6T78 | pdb_00006t78

Structure of human Sox11 transcription factor in complex with a short DNA fragment

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	HMG-box	8094839	3001368	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	HMG-box	8094839	3001368	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)
B	HMG_box	e6t78B1	A: alpha arrays	X: HMG-box (From Topology)	H: HMG-box (From Topology)	T: HMG-box	F: HMG_box	ECOD (1.6)
A	HMG_box	e6t78A1	A: alpha arrays	X: HMG-box (From Topology)	H: HMG-box (From Topology)	T: HMG-box	F: HMG_box	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.10.30.10	Mainly Alpha	Orthogonal Bundle	DNA Binding (I), subunit A	High mobility group box domain	CATH (utative)
A	1.10.30.10	Mainly Alpha	Orthogonal Bundle	DNA Binding (I), subunit A	High mobility group box domain	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00505	HMG (high mobility group) box (HMG_box)	HMG (high mobility group) box		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Transcription factor SOX-11	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 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 RNA polymerase II transcription regulatory region sequence-specific DNA binding 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 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 RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding RNA polymerase II cis-regulatory region sequence-specific DNA binding	developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development heart development cardiac chamber morphogenesis heart morphogenesis ventricular septum development developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development heart development cardiac chamber morphogenesis heart morphogenesis ventricular septum development circulatory system development anatomical structure morphogenesis cardiac septum development cardiac septum morphogenesis ventricular septum morphogenesis cardiac chamber development animal organ morphogenesis cardiac ventricle development positive regulation of cell communication regulation of localization regulation of cellular process regulation of hormone secretion signaling transport positive regulation of biological process positive regulation of secretion by cell hormone secretion cell communication localization positive regulation of hormone secretion regulation of secretion by cell secretion by cell positive regulation of secretion signal release regulation of biological quality positive regulation of cellular process regulation of signaling regulation of biological process regulation of transport secretion regulation of hormone levels biological regulation export from cell cell-cell signaling establishment of localization regulation of secretion positive regulation of transport regulation of cell communication hormone transport cellular process positive regulation of signaling tube development respiratory tube development lung morphogenesis lung development respiratory system development sensory organ development eye development visual system development cornea development in camera-type eye camera-type eye development sensory system development cellular developmental process regulation of developmental process negative regulation of biological process cell development regulation of neurogenesis regulation of cell differentiation regulation of gliogenesis negative regulation of glial cell proliferation regulation of cell development regulation of nervous system development neurogenesis negative regulation of neurogenesis regulation of glial cell proliferation gliogenesis cell differentiation negative regulation of cellular process regulation of multicellular organismal process negative regulation of nervous system development negative regulation of cell differentiation regulation of multicellular organismal development negative regulation of cell population proliferation cell population proliferation negative regulation of developmental process negative regulation of gliogenesis negative regulation of cell development regulation of cell population proliferation glial cell proliferation negative regulation of multicellular organismal process 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 positive regulation of cell population proliferation positive regulation of lens epithelial cell proliferation lens epithelial cell proliferation epithelial cell proliferation positive regulation of epithelial cell proliferation regulation of lens epithelial cell proliferation regulation of epithelial cell proliferation lens development in camera-type eye hard palate development secondary palate development roof of mouth development sympathetic nervous system development autonomic nervous system development embryonic organ morphogenesis chordate embryonic development embryonic morphogenesis embryo development embryo development ending in birth or egg hatching skeletal system development embryonic skeletal system development skeletal system morphogenesis embryonic organ development embryonic skeletal system morphogenesis regulation of stem cell proliferation positive regulation of stem cell proliferation stem cell proliferation skeletal muscle cell differentiation skeletal muscle tissue development tissue development striated muscle tissue development muscle structure development skeletal muscle organ development muscle tissue development muscle organ development camera-type eye morphogenesis eye morphogenesis sensory organ morphogenesis positive regulation of nervous system development positive regulation of developmental process positive regulation of cell differentiation positive regulation of neurogenesis positive regulation of cell development positive regulation of multicellular organismal process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II 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 primary metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process epithelium development neuroepithelial cell differentiation columnar/cuboidal epithelial cell differentiation epithelial cell differentiation kidney development renal system development 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 generation of neurons noradrenergic neuron differentiation neuron differentiation spinal cord development embryonic eye morphogenesis embryonic camera-type eye development morphogenesis of embryonic epithelium morphogenesis of an epithelium closure of optic fissure morphogenesis of an epithelial sheet embryonic camera-type eye morphogenesis tissue morphogenesis optic cup morphogenesis involved in camera-type eye development embryonic camera-type eye formation anatomical structure formation involved in morphogenesis cellular response to stimulus cellular response to growth factor stimulus cell surface receptor protein serine/threonine kinase signaling pathway response to stimulus cellular response to transforming growth factor beta stimulus regulation of transmembrane receptor protein serine/threonine kinase signaling pathway regulation of signal transduction regulation of transforming growth factor beta receptor signaling pathway cellular response to endogenous stimulus signal transduction enzyme-linked receptor protein signaling pathway cell surface receptor signaling pathway regulation of cellular response to transforming growth factor beta stimulus response to endogenous stimulus regulation of cellular response to growth factor stimulus response to transforming growth factor beta regulation of response to stimulus transforming growth factor beta receptor signaling pathway response to growth factor transforming growth factor beta receptor superfamily signaling pathway hippo signaling positive regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction positive regulation of intracellular signal transduction positive regulation of hippo signaling regulation of hippo signaling negative regulation of lymphocyte proliferation regulation of leukocyte activation regulation of cell activation lymphocyte activation negative regulation of lymphocyte activation leukocyte proliferation leukocyte activation negative regulation of mononuclear cell proliferation negative regulation of leukocyte proliferation lymphocyte proliferation regulation of immune system process regulation of lymphocyte proliferation regulation of leukocyte proliferation cell activation negative regulation of cell activation negative regulation of immune system process mononuclear cell proliferation immune system process regulation of mononuclear cell proliferation negative regulation of leukocyte activation regulation of lymphocyte activation positive regulation of BMP signaling pathway BMP signaling pathway cellular response to BMP stimulus regulation of BMP signaling pathway positive regulation of transmembrane receptor protein serine/threonine kinase signaling pathway response to BMP oligodendrocyte development glial cell development oligodendrocyte differentiation glial cell differentiation positive regulation of neuron differentiation regulation of neuron differentiation regulation of osteoblast differentiation osteoblast differentiation positive regulation of osteoblast differentiation ossification regulation of molecular function regulation of DNA binding regulation of binding negative regulation of binding negative regulation of transcription regulatory region DNA binding negative regulation of molecular function regulation of transcription regulatory region DNA binding negative regulation of DNA binding digestive system development embryonic digestive tract morphogenesis digestive tract development tube morphogenesis digestive tract morphogenesis embryonic digestive tract development positive regulation of ossification regulation of ossification lens morphogenesis in camera-type eye soft palate development eyelid development in camera-type eye negative regulation of gene expression outflow tract morphogenesis	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromatin chromosome cell periphery plasma membrane membrane membrane-bounded organelle nucleus membrane-enclosed lumen intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromatin chromosome cell periphery plasma membrane membrane membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
C, E [auth F]	DNA (5'-D(TPAPTPTPGPTPTPTPAPTPTPTPTPGPTPT)-3')	-	-	-
D, F [auth G]	DNA (5'-D(APAPCPAPAPAPAPTPAPAPAPCPAPAPTPA)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR017386	Transcription factor SOX-12/11/4	Family
A, B	IPR036910	High mobility group box domain superfamily	Homologous Superfamily
A, B	IPR050140	SRY-related HMG-box transcription factor-like	Family
A, B	IPR009071	High mobility group box domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P35716	Coffin-Siris syndrome intellectual disability, autosomal dominant 27 salivary gland adenoid cystic carcinoma adenoid cystic carcinoma intellectual disability Neoplasm Invasiveness ovarian cancer breast cancer glioblastoma large cell medulloblastoma malignant glioma malignant pancreatic neoplasm oligodendroglioma primitive neuroectodermal tumor salivary gland cancer Coffin-Siris syndrome intellectual disability, autosomal dominant 27 salivary gland adenoid cystic carcinoma adenoid cystic carcinoma intellectual disability Neoplasm Invasiveness ovarian cancer breast cancer glioblastoma large cell medulloblastoma malignant glioma malignant pancreatic neoplasm oligodendroglioma primitive neuroectodermal tumor salivary gland cancer astrocytic tumor lung cancer malignant mesothelioma medulloblastoma osteosarcoma psoriasis atypical teratoid rhabdoid tumor ductal breast carcinoma in situ malignant ependymoma

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.