Evidence map›Paper›PMID 18158267›Full record

ArticleMolecular cell2008

Crystal structure of Bacillus stearothermophilus UvrA provides insight into ATP-modulated dimerization, UvrB interaction, and DNA binding.

Danaya Pakotiprapha, Yoshihiko Inuzuka, Brian R Bowman, Geri F Moolenaar, Nora Goosen, David Jeruzalmi, Gregory L Verdine

Abstract read
In one paragraph

Article in Molecular cell, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.

0numbers the graph read from it
0cells of the map it votes in
52citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

52 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. Review
  10. A Peek Inside the Machines of Bacterial Nucleotide Excision Repair.International journal of molecular sciences · 2021
    Review
  11. Article
  12. Article
  13. Article
  14. Article
  15. Understanding the coupling between DNA damage detection and UvrA's ATPase using bulk and single molecule kinetics.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2019
    Article
  16. Article
  17. Article
  18. Article
  19. Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors.

Danaya PakotipraphaDepartment of Molecular and Cellular Biology, Harvard University, 7 Divinity Avenue, Cambridge, MA 02138, USA.
Yoshihiko Inuzuka
Brian R Bowman
Geri F Moolenaar
Nora Goosen
David Jeruzalmi
Gregory L Verdine

Funding

Structure and Mechanism of Base-Excision DNA RepairR01CA100742 · NCI · HARVARD UNIVERSITY · PI VERDINE, GREGORY LAWRENCE · 2003 to 2013
$3.9M
Structure and Mechanism of the Ire 1 RiboedonucleaseF32GM077935 · NIGMS · HARVARD UNIVERSITY · PI BOWMAN, BRIAN R · 2006 to 2008
$129k
NCI NIH HHS CA100742NCI NIH HHS R01 CA100742NIGMS NIH HHS F32 GM077935NIGMS NIH HHS F32 GM077935-01
6 · The paper itself

Abstract

The nucleotide excision repair pathway corrects many structurally unrelated DNA lesions. Damage recognition in bacteria is performed by UvrA, a member of the ABC ATPase superfamily whose functional form is a dimer with four nucleotide-binding domains (NBDs), two per protomer. In the 3.2 A structure of UvrA from Bacillus stearothermophilus, we observe that the nucleotide-binding sites are formed in an intramolecular fashion and are not at the dimer interface as is typically found in other ABC ATPases. UvrA also harbors two unique domains; we show that one of these is required for interaction with UvrB, its partner in lesion recognition. In addition, UvrA contains three zinc modules, the number and ligand sphere of which differ from previously published models. Structural analysis, biochemical experiments, surface electrostatics, and sequence conservation form the basis for models of ATP-modulated dimerization, UvrA-UvrB interaction, and DNA binding during the search for lesions.

Indexed as

Crystallography, X-RayDNA RepairProtein Interaction MappingAdenosine DiphosphateAdenosine TriphosphatasesAmino Acid MotifsAmino Acid SequenceBacterial ProteinsBinding SitesConserved SequenceDimerizationDNA-Binding ProteinsDNA HelicasesEndodeoxyribonucleasesGeobacillus stearothermophilusModels, MolecularAdenosine DiphosphateAdenosine TriphosphatasesBacterial ProteinsDNA-Binding ProteinsDNA HelicasesEndodeoxyribonucleases

Identifiers

PMID18158267
PMCPMC2692698

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.