4N9I

Crystal Structure of Transcription regulation protein CRP complexed with cGMP

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
AMR Gene: CARD Annotation
AMR Gene Family: CARD Annotation
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)
A	d4n9ia2	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	CAP C-terminal domain-like	Catabolite gene activator protein (CAP), C-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d4n9ia1	All beta proteins	Double-stranded beta-helix	cAMP-binding domain-like	cAMP-binding domain	Catabolite gene activator protein, N-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d4n9ib2	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	CAP C-terminal domain-like	Catabolite gene activator protein (CAP), C-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d4n9ib1	All beta proteins	Double-stranded beta-helix	cAMP-binding domain-like	cAMP-binding domain	Catabolite gene activator protein, N-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d4n9ic2	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	CAP C-terminal domain-like	Catabolite gene activator protein (CAP), C-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d4n9ic1	All beta proteins	Double-stranded beta-helix	cAMP-binding domain-like	cAMP-binding domain	Catabolite gene activator protein, N-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d4n9id2	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	CAP C-terminal domain-like	Catabolite gene activator protein (CAP), C-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d4n9id1	All beta proteins	Double-stranded beta-helix	cAMP-binding domain-like	cAMP-binding domain	Catabolite gene activator protein, N-terminal domain	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	cNMP_binding	e4n9iA1	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	Crp	e4n9iA2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: Crp	ECOD (1.6)
B	cNMP_binding	e4n9iB1	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	Crp	e4n9iB2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: Crp	ECOD (1.6)
C	cNMP_binding	e4n9iC1	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	Crp	e4n9iC2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: Crp	ECOD (1.6)
D	cNMP_binding	e4n9iD1	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	Crp	e4n9iD2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: Crp	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)
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)
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)

AMR Gene: CARD Annotation CARD Database Homepage

Chains	Accession	Short Name	Description	Provenance Source (Version)
A, B, C, D	ARO:3000518	CRP	CRP is a global regulator that represses MdtEF multidrug efflux pump expression.	CARD (3.3.0)

AMR Gene Family: CARD Annotation CARD Database Homepage

Chains	Accession	Gene Family	Drug Class	Resistance Machanism	Provenance Source (Version)
A, B, C, D	ARO:0010004	resistance-nodulation-cell division (RND) antibiotic efflux pump	macrolide antibiotic, fluoroquinolone antibiotic, penam	antibiotic efflux	CARD (3.3.0)

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	Catabolite gene activator	DNA binding binding organic cyclic compound binding nucleic acid binding transcription regulator activity DNA-binding transcription factor activity	-	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR018488	Cyclic nucleotide-binding, conserved site	Conserved Site
A, B, C, D	IPR050397	Global Transcriptional Regulators in Environmental Response	Family
A, B, C, D	IPR000595	Cyclic nucleotide-binding domain	Domain
A, B, C, D	IPR018335	Transcription regulator HTH, Crp-type, conserved site	Conserved Site
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.