone acetyltransferase complex acetyltransferase complex intracellular organelle organelle intracellular non-membrane-bounded organelle protein acetyltransferase complex protein-containing complex intracellular anatomical structure catalytic complex protein-DNA complex chromatin chromosome transferase complex cellular anatomical entity histone acetyltransferase complex acetyltransferase complex intracellular organelle organelle intracellular non-membrane-bounded organelle protein acetyltransferase complex intracellular protein-containing complex non-membrane-bounded organelle membrane-bounded organelle histone methyltransferase complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen methyltransferase complex nuclear lumen Set1C/COMPASS complex MLL1/2 complex mitotic spindle cytoskeleton spindle microtubule cytoskeleton MLL3/4 complex NSL complex H4 histone acetyltransferase complex ATAC complex SAGA-type complex MLL1 complex
B	Histone H3	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR019775	WD40 repeat, conserved site	Conserved Site
A	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A	IPR001680	WD40 repeat	Repeat
A	IPR020472	G-protein beta WD-40 repeat	Repeat

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P61964	atypical teratoid rhabdoid tumor malignant glioma ovarian cancer glioblastoma medulloblastoma large cell medulloblastoma non-small cell lung carcinoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B	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.