2ZXP | pdb_00002zxp

Crystal structure of RecJ in complex with Mn2+ from Thermus thermophilus HB8

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	DHH phosphoesterases	8039667	3000896	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	recJ	e2zxpA1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: recJ	ECOD (1.6)
A	DHHA1	e2zxpA2	A: a+b three layers	X: C-terminal domain in DHH phosphoesterases (From Topology)	H: C-terminal domain in DHH phosphoesterases (From Topology)	T: C-terminal domain in DHH phosphoesterases	F: DHHA1	ECOD (1.6)
A	DHH	e2zxpA4	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: DHH phosphoesterases	F: DHH	ECOD (1.6)
A	EUF08602	e2zxpA3	A: a/b three-layered sandwiches	X: Single-stranded-DNA-specific exonuclease RecJ C-terminal domain (From Topology)	H: Single-stranded-DNA-specific exonuclease RecJ C-terminal domain (From Topology)	T: Single-stranded-DNA-specific exonuclease RecJ C-terminal domain	F: EUF08602	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.50.460	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)		CATH (4.3.0)
A	3.90.1640.30	Alpha Beta	Alpha-Beta Complex	inorganic pyrophosphatase (n-terminal core)		CATH (4.3.0)
A	3.10.310.30	Alpha Beta	Roll	Diaminopimelate Epimerase	Chain A, domain 1	CATH (4.3.0)
A	3.40.50.12810	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF22047	Single-stranded-DNA-specific exonuclease RecJ C-terminal domain (RecJ_C)	Single-stranded-DNA-specific exonuclease RecJ C-terminal domain	This entry represents a C-terminal domain present in a set of RecJ proteins, such as RecJ from Thermus thermophilus. The RecJ protein of Escherichia coli plays an important role in a number of DNA repair and recombination pathways. RecJ catalyses pro ...	This entry represents a C-terminal domain present in a set of RecJ proteins, such as RecJ from Thermus thermophilus. The RecJ protein of Escherichia coli plays an important role in a number of DNA repair and recombination pathways. RecJ catalyses processive degradation of single-stranded DNA in a 5'-to-3' direction. Sequences highly related to those encoding RecJ can be found in many of the eubacterial genomes sequenced to date [1,2].	Domain
A	PF02272	DHHA1 domain (DHHA1)	DHHA1 domain	This domain is often found adjacent to the DHH domain Pfam:PF01368 and is called DHHA1 for DHH associated domain. This domain is diagnostic of DHH subfamily 1 members [1]. This domain is also found in alanyl tRNA synthetase e.g. Swiss:P00957, suggest ...	This domain is often found adjacent to the DHH domain Pfam:PF01368 and is called DHHA1 for DHH associated domain. This domain is diagnostic of DHH subfamily 1 members [1]. This domain is also found in alanyl tRNA synthetase e.g. Swiss:P00957, suggesting that this domain may have an RNA binding function. The domain is about 60 residues long and contains a conserved GG motif.	Domain
A	PF01368	DHH family, N-terminal domain (DHH)	DHH family, N-terminal domain	It is predicted that this family of proteins all perform a phosphoesterase function. This domain is found at the N-terminal of the single stranded DNA exonuclease RecJ. It shows an alpha-beta configuration [2].	Domain
A	PF17768	RecJ OB domain (RecJ_OB)	RecJ OB domain	This OB-fold is found in RecJ proteins where is binds to ssDNA [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Single-stranded DNA specific exonuclease RecJ	hydrolase activity, acting on ester bonds nuclease activity catalytic activity, acting on a nucleic acid hydrolase activity exonuclease activity catalytic activity DNA binding binding nucleic acid binding cation binding ion binding metal ion binding small molecule binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR054598	Single-stranded-DNA-specific exonuclease RecJ, C-terminal domain, thermales	Domain
A	IPR001667	DDH domain	Domain
A	IPR038763	DHH phosphoesterase superfamily	Homologous Superfamily
A	IPR003156	DHHA1 domain	Domain
A	IPR041122	RecJ, OB domain	Domain
A	IPR051673	Single-stranded-DNA-specific exonuclease RecJ	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.