1NUI

Crystal Structure of the primase fragment of Bacteriophage T7 primase-helicase protein

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)
A	d1nuia1	Multi-domain proteins (alpha and beta)	DNA primase core	DNA primase core	Primase fragment of primase-helicase protein	Primase fragment of primase-helicase protein	(Escherichia phage T7 ) [TaxId: 10760 ],	SCOPe (2.08)
A	d1nuia2	Small proteins	Rubredoxin-like	Zinc beta-ribbon	DNA primase zinc finger	Zinc-binding domain of primase-helicase	(Escherichia phage T7 ) [TaxId: 10760 ],	SCOPe (2.08)
B	d1nuib1	Multi-domain proteins (alpha and beta)	DNA primase core	DNA primase core	Primase fragment of primase-helicase protein	Primase fragment of primase-helicase protein	(Escherichia phage T7 ) [TaxId: 10760 ],	SCOPe (2.08)
B	d1nuib2	Small proteins	Rubredoxin-like	Zinc beta-ribbon	DNA primase zinc finger	Zinc-binding domain of primase-helicase	(Escherichia phage T7 ) [TaxId: 10760 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	DnaB primase core-like	8018198	4003782	SCOP2 (2022-06-29)
A	SCOP2 Family	DNA primase zinc finger	8018201	4003678	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Toprim domain-like	8018199	3000737	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Zinc beta-ribbon	8018202	3001238	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Zinc beta-ribbon	8018202	3001238	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Toprim domain-like	8018199	3000737	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)
A	EUF08431	e1nuiA1	A: a+b two layers	X: N-terminal a+b domain in DNA primase core (From Topology)	H: N-terminal a+b domain in DNA primase core (From Topology)	T: N-terminal a+b domain in DNA primase core	F: EUF08431	ECOD (1.6)
A	Toprim_2	e1nuiA3	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: Toprim_2	ECOD (1.6)
A	Prim_Zn_Ribbon	e1nuiA2	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: Prim_Zn_Ribbon	ECOD (1.6)
B	EUF08431	e1nuiB1	A: a+b two layers	X: N-terminal a+b domain in DNA primase core (From Topology)	H: N-terminal a+b domain in DNA primase core (From Topology)	T: N-terminal a+b domain in DNA primase core	F: EUF08431	ECOD (1.6)
B	Toprim_2	e1nuiB3	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: Toprim domain	F: Toprim_2	ECOD (1.6)
B	Prim_Zn_Ribbon	e1nuiB2	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: Prim_Zn_Ribbon	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.20.25.10	Mainly Beta	Single Sheet	N-terminal domain of TfIIb		CATH (4.3.0)
B	2.20.25.10	Mainly Beta	Single Sheet	N-terminal domain of TfIIb		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF21268	Bacteriophage T7 DNA helicase/primase, N-terminal a+b fold (Helic-prim_T7_N)	Bacteriophage T7 DNA helicase/primase, N-terminal a+b fold	Bacteriophage T7 DNA helicase/primase (also known as Gp4) is an ATP-dependent DNA helicase and primase that is essential for viral DNA replication and recombination [1-4]. Primase activity synthesises short RNA primers at the sequence 5'-GTC-3' on th ...	Bacteriophage T7 DNA helicase/primase (also known as Gp4) is an ATP-dependent DNA helicase and primase that is essential for viral DNA replication and recombination [1-4]. Primase activity synthesises short RNA primers at the sequence 5'-GTC-3' on the lagging strand that the polymerase elongates using dNTPs and providing the primase is still present. It consists of an N-terminal zinc ribbon (Pfam:PF08273) followed by a RNA Polymerase Domain that can be subdivided in an N-terminal alpha+beta structure, represented in this entry and a C-terminal TOPRIM fold (Pfam:PF13155) [1]. At the C-terminal end of the protein there is a DNA helicase domain (Pfam:PF03796).	Domain
A, B	PF08273	Zinc-binding domain of primase-helicase (Zn_Ribbon_Prim)	Zinc-binding domain of primase-helicase		Domain
A, B	PF01751	Toprim domain (Toprim)	Toprim domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	DNA primase/helicase	ATP-dependent activity, acting on DNA DNA helicase activity catalytic activity, acting on DNA 5'-3' DNA helicase activity catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity DNA translocase activity chromatin extrusion motor activity ATP-dependent H3-H4 histone complex chaperone activity catalytic activity, acting on a protein histone chaperone activity ATP-dependent chromatin remodeler activity ATP-dependent activity, acting on DNA DNA helicase activity catalytic activity, acting on DNA 5'-3' DNA helicase activity catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity DNA translocase activity chromatin extrusion motor activity ATP-dependent H3-H4 histone complex chaperone activity catalytic activity, acting on a protein histone chaperone activity ATP-dependent chromatin remodeler activity H3-H4 histone complex chaperone activity protein carrier chaperone ATP-dependent histone chaperone activity molecular carrier activity cohesin loader activity DNA clamp loader activity ATP-dependent H2AZ histone chaperone activity forked DNA-dependent helicase activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding single-stranded 3'-5' DNA helicase activity single-stranded DNA helicase activity 3'-5' DNA helicase activity four-way junction helicase activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides cation binding transition metal ion binding zinc ion binding metal ion binding identical protein binding protein binding DNA binding single-stranded DNA binding nucleic acid binding double-stranded DNA helicase activity	viral DNA genome replication primary metabolic process viral life cycle DNA metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process viral genome replication viral process metabolic process cellular process viral DNA genome replication primary metabolic process viral life cycle DNA metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process viral genome replication viral process metabolic process cellular process macromolecule metabolic process DNA biosynthetic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR006171	TOPRIM domain	Domain
A, B	IPR034154	Archaeal primase DnaG/twinkle-like, TOPRIM domain	Domain
A, B	IPR027032	Twinkle-like protein	Family
A, B	IPR013237	DNA primase/helicase Gp4, N-terminal, Bacteriophage T7-like	Domain
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B	IPR048774	Bacteriophage T7 DNA helicase/primase, N-terminal	Domain
A, B	IPR007694	DNA helicase, DnaB-like, C-terminal	Domain
A, B	IPR046394	Bacteriophage T7 DNA helicase/primase	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.