6PAX | pdb_00006pax

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]	Pox_D5	e6paxA1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Pox_D5	ECOD (v294.1)
C [auth A]	Val_tRNA-synt_C	e6paxA2	A: a/b three-layered sandwiches	X: Long alpha-hairpin	H: tRNA-binding arm	T: tRNA-binding arm	F: Val_tRNA-synt_C	ECOD (v294.1)

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	SMAD binding protein binding binding R-SMAD binding DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding co-SMAD binding transcription factor binding transcription coregulator binding SMAD binding protein binding binding R-SMAD binding DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding co-SMAD binding transcription factor binding transcription coregulator binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity HMG box domain binding protein domain specific binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme 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 DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity 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 kinase binding protein kinase binding chromatin binding chromatin DNA binding histone acetyltransferase binding	multicellular organismal process regulation of cellular process regulation of developmental process cellular developmental process negative regulation of biological process regulation of cell differentiation neurogenesis multicellular organism development neuron differentiation cell differentiation negative regulation of cellular process anatomical structure development negative regulation of cell differentiation system development multicellular organismal process regulation of cellular process regulation of developmental process cellular developmental process negative regulation of biological process regulation of cell differentiation neurogenesis multicellular organism development neuron differentiation cell differentiation negative regulation of cellular process anatomical structure development negative regulation of cell differentiation system development developmental process regulation of biological process negative regulation of developmental process biological regulation nervous system development generation of neurons cellular process negative regulation of neuron differentiation regulation of neuron differentiation neuroblast proliferation cell population proliferation neural precursor cell proliferation gland development animal organ development salivary gland development anatomical structure morphogenesis gland morphogenesis salivary gland morphogenesis animal organ morphogenesis exocrine system development head development central nervous system development brain development dorsal/ventral pattern formation dorsal/ventral axis specification pattern specification process axis specification regionalization positive regulation of biological process epithelial cell differentiation regulation of epithelial cell differentiation positive regulation of developmental process positive regulation of cell differentiation regulation of multicellular organismal process positive regulation of cellular process epithelium development regulation of multicellular organismal development positive regulation of epithelial cell differentiation tissue development forebrain development diencephalon development habenula development epithalamus development sensory organ development eye development visual system development cornea development in camera-type eye camera-type eye development sensory system development lens development in camera-type eye regulation of biosynthetic 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 retina development in camera-type eye negative regulation of neural precursor cell proliferation regulation of neuroblast proliferation cell development regulation of neurogenesis regulation of cell development negative regulation of neuroblast proliferation regulation of nervous system development negative regulation of neurogenesis negative regulation of nervous system development regulation of neural precursor cell proliferation negative regulation of cell population proliferation negative regulation of cell development regulation of cell population proliferation negative regulation of multicellular organismal process regulation of asymmetric cell division cell division asymmetric cell division regulation of cell division regulation of cell motility regulation of locomotion regulation of cell migration cell migration cell motility locomotion endocrine system development pituitary gland development positive regulation of DNA-templated transcription RNA metabolic process positive regulation of miRNA transcription positive regulation of miRNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process miRNA transcription regulation of miRNA metabolic process regulation of nucleobase-containing compound metabolic process miRNA metabolic process regulation of RNA biosynthetic process primary metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription regulation of miRNA transcription cell fate commitment involved in pattern specification cell differentiation in spinal cord central nervous system neuron differentiation spinal cord development ventral spinal cord interneuron specification ventral spinal cord interneuron differentiation neuron fate specification neuron fate commitment cell fate specification involved in pattern specification spinal cord dorsal/ventral patterning cell fate specification ventral spinal cord interneuron fate commitment spinal cord patterning ventral spinal cord development cell fate commitment establishment of organelle localization cellular localization microtubule cytoskeleton organization spindle localization establishment or maintenance of cell polarity mitotic cell cycle cellular component organization localization 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 stimulus response to stress response to wounding cellular response to stimulus signaling cell communication signal transduction involved in regulation of gene expression signal transduction embryonic eye morphogenesis embryo development 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 forebrain regionalization telencephalon development vasculature development blood vessel development circulatory system development 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 regulation of epithelial cell proliferation epithelial cell proliferation negative regulation of epithelial cell proliferation positive regulation of transcription by RNA polymerase II chemical homeostasis homeostatic process glucose homeostasis carbohydrate homeostasis epithelial cell development pancreatic A cell development pancreatic A cell differentiation regulation of development, heterochronic regulation of timing of cell differentiation 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 spinal cord motor neuron cell fate specification spinal cord motor neuron differentiation somatic motor neuron fate commitment somatic motor neuron differentiation photoreceptor cell 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 ending in birth or egg hatching rostrocaudal neural tube patterning neural tube patterning anatomical structure formation involved in morphogenesis cell fate determination astrocyte differentiation 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 commitment of neuronal cell to specific neuron type in forebrain forebrain neuron fate commitment forebrain generation of neurons forebrain neuron differentiation forebrain dorsal/ventral pattern formation sensory perception of light stimulus system process sensory perception nervous system process visual perception neuron migration lacrimal gland development 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 response to peptide response to chemical response to cytokine response to leukemia inhibitory factor cellular response to cytokine stimulus cellular response to leukemia inhibitory factor chromatin organization chromatin remodeling	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]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
C [auth A]	IPR001356	Homeodomain	Domain
C [auth A]	IPR017970	Homeobox, conserved site	Conserved Site
C [auth A]	IPR043182	Paired DNA-binding site	Conserved Site
C [auth A]	IPR043565	PAX family	Family
C [auth A]	IPR001523	Paired domain	Domain

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 central nervous system malformation malignant ependymoma maturity-onset diabetes of the young pilocytic astrocytoma endogenous depression atypical teratoid rhabdoid tumor glioblastoma uveal disease bipolar disorder cataract 9 multiple types malignant mesothelioma coloboma of macula medulloblastoma aniridia 2 pituitary cancer anterior segment dysgenesis 7 autism gastric cancer hereditary diffuse gastric adenocarcinoma breast cancer large cell medulloblastoma coloboma of eyelid coloboma of optic disc corneal disease cutaneous melanoma schizophrenia autism spectrum disorder gastric neoplasm 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.