3MU6 | pdb_00003mu6

Inhibiting the Binding of Class IIa Histone Deacetylases to Myocyte Enhancer Factor-2 by Small Molecules

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
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F [auth D]	d3mu6d_	Alpha and beta proteins (a+b)	SRF-like	SRF-like	SRF-like	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E [auth C]	d3mu6c_	Alpha and beta proteins (a+b)	SRF-like	SRF-like	SRF-like	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3mu6b_	Alpha and beta proteins (a+b)	SRF-like	SRF-like	SRF-like	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3mu6a_	Alpha and beta proteins (a+b)	SRF-like	SRF-like	SRF-like	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F [auth D]	SCOP2B Superfamily	SRF-like	8035395	3001928	SCOP2B (2022-06-29)
E [auth C]	SCOP2B Superfamily	SRF-like	8035395	3001928	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	SRF-like	8035395	3001928	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	SRF-like	8035395	3001928	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)
F [auth D]	Pkinase, APH	e3mu6D1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
E [auth C]	Pkinase, APH	e3mu6C1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
B	Pkinase, APH	e3mu6B1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
A	Pkinase, APH	e3mu6A1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth D]	3.40.1810.10	Alpha Beta	3-Layer(aba) Sandwich	SRF-like	Transcription factor, MADS-box	CATH (4.3.0)
E [auth C]	3.40.1810.10	Alpha Beta	3-Layer(aba) Sandwich	SRF-like	Transcription factor, MADS-box	CATH (4.3.0)
B	3.40.1810.10	Alpha Beta	3-Layer(aba) Sandwich	SRF-like	Transcription factor, MADS-box	CATH (4.3.0)
A	3.40.1810.10	Alpha Beta	3-Layer(aba) Sandwich	SRF-like	Transcription factor, MADS-box	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, E [auth C], F [auth D]	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
D [auth F], H	DNA (5'-D(TPAPAPGPCPTPAPAPTPAPAPTPAPGPCPTP*T)-3')	-	-	-
C [auth E], G	DNA (5'-D(APAPAPGPCPTPAPTPTPAPTPTPAPGPCPTP*T)-3')	-	-	-
A, B, E [auth C], F [auth D]	Myocyte-specific enhancer factor 2A	histone deacetylase binding protein binding binding enzyme binding transcription factor binding 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 histone deacetylase binding protein binding binding enzyme binding transcription factor binding 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 protein heterodimerization activity protein dimerization activity transcription regulator activity DNA-binding transcription factor activity DNA-binding transcription factor activity, RNA polymerase II-specific kinase binding protein kinase binding SMAD binding histone acetyltransferase binding DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity	developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development cellular developmental process cell differentiation cellular process regulation of biosynthetic process regulation of biological process regulation of cellular process developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development cellular developmental process cell differentiation cellular process regulation of biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of metabolic process biosynthetic process positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process metabolic process positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular process apoptotic process cell death programmed cell death muscle structure development muscle organ development cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis cellular component organization neurogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis dendrite development cellular component organization or biogenesis plasma membrane bounded cell projection organization dendrite morphogenesis nervous system development cell morphogenesis involved in neuron differentiation generation of neurons anatomical structure morphogenesis neuron development mitochondrion distribution localization mitochondrion localization organelle localization RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process cellular response to stimulus cellular response to metal ion cellular response to chemical stimulus response to stimulus response to metal ion response to chemical cellular response to calcium ion response to calcium ion ventricular cardiac muscle cell differentiation cardiac muscle cell development cellular component assembly involved in morphogenesis membraneless organelle assembly muscle cell differentiation striated muscle tissue development cellular component biogenesis striated muscle cell development cellular anatomical entity morphogenesis cellular component assembly muscle cell development actin filament-based process cardiac cell development muscle tissue development actomyosin structure organization actin cytoskeleton organization organelle assembly cardiac muscle tissue development ventricular cardiac myofibril assembly cardiac muscle cell differentiation tissue development cardiocyte differentiation ventricular cardiac muscle cell development myofibril assembly organelle organization cardiac myofibril assembly anatomical structure formation involved in morphogenesis striated muscle cell differentiation supramolecular fiber organization cytoskeleton organization heart process system process regulation of heart contraction regulation of system process circulatory system process regulation of blood circulation cardiac conduction regulation of multicellular organismal process heart contraction blood circulation muscle hypertrophy regulation of muscle adaptation positive regulation of cardiac muscle hypertrophy striated muscle hypertrophy regulation of muscle system process muscle system process regulation of cardiac muscle hypertrophy regulation of muscle hypertrophy muscle adaptation regulation of response to stimulus positive regulation of muscle hypertrophy cardiac muscle hypertrophy positive regulation of multicellular organismal process negative regulation of biological process regulation of primary metabolic process negative regulation of RNA biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic 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 regulation of DNA-templated transcription negative regulation of RNA metabolic process regulation of localization import into cell hexose transmembrane transport regulation of D-glucose import across plasma membrane transport carbohydrate import across plasma membrane carbohydrate transport positive regulation of D-glucose transmembrane transport hexose import across plasma membrane positive regulation of transmembrane transport positive regulation of D-glucose import across plasma membrane regulation of transport import across plasma membrane establishment of localization transmembrane transport regulation of transmembrane transport D-glucose import across plasma membrane positive regulation of transport D-glucose transmembrane transport regulation of D-glucose transmembrane transport monosaccharide transmembrane transport carbohydrate transmembrane transport positive regulation of DNA-templated transcription positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, E [auth C], F [auth D]	IPR022102	Holliday junction regulator protein family C-terminal	Domain
A, B, E [auth C], F [auth D]	IPR033896	MADS MEF2-like, N-terminal	Domain
A, B, E [auth C], F [auth D]	IPR036879	Transcription factor, MADS-box superfamily	Homologous Superfamily
A, B, E [auth C], F [auth D]	IPR002100	Transcription factor, MADS-box	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, E [auth C], F [auth D]	Pharos: Q02078	coronary artery disease, autosomal dominant, 1 atypical teratoid rhabdoid tumor glioblastoma malignant ependymoma myopathy ovarian cancer primitive neuroectodermal tumor subependymal giant cell astrocytoma breast cancer large cell medulloblastoma malignant glioma Nonorganic psychosis pancreatic intraductal papillary-mucinous carcinoma lung cancer medulloblastoma coronary artery disease, autosomal dominant, 1 atypical teratoid rhabdoid tumor glioblastoma malignant ependymoma myopathy ovarian cancer primitive neuroectodermal tumor subependymal giant cell astrocytoma breast cancer large cell medulloblastoma malignant glioma Nonorganic psychosis pancreatic intraductal papillary-mucinous carcinoma lung cancer medulloblastoma oligodendroglioma plasma cell myeloma rheumatoid arthritis

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.