1KU7 | pdb_00001ku7

Crystal Structure of Thermus aquatics RNA Polymerase SigmaA Subunit Region 4 Bound to-35 Element DNA

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 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 [auth A]	d1ku7a_	All alpha proteins	DNA/RNA-binding 3-helical bundle	Sigma3 and sigma4 domains of RNA polymerase sigma factors	Sigma4 domain	Sigma70 (SigA, RpoD)	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
D	d1ku7d_	All alpha proteins	DNA/RNA-binding 3-helical bundle	Sigma3 and sigma4 domains of RNA polymerase sigma factors	Sigma4 domain	Sigma70 (SigA, RpoD)	(Thermus aquaticus ) [TaxId: 271 ],	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	Sigma factor domain-like	8040679	3000953	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Sigma factor domain-like	8040679	3000953	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]	Sigma70_r4	e1ku7A1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Sigma70_r4	ECOD (1.6)
D	Sigma70_r4	e1ku7D1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Sigma70_r4	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	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
C [auth A], D	PF04545	Sigma-70, region 4 (Sigma70_r4)	Sigma-70, region 4	Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [1]. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix fami ...	Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [1]. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B]	5'-D(CPCPTPTPGPAPCPAPAPAP*G)-3'	-	-	-
B [auth C]	5'-D(CPCPTPTPTPGPTPCPAPAP*G)-3'	-	-	-
C [auth A], D	sigma factor sigA	DNA binding binding nucleic acid binding transcription regulator activity DNA-binding transcription factor activity sigma factor activity	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription initiation nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription initiation nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A], D	IPR007627	RNA polymerase sigma-70 region 2	Domain
C [auth A], D	IPR000943	RNA polymerase sigma-70	Domain
C [auth A], D	IPR013325	RNA polymerase sigma factor, region 2	Homologous Superfamily
C [auth A], D	IPR013324	RNA polymerase sigma factor, region 3/4-like	Homologous Superfamily
C [auth A], D	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
C [auth A], D	IPR012760	RNA polymerase sigma factor RpoD, C-terminal	Domain
C [auth A], D	IPR009042	RNA polymerase sigma-70 region 1.2	Domain
C [auth A], D	IPR007630	RNA polymerase sigma-70 region 4	Domain
C [auth A], D	IPR014284	RNA polymerase sigma-70-like domain	Domain
C [auth A], D	IPR007624	RNA polymerase sigma-70 region 3	Domain
C [auth A], D	IPR028630	RNA polymerase sigma factor RpoD	Family
C [auth A], D	IPR050239	Sigma-70 factor family, RNA polymerase initiation factors	Family

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.