8Q9P

Crystal Structure of the MADS-box/MEF2 Domain of MEF2D bound to dsDNA and HDAC5 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
B [auth A], C [auth B]	MEF2D protein	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 cellular developmental process cell differentiation cellular process 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 developmental process animal organ development anatomical structure development cellular developmental process cell differentiation cellular process 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 positive regulation of nucleobase-containing compound metabolic 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 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]	HDAC5 (histone deacetylase 5) binding motif peptide: TRP-GLY-SER-GLY-GLU-VAL-LYS-LEU-ARG-LEU-GLN-GLU-PHE-LEU-LEU-SER-LYS-SER	histone deacetylase binding protein binding binding enzyme binding deacetylase activity protein lysine deacetylase activity catalytic activity, acting on a protein hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides deacylase activity hydrolase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds histone deacetylase activity histone H4K deacetylase activity histone deacetylase activity, hydrolytic mechanism histone deacetylase binding protein binding binding enzyme binding deacetylase activity protein lysine deacetylase activity catalytic activity, acting on a protein hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides deacylase activity hydrolase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds histone deacetylase activity histone H4K deacetylase activity histone deacetylase activity, hydrolytic mechanism histone H4K5 deacetylase activity, hydrolytic mechanism catalytic activity histone H4K16 deacetylase activity, hydrolytic mechanism histone H4K12 deacetylase activity, hydrolytic mechanism cation binding ion binding metal ion binding small molecule binding identical protein binding transcription factor binding transcription coregulator binding transcription corepressor binding histone H3K4 deacetylase activity, hydrolytic mechanism histone H3K deacetylase activity histone H4K8 deacetylase activity, hydrolytic mechanism RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding DNA binding sequence-specific DNA binding double-stranded DNA binding nucleic acid 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 chromatin binding histone H3K14 deacetylase activity, hydrolytic mechanism histone H3K9 deacetylase activity, hydrolytic mechanism kinase binding protein kinase C binding protein kinase binding	response to stimulus response to chemical response to xenobiotic stimulus developmental process regulation of biological process regulation of cellular process regulation of developmental process cellular developmental process biological regulation regulation of cell differentiation regulation of striated muscle cell differentiation muscle cell differentiation myotube differentiation muscle structure development response to stimulus response to chemical response to xenobiotic stimulus developmental process regulation of biological process regulation of cellular process regulation of developmental process cellular developmental process biological regulation regulation of cell differentiation regulation of striated muscle cell differentiation muscle cell differentiation myotube differentiation muscle structure development regulation of muscle cell differentiation cell differentiation regulation of myotube differentiation anatomical structure development cellular process striated muscle cell differentiation positive regulation of DNA-binding transcription factor activity RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process positive regulation of molecular function nucleic acid biosynthetic process DNA-templated transcription regulation of RNA 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 gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of molecular function regulation of gene expression biosynthetic process regulation of DNA-binding transcription factor activity metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process multicellular organismal process immune system process B cell activation cell activation lymphocyte activation leukocyte activation negative regulation of locomotion regulation of cell motility cell migration involved in sprouting angiogenesis regulation of blood vessel endothelial cell migration endothelial cell migration negative regulation of biological process angiogenesis negative regulation of endothelial cell migration negative regulation of blood vessel endothelial cell migration multicellular organism development tube morphogenesis regulation of cell migration negative regulation of cellular process regulation of endothelial cell migration blood vessel endothelial cell migration cell migration cell motility locomotion negative regulation of cell migration blood vessel development system development blood vessel morphogenesis tube development regulation of cell migration involved in sprouting angiogenesis sprouting angiogenesis vasculature development circulatory system development anatomical structure morphogenesis regulation of locomotion anatomical structure formation involved in morphogenesis negative regulation of cell motility negative regulation of cell migration involved in sprouting angiogenesis negative regulation of RNA biosynthetic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule 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 biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process hemopoiesis cell development mononuclear cell differentiation lymphocyte differentiation B cell differentiation leukocyte differentiation response to activity cellular response to stimulus biological process involved in interspecies interaction between organisms response to lipid response to other organism cellular response to lipopolysaccharide response to oxygen-containing compound response to external stimulus cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound response to biotic stimulus cellular response to biotic stimulus cellular response to chemical stimulus response to bacterium cellular response to lipid response to external biotic stimulus response to molecule of bacterial origin nervous system development generation of neurons neurogenesis neuron differentiation cellular component organization chromatin organization chromatin remodeling cellular component organization or biogenesis epigenetic regulation of gene expression negative regulation of gene expression negative regulation of gene expression, epigenetic negative regulation of muscle cell differentiation negative regulation of myotube differentiation negative regulation of cell differentiation negative regulation of developmental process negative regulation of striated muscle cell differentiation defense response response to stress inflammatory response cellular response to nitrogen compound response to endogenous stimulus response to peptide hormone cellular response to peptide hormone stimulus response to nitrogen compound cellular response to endogenous stimulus response to hormone response to insulin cellular response to insulin stimulus cellular response to hormone stimulus regulation of protein binding regulation of binding response to cocaine response to alkaloid	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen cytoplasm cytosol Golgi apparatus endomembrane system protein-containing complex catalytic complex nuclear protein-containing complex histone deacetylase complex
D [auth K]	MADS box dsDNA fw: AACTATTTATAAGA	-	-	-
E [auth L]	MADS box dsNA rev:TCTTATAAATAGTT	-	-	-

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]	IPR000286	Histone deacetylase family	Family
A [auth X]	IPR023801	Histone deacetylase domain	Domain
A [auth X]	IPR046949	Histone deacetylase 4/5/7/9	Family
A [auth X]	IPR024643	Histone deacetylase, glutamine rich N-terminal domain	Domain
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: Q9UQL6	cocaine abuse cocaine dependence Familial Primary Pulmonary Hypertension breast cancer glioblastoma malignant ependymoma mature T-cell and NK-cell non-Hodgkin lymphoma plasma cell myeloma subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor depressive disorder idiopathic pulmonary arterial hypertension malignant glioma primary cutaneous T-cell lymphoma bipolar disorder cocaine abuse cocaine dependence Familial Primary Pulmonary Hypertension breast cancer glioblastoma malignant ependymoma mature T-cell and NK-cell non-Hodgkin lymphoma plasma cell myeloma subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor depressive disorder idiopathic pulmonary arterial hypertension malignant glioma primary cutaneous T-cell lymphoma bipolar disorder major depressive disorder malignant mesothelioma neurotic disorder

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.