3E0D

Insights into the Replisome from the Crystral Structure of the Ternary Complex of the Eubacterial DNA Polymerase III alpha-subunit

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
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)
E [auth A]	PF01336	e3e0dA6	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF01336	ECOD (1.6)
E [auth A]	PF14579	e3e0dA1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14579	ECOD (1.6)
E [auth A]	PF17657	e3e0dA3	A: alpha arrays	X: DNA polymerase III finger domain (From Topology)	H: DNA polymerase III finger domain (From Topology)	T: DNA polymerase III finger domain	F: PF17657	ECOD (1.6)
E [auth A]	F_UNCLASSIFIED	e3e0dA2	A: a+b two layers	X: DNA polymerase III C-terminal domain (From Topology)	H: DNA polymerase III C-terminal domain (From Topology)	T: DNA polymerase III C-terminal domain	F: F_UNCLASSIFIED	ECOD (1.6)
E [auth A]	PF07733	e3e0dA4	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF07733	ECOD (1.6)
E [auth A]	PF02811	e3e0dA5	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF02811	ECOD (1.6)
F [auth B]	PF01336	e3e0dB3	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF01336	ECOD (1.6)
F [auth B]	PF14579	e3e0dB5	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: PF14579	ECOD (1.6)
F [auth B]	PF17657	e3e0dB2	A: alpha arrays	X: DNA polymerase III finger domain (From Topology)	H: DNA polymerase III finger domain (From Topology)	T: DNA polymerase III finger domain	F: PF17657	ECOD (1.6)
F [auth B]	F_UNCLASSIFIED	e3e0dB7	A: a+b two layers	X: DNA polymerase III C-terminal domain (From Topology)	H: DNA polymerase III C-terminal domain (From Topology)	T: DNA polymerase III C-terminal domain	F: F_UNCLASSIFIED	ECOD (1.6)
F [auth B]	PF07733	e3e0dB6	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF07733	ECOD (1.6)
F [auth B]	PF02811	e3e0dB4	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: PF02811	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth A], F [auth B]	PF02811	PHP domain (PHP)	PHP domain	-	Family
E [auth A], F [auth B]	PF07733	Bacterial DNA polymerase III alpha NTPase domain (DNA_pol3_alpha)	Bacterial DNA polymerase III alpha NTPase domain	-	Domain
E [auth A], F [auth B]	PF01336	OB-fold nucleic acid binding domain (tRNA_anti-codon)	OB-fold nucleic acid binding domain	This family contains OB-fold domains that bind to nucleic acids [4]. The family includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl -tRNA synthetases (See Pfam:PF00152). Aminoacyl-tRNA synthetases catalyse the addition of an a ...	This family contains OB-fold domains that bind to nucleic acids [4]. The family includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl -tRNA synthetases (See Pfam:PF00152). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule EC:6.1.1.-. This family also includes part of RecG helicase involved in DNA repair. Replication factor A is a hetero-trimeric complex, that contains a subunit in this family [2,3]. This domain is also found at the C-terminus of bacterial DNA polymerase III alpha chain.	Domain
E [auth A], F [auth B]	PF17657	Bacterial DNA polymerase III alpha subunit finger domain (DNA_pol3_finger)	Bacterial DNA polymerase III alpha subunit finger domain	-	Domain
E [auth A], F [auth B]	PF14579	Helix-hairpin-helix motif (HHH_6)	Helix-hairpin-helix motif	The HHH domain is a short DNA-binding domain [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth D], D [auth F]	DNA substrate primer strand	-	-	-
E [auth A], F [auth B]	DNA polymerase III subunit alpha	catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups binding organic cyclic compound binding nucleic acid binding nuclease activity hydrolase activity, acting on ester bonds 3'-5' exonuclease activity catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups binding organic cyclic compound binding nucleic acid binding nuclease activity hydrolase activity, acting on ester bonds 3'-5' exonuclease activity hydrolase activity exonuclease activity	nucleobase-containing compound metabolic process organic cyclic compound metabolic process DNA replication organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity
A [auth C], C [auth E]	DNA substrate template strand	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth A], F [auth B]	IPR040982	DNA polymerase III alpha subunit finger domain	Domain
E [auth A], F [auth B]	IPR004013	PHP domain	Domain
E [auth A], F [auth B]	IPR016195	Polymerase/histidinol phosphatase-like	Homologous Superfamily
E [auth A], F [auth B]	IPR004365	OB-fold nucleic acid binding domain, AA-tRNA synthetase-type	Domain
E [auth A], F [auth B]	IPR041931	Bacterial DNA polymerase III alpha subunit, thumb domain	Homologous Superfamily
E [auth A], F [auth B]	IPR003141	Polymerase/histidinol phosphatase, N-terminal	Domain
E [auth A], F [auth B]	IPR011708	Bacterial DNA polymerase III, alpha subunit, NTPase domain	Domain
E [auth A], F [auth B]	IPR029460	DNA polymerase, helix-hairpin-helix motif	Domain
E [auth A], F [auth B]	IPR004805	Error-prone DNA polymerase/DNA polymerase III subunit alpha DnaE/PolC	Family

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.