Annotations: 1MKM

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1mkma1	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	Transcriptional regulator IclR, N-terminal domain	Transcriptional regulator IclR, N-terminal domain	(Thermotoga maritima ) [TaxId: 2336 ],	SCOPe (2.08)
A	d1mkma2	Alpha and beta proteins (a+b)	Profilin-like	GAF domain-like	IclR ligand-binding domain-like	Transcriptional regulator IclR, C-terminal domain	(Thermotoga maritima ) [TaxId: 2336 ],	SCOPe (2.08)
B	d1mkmb1	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	Transcriptional regulator IclR, N-terminal domain	Transcriptional regulator IclR, N-terminal domain	(Thermotoga maritima ) [TaxId: 2336 ],	SCOPe (2.08)
B	d1mkmb2	Alpha and beta proteins (a+b)	Profilin-like	GAF domain-like	IclR ligand-binding domain-like	Transcriptional regulator IclR, C-terminal domain	(Thermotoga maritima ) [TaxId: 2336 ],	SCOPe (2.08)
B	d1mkmb3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Thermotoga maritima ) [TaxId: 2336 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	IclR N-terminal domain-like	8002839	4000318	SCOP2 (2022-06-29)
A	SCOP2 Family	IclR ligand-binding domain-like	8002842	4000191	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Winged helix DNA-binding domain	8002840	3000034	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	GAF domain-like	8002843	3000080	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Winged helix DNA-binding domain	8002840	3000034	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	GAF domain-like	8002843	3000080	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	HTH_IclR	e1mkmA1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: HTH_IclR	ECOD (1.6)
A	IclR	e1mkmA2	A: a+b three layers	X: Profilin-like	H: sensor domains (From Topology)	T: sensor domains	F: IclR	ECOD (1.6)
B	HTH_IclR	e1mkmB1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: HTH_IclR	ECOD (1.6)
B	IclR	e1mkmB2	A: a+b three layers	X: Profilin-like	H: sensor domains (From Topology)	T: sensor domains	F: IclR	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)
A	1.20.5.640	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	3.30.450.40	Alpha Beta	2-Layer Sandwich	Beta-Lactamase	GAF domain	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)
B	3.30.450.40	Alpha Beta	2-Layer Sandwich	Beta-Lactamase	GAF domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF01614	Bacterial transcriptional regulator (IclR)	Bacterial transcriptional regulator	-	Family
A, B	PF09339	IclR helix-turn-helix domain (HTH_IclR)	IclR helix-turn-helix domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	IclR transcriptional regulator	DNA binding binding organic cyclic compound binding nucleic acid binding transcription regulator activity DNA-binding transcription factor activity cation binding ion binding metal ion binding small molecule binding	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic 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 negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR050707	HTH-type Transcriptional Regulators in Metabolic Pathways	Family
A, B	IPR029016	GAF-like domain superfamily	Homologous Superfamily
A, B	IPR005471	Transcription regulator IclR, N-terminal	Domain
A, B	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A, B	IPR011991	ArsR-like helix-turn-helix domain	Domain
A, B	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
A, B	IPR014757	Transcription regulator IclR, C-terminal	Domain

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.