8H3V

Cryo-EM structure of the full transcription activation complex NtcA-NtcB-TAC

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
N [auth X]	PF00027	e8h3vX2	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00027	ECOD (1.6)
N [auth X]	PF13545	e8h3vX1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF13545	ECOD (1.6)
O [auth Y]	PF00027	e8h3vY1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: PF00027	ECOD (1.6)
O [auth Y]	PF13545	e8h3vY2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF13545	ECOD (1.6)
C [auth A]	PF00562	e8h3vA3	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: PF00562	ECOD (1.6)
C [auth A]	F_UNCLASSIFIED	e8h3vA5	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: F_UNCLASSIFIED	ECOD (1.6)
C [auth A]	PF00562	e8h3vA6	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Single hybrid motif	F: PF00562	ECOD (1.6)
C [auth A]	PF04563,PF04565	e8h3vA1	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: PF04563,PF04565	ECOD (1.6)
C [auth A]	PF04561	e8h3vA7	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: PF04561	ECOD (1.6)
C [auth A]	PF10385	e8h3vA4	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: PF10385	ECOD (1.6)
C [auth A]	PF00562,PF04560	e8h3vA2	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: PF00562,PF04560	ECOD (1.6)
E [auth C]	PF01193	e8h3vC1	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: PF01193	ECOD (1.6)
E [auth C]	PF01000	e8h3vC2	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: PF01000	ECOD (1.6)
F [auth D]	PF01193	e8h3vD1	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: PF01193	ECOD (1.6)
F [auth D]	PF01000	e8h3vD2	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: PF01000	ECOD (1.6)
H [auth F]	PF01192	e8h3vF1	A: alpha arrays	X: RPB6/omega subunit-like (From Homology)	H: RPB6/omega subunit-like	T: RPB6	F: PF01192	ECOD (1.6)
I [auth G]	PF04539	e8h3vG2	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: PF04539	ECOD (1.6)
I [auth G]	PF04539,PF04545	e8h3vG1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: PF04539,PF04545	ECOD (1.6)
I [auth G]	PF00140,PF04542	e8h3vG3	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: PF00140,PF04542	ECOD (1.6)
J [auth S]	PF00126	e8h3vS3	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00126	ECOD (1.6)
J [auth S]	PF03466	e8h3vS2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF03466	ECOD (1.6)
K [auth T]	PF00126	e8h3vT3	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00126	ECOD (1.6)
K [auth T]	PF03466	e8h3vT1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF03466	ECOD (1.6)
L [auth U]	PF00126	e8h3vU2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00126	ECOD (1.6)
L [auth U]	PF03466	e8h3vU3	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF03466	ECOD (1.6)
M [auth V]	PF00126	e8h3vV3	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF00126	ECOD (1.6)
M [auth V]	PF03466	e8h3vV2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: PF03466	ECOD (1.6)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth 1]	DNA (125-MER)	-	-	-
N [auth X], O [auth Y]	NtcA	DNA binding binding organic cyclic compound binding nucleic acid binding transcription regulator activity DNA-binding transcription factor activity	-	-
B [auth 2]	DNA (125-MER)	-	-	-
C [auth A]	DNA-directed RNA polymerase subunit beta	DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' 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 DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' 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	cellular biosynthetic process cellular metabolic process 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process biosynthetic process cellular biosynthetic process cellular metabolic process 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process metabolic process cellular process macromolecule metabolic process	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
D [auth B]	DNA-directed RNA polymerase subunit beta'	DNA binding binding organic cyclic compound binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid DNA binding binding organic cyclic compound binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding DNA-directed 5'-3' 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	cellular biosynthetic process cellular metabolic process 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process biosynthetic process cellular biosynthetic process cellular metabolic process 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process metabolic process cellular process macromolecule metabolic process	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
E [auth C], F [auth D]	DNA-directed RNA polymerase subunit alpha	DNA binding binding organic cyclic compound binding nucleic acid binding protein binding protein dimerization activity DNA-directed 5'-3' 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 DNA binding binding organic cyclic compound binding nucleic acid binding protein binding protein dimerization activity DNA-directed 5'-3' 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	cellular biosynthetic process cellular metabolic process 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process biosynthetic process cellular biosynthetic process cellular metabolic process 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process metabolic process cellular process macromolecule metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity 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
G [auth E]	DNA-directed RNA polymerase subunit gamma	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding DNA binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding DNA binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' 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	cellular biosynthetic process cellular metabolic process 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process biosynthetic process cellular biosynthetic process cellular metabolic process 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process metabolic process cellular process macromolecule metabolic process	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
H [auth F]	DNA-directed RNA polymerase subunit omega	DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' 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	cellular biosynthetic process cellular metabolic process 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process biosynthetic process cellular biosynthetic process cellular metabolic process 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process metabolic process cellular process macromolecule metabolic process	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
I [auth G]	RNA polymerase sigma factor SigA	DNA binding binding organic cyclic compound binding nucleic acid binding transcription regulator activity DNA-binding transcription factor activity sigma factor activity	cellular biosynthetic process cellular metabolic 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process cellular biosynthetic process cellular metabolic 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 organic cyclic compound metabolic process nucleic acid biosynthetic process organic substance metabolic process biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process metabolic process cellular process macromolecule metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity
J [auth S], K [auth T], L [auth U], M [auth V]	NtcB	transcription regulator activity DNA-binding transcription factor activity	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
N [auth X], O [auth Y]	IPR000595	Cyclic nucleotide-binding domain	Domain
N [auth X], O [auth Y]	IPR018335	Transcription regulator HTH, Crp-type, conserved site	Conserved Site
N [auth X], O [auth Y]	IPR018490	Cyclic nucleotide-binding domain superfamily	Homologous Superfamily
N [auth X], O [auth Y]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
N [auth X], O [auth Y]	IPR022299	Transcription regulator, NtcA	Family
N [auth X], O [auth Y]	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
N [auth X], O [auth Y]	IPR012318	Crp-type HTH domain	Domain
N [auth X], O [auth Y]	IPR014710	RmlC-like jelly roll fold	Homologous Superfamily
C [auth A]	IPR007642	RNA polymerase Rpb2, domain 2	Domain
C [auth A]	IPR015712	DNA-directed RNA polymerase, subunit 2	Family
C [auth A]	IPR037033	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily	Homologous Superfamily
C [auth A]	IPR042107	DNA-directed RNA polymerase, beta subunit, external 1 domain superfamily	Homologous Superfamily
C [auth A]	IPR037034	RNA polymerase Rpb2, domain 2 superfamily	Homologous Superfamily
C [auth A]	IPR007120	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain	Domain
C [auth A]	IPR007121	RNA polymerase, beta subunit, conserved site	Conserved Site
C [auth A]	IPR007645	RNA polymerase Rpb2, domain 3	Domain
C [auth A]	IPR014724	RNA polymerase Rpb2, OB-fold	Homologous Superfamily
C [auth A]	IPR019462	DNA-directed RNA polymerase, beta subunit, external 1 domain	Domain
C [auth A]	IPR010243	DNA-directed RNA polymerase beta subunit, bacterial-type	Family
C [auth A]	IPR007644	RNA polymerase, beta subunit, protrusion	Domain
C [auth A]	IPR007641	RNA polymerase Rpb2, domain 7	Domain
D [auth B]	IPR007066	RNA polymerase Rpb1, domain 3	Domain
D [auth B]	IPR007081	RNA polymerase Rpb1, domain 5	Domain
D [auth B]	IPR045867	DNA-directed RNA polymerase, subunit beta-prime	Family
D [auth B]	IPR007083	RNA polymerase Rpb1, domain 4	Domain
D [auth B]	IPR038120	RNA polymerase Rpb1, funnel domain superfamily	Homologous Superfamily
D [auth B]	IPR012756	DNA-directed RNA polymerase, subunit beta''	Family
D [auth B]	IPR042102	RNA polymerase Rpb1, domain 3 superfamily	Homologous Superfamily
E [auth C], F [auth D]	IPR011773	DNA-directed RNA polymerase, alpha subunit	Family
E [auth C], F [auth D]	IPR011262	DNA-directed RNA polymerase, insert domain	Domain
E [auth C], F [auth D]	IPR011260	RNA polymerase, alpha subunit, C-terminal	Domain
E [auth C], F [auth D]	IPR011263	DNA-directed RNA polymerase, RpoA/D/Rpb3-type	Domain
E [auth C], F [auth D]	IPR036643	DNA-directed RNA polymerase, insert domain superfamily	Homologous Superfamily
E [auth C], F [auth D]	IPR036603	RNA polymerase, RBP11-like subunit	Homologous Superfamily
G [auth E]	IPR012755	DNA-directed RNA polymerase, subunit gamma	Family
G [auth E]	IPR007066	RNA polymerase Rpb1, domain 3	Domain
G [auth E]	IPR045867	DNA-directed RNA polymerase, subunit beta-prime	Family
G [auth E]	IPR034678	DNA-directed RNA polymerase subunit RpoC1	Family
G [auth E]	IPR042102	RNA polymerase Rpb1, domain 3 superfamily	Homologous Superfamily
G [auth E]	IPR000722	RNA polymerase, alpha subunit	Domain
G [auth E]	IPR044893	RNA polymerase Rpb1, clamp domain superfamily	Homologous Superfamily
G [auth E]	IPR006592	RNA polymerase, N-terminal	Domain
G [auth E]	IPR007080	RNA polymerase Rpb1, domain 1	Domain
H [auth F]	IPR036161	RPB6/omega subunit-like superfamily	Homologous Superfamily
H [auth F]	IPR003716	DNA-directed RNA polymerase, omega subunit	Family
H [auth F]	IPR006110	RNA polymerase, subunit omega/Rpo6/RPB6	Family
I [auth G]	IPR007627	RNA polymerase sigma-70 region 2	Domain
I [auth G]	IPR000943	RNA polymerase sigma-70	Domain
I [auth G]	IPR013325	RNA polymerase sigma factor, region 2	Homologous Superfamily
I [auth G]	IPR013324	RNA polymerase sigma factor, region 3/4-like	Homologous Superfamily
I [auth G]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
I [auth G]	IPR012760	RNA polymerase sigma factor RpoD, C-terminal	Domain
I [auth G]	IPR017848	RNA polymerase sigma factor, RpoD/SigA, cyanobacteria	Family
I [auth G]	IPR014284	RNA polymerase sigma-70 like domain	Domain
I [auth G]	IPR009042	RNA polymerase sigma-70 region 1.2	Domain
I [auth G]	IPR007630	RNA polymerase sigma-70 region 4	Domain
I [auth G]	IPR007624	RNA polymerase sigma-70 region 3	Domain
I [auth G]	IPR028630	RNA polymerase sigma factor RpoD	Family
J [auth S], K [auth T], L [auth U], M [auth V]	IPR005119	LysR, substrate-binding	Domain
J [auth S], K [auth T], L [auth U], M [auth V]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
J [auth S], K [auth T], L [auth U], M [auth V]	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
J [auth S], K [auth T], L [auth U], M [auth V]	IPR000847	Transcription regulator HTH, LysR	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 R01GM133198.

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8H3V

Cryo-EM structure of the full transcription activation complex NtcA-NtcB-TAC

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage