9BVD | pdb_00009bvd

Crystal structure of SRY HMG box bound to DNA

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
G [auth I]	SCOP2B Superfamily	HMG-box	8036768	3001368	SCOP2B (2022-06-29)
D [auth F]	SCOP2B Superfamily	HMG-box	8036768	3001368	SCOP2B (2022-06-29)
A [auth C]	SCOP2B Superfamily	HMG-box	8036768	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)
A [auth C]	Prismane	e9bvdC01	A: a/b three-layered sandwiches	X: ATP-grasp_6	H: ATP-grasp_6	T: ATP-grasp_6	F: Prismane	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth C], D [auth F], G [auth I]	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
C [auth B], F [auth E], I [auth H]	DNA (5'-D(GPCPCPCPAPAPAPCPAPAPTPGPCPTPAPGPTPG)-3')	-	-	-
B [auth A], E [auth D], H [auth G]	DNA (5'-D(CPAPCPTPAPGPCPAPTPTPGPTPTPTPGPGP*G)-3')	-	-	-
A [auth C], D [auth F], G [auth I]	Sex-determining region Y protein	DNA binding binding nucleic acid binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity transcription factor binding protein binding DNA-binding transcription factor binding sequence-specific DNA binding double-stranded DNA binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding DNA binding binding nucleic acid binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity transcription factor binding protein binding DNA-binding transcription factor binding sequence-specific DNA binding double-stranded DNA binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding calmodulin binding DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity	developmental process cellular developmental process cell differentiation cellular process reproductive process sex differentiation developmental process involved in reproduction multicellular organism development multicellular organismal process sex determination male sex determination anatomical structure development regulation of biosynthetic process regulation of biological process developmental process cellular developmental process cell differentiation cellular process reproductive process sex differentiation developmental process involved in reproduction multicellular organism development multicellular organismal process sex determination male sex determination anatomical structure development 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 positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular process positive regulation of DNA-templated transcription 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 positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription regulation of developmental process regulation of gonad development regulation of reproductive process male gonad development positive regulation of developmental process male sex differentiation development of primary male sexual characteristics development of primary sexual characteristics positive regulation of male gonad development reproductive structure development regulation of multicellular organismal process regulation of male gonad development system development positive regulation of reproductive process gonad development reproductive system development animal organ development positive regulation of gonad development positive regulation of multicellular organismal process transcription by RNA polymerase II regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule intracellular organelle nuclear body cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule intracellular organelle nuclear body cellular anatomical structure nucleoplasm organelle lumen organelle membraneless organelle supramolecular complex nuclear ribonucleoprotein granule nuclear lumen cytoplasm chromatin chromosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C], D [auth F], G [auth I]	IPR050140	SRY-related HMG-box transcription factor-like	Family
A [auth C], D [auth F], G [auth I]	IPR017253	Transcription factor SRY	Family
A [auth C], D [auth F], G [auth I]	IPR009071	High mobility group box domain	Domain
A [auth C], D [auth F], G [auth I]	IPR036910	High mobility group box domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth C], D [auth F], G [auth I]	Pharos: Q05066	46,XY complete gonadal dysgenesis 46,XX sex reversal 1 46,XX ovotesticular disorder of sex development 46,XY sex reversal 1 46,XY partial gonadal dysgenesis gonadal dysgenesis mixed gonadal dysgenesis True Hermaphroditism (disorder) intellectual disability 46,XX testicular disorder of sex development large cell medulloblastoma

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.