Evidence map›Paper›PMID 23583913›Full record

ArticleJournal of molecular biology2013

Ligand-induced dynamic changes in extended PDZ domains from NHERF1.

Shibani Bhattacharya, Jeong Ho Ju, Natalia Orlova, Jahan Ali Khajeh, David Cowburn, Zimei Bu

Abstract read
In one paragraph

Article in Journal of molecular biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.

0numbers the graph read from it
0cells of the map it votes in
20citing 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

20 citing papers in PubMed.

  1. PHLPP is neither a Phosphatase nor a Tumor Suppressor.BioEssays : news and reviews in molecular, cellular and developmental biology · 2026
    Review
  2. Nanoscale dynamics of the cadherin-catenin complex bound to vinculin revealed by neutron spin echo spectroscopy.Proceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  3. Article
  4. Review
  5. The Journal of biological chemistry · 2020
    Article
  6. Recent Strategic Advances in CFTR Drug Discovery: An Overview.International journal of molecular sciences · 2020
    Review
  7. Article
  8. Review
  9. Article
  10. A sequence upstream of canonical PDZ-binding motif within CFTR COOH-terminus enhances NHERF1 interaction.American journal of physiology. Lung cellular and molecular physiology · 2016
    Article
  11. Review
  12. Article
  13. Article
  14. Article
  15. 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

6 authors.

Shibani BhattacharyaNew York Structural Biology Center, 89 Convent Avenue, New York, NY 10027, USA.
Jeong Ho Ju
Natalia Orlova
Jahan Ali Khajeh
David Cowburn
Zimei Bu

Funding

TNC FUNCTION IN APOPTOTIC ANTIGEN DRIVEN AUTOIMMUNITYG12RR003060 · NCRR · CITY COLLEGE OF NEW YORK · PI WALLMAN, JOSHUA · 1985 to 2011
$26.1M
Cellular/Molecular Basis of Development: Research CenterG12MD007603 · NIMHD · CITY COLLEGE OF NEW YORK · PI PEZZANO, MARK · 2012 to 2017
$11.5M
900 MHz NMR Spectrometer for Structural BiologyP41GM066354 · NIGMS · NEW YORK STRUCTURAL BIOLOGY CENTER · PI COWBURN, DAVID · 2002 to 2006
$4.7M
Structural Biology of Protein KinasesR01GM047021 · NIGMS · ROCKEFELLER UNIVERSITY · PI COWBURN, DAVID · 1992 to 2008
$2.4M
Struture snd Dynamic Determinants of Ion Channel Assembly by Adapter ProteinsR01HL086496 · NHLBI · RESEARCH INST OF FOX CHASE CAN CTR · PI BU, ZIMEI · 2007 to 2011
$2.1M
NCRR NIH HHS 2G12 RR003060NCRR NIH HHS G12 RR003060NHLBI NIH HHS R01 HL086496NIGMS NIH HHS GM66354NIGMS NIH HHS P41 GM066354NIGMS NIH HHS R01 GM047021NIMHD NIH HHS G12 MD007603
6 · The paper itself

Abstract

The multi-domain scaffolding protein NHERF1 modulates the assembly and intracellular trafficking of various transmembrane receptors and ion-transport proteins. The two PDZ (postsynaptic density 95/disk large/zonula occluden 1) domains of NHERF1 possess very different ligand-binding capabilities: PDZ1 recognizes a variety of membrane proteins with high affinity, while PDZ2 only binds limited number of target proteins. Here using NMR, we have determined the structural and dynamic mechanisms that differentiate the binding affinities of the two PDZ domains, for the type 1 PDZ-binding motif (QDTRL) in the carboxyl terminus of cystic fibrosis transmembrane regulator. Similar to PDZ2, we have identified a helix-loop-helix subdomain coupled to the canonical PDZ1 domain. The extended PDZ1 domain is highly flexible with correlated backbone motions on fast and slow timescales, while the extended PDZ2 domain is relatively rigid. The malleability of the extended PDZ1 structure facilitates the transmission of conformational changes at the ligand-binding site to the remote helix-loop-helix extension. By contrast, ligand binding has only modest effects on the conformation and dynamics of the extended PDZ2 domain. The study shows that ligand-induced structural and dynamic changes coupled with sequence variation at the putative PDZ binding site dictate ligand selectivity and binding affinity of the two PDZ domains of NHERF1.

Indexed as

PDZ DomainsAmino Acid SequenceCircular DichroismLigandsMagnetic Resonance SpectroscopyModels, MolecularMolecular Sequence DataPhosphoproteinsProtein BindingProtein ConformationSequence AlignmentSodium-Hydrogen ExchangersSurface Plasmon ResonanceLigandsPhosphoproteinssodium-hydrogen exchanger regulatory factorSodium-Hydrogen Exchangers

Identifiers

PMID23583913
PMCPMC4058784

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.