Evidence map›Paper›PMID 21496641›Full record

ArticleCell2011

Human flap endonuclease structures, DNA double-base flipping, and a unified understanding of the FEN1 superfamily.

Susan E Tsutakawa, Scott Classen, Brian R Chapados, Andrew S Arvai, L David Finger, Grant Guenther, Christopher G Tomlinson, Peter Thompson, Altaf H Sarker, Binghui Shen and 3 more

Open access · bronzeAbstract read
In one paragraph

Article in Cell, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 183 papers.

0numbers the graph read from it
0cells of the map it votes in
183citing papers in PubMed
12.6field-weighted citation impact, top 1% 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

183 citing papers in PubMed, 291 citations in OpenAlex.

  1. Article
  2. Crystal Structure of Trabectedin-DNA Complex.Journal of molecular biology · 2026
    Article
  3. Article
  4. DNA polymerase I: structure, activity, and function in bacterial DNA replication and repair.Critical reviews in biochemistry and molecular biology · 2026
    Review
  5. Article
  6. Article
  7. Article
  8. Article
  9. Biomolecular NMR assignments · 2025
    Article
  10. Article
  11. Article
  12. Article
  13. Deep structure-function analysis of the endonuclease Mus81 with dominant mutational scanning.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  14. Article
  15. Review
  16. Article
  17. Nucleic Acids and Electrical Signals.Reviews of physiology, biochemistry and pharmacology · 2025
    Review
  18. Review
  19. Article
  20. Article

123 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

13 authors at 4 institutions in 3 countries.

Susan E TsutakawaLife Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
Scott Classen
Brian R Chapados
Andrew S Arvai
L David Finger
Grant Guenther
Christopher G Tomlinson
Peter Thompson
Altaf H Sarker
Binghui Shen
Priscilla K Cooper
Jane A Grasby
John A Tainer
Scripps Research Institute · USLawrence Berkeley National Laboratory · USUniversity of Sheffield · GBZhejiang University · CN

Funding

Transcription-Coupled & Replication-Associated Excision RepairP01CA092584 · NCI · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI John A. Tainer · 2001 to 2026
$89.6M
XRAY CRYSTALLOGRAPHIC STRUCTURE ANALYSIS: PROTEIN SORTINGP41RR001081 · NCRR · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FERRIN, THOMAS E · 1985 to 2011
$17.6M
Function Analysis of FEN-1 Nuclease in Genome StabilityR01CA073764 · NCI · CITY OF HOPE/BECKMAN RESEARCH INSTITUTE · PI BINGHUI SHEN · 2002 to 2026
$7.9M
FEN1 STRUCTURES AND HUMAN GENOME STABILITYR01CA081967 · NCI · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI TAINER, JOHN A. · 1999 to 2013
$4.2M
Biotechnology and Biological Sciences Research Council B19316Biotechnology and Biological Sciences Research Council BB/F014732/1Biotechnology and Biological Sciences Research Council BBF0147321NCI NIH HHS P01 CA092584NCI NIH HHS R01 CA073764NCI NIH HHS R01CA073764NCI NIH HHS R01 CA081967NCI NIH HHS R01CA081967NCRR NIH HHS P41 RR001081NCRR NIH HHS P41 RR-01081
6 · The paper itself

Abstract

Flap endonuclease (FEN1), essential for DNA replication and repair, removes RNA and DNA 5' flaps. FEN1 5' nuclease superfamily members acting in nucleotide excision repair (XPG), mismatch repair (EXO1), and homologous recombination (GEN1) paradoxically incise structurally distinct bubbles, ends, or Holliday junctions, respectively. Here, structural and functional analyses of human FEN1:DNA complexes show structure-specific, sequence-independent recognition for nicked dsDNA bent 100° with unpaired 3' and 5' flaps. Above the active site, a helical cap over a gateway formed by two helices enforces ssDNA threading and specificity for free 5' ends. Crystallographic analyses of product and substrate complexes reveal that dsDNA binding and bending, the ssDNA gateway, and double-base unpairing flanking the scissile phosphate control precise flap incision by the two-metal-ion active site. Superfamily conserved motifs bind and open dsDNA; direct the target region into the helical gateway, permitting only nonbase-paired oligonucleotides active site access; and support a unified understanding of superfamily substrate specificity.

Indexed as

Amino Acid SequenceCatalytic DomainDNADNA Mutational AnalysisExodeoxyribonucleasesFlap EndonucleasesHumansModels, MolecularMolecular Sequence DataSequence AlignmentSubstrate SpecificityDNAExodeoxyribonucleasesFEN1 protein, humanFlap Endonucleases

Identifiers

PMID21496641
PMCPMC3086263
OpenAlexW2054693978

What OpenQuestion holds

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LicenceTDM
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.