1OMI | pdb_00001omi

Crystal structure of PrfA,the transcriptional regulator in Listeria monocytogenes

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
B	d1omib2	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	CAP C-terminal domain-like	Listeriolysin regulatory protein PrfA, C-terminal domain	(Listeria monocytogenes ) [TaxId: 1639 ],	SCOPe (2.08)
B	d1omib1	All beta proteins	Double-stranded beta-helix	cAMP-binding domain-like	Listeriolysin regulatory protein PrfA, N-terminal domain	Listeriolysin regulatory protein PrfA, N-terminal domain	(Listeria monocytogenes ) [TaxId: 1639 ],	SCOPe (2.08)
B	d1omib3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Listeria monocytogenes ) [TaxId: 1639 ],	SCOPe (2.08)
A	d1omia2	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	CAP C-terminal domain-like	Listeriolysin regulatory protein PrfA, C-terminal domain	(Listeria monocytogenes ) [TaxId: 1639 ],	SCOPe (2.08)
A	d1omia1	All beta proteins	Double-stranded beta-helix	cAMP-binding domain-like	Listeriolysin regulatory protein PrfA, N-terminal domain	Listeriolysin regulatory protein PrfA, N-terminal domain	(Listeria monocytogenes ) [TaxId: 1639 ],	SCOPe (2.08)
A	d1omia3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Listeria monocytogenes ) [TaxId: 1639 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	cAMP-binding domain-like	8017652	3000084	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Winged helix DNA-binding domain	8017649	3000034	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	cAMP-binding domain-like	8017652	3000084	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Winged helix DNA-binding domain	8017649	3000034	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)
B	GPI	e1omiB1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: GPI	ECOD (develop294)
B	Fe_dep_repress	e1omiB2	A: alpha bundles	X: EGF-like	H: YozE-like	T: Ribbon-helix-helix	F: Fe_dep_repress	ECOD (develop294)
A	GPI	e1omiA1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: GPI	ECOD (develop294)
A	Fe_dep_repress	e1omiA2	A: alpha bundles	X: EGF-like	H: YozE-like	T: Ribbon-helix-helix	F: Fe_dep_repress	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)
A	2.60.120.10	Mainly Beta	Sandwich	Jelly Rolls	Jelly Rolls	CATH (4.3.0)
A	1.20.5.460	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces	Single helix bin	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)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Listeriolysin regulatory protein	DNA binding binding nucleic acid binding transcription regulator activity DNA-binding transcription factor activity	-	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR018335	Transcription regulator HTH, Crp-type, conserved site	Conserved Site
A, B	IPR018490	Cyclic nucleotide-binding domain superfamily	Homologous Superfamily
A, B	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A, B	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
A, B	IPR012318	Crp-type HTH domain	Domain
A, B	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.