uvrD [Escherichia coli str. K-12 substr. MG1655] - Gene

Summary

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Official Symbol: uvrD
Primary source: ECOCYC:EG11064
Locus tag: b3813
See related: ASAP:ABE-0012455
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
Lineage: Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
Also known as: dar-2; dda; ECK3808; mutU; pdeB; rad; recL; srjC; uvr502; uvrE
Summary: The completion of nucleotide excision repair depends upon the release of the oligonucleotide fragment along with the UvrB and UvrC proteins which are then able to be recycled to undertake another excision repair event. [More information is available at EcoCyc: EG11064].
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Genomic context

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Sequence:: NC_000913.3 (3997983..4000145)

NC_000913.3 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_000913.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Recipient UvrD helicase is involved in single- to double-stranded DNA conversion during conjugative plasmid transfer.
Title: Recipient UvrD helicase is involved in single- to double-stranded DNA conversion during conjugative plasmid transfer.
MutL Escherichia coli
Title: UvrD helicase activation by MutL involves rotation of its 2B subdomain.
Observations are consistent with an exonuclease-independent MMR strand excision mechanism that relies on EcMutL-EcUvrD helicase-driven displacement of ssDNA segments between adjacent EcMutH-GATC incisions.
Title: MutL sliding clamps coordinate exonuclease-independent Escherichia coli mismatch repair.
Rep and UvrD helicases operate on DNA at the replication fork whereas DinG helicase acts via a different mechanism
Title: Direct removal of RNA polymerase barriers to replication by accessory replicative helicases.
The lowest free-energy path shows that UvrD opens the interface between two domains, allowing the bound ssDNA to escape. The simulation results predict a key metastable 'tilted' state during ssDNA strand switching.
Title: Free-energy simulations reveal molecular mechanism for functional switch of a DNA helicase.
Large domain movements upon UvrD dimerization and helicase activation has been reported.
Title: Large domain movements upon UvrD dimerization and helicase activation.
Results show that UvrD monomer translocation rate depends on the single-stranded DNA base composition, even in the absence of any predicted basepairing within the nucleic acid. Translocation is faster on single-stranded DNA-containing pyrimidines and slower on ssDNA-containing purines
Title: Modulation of Escherichia coli UvrD Single-Stranded DNA Translocation by DNA Base Composition.
these data reveal that UvrD exhibits two distinct types of unwinding activity regulated by its stoichiometry. Furthermore, two UvrD conformational states, termed "closed" and "open," correlate with movement toward or away from the DNA fork.
Title: Protein structure. Direct observation of structure-function relationship in a nucleic acid-processing enzyme.
The unwinding processivity is increased in the UvrD303 mutant.
Title: The UvrD303 hyper-helicase exhibits increased processivity.
it is hypothesized that recA4162 suppresses SOS expression best when the ssDNA occurs at a gap and that uvrD303 is able to decrease SOS expression when the ssDNA is either at a gap or when it is generated at a DSB but does so better at a gap
Title: Specificity in suppression of SOS expression by recA4162 and uvrD303.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by EcoCyc

Function	Evidence Code	Pubs
enables 3'-5' DNA helicase activity	IBA Inferred from Biological aspect of Ancestor more info
enables 3'-5' DNA helicase activity	IDA Inferred from Direct Assay more info	PubMed
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	IEA Inferred from Electronic Annotation more info
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA helicase activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA helicase activity	IEA Inferred from Electronic Annotation more info
enables DNA translocase activity	IDA Inferred from Direct Assay more info	PubMed
enables helicase activity	IEA Inferred from Electronic Annotation more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables isomerase activity	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IDA Inferred from Direct Assay more info	PubMed
enables single-stranded DNA helicase activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA duplex unwinding	IDA Inferred from Direct Assay more info	PubMed
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in DNA replication	IEA Inferred from Electronic Annotation more info
involved_in DNA unwinding involved in DNA replication	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within SOS response	EXP Inferred from Experiment more info	PubMed
involved_in SOS response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mismatch repair	EXP Inferred from Experiment more info	PubMed
acts_upstream_of_or_within mismatch repair	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mismatch repair involved in maintenance of fidelity involved in DNA-dependent DNA replication	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within nucleotide-excision repair	IDA Inferred from Direct Assay more info	PubMed
involved_in nucleotide-excision repair, DNA duplex unwinding	IDA Inferred from Direct Assay more info	PubMed
involved_in recombinational repair	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within replication fork processing	EXP Inferred from Experiment more info	PubMed
acts_upstream_of_or_within replication fork processing	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within response to radiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within rolling circle DNA replication	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of DNA helicase complex	IBA Inferred from Biological aspect of Ancestor more info
part_of DNA helicase complex	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
part_of single-stranded DNA-dependent ATP-dependent DNA helicase complex	IPI Inferred from Physical Interaction more info	PubMed

General protein information

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Preferred Names: DNA helicase II

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_000913.3 Reference assembly

Range

3997983..4000145

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NP_418258.1 DNA helicase II [Escherichia coli str. K-12 substr. MG1655]

See identical proteins and their annotated locations for NP_418258.1

Status: PROVISIONAL

UniProtKB/TrEMBL

A0A1X3J9Z5

Conserved Domains (1) summary

PRK11773
Location:1 → 720

uvrD; DNA-dependent helicase II; Provisional