1KU2 | pdb_00001ku2

Crystal Structure of Thermus aquaticus RNA Polymerase Sigma Subunit Fragment Containing Regions 1.2 to 3.1

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	d1ku2b1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Sigma3 and sigma4 domains of RNA polymerase sigma factors	Sigma3 domain	Sigma factor SigA	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
B	d1ku2b2	All alpha proteins	Sigma2 domain of RNA polymerase sigma factors	Sigma2 domain of RNA polymerase sigma factors	Sigma2 domain of RNA polymerase sigma factors	Sigma factor SigA	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
A	d1ku2a1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Sigma3 and sigma4 domains of RNA polymerase sigma factors	Sigma3 domain	Sigma factor SigA	(Thermus aquaticus ) [TaxId: 271 ],	SCOPe (2.08)
A	d1ku2a2	All alpha proteins	Sigma2 domain of RNA polymerase sigma factors	Sigma2 domain of RNA polymerase sigma factors	Sigma2 domain of RNA polymerase sigma factors	Sigma factor SigA	(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)
B	SCOP2B Superfamily	Sigma factor domain-like	8044410	3000953	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Sigma2 domain of RNA polymerase sigma factors	8044411	3001393	SCOP2B (2022-06-29)
A	SCOP2 Family	Sigma3 domain	8032032	4003497	SCOP2 (2022-06-29)
A	SCOP2 Family	Sigma2 domain of RNA polymerase sigma factors	8032033	4003741	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Sigma factor domain-like	8044410	3000953	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Sigma2 domain of RNA polymerase sigma factors	8044411	3001393	SCOP2 (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	Homeodomain	e1ku2B1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Homeodomain	ECOD (v294.1)
B	Ion_trans_2	e1ku2B2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Rpp14/Pop5-like	T: Rpp14/Pop5-like	F: Ion_trans_2	ECOD (v294.1)
A	Sigma70_r3	e1ku2A1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Sigma70_r3	ECOD (v294.1)
A	Sigma70_r1_2,Sigma70_r2	e1ku2A2	A: a+b two layers	X: Sigma2 domain-like	H: Sigma2 domain of RNA polymerase sigma factors	T: Sigma2 domain of RNA polymerase sigma factors	F: Sigma70_r1_2,Sigma70_r2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.20.120.1810	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)		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	1.20.120.1810	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)		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	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
A, B	IPR007627	RNA polymerase sigma-70 region 2	Domain
A, B	IPR000943	RNA polymerase sigma-70	Domain
A, B	IPR013325	RNA polymerase sigma factor, region 2	Homologous Superfamily
A, B	IPR013324	RNA polymerase sigma factor, region 3/4-like	Homologous Superfamily
A, B	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A, B	IPR012760	RNA polymerase sigma factor RpoD, C-terminal	Domain
A, B	IPR009042	RNA polymerase sigma-70 region 1.2	Domain
A, B	IPR007630	RNA polymerase sigma-70 region 4	Domain
A, B	IPR014284	RNA polymerase sigma-70-like domain	Domain
A, B	IPR007624	RNA polymerase sigma-70 region 3	Domain
A, B	IPR028630	RNA polymerase sigma factor RpoD	Family
A, B	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.