7T22 | pdb_00007t22

E. coli DnaB bound to three DnaG C-terminal domains, ssDNA, ADP and AlF4

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
I	SCOP2B Superfamily	DnaG C-terminal domain-like	8042385	3001990	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	DnaG C-terminal domain-like	8042385	3001990	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	DnaG C-terminal domain-like	8042385	3001990	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	N-terminal domain of DnaB helicase	8038007	3000700	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	N-terminal domain of DnaB helicase	8038007	3000700	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	N-terminal domain of DnaB helicase	8038007	3000700	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	N-terminal domain of DnaB helicase	8038007	3000700	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	N-terminal domain of DnaB helicase	8038007	3000700	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	N-terminal domain of DnaB helicase	8038007	3000700	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)
I		e7t22I1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Gal-bind_lectin	F:	ECOD (20:10:01)
H		e7t22H1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Gal-bind_lectin	F:	ECOD (20:10:01)
G		e7t22G1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Gal-bind_lectin	F:	ECOD (20:10:01)
F		e7t22F1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Gal-bind_lectin	F:	ECOD (20:10:01)
E		e7t22E1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Gal-bind_lectin	F:	ECOD (20:10:01)
D		e7t22D1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Gal-bind_lectin	F:	ECOD (20:10:01)
C		e7t22C1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Gal-bind_lectin	F:	ECOD (20:10:01)
B		e7t22B1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Gal-bind_lectin	F:	ECOD (20:10:01)
A		e7t22A1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: Gal-bind_lectin	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
G, H, I	PF08278	DNA primase DnaG DnaB-binding (DnaG_DnaB_bind)	DNA primase DnaG DnaB-binding	Eubacterial DnaG primases interact with several factors to from the replisome. One of these factors in DnaB, a helicase. This domain has been demonstrated to be responsible for the interaction between DnaG and DnaB[1].	Domain
A, B, C, D, E A, B, C, D, E, F	PF03796	DnaB-like helicase C terminal domain (DnaB_C)	DnaB-like helicase C terminal domain	The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the q ...	The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerisation of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.	Domain
A, B, C, D, E A, B, C, D, E, F	PF00772	DnaB-like helicase N terminal domain (DnaB)	DnaB-like helicase N terminal domain	The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the q ...	The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerisation of the N-terminal domain has been observed and may occur during the enzymatic cycle. This N-terminal domain is required both for interaction with other proteins in the primosome and for DnaB helicase activity [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
J [auth M]	DNA (5'-D(TPTPTPTPTPTPTPTPTPTPTPTPTPTPTPTPTPTPTPT)-3')	-	-	-
G, H, I	DNA primase	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 cation binding transition metal ion 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 cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity replication fork processing DNA replication, synthesis of primer RNA metabolic process nucleobase-containing compound biosynthetic process nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity replication fork processing DNA replication, synthesis of primer RNA metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process	protein-containing complex primosome complex intracellular anatomical structure catalytic complex protein-DNA complex intracellular membraneless organelle chromosome intracellular organelle cellular anatomical structure core primosome complex DnaB-DnaG complex organelle membraneless organelle replication fork protein-containing complex primosome complex intracellular anatomical structure catalytic complex protein-DNA complex intracellular membraneless organelle chromosome intracellular organelle cellular anatomical structure core primosome complex DnaB-DnaG complex organelle membraneless organelle replication fork DNA helicase complex replisome cytoplasm transferase complex, transferring phosphorus-containing groups RNA polymerase complex DNA-directed RNA polymerase complex transferase complex intracellular protein-containing complex
A, B, C, D, E A, B, C, D, E, F	Replicative DNA helicase	nucleic acid conformation isomerase activity isomerase activity DNA helicase activity catalytic activity, acting on a nucleic acid helicase activity ATP-dependent activity ATP-dependent activity, acting on DNA catalytic activity, acting on DNA 5'-3' DNA helicase activity catalytic activity macromolecular conformation isomerase activity binding adenyl ribonucleotide binding nucleotide binding nucleic acid conformation isomerase activity isomerase activity DNA helicase activity catalytic activity, acting on a nucleic acid helicase activity ATP-dependent activity ATP-dependent activity, acting on DNA catalytic activity, acting on DNA 5'-3' DNA helicase activity catalytic activity macromolecular conformation isomerase 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 DNA binding nucleic acid binding 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 identical protein binding protein binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA-templated DNA replication DNA replication initiation DNA-templated DNA replication maintenance of fidelity replication fork processing DNA replication, synthesis of primer RNA metabolic process nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA-templated DNA replication DNA replication initiation DNA-templated DNA replication maintenance of fidelity replication fork processing DNA replication, synthesis of primer RNA metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process response to ionizing radiation response to stimulus response to radiation response to abiotic stimulus	primosome complex protein-containing complex intracellular anatomical structure protein-DNA complex pre-primosome complex intracellular membraneless organelle chromosome intracellular organelle cellular anatomical structure organelle membraneless organelle replication fork replisome DnaB-DnaC-Rep-PriC complex primosome complex protein-containing complex intracellular anatomical structure protein-DNA complex pre-primosome complex intracellular membraneless organelle chromosome intracellular organelle cellular anatomical structure organelle membraneless organelle replication fork replisome DnaB-DnaC-Rep-PriC complex DnaB-DnaC-DnaT-PriA-PriC complex cytoplasm cytosol DnaB-DnaC complex catalytic complex core primosome complex DnaB-DnaG complex DNA helicase complex DnaB-DnaC-DnaT-PriA-PriB complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
G, H, I	IPR013173	DNA primase DnaG, DnaB-binding domain	Domain
G, H, I	IPR037068	DNA primase, catalytic core, N-terminal domain superfamily	Homologous Superfamily
G, H, I	IPR016136	DNA helicase DnaB, N-terminal/DNA primase DnaG, C-terminal	Homologous Superfamily
G, H, I	IPR034151	Bacterial DnaG primase, TOPRIM domain	Domain
G, H, I	IPR030846	DNA primase DnaG, bacteria	Family
G, H, I	IPR006295	DNA primase, DnaG	Domain
G, H, I	IPR006171	TOPRIM domain	Domain
G, H, I	IPR002694	Zinc finger, CHC2-type	Domain
G, H, I	IPR036977	DNA Primase, CHC2-type zinc finger	Homologous Superfamily
G, H, I	IPR013264	DNA primase DNAG, catalytic core, N-terminal	Domain
G, H, I	IPR050219	DnaG Primase	Family
G, H, I	IPR019475	DNA primase, DnaB-helicase binding domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR007692	DNA helicase, DnaB type	Family
A, B, C, D, E A, B, C, D, E, F	IPR003593	AAA+ ATPase domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR016136	DNA helicase DnaB, N-terminal/DNA primase DnaG, C-terminal	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR007693	DNA helicase, DnaB-like, N-terminal	Domain
A, B, C, D, E A, B, C, D, E, F	IPR007694	DNA helicase, DnaB-like, C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F	IPR036185	DNA helicase, DnaB-like, N-terminal domain superfamily	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.