Evidence map›Paper›PMID 26145577›Full record

ArticleBiochimica et biophysica acta2016

Differences in solution dynamics between lens β-crystallin homodimers and heterodimers probed by hydrogen-deuterium exchange and deamidation.

Kirsten J Lampi, Matthew R Murray, Matthew P Peterson, Bryce S Eng, Eileen Yue, Alice R Clark, Elisar Barbar, Larry L David

Open access · greenAbstract read
In one paragraph

Article in Biochimica et biophysica acta, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing papers in PubMed
0.2field-weighted citation impact, top 44% 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

9 citing papers in PubMed, 17 citations in OpenAlex.

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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 3 institutions in 2 countries.

Kirsten J LampiIntegrative Biosciences, Oregon Health & Science University, Portland, OR 97239-3098, United States. Electronic address: lampik@ohsu.edu.
Matthew R MurrayIntegrative Biosciences, Oregon Health & Science University, Portland, OR 97239-3098, United States.
Matthew P PetersonIntegrative Biosciences, Oregon Health & Science University, Portland, OR 97239-3098, United States.
Bryce S EngIntegrative Biosciences, Oregon Health & Science University, Portland, OR 97239-3098, United States.
Eileen YueBiochemistry and Molecular Biology, Oregon Health & Science University, Portland, OR 97239-3098, United States.
Alice R ClarkBirkbeck College, University of London, United Kingdom.
Elisar BarbarBiochemistry and Biophysics, Oregon State University, Corvallis, OR 97331, United States.
Larry L DavidBiochemistry and Molecular Biology, Oregon Health & Science University, Portland, OR 97239-3098, United States.
Oregon Health & Science University · USBirkbeck, University of London · GBOregon State University · US

Funding

Proteomics CoreP30EY010572 · NEI · OREGON HEALTH & SCIENCE UNIVERSITY · PI TED S ACOTT · 1995 to 2026
$19.4M
PROTEIN CLEAVAGE SITES IN EXPERIMENTAL CATARACTOUS LENSR01EY007755 · NEI · OREGON HEALTH & SCIENCE UNIVERSITY · PI DAVID, LARRY L · 1995 to 2014
$3.6M
Role of Deamidation in Human Beta-Crystallin StructureR01EY012239 · NEI · OREGON HEALTH & SCIENCE UNIVERSITY · PI LAMPI, KIRSTEN JEANNE · 2004 to 2012
$2.2M
Dynein light chain as a dimerization hub for natively disordered proteinsR01GM084276 · NIGMS · OREGON STATE UNIVERSITY · PI BARBAR, ELISAR J · 2009 to 2013
$1.5M
DEAMIDATION AND HUMAN BETA CRYSTALLIN STRUCTURER29EY012239 · NEI · OREGON HEALTH AND SCIENCE UNIVERSITY · PI LAMPI, KIRSTEN JEANNE · 1998 to 2002
$433k
PROTEIN CLEAVAGE SITES IN EXPERIMENTAL CATARACTOUS LENSER29EY007755 · NEI · OREGON HEALTH AND SCIENCE UNIVERSITY · PI DAVID, LARRY L · 1989 to 1993
–
NEI NIH HHS EY007755NEI NIH HHS EY012239NEI NIH HHS EY10572NEI NIH HHS P30 EY010572NEI NIH HHS R01 EY007755NEI NIH HHS R01 EY012239NEI NIH HHS R29 EY012239NIGMS NIH HHS GM084276-01NIGMS NIH HHS R01 GM084276
6 · The paper itself

Abstract

backgroundLens transparency is due to the ordered arrangement of the major structural proteins, called crystallins. βB2 crystallin in the lens of the eye readily forms dimers with other β-crystallin subunits, but the resulting heterodimer structures are not known and were investigated in this study.

methodsStructures of βA3 and βB2 crystallin homodimers and the βA3/βB2 crystallin heterodimers were probed by measuring changes in solvent accessibility using hydrogen-deuterium exchange with mass spectrometry. We further mimicked deamidation in βB2 and probed the effect on the βA3/βB2 heterodimer. Results were confirmed with chemical crosslinking and NMR.

resultsBoth βA3 and βB2 had significantly decreased deuterium levels in the heterodimer compared to their respective homodimers, suggesting that they had less solvent accessibility and were more compact in the heterodimer. The compact structure of βB2 was supported by the identification of chemical crosslinks between lysines in βB2 within the heterodimer that were inconsistent with βB2's extended homodimeric structure. The compact structure of βA3 was supported by an overall decrease in mobility of βA3 in the heterodimer detected by NMR. In βB2, peptides 70-84 and 121-134 were exposed in the homodimer, but buried in the heterodimer with ≥50% decreases in deuterium levels. Homologous peptides in βA3, 97-109 and 134-149, had 25-50% decreases in deuterium levels in the heterodimer. These peptides are probable sites of interaction between βB2 and βA3 and are located at the predicted interface between subunits with bent linkers. Deamidation at Q184 in βB2 at this predicted interface led to a less compact βB2 in the heterodimer. The more compact structure of the βA3/βB2 heterodimer was also more heat stable than either of the homodimers.

conclusionsThe major structural proteins in the lens, the β-crystallins, are not static, but dynamic in solution, with differences in accessibility between the homo-and hetero-dimers. This structural flexibility, particularly of βB2, may facilitate formation of different size higher-ordered structures found in the transparent lens. GENERAL SIGNIFICANCE: Understanding complex hetero-oligomer interactions between β-crystallins in normal lens and how these interactions change during aging is fundamental to understanding the cause of cataracts. This article is part of a Special Issue entitled Crystallin Biochemistry in Health and Disease.

Indexed as

Protein MultimerizationAmidesAmino Acid SequenceAnimalsbeta-CrystallinsBinding SitesDeuterium Exchange MeasurementDimerizationHumansLens, CrystallineMolecular Probe TechniquesMolecular Sequence DataProtein BindingProtein ConformationAmidesbeta-CrystallinsCataractsDeamidationHydrogen–deuterium exchangeLensMass spectrometrySolution dynamicsβ-Crystallins

Identifiers

PMID26145577
PMCPMC4673030
OpenAlexW1934966248

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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.