Annotations: 2IT0

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C [auth A]	d2it0a1	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	Iron-dependent repressor protein	Iron-dependent regulator IdeR	(Mycobacterium tuberculosis ) [TaxId: 1773 ],	SCOPe (2.08)
C [auth A]	d2it0a2	All alpha proteins	Iron-dependent repressor protein, dimerization domain	Iron-dependent repressor protein, dimerization domain	Iron-dependent repressor protein, dimerization domain	Iron-dependent regulator	(Mycobacterium tuberculosis ) [TaxId: 1773 ],	SCOPe (2.08)
C [auth A]	d2it0a3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Mycobacterium tuberculosis ) [TaxId: 1773 ],	SCOPe (2.08)
D [auth B]	d2it0b1	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	Iron-dependent repressor protein	Iron-dependent regulator IdeR	(Mycobacterium tuberculosis ) [TaxId: 1773 ],	SCOPe (2.08)
D [auth B]	d2it0b2	All alpha proteins	Iron-dependent repressor protein, dimerization domain	Iron-dependent repressor protein, dimerization domain	Iron-dependent repressor protein, dimerization domain	Iron-dependent regulator	(Mycobacterium tuberculosis ) [TaxId: 1773 ],	SCOPe (2.08)
D [auth B]	d2it0b3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Mycobacterium tuberculosis ) [TaxId: 1773 ],	SCOPe (2.08)
E [auth C]	d2it0c1	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	Iron-dependent repressor protein	Iron-dependent regulator IdeR	(Mycobacterium tuberculosis ) [TaxId: 1773 ],	SCOPe (2.08)
E [auth C]	d2it0c2	All alpha proteins	Iron-dependent repressor protein, dimerization domain	Iron-dependent repressor protein, dimerization domain	Iron-dependent repressor protein, dimerization domain	Iron-dependent regulator	(Mycobacterium tuberculosis ) [TaxId: 1773 ],	SCOPe (2.08)
F [auth D]	d2it0d1	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	Iron-dependent repressor protein	Iron-dependent regulator IdeR	(Mycobacterium tuberculosis ) [TaxId: 1773 ],	SCOPe (2.08)
F [auth D]	d2it0d2	All alpha proteins	Iron-dependent repressor protein, dimerization domain	Iron-dependent repressor protein, dimerization domain	Iron-dependent repressor protein, dimerization domain	Iron-dependent regulator	(Mycobacterium tuberculosis ) [TaxId: 1773 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth A]	SCOP2B Superfamily	DtxR dimerization domain-like	8017622	3000063	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Winged helix DNA-binding domain	8017619	3000034	SCOP2B (2022-06-29)
D [auth B]	SCOP2B Superfamily	Winged helix DNA-binding domain	8017619	3000034	SCOP2B (2022-06-29)
D [auth B]	SCOP2B Superfamily	DtxR dimerization domain-like	8017622	3000063	SCOP2B (2022-06-29)
E [auth C]	SCOP2B Superfamily	DtxR dimerization domain-like	8017622	3000063	SCOP2B (2022-06-29)
E [auth C]	SCOP2B Superfamily	Winged helix DNA-binding domain	8017619	3000034	SCOP2B (2022-06-29)
F [auth D]	SCOP2B Superfamily	Winged helix DNA-binding domain	8017619	3000034	SCOP2B (2022-06-29)
F [auth D]	SCOP2B Superfamily	DtxR dimerization domain-like	8017622	3000063	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)
C [auth A]	PF01325	e2it0A1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF01325	ECOD (1.6)
C [auth A]	PF02742	e2it0A2	A: alpha duplicates or obligate multimers	X: Iron-dependent repressor protein, dimerization domain (From Topology)	H: Iron-dependent repressor protein, dimerization domain (From Topology)	T: Iron-dependent repressor protein, dimerization domain	F: PF02742	ECOD (1.6)
D [auth B]	PF01325	e2it0B1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF01325	ECOD (1.6)
D [auth B]	PF02742	e2it0B2	A: alpha duplicates or obligate multimers	X: Iron-dependent repressor protein, dimerization domain (From Topology)	H: Iron-dependent repressor protein, dimerization domain (From Topology)	T: Iron-dependent repressor protein, dimerization domain	F: PF02742	ECOD (1.6)
E [auth C]	PF01325	e2it0C1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF01325	ECOD (1.6)
E [auth C]	PF02742	e2it0C2	A: alpha duplicates or obligate multimers	X: Iron-dependent repressor protein, dimerization domain (From Topology)	H: Iron-dependent repressor protein, dimerization domain (From Topology)	T: Iron-dependent repressor protein, dimerization domain	F: PF02742	ECOD (1.6)
F [auth D]	PF01325	e2it0D1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF01325	ECOD (1.6)
F [auth D]	PF02742	e2it0D2	A: alpha duplicates or obligate multimers	X: Iron-dependent repressor protein, dimerization domain (From Topology)	H: Iron-dependent repressor protein, dimerization domain (From Topology)	T: Iron-dependent repressor protein, dimerization domain	F: PF02742	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth 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)
D [auth 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)
E [auth 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)
E [auth C]	1.10.60.10	Mainly Alpha	Orthogonal Bundle	Diphtheria Toxin Repressor	domain 2	CATH (4.3.0)
F [auth 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)
F [auth D]	1.10.60.10	Mainly Alpha	Orthogonal Bundle	Diphtheria Toxin Repressor	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth A], D [auth B], E [auth C], F [auth D]	PF02742	Iron dependent repressor, metal binding and dimerisation domain (Fe_dep_repr_C)	Iron dependent repressor, metal binding and dimerisation domain	This family includes the Diphtheria toxin repressor [1]. It acts as an iron-binding repressor of diphtheria toxin gene expression and may serve as a global regulator of gene expression. DTXR comprises an N-terminal DNA-binding domain, an interface do ...	This family includes the Diphtheria toxin repressor [1]. It acts as an iron-binding repressor of diphtheria toxin gene expression and may serve as a global regulator of gene expression. DTXR comprises an N-terminal DNA-binding domain, an interface domain (which contains two metal-binding sites) and a third, very flexible C-terminal domain. The second domain is responsible for dimerization and metal binding. Binding of DTXR to Tox operator requires a divalent metal ion such as cobalt, ferric, manganese and nickel whereas zinc shows weak activation [2]. This domain can also bind Cd(II), Ca(II) and Cu(II) (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).	Domain
C [auth A], D [auth B], E [auth C], F [auth D]	PF01325	Iron dependent repressor, N-terminal DNA binding domain (Fe_dep_repress)	Iron dependent repressor, N-terminal DNA binding domain	This family includes the Diphtheria toxin repressor. DNA binding is through a helix-turn-helix motif.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth E]	mbtA/mbtB operator strand 1	-	-	-
B [auth F]	mbtA/mbtB operator strand 2	-	-	-
C [auth A], D [auth B], E [auth C], F [auth D]	Iron-dependent repressor ideR	cation binding transition metal ion binding ion binding binding metal ion binding cobalt ion binding small molecule binding nickel cation binding iron ion binding ferrous iron binding manganese ion binding transcription regulator activity DNA-binding transcription factor activity DNA binding cation binding transition metal ion binding ion binding binding metal ion binding cobalt ion binding small molecule binding nickel cation binding iron ion binding ferrous iron binding manganese ion binding transcription regulator activity DNA-binding transcription factor activity DNA binding organic cyclic compound binding nucleic acid binding cadmium ion binding zinc ion binding protein binding protein dimerization activity	regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process negative regulation of metabolic process primary metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process negative regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process negative regulation of biosynthetic process cellular process catechol-containing siderophore biosynthetic process organic hydroxy compound metabolic process catechol-containing compound metabolic process secondary metabolic process siderophore biosynthetic process peptide biosynthetic process secondary metabolite biosynthetic process siderophore metabolic process organic hydroxy compound biosynthetic process phenol-containing compound metabolic process phenol-containing compound biosynthetic process catechol-containing compound biosynthetic process nonribosomal peptide biosynthetic process peptide metabolic process response to oxidative stress response to stimulus response to stress	cell periphery plasma membrane membrane cellular anatomical entity external encapsulating structure cell wall peptidoglycan-based cell wall intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A], D [auth B], E [auth C], F [auth D]	IPR036421	Iron dependent repressor, metal binding and dimerisation domain superfamily	Homologous Superfamily
C [auth A], D [auth B], E [auth C], F [auth D]	IPR022687	DTXR-type HTH domain	Domain
C [auth A], D [auth B], E [auth C], F [auth D]	IPR001367	Iron dependent repressor, metal binding and dimerisation domain	Domain
C [auth A], D [auth B], E [auth C], F [auth D]	IPR007167	Ferrous iron transporter FeoA domain	Domain
C [auth A], D [auth B], E [auth C], F [auth D]	IPR022689	Iron dependent repressor	Family
C [auth A], D [auth B], E [auth C], F [auth D]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
C [auth A], D [auth B], E [auth C], F [auth D]	IPR038157	Ferrous iron transporter, core domain	Homologous Superfamily
C [auth A], D [auth B], E [auth C], F [auth D]	IPR008988	Transcriptional repressor, C-terminal	Homologous Superfamily
C [auth A], D [auth B], E [auth C], F [auth D]	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.