7PP4 | pdb_00007pp4

Cryo-EM structure of Mycobacterium tuberculosis RNA polymerase holoenzyme comprising sigma factor SigB

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F [auth f]	Sigma70_r2_2	e7pp4f1	A: alpha complex topology	X: Sigma2 domain-like	H: Sigma2 domain of RNA polymerase sigma factors (From Topology)	T: Sigma2 domain of RNA polymerase sigma factors	F: Sigma70_r2_2	ECOD (1.6)
E [auth e]	RNA_pol_Rpb6	e7pp4e1	A: alpha arrays	X: RPB6/omega subunit-like (From Homology)	H: RPB6/omega subunit-like	T: RNA polymerase omega subunit	F: RNA_pol_Rpb6	ECOD (1.6)
C [auth c]	RNA_pol_Rpb2_6_3rd_1	e7pp4c3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: RNA_pol_Rpb2_6_3rd_1	ECOD (1.6)
C [auth c]	RNA_pol_Rpb2_6_2nd	e7pp4c6	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_2nd	ECOD (1.6)
C [auth c]	RNA_pol_Rpb2_6_1st	e7pp4c4	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: RNA_pol_Rpb2_6_1st	ECOD (1.6)
C [auth c]	RNA_pol_Rpb2_3	e7pp4c7	A: a+b complex topology	X: N-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: N-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: N-terminal domain in beta subunit of DNA dependent RNA-polymerase	F: RNA_pol_Rpb2_3	ECOD (1.6)
C [auth c]	RNA_pol_Rpb2_1	e7pp4c2	A: a+b complex topology	X: insertion domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: insertion domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: insertion domain in beta subunit of DNA dependent RNA-polymerase	F: RNA_pol_Rpb2_1	ECOD (1.6)
C [auth c]	RNA_pol_Rpb2_45	e7pp4c1	A: a+b complex topology	X: barrel domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: barrel domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: barrel domain in beta subunit of DNA dependent RNA-polymerase	F: RNA_pol_Rpb2_45	ECOD (1.6)
C [auth c]	RNA_pol_Rpb2_7	e7pp4c5	A: a+b complex topology	X: C-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: C-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: C-terminal domain in beta subunit of DNA dependent RNA-polymerase	F: RNA_pol_Rpb2_7	ECOD (1.6)
B [auth b]	RNA_pol_L	e7pp4b1	A: a+b two layers	X: DCoH-like	H: RBP11-like subunits of RNA polymerase (From Topology)	T: RBP11-like subunits of RNA polymerase	F: RNA_pol_L	ECOD (1.6)
B [auth b]	RNA_pol_A_bac	e7pp4b2	A: a+b complex topology	X: Ribosomal protein TL5/L25 C-terminal domain-like	H: Insert subdomain of RNA polymerase alpha subunit (From Topology)	T: Insert subdomain of RNA polymerase alpha subunit	F: RNA_pol_A_bac	ECOD (1.6)
A [auth a]	RNA_pol_L	e7pp4a2	A: a+b two layers	X: DCoH-like	H: RBP11-like subunits of RNA polymerase (From Topology)	T: RBP11-like subunits of RNA polymerase	F: RNA_pol_L	ECOD (1.6)
A [auth a]	RNA_pol_A_bac	e7pp4a1	A: a+b complex topology	X: Ribosomal protein TL5/L25 C-terminal domain-like	H: Insert subdomain of RNA polymerase alpha subunit (From Topology)	T: Insert subdomain of RNA polymerase alpha subunit	F: RNA_pol_A_bac	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth d]	1.10.274.100	Mainly Alpha	Orthogonal Bundle	Enzyme I	Chain A, domain 2	CATH (utative)
D [auth d]	1.10.132.30	Mainly Alpha	Orthogonal Bundle	Topoisomerase I	Chain A, domain 4	CATH (utative)
B [auth b]	2.170.120.12	Mainly Beta	Beta Complex	RNA Polymerase Alpha Subunit	Chain A, domain 2	CATH (utative)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
F [auth f]	RNA polymerase sigma factor SigB	DNA binding binding nucleic acid binding transcription regulator activity DNA-binding transcription factor activity sigma factor activity RNA polymerase binding protein binding RNA polymerase core enzyme binding enzyme binding	response to stimulus response to chemical response to xenobiotic stimulus response to decreased oxygen levels response to hypoxia response to stress response to oxygen levels response to abiotic stimulus regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process response to stimulus response to chemical response to xenobiotic stimulus response to decreased oxygen levels response to hypoxia response to stress response to oxygen levels response to abiotic stimulus regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological 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 positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process DNA-templated transcription initiation response to heat response to temperature stimulus	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane
E [auth e]	DNA-directed RNA polymerase subunit omega	DNA binding binding nucleic acid binding RNA polymerase binding protein binding bacterial-type RNA polymerase core enzyme binding RNA polymerase core enzyme binding enzyme binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity DNA binding binding nucleic acid binding RNA polymerase binding protein binding bacterial-type RNA polymerase core enzyme binding RNA polymerase core enzyme binding enzyme binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups	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 cytosol protein-containing complex catalytic complex transferase complex transferase complex, transferring phosphorus-containing groups cytosolic DNA-directed RNA polymerase complex RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex cell periphery external encapsulating structure cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex catalytic complex transferase complex transferase complex, transferring phosphorus-containing groups cytosolic DNA-directed RNA polymerase complex RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex cell periphery external encapsulating structure cell wall peptidoglycan-based cell wall
D [auth d]	DNA-directed RNA polymerase subunit beta'	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding DNA binding nucleic acid binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding DNA binding nucleic acid binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups transition metal ion binding zinc ion binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process 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 cytosol cell periphery plasma membrane membrane external encapsulating structure cell wall peptidoglycan-based cell wall transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex RNA polymerase complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane external encapsulating structure cell wall peptidoglycan-based cell wall transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex RNA polymerase complex DNA-directed RNA polymerase complex transferase complex intracellular protein-containing complex
C [auth c]	DNA-directed RNA polymerase subunit beta	DNA binding binding nucleic acid binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups ribonucleoside binding nucleoside binding DNA binding binding nucleic acid binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups ribonucleoside binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding	response to stimulus response to chemical response to antibiotic RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process response to stimulus response to chemical response to antibiotic RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process 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 cytosol cell periphery plasma membrane membrane external encapsulating structure cell wall peptidoglycan-based cell wall transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex RNA polymerase complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane external encapsulating structure cell wall peptidoglycan-based cell wall transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex RNA polymerase complex DNA-directed RNA polymerase complex transferase complex intracellular protein-containing complex
A [auth a], B [auth b]	DNA-directed RNA polymerase subunit alpha	DNA binding binding nucleic acid binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups protein binding protein dimerization activity	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process 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 cytosol cell periphery plasma membrane membrane external encapsulating structure cell wall peptidoglycan-based cell wall transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex RNA polymerase complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane external encapsulating structure cell wall peptidoglycan-based cell wall transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex RNA polymerase complex DNA-directed RNA polymerase complex transferase complex intracellular protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
F [auth f]	IPR007627	RNA polymerase sigma-70 region 2	Domain
F [auth f]	IPR000943	RNA polymerase sigma-70	Domain
F [auth f]	IPR013325	RNA polymerase sigma factor, region 2	Homologous Superfamily
F [auth f]	IPR013324	RNA polymerase sigma factor, region 3/4-like	Homologous Superfamily
F [auth f]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
F [auth f]	IPR009042	RNA polymerase sigma-70 region 1.2	Domain
F [auth f]	IPR007630	RNA polymerase sigma-70 region 4	Domain
F [auth f]	IPR014284	RNA polymerase sigma-70-like domain	Domain
F [auth f]	IPR007624	RNA polymerase sigma-70 region 3	Domain
F [auth f]	IPR050239	Sigma-70 factor family, RNA polymerase initiation factors	Family
E [auth e]	IPR036161	RPB6/omega subunit-like superfamily	Homologous Superfamily
E [auth e]	IPR003716	DNA-directed RNA polymerase, omega subunit	Family
E [auth e]	IPR006110	RNA polymerase, subunit omega/Rpo6/RPB6	Family
D [auth d]	IPR007066	RNA polymerase Rpb1, domain 3	Domain
D [auth d]	IPR007081	RNA polymerase Rpb1, domain 5	Domain
D [auth d]	IPR045867	DNA-directed RNA polymerase, subunit beta-prime	Family
D [auth d]	IPR012754	DNA-directed RNA polymerase, subunit beta-prime, bacterial type	Family
D [auth d]	IPR042102	RNA polymerase Rpb1, domain 3 superfamily	Homologous Superfamily
D [auth d]	IPR007083	RNA polymerase Rpb1, domain 4	Domain
D [auth d]	IPR000722	RNA polymerase, alpha subunit	Domain
D [auth d]	IPR044893	RNA polymerase Rpb1, clamp domain superfamily	Homologous Superfamily
D [auth d]	IPR038120	RNA polymerase Rpb1, funnel domain superfamily	Homologous Superfamily
D [auth d]	IPR006592	RNA polymerase, N-terminal	Domain
D [auth d]	IPR007080	RNA polymerase Rpb1, domain 1	Domain
C [auth c]	IPR007642	RNA polymerase Rpb2, domain 2	Domain
C [auth c]	IPR015712	DNA-directed RNA polymerase, subunit 2	Family
C [auth c]	IPR037033	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily	Homologous Superfamily
C [auth c]	IPR042107	DNA-directed RNA polymerase, beta subunit, external 1 domain superfamily	Homologous Superfamily
C [auth c]	IPR037034	RNA polymerase Rpb2, domain 2 superfamily	Homologous Superfamily
C [auth c]	IPR007120	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain	Domain
C [auth c]	IPR007121	RNA polymerase, beta subunit, conserved site	Conserved Site
C [auth c]	IPR007645	RNA polymerase Rpb2, domain 3	Domain
C [auth c]	IPR014724	RNA polymerase Rpb2, OB-fold	Homologous Superfamily
C [auth c]	IPR019462	DNA-directed RNA polymerase, beta subunit, external 1 domain	Domain
C [auth c]	IPR010243	DNA-directed RNA polymerase beta subunit, bacterial-type	Family
C [auth c]	IPR007644	RNA polymerase, beta subunit, protrusion	Domain
C [auth c]	IPR007641	RNA polymerase Rpb2, domain 7	Domain
A [auth a], B [auth b]	IPR011773	DNA-directed RNA polymerase, alpha subunit	Family
A [auth a], B [auth b]	IPR011262	DNA-directed RNA polymerase, insert domain	Domain
A [auth a], B [auth b]	IPR011260	RNA polymerase, alpha subunit, C-terminal	Domain
A [auth a], B [auth b]	IPR011263	DNA-directed RNA polymerase, RpoA/D/Rpb3-type	Domain
A [auth a], B [auth b]	IPR036643	DNA-directed RNA polymerase, insert domain superfamily	Homologous Superfamily
A [auth a], B [auth b]	IPR036603	RNA polymerase, RBP11-like subunit	Homologous Superfamily