Evidence map›Paper›PMID 22727814›Full record

ArticleStructure (London, England : 1993)2012

Tangled up in knots: structures of inactivated forms of E. coli class Ia ribonucleotide reductase.

Christina M Zimanyi, Nozomi Ando, Edward J Brignole, Francisco J Asturias, Joanne Stubbe, Catherine L Drennan

Open access · bronzeAbstract read
In one paragraph

Article in Structure (London, England : 1993), 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.

0numbers the graph read from it
0cells of the map it votes in
34citing papers in PubMed
3.1field-weighted citation impact, top 9% of its field
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

34 citing papers in PubMed, 69 citations in OpenAlex.

  1. Tangled Tail of Mechanically Interlocked Peptides.Journal of the American Chemical Society · 2026
    Review
  2. Article
  3. Article
  4. Journal of the American Chemical Society · 2022
    Article
  5. Article
  6. Article
  7. Review
  8. Review
  9. Conformational Motions and Water Networks at the α/β Interface inJournal of the American Chemical Society · 2020
    Article
  10. Review
  11. Article
  12. Article
  13. Article
  14. Article
  15. Article
  16. An endogenous dAMP ligand inProceedings of the National Academy of Sciences of the United States of America · 2018
    Article
  17. Article
  18. Article
  19. Article
  20. Potent competitive inhibition of human ribonucleotide reductase by a nonnucleoside small molecule.Proceedings of the National Academy of Sciences of the United States of America · 2017
    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

6 authors at 3 institutions in 1 country.

Christina M ZimanyiDepartment of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Nozomi Ando
Edward J Brignole
Francisco J Asturias
Joanne Stubbe
Catherine L Drennan
Massachusetts Institute of Technology · USHoward Hughes Medical Institute · USScripps Research Institute · US

Funding

Y-FAMILY POLYMERASES AND CO-FACTORS IN TRANSLESION REPLICATIONP41RR015301 · NCRR · CORNELL UNIVERSITY ITHACA · PI EISENBERG, DAVID · 2001 to 2011
$28.2M
TOXICOLOGY CORE UNITP30ES002109 · NIEHS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI FOX, JAMES G · 1985 to 2020
$25.6M
ZINC FINGER-DNA COMPLEXP41RR001646 · NCRR · CORNELL UNIVERSITY ITHACA · PI CINGOLANI, GINO · 1985 to 2011
$23.8M
Interdepartmental Biotechnology Training ProgramT32GM008334 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI WITTRUP, KARL DANE · 1989 to 2018
$15.2M
Overall EvaluationP41GM103403 · NIGMS · CORNELL UNIVERSITY · PI EALICK, STEVEN E · 2012 to 2017
$14.3M
WORKSHOPS AND TRAININGP41RR017573 · NCRR · SCRIPPS RESEARCH INSTITUTE, THE · PI CARRAGHER, BRIDGET OLIVIA · 2002 to 2011
$14.2M
STRUCTURAL STUDIES OF EUKARYOTIC TRANSCRIPTIONR01GM067167 · NIGMS · UNIVERSITY OF COLORADO DENVER · PI ASTURIAS, FRANCISCO J · 2003 to 2025
$9.2M
Ribonucleotide Reductase: Structure and FunctionR01GM029595 · NIGMS · UNIVERSITY OF WISCONSIN MADISON · PI STUBBE, JOANNE · 1985 to 2016
$6.9M
Mammalian Fatty Acid Synthase: Conformational Changes Associated with CatalysisF32DK080622 · NIDDK · SCRIPPS RESEARCH INSTITUTE, THE · PI BRIGNOLE, EDWARD J. · 2007 to 2009
$154k
Structural Studies of Ribonucleotide Reductase ComplexesF32GM090486 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI ANDO, NOZOMI · 2010 to 2011
$99k
MECHANISM OF DINUCLEAR FE-Y. FORMATION OF NDP REDUCTASER37GM029595 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI STUBBE, JOANNE · 1988 to 1997
–
Howard Hughes Medical InstituteNCRR NIH HHS P41 RR001646NCRR NIH HHS P41 RR015301NCRR NIH HHS P41 RR017573NCRR NIH HHS RR-15301NIDDK NIH HHS F32 DK080622NIDDK NIH HHS F32DK080622NIEHS NIH HHS P30 ES002109NIEHS NIH HHS P30-ES002109NIGMS NIH HHS F32 GM090486NIGMS NIH HHS F32GM090486NIGMS NIH HHS GM103403-10NIGMS NIH HHS GM29595NIGMS NIH HHS GM67167NIGMS NIH HHS R01 GM029595NIGMS NIH HHS R01 GM067167NIGMS NIH HHS T32 GM008334NIGMS NIH HHS T32GM08334
6 · The paper itself

Abstract

Ribonucleotide reductases (RNRs) provide the precursors for DNA biosynthesis and repair and are successful targets for anticancer drugs such as clofarabine and gemcitabine. Recently, we reported that dATP inhibits E. coli class Ia RNR by driving formation of RNR subunits into α4β4 rings. Here, we present the first X-ray structure of a gemcitabine-inhibited E. coli RNR and show that the previously described α4β4 rings can interlock to form an unprecedented (α4β4)2 megacomplex. This complex is also seen in a higher-resolution dATP-inhibited RNR structure presented here, which employs a distinct crystal lattice from that observed in the gemcitabine-inhibited case. With few reported examples of protein catenanes, we use data from small-angle X-ray scattering and electron microscopy to both understand the solution conditions that contribute to concatenation in RNRs as well as present a mechanism for the formation of these unusual structures.

Indexed as

Crystallography, X-RayCytidine DiphosphateDeoxyadenine NucleotidesEscherichia coli ProteinsExoribonucleasesMicroscopy, ElectronModels, MolecularProtein BindingProtein Structure, QuaternaryProtein SubunitsScattering, Small AngleX-Ray Diffraction2'-deoxyadenosine triphosphateCytidine DiphosphateDeoxyadenine NucleotidesEscherichia coli ProteinsExoribonucleasesgemcitabine-5'-diphosphateProtein Subunitsrnr protein, E coli

Identifiers

PMID22727814
PMCPMC3459064
OpenAlexW2050106725

What OpenQuestion holds

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Read underepoch 390

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.