Evidence map›Paper›PMID 22586122›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2012

Identification of a tetratricopeptide repeat-like domain in the nicastrin subunit of γ-secretase using synthetic antibodies.

Xulun Zhang, Robert J Hoey, Guoqing Lin, Akiko Koide, Brenda Leung, Kwangwook Ahn, Georgia Dolios, Marcin Paduch, Takeshi Ikeuchi, Rong Wang and 3 more

Open access · bronzeAbstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.

0numbers the graph read from it
0cells of the map it votes in
22citing papers in PubMed
3.2field-weighted citation impact, top 8% 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

22 citing papers in PubMed, 35 citations in OpenAlex.

  1. Trial
  2. Article
  3. Review
  4. Article
  5. Review
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  8. Aromatic claw: A new fold with high aromatic content that evades structural prediction.Protein science : a publication of the Protein Society · 2017
    Article
  9. Review
  10. Article
  11. Article
  12. Article
  13. Article
  14. Structural biology of presenilin 1 complexes.Molecular neurodegeneration · 2014
    Review
  15. Article
  16. Article
  17. Review
  18. Article
  19. Conformational states and recognition of amyloidogenic peptides of human insulin-degrading enzyme.Proceedings of the National Academy of Sciences of the United States of America · 2013
    Article
  20. Structural biology of presenilins and signal peptide peptidases.The Journal of biological chemistry · 2013
    Review
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

13 authors at 5 institutions in 2 countries.

Xulun ZhangDepartment of Neurobiology, University of Chicago, Chicago, IL 60637, USA.
Robert J Hoey
Guoqing Lin
Akiko Koide
Brenda Leung
Kwangwook Ahn
Georgia Dolios
Marcin Paduch
Takeshi Ikeuchi
Rong Wang
Yue-Ming Li
Shohei Koide
Sangram S Sisodia
University of Chicago · USIcahn School of Medicine at Mount Sinai · USMemorial Sloan Kettering Cancer Center · USUniversity of California, San Diego · USNiigata University · JP

Funding

Synthetic Antigen Binder CoreU54GM087519 · NIGMS · UNIVERSITY OF CHICAGO · PI NAKAMOTO, ROBERT K. · 2010 to 2017
$31.9M
CANCER PHARMACOLOGYT32CA062948 · NCI · WEILL MEDICAL COLL OF CORNELL UNIV · PI LORRAINE J GUDAS · 1994 to 2026
$12.1M
THE NINDS MASS SPECTROMETRY PROTEOMICS CENTER FOR NEUROSCIENCES AT MSSMP30NS061777 · NINDS · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI WANG, RONG · 2009 to 2014
$3.9M
Chaperone Assisted CrystallographyR01GM072688 · NIGMS · UNIVERSITY OF CHICAGO · PI KOSSIAKOFF, ANTHONY A · 2005 to 2012
$2.7M
PROTEOMEX LTQ WORKSTATION SHARED INSTRUMENTATION: PROTEOMICSS10RR022415 · NCRR · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI WANG, RONG · 2006 to 2006
$424k
NCI NIH HHS T32 CA062948NCRR NIH HHS S10 RR022415NIGMS NIH HHS R01 GM072688NIGMS NIH HHS R01-GM072688NIGMS NIH HHS U54 GM087519NIGMS NIH HHS U54-GM087519NINDS NIH HHS P30 NS061777
6 · The paper itself

Abstract

The γ-secretase complex, composed of presenilin, anterior-pharynx-defective 1, nicastrin, and presenilin enhancer 2, catalyzes the intramembranous processing of a wide variety of type I membrane proteins, including amyloid precursor protein (APP) and Notch. Earlier studies have revealed that nicastrin, a type I membrane-anchored glycoprotein, plays a role in γ-secretase assembly and trafficking and has been proposed to bind substrates. To gain more insights regarding nicastrin structure and function, we generated a conformation-specific synthetic antibody and used it as a molecular probe to map functional domains within nicastrin ectodomain. The antibody bound to a conformational epitope within a nicastrin segment encompassing residues 245-630 and inhibited the processing of APP and Notch substrates in in vitro γ-secretase activity assays, suggesting that a functional domain pertinent to γ-secretase activity resides within this region. Epitope mapping and database searches revealed the presence of a structured segment, located downstream of the previously identified DAP domain (DYIGS and peptidase; residues 261-502), that is homologous to a tetratricopeptide repeat (TPR) domain commonly involved in peptide recognition. Mutagenesis analyses within the predicted TPR-like domain showed that disruption of the signature helical structure resulted in the loss of γ-secretase activity but not the assembly of the γ-secretase and that Leu571 within the TPR-like domain plays an important role in mediating substrate binding. Taken together, these studies offer provocative insights pertaining to the structural basis for nicastrin function as a "substrate receptor" within the γ-secretase complex.

Indexed as

Amino Acid SequenceAmyloid beta-Protein PrecursorAmyloid Precursor Protein SecretasesAnimalsAntibodiesBinding SitesBiocatalysisBlotting, WesternCells, CulturedCircular DichroismEpitopesHEK293 CellsHumansImmunohistochemistryMembrane GlycoproteinsMiceAmyloid beta-Protein PrecursorAmyloid Precursor Protein SecretasesAntibodiesEpitopesMembrane Glycoproteinsnicastrin proteinOligopeptides

Identifiers

PMID22586122
PMCPMC3365189
OpenAlexW2083267251

What OpenQuestion holds

Textmetadata
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.