8Q9Q | pdb_00008q9q

Crystal Structure of the MADS-box/MEF2 Domain of MEF2D bound to dsDNA and HDAC7 deacetylase binding motif

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth A], C [auth B]	PF00319	SRF-type transcription factor (DNA-binding and dimerisation domain) (SRF-TF)	SRF-type transcription factor (DNA-binding and dimerisation domain)		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth L]	MADS box dsDNA: TCTTATAAATAGTT	-	-	-
D [auth K]	MADS box dsDNA: AACTATTTATAAGA	-	-	-
B [auth A], C [auth B]	MEF2D protein	DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity protein binding binding protein dimerization activity DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription regulatory region nucleic acid binding	developmental process animal organ development anatomical structure development multicellular organism development multicellular organismal process nervous system development system development regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process developmental process animal organ development anatomical structure development multicellular organism development multicellular organismal process nervous system development system development regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process 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 transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle
A [auth X]	HDAC7 (histone deacetylase 7) binding motif peptide: GLY-VAL-VAL-LYS-GLN-LYS-LEU-ALA-GLU-VAL-ILE-LEU-LYS-LYS-GLN	chromatin binding binding deacetylase activity protein lysine deacetylase activity catalytic activity, acting on a protein deacylase activity catalytic activity protein binding 14-3-3 protein binding aminoacyltransferase activity ubiquitin-like protein transferase activity acyltransferase activity SUMO transferase activity transferase activity chromatin binding binding deacetylase activity protein lysine deacetylase activity catalytic activity, acting on a protein deacylase activity catalytic activity protein binding 14-3-3 protein binding aminoacyltransferase activity ubiquitin-like protein transferase activity acyltransferase activity SUMO transferase activity transferase activity transcription corepressor activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity kinase binding enzyme binding protein kinase binding transcription factor binding DNA-binding transcription factor binding protein kinase C binding cation binding ion binding metal ion binding small molecule binding histone deacetylase activity histone modifying activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides hydrolase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds histone deacetylase activity, hydrolytic mechanism	multicellular organismal process regulation of cellular process negative regulation of biological process negative regulation of interleukin-2 production regulation of cytokine production cytokine production negative regulation of cellular process regulation of multicellular organismal process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of interleukin-2 production regulation of biological process negative regulation of metabolic process biological regulation multicellular organismal process regulation of cellular process negative regulation of biological process negative regulation of interleukin-2 production regulation of cytokine production cytokine production negative regulation of cellular process regulation of multicellular organismal process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of interleukin-2 production regulation of biological process negative regulation of metabolic process biological regulation interleukin-2 production negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process negative regulation of multicellular organismal process regulation of metabolic process developmental process regulation of osteoblast differentiation regulation of developmental process cellular developmental process negative regulation of osteoblast differentiation negative regulation of developmental process regulation of cell differentiation osteoblast differentiation ossification cell differentiation negative regulation of cell differentiation epigenetic regulation of gene expression cellular component organization chromatin organization chromatin remodeling cellular component organization or biogenesis peptidyl-lysine modification primary metabolic process protein sumoylation macromolecule modification peptidyl-amino acid modification protein metabolic process protein modification process post-translational protein modification protein modification by small protein conjugation protein modification by small protein conjugation or removal cellular component biogenesis cell junction organization cellular component assembly cell junction assembly cell-cell junction assembly cell-cell junction organization protein deacylation macromolecule deacylation protein deacetylation blood vessel morphogenesis tube development vasculogenesis vasculature development circulatory system development multicellular organism development anatomical structure morphogenesis tube morphogenesis anatomical structure development blood vessel development system development RNA metabolic process mRNA processing regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process RNA processing regulation of mRNA processing nucleobase-containing compound biosynthetic process mRNA metabolic process nucleic acid metabolic process regulation of mRNA metabolic process cellular response to stimulus response to stimulus signaling negative regulation of signaling negative regulation of intracellular signal transduction regulation of signal transduction regulation of non-canonical NF-kappaB signal transduction intracellular signal transduction negative regulation of cell communication cell communication regulation of intracellular signal transduction intracellular signaling cassette signal transduction negative regulation of non-canonical NF-kappaB signal transduction regulation of signaling negative regulation of response to stimulus non-canonical NF-kappaB signal transduction negative regulation of signal transduction regulation of response to stimulus regulation of cell communication negative regulation of RNA biosynthetic process DNA-templated transcription transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II regulation of DNA-templated transcription negative regulation of RNA metabolic process positive regulation of locomotion regulation of cell motility cell migration involved in sprouting angiogenesis regulation of blood vessel endothelial cell migration endothelial cell migration positive regulation of biological process angiogenesis positive regulation of cell migration positive regulation of cell motility regulation of cell migration blood vessel endothelial cell migration regulation of endothelial cell migration cell migration positive regulation of cell migration involved in sprouting angiogenesis cell motility locomotion positive regulation of cellular process regulation of cell migration involved in sprouting angiogenesis sprouting angiogenesis positive regulation of blood vessel endothelial cell migration regulation of locomotion positive regulation of endothelial cell migration anatomical structure formation involved in morphogenesis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen protein-containing complex catalytic complex nuclear protein-containing complex histone deacetylase complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth A], C [auth B]	IPR022102	Holliday junction regulator protein family C-terminal	Domain
B [auth A], C [auth B]	IPR036879	Transcription factor, MADS-box superfamily	Homologous Superfamily
B [auth A], C [auth B]	IPR033896	MADS MEF2-like, N-terminal	Domain
B [auth A], C [auth B]	IPR002100	Transcription factor, MADS-box	Domain
A [auth X]	IPR023801	Histone deacetylase domain	Domain
A [auth X]	IPR000286	Histone deacetylase HDAC	Family
A [auth X]	IPR050284	HDAC_PDAC	Unknown
A [auth X]	IPR046949	Histone deacetylase 4/5/7/9	Family
A [auth X]	IPR037138	Histone deacetylase domain superfamily	Homologous Superfamily
A [auth X]	IPR023696	Ureohydrolase domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth X]	Pharos: Q8WUI4	asthma mature T-cell and NK-cell non-Hodgkin lymphoma primary cutaneous T-cell lymphoma inflammatory bowel disease osteosarcoma sclerosing cholangitis Malignant neoplasm of breast plasma cell myeloma skin basal cell carcinoma

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.