2DMS | pdb_00002dms

Solution structure of the homeobox domain of Homeobox protein OTX2

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2dmsa1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Homeodomain-like	automated matches	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d2dmsa3	Artifacts	Tags	Tags	Tags	C-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d2dmsa2	Artifacts	Tags	Tags	Tags	N-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	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	Homeobox	e2dmsA1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Homeobox	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00046	Homeodomain (Homeodomain)	Homeodomain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Homeobox protein OTX2	transcription regulator activity DNA-binding transcription factor activity DNA-binding transcription factor activity, RNA polymerase II-specific DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding cis-regulatory region sequence-specific DNA binding transcription regulatory region nucleic acid binding	multicellular organismal process cellular developmental process sensory organ development photoreceptor cell differentiation visual system development eye morphogenesis multicellular organism development neurogenesis neuron differentiation cell differentiation eye photoreceptor cell differentiation photoreceptor cell fate commitment anatomical structure development animal organ morphogenesis multicellular organismal process cellular developmental process sensory organ development photoreceptor cell differentiation visual system development eye morphogenesis multicellular organism development neurogenesis neuron differentiation cell differentiation eye photoreceptor cell differentiation photoreceptor cell fate commitment anatomical structure development animal organ morphogenesis sensory system development system development developmental process eye photoreceptor cell fate commitment eye development neuron fate commitment animal organ development nervous system development generation of neurons anatomical structure morphogenesis sensory organ morphogenesis cellular process cell fate commitment head development brain development central nervous system development midbrain development cell fate specification neuron fate specification brain morphogenesis forebrain development diencephalon morphogenesis diencephalon development forebrain morphogenesis gliogenesis oligodendrocyte differentiation glial cell differentiation ear morphogenesis embryonic organ morphogenesis ear development embryonic morphogenesis embryo development inner ear development inner ear morphogenesis embryonic organ development regulation of embryonic development regulation of multicellular organismal development regulation of biological process regulation of gastrulation regulation of developmental process biological regulation positive regulation of biological process positive regulation of gastrulation gastrulation positive regulation of developmental process positive regulation of embryonic development positive regulation of multicellular organismal process regulation of multicellular organismal process regulation of anatomical structure morphogenesis dorsal/ventral pattern formation pattern specification process regionalization endoderm development tissue development cell fate determination neuron fate determination telencephalon regionalization forebrain regionalization telencephalon development regulation of cellular process 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 positive regulation of cellular 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 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 glandular epithelial cell differentiation epithelium development columnar/cuboidal epithelial cell differentiation epithelial cell differentiation transcription by RNA polymerase II regulation of transcription by RNA polymerase II mesendoderm development mesoderm development neuroepithelial cell differentiation dopaminergic neuron differentiation metencephalon development hindbrain development positive regulation of transcription by RNA polymerase II anterior/posterior pattern specification response to peptide response to stimulus response to chemical response to cytokine response to leukemia inhibitory factor cellular response to cytokine stimulus cellular response to leukemia inhibitory factor primitive streak formation anterior/posterior axis specification gastrulation with mouth forming second anatomical structure formation involved in morphogenesis axis specification somitogenesis embryonic pattern specification chordate embryonic development somite rostral/caudal axis specification segmentation embryonic axis specification embryo development ending in birth or egg hatching somite development	protein-containing complex transcription regulator complex cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle protein-containing complex transcription regulator complex cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR017970	Homeobox, conserved site	Conserved Site
A	IPR013851	Transcription factor Otx, C-terminal	Domain
A	IPR003022	Transcription factor Otx2	Family
A	IPR009057	Homedomain-like superfamily	Homologous Superfamily
A	IPR003025	Transcription factor Otx	Family
A	IPR001356	Homeodomain	Domain

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.