Evidence map›Paper›PMID 22847004›Full record

ArticleThe Journal of biological chemistry2012

Dynamic structural changes are observed upon collagen and metal ion binding to the integrin α1 I domain.

Paul H Weinreb, Sheng Li, Sharon X Gao, Tong Liu, R Blake Pepinsky, Justin A Caravella, Jun H Lee, Virgil L Woods

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing papers in PubMed
1.3field-weighted citation impact, top 23% 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

10 citing papers in PubMed, 16 citations in OpenAlex.

  1. Article
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  5. Review
  6. Article
  7. Integrated strategy reveals the protein interface between cancer targets Bcl-2 and NAF-1.Proceedings of the National Academy of Sciences of the United States of America · 2014
    Article
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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

8 authors at 2 institutions in 1 country.

Paul H WeinrebBiogen Idec, Inc., Cambridge, Massachusetts 02142, USA. paul.weinreb@biogenidec.com
Sheng Li
Sharon X Gao
Tong Liu
R Blake Pepinsky
Justin A Caravella
Jun H Lee
Virgil L Woods
Biogen (United States) · USUniversity of California, San Diego · US

Funding

Role of complement in kidney disorders: from hemodialysis to transportationP01AI068730 · NIAID · UNIVERSITY OF PENNSYLVANIA · PI LAMBRIS, JOHN D · 2007 to 2018
$16.0M
ACTION OF LIPOLYTIC ENZYMESR01GM020501 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI DENNIS, EDWARD A · 1985 to 2020
$7.3M
Epac/cAMP-GEF, A Novel Intracellular cAMP ReceptorR01GM066170 · NIGMS · UNIVERSITY OF TEXAS MEDICAL BR GALVESTON · PI CHENG, XIAODONG · 2003 to 2017
$4.6M
Regulation, Signaling, and Dynamics of Glucan PhosphatasesR01NS070899 · NINDS · UNIVERSITY OF KENTUCKY · PI GENTRY, MATTHEW S. · 2010 to 2019
$3.6M
STRUCTURAL ANALYSIS OF CHROMATICALLY ACTIVE PROTEINSR01GM037684 · NIGMS · SCRIPPS RESEARCH INSTITUTE, THE · PI GETZOFF, ELIZABETH D · 1987 to 2009
$3.1M
STRUCTURE DRIVEN ANALYSIS OF EBOLA VIRUS RECEPTOR BINDING SITER01AI081982 · NIAID · SCRIPPS RESEARCH INSTITUTE, THE · PI SAPHIRE, ERICA OLLMANN · 2010 to 2014
$2.8M
Thermodynamic and structural studies on the formation of the C3 convertaseR01AI072106 · NIAID · UNIVERSITY OF PENNSYLVANIA · PI LAMBRIS, JOHN D · 2007 to 2011
$2.0M
Enhanced Crystallography of Cancer-Implicated ProteinsR33CA099835 · NCI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI WOODS, VIRGIL L · 2004 to 2006
$1.8M
Current Generation Integrated Instrumentation for H-D Exchange LC-MSS10RR029388 · NCRR · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI WOODS, VIRGIL L · 2010 to 2010
$1.0M
Sensitive Deuterium Exchange MS for Membrane ProteinsR01GM093325 · NIGMS · BECKMAN RESEARCH INSTITUTE/CITY OF HOPE · PI HANDEL, TRACY M, LEE, TERRY D. · 2010 to 2012
$965k
Hydrogen Deuterium Exchange Mapping of Chemokine Receptor Complex InterfacesR21AI076961 · NIAID · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI HANDEL, TRACY M, WOODS, VIRGIL L · 2008 to 2009
$425k
DXMS-Facilitated Membrane Protein Construct Design/CancerR21CA118595 · NCI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI WOODS, VIRGIL L · 2006 to 2007
$420k
NCI NIH HHS CA099835NCI NIH HHS CA118595NCI NIH HHS R21 CA099835NCI NIH HHS R21 CA118595NCI NIH HHS R33 CA099835NCRR NIH HHS RR029388NCRR NIH HHS S10 RR029388NIAID NIH HHS AI068730NIAID NIH HHS AI072106NIAID NIH HHS AI076961NIAID NIH HHS AI081982NIAID NIH HHS AI2008031NIAID NIH HHS P01 AI068730NIAID NIH HHS R01 AI072106NIAID NIH HHS R01 AI081982NIAID NIH HHS R21 AI076961NIGMS NIH HHS F32 GM020501NIGMS NIH HHS GM020501NIGMS NIH HHS GM037684NIGMS NIH HHS GM066170NIGMS NIH HHS GM093325NIGMS NIH HHS R01 GM020501NIGMS NIH HHS R01 GM037684NIGMS NIH HHS R01 GM066170NIGMS NIH HHS R01 GM093325NINDS NIH HHS NS070899NINDS NIH HHS R01 NS070899
6 · The paper itself

Abstract

We have applied hydrogen-deuterium exchange mass spectrometry, in conjunction with differential scanning calorimetry and protein stability analysis, to examine solution dynamics of the integrin α1 I domain induced by the binding of divalent cations, full-length type IV collagen, or a function-blocking monoclonal antibody. These studies revealed features of integrin activation and α1I-ligand complexes that were not detected by static crystallographic data. Mg(2+) and Mn(2+) stabilized α1I but differed in their effects on exchange rates in the αC helix. Ca(2+) impacted α1I conformational dynamics without altering its gross thermal stability. Interaction with collagen affected the exchange rates in just one of three metal ion-dependent adhesion site (MIDAS) loops, suggesting that MIDAS loop 2 plays a primary role in mediating ligand binding. Collagen also induced changes consistent with increased unfolding in both the αC and allosteric C-terminal helices of α1I. The antibody AQC2, which binds to α1I in a ligand-mimetic manner, also reduced exchange in MIDAS loop 2 and increased exchange in αC, but it did not impact the C-terminal region. This is the first study to directly demonstrate the conformational changes induced upon binding of an integrin I domain to a full-length collagen ligand, and it demonstrates the utility of the deuterium exchange mass spectrometry method to study the solution dynamics of integrin/ligand and integrin/metal ion interactions. Based on the ligand and metal ion binding data, we propose a model for collagen-binding integrin activation that explains the differing abilities of Mg(2+), Mn(2+), and Ca(2+) to activate I domain-containing integrins.

Indexed as

AnimalsCollagen Type IVHumansIntegrin alpha1MagnesiumManganeseProtein StabilityProtein Structure, SecondaryProtein Structure, TertiaryRatsCollagen Type IVIntegrin alpha1MagnesiumManganese

Identifiers

PMID22847004
PMCPMC3463359
OpenAlexW2046764649

What OpenQuestion holds

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Registered trials

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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.