2FMY

CO-dependent transcription factor CooA from Carboxydothermus hydrogenoformans (Imidazole-bound form)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d2fmyc2	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	automated matches	automated matches	(Carboxydothermus hydrogenoformans ) [TaxId: 129958 ],	SCOPe (2.08)
C	d2fmyc1	All beta proteins	Double-stranded beta-helix	cAMP-binding domain-like	automated matches	automated matches	(Carboxydothermus hydrogenoformans ) [TaxId: 129958 ],	SCOPe (2.08)
C	d2fmyc3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Carboxydothermus hydrogenoformans ) [TaxId: 129958 ],	SCOPe (2.08)
A	d2fmya2	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	automated matches	automated matches	(Carboxydothermus hydrogenoformans ) [TaxId: 129958 ],	SCOPe (2.08)
A	d2fmya1	All beta proteins	Double-stranded beta-helix	cAMP-binding domain-like	automated matches	automated matches	(Carboxydothermus hydrogenoformans ) [TaxId: 129958 ],	SCOPe (2.08)
A	d2fmya3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Carboxydothermus hydrogenoformans ) [TaxId: 129958 ],	SCOPe (2.08)
B	d2fmyb2	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	automated matches	automated matches	(Carboxydothermus hydrogenoformans ) [TaxId: 129958 ],	SCOPe (2.08)
B	d2fmyb1	All beta proteins	Double-stranded beta-helix	cAMP-binding domain-like	automated matches	automated matches	(Carboxydothermus hydrogenoformans ) [TaxId: 129958 ],	SCOPe (2.08)
B	d2fmyb3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Carboxydothermus hydrogenoformans ) [TaxId: 129958 ],	SCOPe (2.08)
D	d2fmyd2	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	automated matches	automated matches	(Carboxydothermus hydrogenoformans ) [TaxId: 129958 ],	SCOPe (2.08)
D	d2fmyd1	All beta proteins	Double-stranded beta-helix	cAMP-binding domain-like	automated matches	automated matches	(Carboxydothermus hydrogenoformans ) [TaxId: 129958 ],	SCOPe (2.08)
D	d2fmyd3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Carboxydothermus hydrogenoformans ) [TaxId: 129958 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	cNMP_binding	e2fmyC1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: cNMP_binding	ECOD (1.6)
C	HTH_Crp_2	e2fmyC2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: HTH_Crp_2	ECOD (1.6)
A	cNMP_binding	e2fmyA1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: cNMP_binding	ECOD (1.6)
A	HTH_Crp_2	e2fmyA2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: HTH_Crp_2	ECOD (1.6)
B	cNMP_binding	e2fmyB1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: cNMP_binding	ECOD (1.6)
B	HTH_Crp_2	e2fmyB2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: HTH_Crp_2	ECOD (1.6)
D	cNMP_binding	e2fmyD1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: cNMP_binding	ECOD (1.6)
D	HTH_Crp_2	e2fmyD2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: HTH_Crp_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
C	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)
A	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
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)
B	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
B	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)
D	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
D	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
A, B, C, D	PF13545	Crp-like helix-turn-helix domain (HTH_Crp_2)	Crp-like helix-turn-helix domain	This family represents a crp-like helix-turn-helix domain that is likely to bind DNA.	Domain
A, B, C, D	PF00027	Cyclic nucleotide-binding domain (cNMP_binding)	Cyclic nucleotide-binding domain	This domain sensor domain can bind cAMP, cGMP, c-di-GMP, oxygen and 2-oxoglutarate (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	carbon monoxide oxidation system transcription regulator CooA-1	DNA binding binding organic cyclic compound binding nucleic acid binding cation binding ion binding metal ion binding small molecule binding	regulation of cellular process 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 regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of cellular process 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 regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR000595	Cyclic nucleotide-binding domain	Domain
A, B, C, D	IPR018490	Cyclic nucleotide-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR012318	Crp-type HTH domain	Domain
A, B, C, D	IPR014710	RmlC-like jelly roll fold	Homologous Superfamily

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.