6EDB

Crystal structure of SRY.hcGAS-21bp dsDNA complex

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)
A	SCOP2B Superfamily	PAP/OAS1 substrate-binding domain-like	8055833	3000941	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Nucleotidyltransferase-like	8055835	3000129	SCOP2B (2022-06-29)
B	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	Mab-21_C	e6edbA2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: PAP/OAS1 substrate-binding domain	F: Mab-21_C	ECOD (1.6)
A	Mab-21_N	e6edbA1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: Mab-21_N	ECOD (1.6)
B	HMG_box	e6edbB1	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)
A	1.10.1410.40	Mainly Alpha	Orthogonal Bundle	Poly(a)-polymerase, middle domain		CATH (utative)
A	3.30.460.90	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (utative)
B	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	PF03281	Mab-21 protein nucleotidyltransferase domain (Mab-21)	Mab-21 protein nucleotidyltransferase domain	This family contains Mab-21 and Mab-21 like proteins. In C. elegans these proteins are required for several aspects of embryonic development [2-3].	Domain
A, B	PF20266	Mab-21 protein HhH/H2TH-like domain (Mab-21_C)	Mab-21 protein HhH/H2TH-like domain	This family contains Mab-21 and Mab-21 like proteins. In C. elegans these proteins are required for several aspects of embryonic development [2-3].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Sex-determining region Y protein,Cyclic GMP-AMP synthase	chromatin binding binding molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding organic cyclic compound binding chromatin binding binding molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding organic cyclic compound binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding phosphatidylinositol-4,5-bisphosphate binding phosphatidylinositol bisphosphate binding phospholipid binding lipid binding phosphatidylinositol phosphate binding phosphatidylinositol binding adenyl ribonucleotide binding adenyl nucleotide binding ATP binding DNA binding nucleic acid binding double-stranded DNA binding identical protein binding protein binding protein homodimerization activity protein dimerization activity ADP-D-ribose modification-dependent protein binding poly-ADP-D-ribose modification-dependent protein binding modification-dependent protein binding cyclic GMP-AMP synthase activity transferase activity 2',3'-cyclic GMP-AMP synthase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding metal ion binding protein-containing complex binding nucleosome binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity transcription factor binding DNA-binding transcription factor binding sequence-specific 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	cellular response to stimulus cytoplasmic pattern recognition receptor signaling pathway regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of cellular process pattern recognition receptor signaling pathway response to stimulus regulation of response to external stimulus intracellular receptor signaling pathway signaling positive regulation of biological process response to biotic stimulus intracellular signal transduction cellular response to stimulus cytoplasmic pattern recognition receptor signaling pathway regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of cellular process pattern recognition receptor signaling pathway response to stimulus regulation of response to external stimulus intracellular receptor signaling pathway signaling positive regulation of biological process response to biotic stimulus intracellular signal transduction cell communication positive regulation of response to stimulus immune response-activating signaling pathway positive regulation of response to external stimulus immune response-regulating signaling pathway positive regulation of immune response regulation of response to stress response to stress innate immune response regulation of immune system process response to external biotic stimulus signal transduction positive regulation of immune system process innate immune response-activating signaling pathway regulation of biological process positive regulation of innate immune response defense response immune response response to other organism regulation of innate immune response biological regulation defense response to symbiont response to external stimulus regulation of response to stimulus immune system process defense response to other organism positive regulation of defense response activation of innate immune response regulation of immune response cellular process activation of immune response cellular response to stress DNA damage response regulation of DNA recombination regulation of double-strand break repair regulation of cellular response to stress negative regulation of biological process regulation of primary metabolic process negative regulation of DNA repair nucleobase-containing compound metabolic process negative regulation of double-strand break repair negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process recombinational repair regulation of nucleobase-containing compound metabolic process negative regulation of double-strand break repair via homologous recombination double-strand break repair via homologous recombination DNA repair negative regulation of macromolecule metabolic process double-strand break repair negative regulation of response to stimulus negative regulation of metabolic process DNA recombination primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process regulation of DNA repair regulation of double-strand break repair via homologous recombination negative regulation of DNA recombination metabolic process negative regulation of DNA metabolic process macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process cGMP-mediated signaling intracellular signaling cassette cellular response to nitrogen compound cellular response to dsRNA cellular response to exogenous dsRNA cellular response to organic cyclic compound response to dsRNA response to nitrogen compound response to exogenous dsRNA cellular response to chemical stimulus response to chemical response to organic cyclic compound cell-cell signaling paracrine signaling cGAS/STING signaling pathway multicellular organismal process determination of adult lifespan regulation of immune effector process immunoglobulin production cellular biosynthetic process regulation of biosynthetic process production of molecular mediator of immune response cellular metabolic process regulation of cellular metabolic process gene expression macromolecule biosynthetic process immune effector process regulation of cellular biosynthetic process regulation of gene expression regulation of immunoglobulin production biosynthetic process regulation of macromolecule biosynthetic process regulation of production of molecular mediator of immune response regulation of leukocyte activation cell activation regulation of cell activation regulation of T cell activation lymphocyte activation leukocyte activation T cell activation regulation of multicellular organismal process regulation of lymphocyte activation regulation of cellular senescence cellular senescence positive regulation of cellular metabolic process positive regulation of metabolic process positive regulation of cellular senescence positive regulation of cellular process regulation of defense response to virus defense response to virus positive regulation of defense response to virus by host regulation of defense response to virus by host response to virus cAMP-mediated signaling regulation of signal transduction negative regulation of cGAS/STING signaling pathway regulation of pattern recognition receptor signaling pathway negative regulation of signaling negative regulation of cytoplasmic pattern recognition receptor signaling pathway negative regulation of intracellular signal transduction regulation of cytoplasmic pattern recognition receptor signaling pathway negative regulation of cell communication regulation of intracellular signal transduction regulation of signaling negative regulation of signal transduction negative regulation of immune system process regulation of cell communication positive regulation of macromolecule biosynthetic process positive regulation of biosynthetic process cytokine production regulation of cytokine production positive regulation of macromolecule metabolic process positive regulation of type I interferon production type I interferon production positive regulation of gene expression positive regulation of multicellular organismal process positive regulation of cytokine production positive regulation of cellular biosynthetic process regulation of type I interferon production developmental process multicellular organism development head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development reproductive process sex differentiation developmental process involved in reproduction sex determination male sex determination positive regulation of DNA-templated transcription RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of RNA biosynthetic process positive regulation of nucleobase-containing compound metabolic process nucleobase-containing compound biosynthetic 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 male sex differentiation positive regulation of developmental process development of primary male sexual characteristics development of primary sexual characteristics positive regulation of male gonad development reproductive structure development regulation of male gonad development positive regulation of reproductive process gonad development reproductive system development positive regulation of gonad development negative regulation of cellular metabolic process negative regulation of RNA biosynthetic process transcription by RNA polymerase II regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of cellular biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process cellular developmental process generation of neurons neurogenesis neuron differentiation cell differentiation positive regulation of transcription by RNA polymerase II	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol cell periphery plasma membrane membrane membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm intracellular anatomical structure cytoplasm cellular anatomical entity cytosol cell periphery plasma membrane membrane membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen site of double-strand break intracellular non-membrane-bounded organelle site of DNA damage chromosome non-membrane-bounded organelle nuclear body nuclear speck chromatin
C	DNA (5'-D(CPGPAPTPCPCPGPGPGPAPTPCPTPAPAPAPCPAPAPTP*G)-3')	-	-	-
D	DNA (5'-D(GPCPAPTPTPGPTPTPTPAPGPAPTPCPCPCPGPGPAPTP*C)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR024810	MAB21L/Cyclic GMP-AMP synthase-like receptor	Family
A, B	IPR046906	Mab-21-like, HhH/H2TH-like domain	Domain
A, B	IPR046903	Mab-21-like, nucleotidyltransferase domain	Domain
A, B	IPR050140	SRY-related HMG-box transcription factors	Family
A, B	IPR017253	Transcription factor SRY	Family
A, B	IPR009071	High mobility group box domain	Domain
A, B	IPR036910	High mobility group box domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q05066	acute myeloid leukemia chronic obstructive pulmonary disease lung carcinoma Aicardi-Goutieres syndrome glioblastoma psoriasis breast cancer head and neck cancer ulcerative colitis 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 acute myeloid leukemia chronic obstructive pulmonary disease lung carcinoma Aicardi-Goutieres syndrome glioblastoma psoriasis breast cancer head and neck cancer ulcerative colitis 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 R01GM133198.