Annotations: 1HH2

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth P]	d1hh2p1	All beta proteins	OB-fold	Nucleic acid-binding proteins	Cold shock DNA-binding domain-like	S1 domain of NusA	(Thermotoga maritima ) [TaxId: 2336 ],	SCOPe (2.08)
A [auth P]	d1hh2p2	Alpha and beta proteins (a+b)	Alpha-lytic protease prodomain-like	Prokaryotic type KH domain (KH-domain type II)	Prokaryotic type KH domain (KH-domain type II)	Transcription factor NusA, C-terminal domains	(Thermotoga maritima ) [TaxId: 2336 ],	SCOPe (2.08)
A [auth P]	d1hh2p4	Alpha and beta proteins (a+b)	Transcription factor NusA, N-terminal domain	Transcription factor NusA, N-terminal domain	Transcription factor NusA, N-terminal domain	Transcription factor NusA, N-terminal domain	(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 [auth P]	SCOP2 Family	Cold shock DNA-binding domain-like	8024056	4001909	SCOP2 (2022-06-29)
A [auth P]	SCOP2 Family	Prokaryotic type KH domain (KH-domain type II)	8024058	4001200	SCOP2 (2022-06-29)
A [auth P]	SCOP2 Family	Prokaryotic type KH domain (KH-domain type II)	8024059	4001200	SCOP2 (2022-06-29)
A [auth P]	SCOP2 Family	Transcription factor NusA, N-terminal domain	8024060	4003421	SCOP2 (2022-06-29)
A [auth P]	SCOP2 Superfamily	Nucleic acid-binding proteins	8036435	3000135	SCOP2 (2022-06-29)
A [auth P]	SCOP2 Superfamily	Prokaryotic type KH domain (KH-domain type II)	8036437	3001043	SCOP2 (2022-06-29)
A [auth P]	SCOP2 Superfamily	Prokaryotic type KH domain (KH-domain type II)	8036438	3001043	SCOP2 (2022-06-29)
A [auth P]	SCOP2 Superfamily	Transcription factor NusA, N-terminal domain	8036439	3000830	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)
A [auth P]	S1	e1hh2P1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding protein	T: Nucleic acid-binding protein	F: S1	ECOD (v294.1)
A [auth P]	NusA_N	e1hh2P4	A: few secondary structure elements	X: Transcription factor NusA, N-terminal domain	H: Transcription factor NusA, N-terminal domain	T: Transcription factor NusA, N-terminal domain	F: NusA_N	ECOD (v294.1)
A [auth P]	KH_5	e1hh2P2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: KH_5	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth P]	3.30.1480.10	Alpha Beta	2-Layer Sandwich	N Utilization Substance Protein A	Chain:P	CATH (4.3.0)
A [auth P]	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
A [auth P]	3.30.300.20	Alpha Beta	2-Layer Sandwich	GMP Synthetase	Chain A, domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth P]	PF13184	NusA-like first KH domain (KH_NusA_1st)	NusA-like first KH domain	This entry represents the first K homology (KH) domain found in NusA transcription termination factors. KH domains bind RNA and can function in RNA recognition [1]. NusA binds to RNA polymerase alpha subunit and promotes termination at certain RNA ha ...	This entry represents the first K homology (KH) domain found in NusA transcription termination factors. KH domains bind RNA and can function in RNA recognition [1]. NusA binds to RNA polymerase alpha subunit and promotes termination at certain RNA hairpin structures [2]. In prokaryotes, the N-terminal RNA polymerase-binding domain (NTD) is connected through a flexible hinge helix to three globular domains, the S1 and two K-homology (KH), KH1 and KH2. The KH domains of NusA belong to the type II KH RNA-binding domain superfamily [3].	Domain
A [auth P]	PF26594	NusA-like second KH domain (KH_NusA_2nd)	NusA-like second KH domain	This entry represents the second K homology (KH) domain found in NusA transcription termination factors. KH domains bind RNA and can function in RNA recognition [1]. NusA binds to RNA polymerase alpha subunit and promotes termination at certain RNA h ...	This entry represents the second K homology (KH) domain found in NusA transcription termination factors. KH domains bind RNA and can function in RNA recognition [1]. NusA binds to RNA polymerase alpha subunit and promotes termination at certain RNA hairpin structures [2]. In prokaryotes, the N-terminal RNA polymerase-binding domain (NTD) is connected through a flexible hinge helix to three globular domains, the S1 and two K-homology (KH), KH1 and KH2. The KH domains of NusA belong to the type II KH RNA-binding domain superfamily [3].	Domain
A [auth P]	PF08529	NusA N-terminal domain (NusA_N)	NusA N-terminal domain	This domain represents the RNA polymerase binding domain of NusA.	Domain
A [auth P]	PF00575	S1 RNA binding domain (S1)	S1 RNA binding domain	The S1 domain occurs in a wide range of RNA associated proteins. It is structurally similar to cold shock protein which binds nucleic acids. The S1 domain has an OB-fold structure.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth P]	N UTILIZATION SUBSTANCE PROTEIN A	transcription regulator activity DNA-binding transcription factor activity RNA binding binding nucleic acid binding	negative regulation of termination of DNA-templated transcription regulation of cellular process negative regulation of biological process protein-containing complex disassembly positive regulation of macromolecule biosynthetic process regulation of protein-containing complex disassembly regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of macromolecule metabolic process negative regulation of nucleobase-containing compound metabolic process negative regulation of termination of DNA-templated transcription regulation of cellular process negative regulation of biological process protein-containing complex disassembly positive regulation of macromolecule biosynthetic process regulation of protein-containing complex disassembly regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of macromolecule metabolic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process cellular component disassembly negative regulation of DNA-templated transcription regulation of biological process negative regulation of cellular component organization negative regulation of metabolic process primary metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process regulation of termination of DNA-templated transcription regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process regulation of cellular component organization transcription antitermination positive regulation of biological process RNA metabolic process DNA-templated transcription termination RNA biosynthetic process cellular component organization nucleic acid biosynthetic process positive regulation of biosynthetic process negative regulation of protein-containing complex disassembly negative regulation of cellular process cellular component organization or biogenesis positive regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process protein-containing complex organization biological regulation regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process positive regulation of gene expression negative regulation of biosynthetic process cellular process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth P]	IPR036555	NusA, N-terminal domain superfamily	Homologous Superfamily
A [auth P]	IPR003029	S1 domain	Domain
A [auth P]	IPR013735	Transcription factor NusA, N-terminal	Domain
A [auth P]	IPR009019	K homology domain superfamily, prokaryotic type	Homologous Superfamily
A [auth P]	IPR010213	Transcription factor NusA	Domain
A [auth P]	IPR015946	K homology domain-like, alpha/beta	Homologous Superfamily
A [auth P]	IPR030842	Transcription factor NusA, prokaryotes	Family
A [auth P]	IPR025249	Transcription factor NusA, first KH domain	Domain
A [auth P]	IPR058582	NusA-like, second KH domain	Domain
A [auth P]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily

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.