Annotations: 8BX1

Oct4/Sox2 protein:DNA complex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth A]	SCOP2B Superfamily	Homeodomain-like	8057615	3000001	SCOP2B (2022-06-29)
A [auth E]	SCOP2B Superfamily	HMG-box	8042275	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)
D [auth A]	MIF4G	e8bx1A1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)
A [auth E]	MIF4G	e8bx1E1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: MIF4G	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D [auth A]	PF00157	Pou domain - N-terminal to homeobox domain (Pou)	Pou domain - N-terminal to homeobox domain		Domain
A [auth E]	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
D [auth A]	POU domain, class 5, transcription factor 1	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 cis-regulatory region sequence-specific DNA binding histone reader activity histone H3K56ac reader activity 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 cis-regulatory region sequence-specific DNA binding histone reader activity histone H3K56ac reader activity histone H3 reader activity chromatin-protein adaptor activity protein-macromolecule adaptor activity molecular adaptor activity nuclear receptor activity molecular transducer activity signaling receptor activity ligand-modulated transcription factor activity protein binding HMG box domain binding protein domain specific binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity POU domain binding DNA-binding transcription repressor activity, RNA polymerase II-specific DNA-binding transcription repressor activity transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding RNA polymerase II transcription regulatory region sequence-specific DNA binding RNA polymerase II cis-regulatory region sequence-specific DNA binding chromatin binding regulatory RNA binding RNA binding miRNA binding cytokine binding chromatin DNA binding RNA polymerase II intronic transcription regulatory region sequence-specific DNA binding intronic transcription regulatory region sequence-specific DNA binding	developmental process multicellular organismal process germ-line stem cell population maintenance maintenance of cell number stem cell population maintenance 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 developmental process multicellular organismal process germ-line stem cell population maintenance maintenance of cell number stem cell population maintenance 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 cellular process positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular process developmental growth chordate embryonic development growth embryo development in utero embryonic development multicellular organism development embryo development ending in birth or egg hatching anatomical structure development blastocyst growth blastocyst development regulation of asymmetric cell division cell division asymmetric cell division regulation of cell division regulation of localization regulated exocytosis transport regulation of calcium ion-dependent exocytosis negative regulation of biological process negative regulation of transport negative regulation of regulated secretory pathway vesicle-mediated transport regulation of regulated secretory pathway localization secretion by cell regulation of secretion by cell negative regulation of secretion negative regulation of exocytosis negative regulation of cellular process negative regulation of secretion by cell calcium-ion regulated exocytosis secretion regulation of transport negative regulation of calcium ion-dependent exocytosis export from cell regulation of vesicle-mediated transport establishment of localization regulation of secretion exocytosis regulation of exocytosis RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process primary metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process regulation of DNA-templated transcription response to stimulus response to chemical response to benzoic acid response to oxygen-containing compound cellular developmental process cell differentiation cell fate commitment cellular response to stimulus regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction signaling negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of signal transduction intracellular signal transduction negative regulation of cell communication cell communication regulation of intracellular signal transduction intracellular signaling cassette signal transduction regulation of signaling negative regulation of response to stimulus negative regulation of signal transduction regulation of response to stimulus regulation of cell communication phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of developmental process negative regulation of developmental process regulation of cell differentiation negative regulation of 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 formation of primary germ layer embryonic morphogenesis tissue development gastrulation cell fate commitment involved in formation of primary germ layer anatomical structure morphogenesis endoderm development anatomical structure formation involved in morphogenesis endoderm formation endodermal cell fate commitment endodermal cell differentiation 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 response to retinoic acid response to lipid trophectodermal cell differentiation blastocyst formation telomere organization chromosome organization DNA metabolic process telomere maintenance cellular component organization organelle organization cellular component organization or biogenesis mesodermal cell differentiation mesoderm morphogenesis tissue morphogenesis mesodermal cell fate commitment mesoderm formation mesoderm development regulation of DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter positive regulation of transcription initiation by RNA polymerase II DNA-templated transcription initiation positive regulation of DNA-templated transcription initiation regulation of transcription initiation by RNA polymerase II endodermal cell fate specification cell fate specification negative regulation of gene expression ectodermal cell fate commitment ectoderm formation ectoderm development ectodermal cell differentiation stem cell differentiation 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 protein-containing complex transcription regulator complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle mitochondrion cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle mitochondrion intracellular membrane-bounded organelle nucleus membrane-enclosed lumen nucleolus intracellular organelle lumen organelle lumen nuclear lumen nucleoplasm transcription repressor complex
C	HOXB1_f	-	-	-
B [auth D]	HOXB1_r	-	-	-
A [auth E]	Transcription factor SOX-2	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 nitric-oxide synthase binding protein binding enzyme 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 nitric-oxide synthase binding protein binding enzyme binding DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding 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 chromatin binding regulatory RNA binding RNA binding miRNA binding chromatin DNA 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 cell fate specification cell fate commitment camera-type eye morphogenesis sensory organ development eye development animal organ development developmental induction visual system development eye morphogenesis anatomical structure morphogenesis lens morphogenesis in camera-type eye sensory organ morphogenesis lens induction in camera-type eye camera-type eye development animal organ morphogenesis sensory system development lens development in camera-type eye head development forebrain development endocrine system development pituitary gland development gland development brain development diencephalon development central nervous system development adenohypophysis development regulation of multicellular organismal development cell development regulation of neurogenesis regulation of cell development regulation of nervous system development regulation of multicellular organismal process positive regulation of biological process epithelial cell differentiation regulation of epithelial cell differentiation positive regulation of developmental process positive regulation of cell differentiation positive regulation of cellular process epithelium development positive regulation of epithelial cell differentiation tissue development brain morphogenesis diencephalon morphogenesis forebrain morphogenesis tongue development ear development inner ear development regulation of biosynthetic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process cellular response to stimulus response to stimulus signaling negative regulation of signaling regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway regulation of signal transduction negative regulation of cell communication cell communication negative regulation of Wnt signaling pathway signal transduction Wnt signaling pathway regulation of signaling cell surface receptor signaling pathway regulation of Wnt signaling pathway negative regulation of response to stimulus negative regulation of signal transduction negative regulation of canonical Wnt signaling pathway regulation of response to stimulus regulation of cell communication genitalia development reproductive system development reproductive process sex differentiation developmental process involved in reproduction male sex differentiation male genitalia development reproductive structure development embryonic organ development embryo development pallium development cerebral cortex development telencephalon development response to decreased oxygen levels response to nutrient levels response to oxygen levels response to abiotic stimulus response to oxygen-glucose deprivation RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process primary metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process regulation of DNA-templated transcription maintenance of cell number stem cell population maintenance anatomical structure formation involved in morphogenesis system process sensory perception nervous system process sensory perception of sound sensory perception of mechanical stimulus somatic stem cell population maintenance 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 cellular response to metal ion cellular response to chemical stimulus response to metal ion response to chemical cellular response to cadmium ion response to cadmium ion positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process neuronal stem cell population maintenance ossification osteoblast differentiation ear morphogenesis embryonic organ morphogenesis embryonic morphogenesis inner ear morphogenesis regulation of osteoblast differentiation negative regulation of osteoblast differentiation regulation of myofibroblast cell apoptotic process regulation of apoptotic process myofibroblast cell apoptotic process regulation of programmed cell death cell death apoptotic process programmed cell death branching morphogenesis of an epithelial tube respiratory tube development tube morphogenesis lung morphogenesis lung development respiratory system development epithelial tube morphogenesis tube development morphogenesis of an epithelium tissue morphogenesis morphogenesis of a branching structure epithelial tube branching involved in lung morphogenesis morphogenesis of a branching epithelium positive regulation of cell adhesion regulation of cell adhesion positive regulation of cell-cell adhesion cell adhesion cell-cell adhesion regulation of cell-cell adhesion response to retinoic acid response to lipid response to oxygen-containing compound forebrain generation of neurons central nervous system neuron differentiation forebrain neuron differentiation neuron fate commitment detection of external stimulus detection of mechanical stimulus involved in sensory perception of sound response to mechanical stimulus response to external stimulus detection of mechanical stimulus involved in sensory perception detection of abiotic stimulus detection of stimulus detection of mechanical stimulus detection of stimulus involved in sensory perception positive regulation of cell communication positive regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade MAPK cascade positive regulation of signaling positive regulation of neuron differentiation retina development in camera-type eye retina morphogenesis in camera-type eye pigment metabolic process pigment biosynthetic process response to endogenous stimulus response to growth factor neuromuscular process detection of mechanical stimulus involved in equilibrioception equilibrioception neuromuscular process controlling balance formation of primary germ layer endodermal cell fate specification gastrulation cell fate commitment involved in formation of primary germ layer endoderm development endoderm formation endodermal cell fate commitment endodermal cell differentiation olfactory placode morphogenesis ectodermal placode morphogenesis nose development olfactory placode formation ectodermal placode formation olfactory placode development ectodermal placode development regulation of cell cycle phase transition regulation of cell cycle process negative regulation of cell cycle G1/S phase transition negative regulation of cell cycle cell cycle phase transition regulation of cell cycle G1/S phase transition negative regulation of cell cycle process cell cycle G1/S phase transition negative regulation of cell cycle phase transition cell cycle regulation of cell cycle cell cycle process Notch signaling pathway regulation of Notch signaling pathway positive regulation of Notch signaling pathway stem cell differentiation neuroblast proliferation positive regulation of nervous system development positive regulation of cell population proliferation regulation of neuroblast proliferation positive regulation of neurogenesis regulation of neural precursor cell proliferation cell population proliferation positive regulation of cell development positive regulation of neural precursor cell proliferation regulation of cell population proliferation positive regulation of multicellular organismal process positive regulation of neuroblast proliferation neural precursor cell proliferation lung alveolus development	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle nucleus cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator complex 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
D [auth A]	IPR013847	POU domain	Domain
D [auth A]	IPR009057	Homedomain-like superfamily	Homologous Superfamily
D [auth A]	IPR001356	Homeodomain	Domain
D [auth A]	IPR000327	POU-specific domain	Domain
D [auth A]	IPR017970	Homeobox, conserved site	Conserved Site
D [auth A]	IPR050255	POU domain transcription factor	Family
D [auth A]	IPR010982	Lambda repressor-like, DNA-binding domain superfamily	Homologous Superfamily
A [auth E]	IPR036910	High mobility group box domain superfamily	Homologous Superfamily
A [auth E]	IPR022097	Transcription factor SOX	Family
A [auth E]	IPR050140	SRY-related HMG-box transcription factor-like	Family
A [auth E]	IPR009071	High mobility group box domain	Domain

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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.