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	Peptidase_U40	e2zxpA1	A: a/b three-layered sandwiches	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: Peptidase_U40	ECOD (v294.1)

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	PF17768	RecJ OB domain (RecJ_OB)	RecJ OB domain	This OB-fold is found in RecJ proteins where is binds to ssDNA [1].	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

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.