6PAX

CRYSTAL STRUCTURE OF THE HUMAN PAX-6 PAIRED DOMAIN-DNA COMPLEX REVEALS A GENERAL MODEL FOR PAX PROTEIN-DNA INTERACTIONS

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)
C [auth A]	d6paxa1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Homeodomain-like	Paired domain	Pax-6	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)
C [auth A]	SCOP2 Family	Paired domain	8002432	4000325	SCOP2 (2022-06-29)
C [auth A]	SCOP2 Superfamily	Homeodomain-like	8002435	3000001	SCOP2 (2022-06-29)
C [auth A]	SCOP2 Superfamily	Homeodomain-like	8002433	3000001	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C [auth A]	PAX_C	e6paxA2	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: PAX_C	ECOD (1.6)
C [auth A]	PAX_N	e6paxA1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: PAX_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth A]	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth A]	PF00292	'Paired box' domain (PAX)	'Paired box' domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B]	26 NUCLEOTIDE DNA	-	-	-
B [auth C]	26 NUCLEOTIDE DNA	-	-	-
C [auth A]	HOMEOBOX PROTEIN PAX-6	DNA binding binding nucleic acid binding DNA secondary structure binding minor groove of adenine-thymine-rich DNA binding protein binding HMG box domain binding protein domain specific binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding sequence-specific DNA binding double-stranded DNA binding core promoter sequence-specific DNA binding DNA binding binding nucleic acid binding DNA secondary structure binding minor groove of adenine-thymine-rich DNA binding protein binding HMG box domain binding protein domain specific binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding sequence-specific DNA binding double-stranded DNA binding core promoter sequence-specific DNA binding RNA polymerase II core promoter sequence-specific DNA binding RNA polymerase II transcription regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity kinase binding protein kinase binding chromatin binding chromatin DNA binding histone acetyltransferase binding SMAD binding R-SMAD binding co-SMAD binding transcription factor binding transcription coregulator binding DNA-binding transcription repressor activity, RNA polymerase II-specific DNA-binding transcription repressor activity cis-regulatory region sequence-specific DNA binding RNA polymerase II cis-regulatory region sequence-specific DNA binding RNA binding	developmental process multicellular organismal process gland development animal organ development salivary gland development anatomical structure morphogenesis multicellular organism development gland morphogenesis salivary gland morphogenesis anatomical structure development animal organ morphogenesis exocrine system development system development dorsal/ventral pattern formation developmental process multicellular organismal process gland development animal organ development salivary gland development anatomical structure morphogenesis multicellular organism development gland morphogenesis salivary gland morphogenesis anatomical structure development animal organ morphogenesis exocrine system development system development dorsal/ventral pattern formation dorsal/ventral axis specification pattern specification process axis specification regionalization head development forebrain development brain development diencephalon development nervous system development central nervous system development habenula development epithalamus development sensory organ development eye development visual system development camera-type eye development sensory system development lens development in camera-type eye protein localization localization cellular localization protein localization to organelle cellular macromolecule localization macromolecule localization cellular process cerebellum development metencephalon development hindbrain development response to fibroblast growth factor cellular response to endogenous stimulus cellular response to growth factor stimulus response to stimulus response to endogenous stimulus response to growth factor cellular response to fibroblast growth factor stimulus regulation of biological process regulation of cellular process regulation of asymmetric cell division biological regulation cell division asymmetric cell division regulation of cell division positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of miRNA transcription positive regulation of miRNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process positive regulation of metabolic process regulation of RNA metabolic process miRNA transcription positive regulation of biosynthetic process regulation of miRNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process miRNA metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process positive regulation of nucleobase-containing compound metabolic 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 regulation of miRNA transcription cellular response to stimulus response to ketone response to prostaglandin response to lipid response to alcohol cellular response to prostaglandin stimulus response to oxygen-containing compound cellular response to oxygen-containing compound cellular response to prostaglandin E stimulus cellular response to chemical stimulus cellular response to alcohol response to hormone response to chemical cellular response to lipid response to prostaglandin E cellular response to ketone cellular response to hormone stimulus establishment of organelle localization microtubule cytoskeleton organization spindle localization establishment or maintenance of cell polarity mitotic cell cycle cellular component organization establishment of mitotic spindle localization establishment of spindle localization establishment of spindle orientation organelle localization establishment of localization in cell cell cycle cellular component organization or biogenesis microtubule cytoskeleton organization involved in mitosis cell cycle process establishment of localization establishment of cell polarity organelle organization mitotic cell cycle process establishment of mitotic spindle orientation microtubule-based process cytoskeleton organization camera-type eye morphogenesis eye morphogenesis sensory organ morphogenesis iris morphogenesis response to stress response to wounding signaling cell communication signal transduction involved in regulation of gene expression signal transduction cellular response to xenobiotic stimulus response to xenobiotic stimulus regulation of developmental process cellular developmental process negative regulation of biological process cell development regulation of cell differentiation regulation of neurogenesis regulation of cell development regulation of nervous system development negative regulation of neurogenesis neurogenesis cell differentiation negative regulation of cellular process negative regulation of nervous system development regulation of multicellular organismal process negative regulation of cell differentiation regulation of multicellular organismal development negative regulation of developmental process negative regulation of cell development negative regulation of multicellular organismal process vasculature development blood vessel development circulatory system development epithelium development endocrine system development tissue development epithelial cell differentiation pancreas development endocrine pancreas development enteroendocrine cell differentiation type B pancreatic cell differentiation 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 epithelial cell development pancreatic A cell development pancreatic A cell differentiation regulation of development, heterochronic regulation of timing of cell differentiation homeostatic process cellular response to glucose stimulus intracellular glucose homeostasis response to hexose cellular response to carbohydrate stimulus cellular homeostasis response to monosaccharide response to carbohydrate chemical homeostasis response to glucose glucose homeostasis carbohydrate homeostasis cellular response to hexose stimulus intracellular chemical homeostasis cellular response to monosaccharide stimulus neuron migration generation of neurons cell migration sensory neuron migration cell motility photoreceptor cell differentiation neuron differentiation eye photoreceptor cell differentiation photoreceptor cell development eye photoreceptor cell development neuron development forebrain-midbrain boundary formation neural tube development tube development chordate embryonic development anterior/posterior pattern specification formation of anatomical boundary embryo development embryo development ending in birth or egg hatching rostrocaudal neural tube patterning neural tube patterning anatomical structure formation involved in morphogenesis cell fate determination cell fate commitment regulation of cell fate commitment cell fate specification positive regulation of developmental process positive regulation of cell differentiation regulation of cell fate specification positive regulation of cell fate specification positive regulation of cell fate commitment olfactory lobe development olfactory bulb mitral cell layer development olfactory bulb development telencephalon development spinal cord development ventral spinal cord development axonogenesis cell projection organization plasma membrane bounded cell projection morphogenesis neuron projection development cell morphogenesis cell projection morphogenesis neuron projection morphogenesis plasma membrane bounded cell projection organization axon guidance axon development cell morphogenesis involved in neuron differentiation neuron projection guidance forebrain dorsal/ventral pattern formation forebrain regionalization cellular response to nitrogen compound response to peptide hormone cellular response to peptide hormone stimulus response to nitrogen compound response to insulin cellular response to insulin stimulus rhombomere morphogenesis rhombomere development lacrimal gland development regulation of neuron projection development regulation of cellular component organization regulation of cell projection organization regulation of plasma membrane bounded cell projection organization chromatin organization chromatin remodeling negative regulation of neuron differentiation regulation of neuron differentiation neuroblast proliferation cell population proliferation neural precursor cell proliferation regulation of epithelial cell differentiation positive regulation of epithelial cell differentiation cornea development in camera-type eye positive regulation of gene expression retina development in camera-type eye negative regulation of neural precursor cell proliferation regulation of neuroblast proliferation negative regulation of neuroblast proliferation regulation of neural precursor cell proliferation negative regulation of cell population proliferation regulation of cell population proliferation pituitary gland development regulation of glutamatergic neuron differentiation positive regulation of neuron differentiation positive regulation of glutamatergic neuron differentiation glutamatergic neuron differentiation embryonic eye morphogenesis embryonic camera-type eye development embryonic organ development embryonic organ morphogenesis embryonic morphogenesis embryonic camera-type eye morphogenesis telencephalon regionalization cerebral cortex regionalization pallium development cerebral cortex development transport nuclear migration cell proliferation in forebrain nucleus localization intracellular transport interkinetic nuclear migration regulation of epithelial cell proliferation epithelial cell proliferation negative regulation of epithelial cell proliferation positive regulation of transcription by RNA polymerase II epidermal cell differentiation epidermis development skin development keratinocyte differentiation cell surface receptor signaling pathway smoothened signaling pathway glial cell fate specification gliogenesis glial cell differentiation oligodendrocyte differentiation glial cell fate commitment oligodendrocyte cell fate commitment oligodendrocyte cell fate specification protein metabolic process insulin metabolic process positive regulation of locomotion regulation of cell motility regulation of neuron migration positive regulation of cell migration positive regulation of cell motility regulation of cell migration locomotion regulation of locomotion positive regulation of neuron migration stem cell development neural crest cell differentiation neural crest cell development mesenchyme development mesenchymal cell migration stem cell differentiation ameboidal-type cell migration mesenchymal cell differentiation neural crest cell migration neuron fate commitment response to ethanol astrocyte differentiation commitment of neuronal cell to specific neuron type in forebrain forebrain neuron fate commitment central nervous system neuron differentiation forebrain generation of neurons forebrain neuron differentiation sensory perception of light stimulus system process sensory perception nervous system process visual perception behavior learning or memory learned vocalization behavior or vocal learning cognition positive regulation of nervous system development positive regulation of cell population proliferation positive regulation of neurogenesis positive regulation of cell development positive regulation of neural precursor cell proliferation positive regulation of multicellular organismal process positive regulation of neuroblast proliferation regulation of molecular function positive regulation of molecular function regulation of DNA binding regulation of binding positive regulation of transcription regulatory region DNA binding regulation of transcription regulatory region DNA binding positive regulation of core promoter binding positive regulation of binding positive regulation of DNA binding response to peptide response to cytokine response to leukemia inhibitory factor cellular response to cytokine stimulus cellular response to leukemia inhibitory factor	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A]	IPR009057	Homedomain-like superfamily	Homologous Superfamily
C [auth A]	IPR001356	Homeodomain	Domain
C [auth A]	IPR017970	Homeobox, conserved site	Conserved Site
C [auth A]	IPR001523	Paired domain	Domain
C [auth A]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
C [auth A]	IPR043182	Paired DNA-binding domain	Domain
C [auth A]	IPR043565	PAX family	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth A]	Pharos: P26367	WAGR syndrome aniridia coloboma of optic nerve coloboma autosomal dominant keratitis Peters anomaly foveal hypoplasia-presenile cataract syndrome isolated optic nerve hypoplasia intellectual disability melanoma microphthalmia foveal hypoplasia 1 Axenfeld-Rieger syndrome type 1 Craniofacial Abnormalities optic nerve disease WAGR syndrome aniridia coloboma of optic nerve coloboma autosomal dominant keratitis Peters anomaly foveal hypoplasia-presenile cataract syndrome isolated optic nerve hypoplasia intellectual disability melanoma microphthalmia foveal hypoplasia 1 Axenfeld-Rieger syndrome type 1 Craniofacial Abnormalities optic nerve disease aniridia 1 prostate cancer coloboma, ocular, autosomal dominant morning glory syndrome Foster-Kennedy syndrome aniridia-cerebellar ataxia-intellectual disability syndrome type 2 diabetes mellitus malignant ependymoma central nervous system malformation maturity-onset diabetes of the young endogenous depression pilocytic astrocytoma atypical teratoid rhabdoid tumor glioblastoma uveal disease bipolar disorder cataract 9 multiple types malignant mesothelioma medulloblastoma coloboma of macula aniridia 2 pituitary cancer anterior segment dysgenesis 7 gastric cancer autism hereditary diffuse gastric adenocarcinoma breast cancer large cell medulloblastoma coloboma of eyelid coloboma of optic disc corneal disease cutaneous melanoma gastric neoplasm schizophrenia autism spectrum disorder cataract

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.