Evidence map›Paper›PMID 31692472›Full record

ArticleActa crystallographica. Section D, Structural biology2019

Solvent flows, conformation changes and lattice reordering in a cold protein crystal.

David W Moreau, Hakan Atakisi, Robert E Thorne

Abstract read
In one paragraph

Article in Acta crystallographica. Section D, Structural biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Article
  2. Water Networks Repopulate Protein-Ligand Interfaces with Temperature.Angewandte Chemie (International ed. in English) · 2022
    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

3 authors.

David W MoreauPhysics Department, Cornell University, Ithaca, NY 14853, USA.ORCID 0000-0002-3193-571X
Hakan AtakisiPhysics Department, Cornell University, Ithaca, NY 14853, USA.
Robert E ThornePhysics Department, Cornell University, Ithaca, NY 14853, USA.

Funding

Overall (pp. 40-62)P41GM103485 · NIGMS · CORNELL UNIVERSITY · PI CERIONE, RICHARD A. · 2012 to 2018
$15.5M
TRAINING IN MOLECULAR PHYSICS OF BIOLOGICAL SYSTEMST32GM008267 · NIGMS · CORNELL UNIVERSITY ITHACA · PI WANG, MICHELLE D. · 1988 to 2021
$9.6M
Technology Development for High-Throughput Biomolecular CryoSAXSR01GM127528 · NIGMS · CORNELL UNIVERSITY · PI THORNE, ROBERT E. · 2018 to 2021
$1.5M
National Science Foundation MCB-1330685NIGMS NIH HHS P41 GM103485NIGMS NIH HHS R01 GM127528NIGMS NIH HHS T32 GM008267NIH HHS 5R01GM127528NIH HHS T32GM0082567
6 · The paper itself

Abstract

When protein crystals are abruptly cooled, the unit-cell, protein and solvent-cavity volumes all contract, but the volume of bulk-like internal solvent may expand. Outflow of this solvent from the unit cell and its accumulation in defective interior crystal regions has been suggested as one cause of the large increase in crystal mosaicity on cooling. It is shown that when apoferritin crystals are abruptly cooled to temperatures between 220 and 260 K, the unit cell contracts, solvent is pushed out and the mosaicity grows. On temperature-dependent timescales of 10 to 200 s, the unit-cell and solvent-cavity volume then expand, solvent flows back in, and the mosaicity and B factor both drop. Expansion and reordering at fixed low temperature are associated with small-amplitude but large-scale changes in the conformation and packing of apoferritin. These results demonstrate that increases in mosaicity on cooling arise due to solvent flows out of or into the unit cell and to incomplete, arrested relaxation of protein conformation. They indicate a critical role for time in variable-temperature crystallographic studies, and the feasibility of probing interactions and cooperative conformational changes that underlie cold denaturation in the presence of liquid solvent at temperatures down to ∼200 K.

Indexed as

Protein ConformationAnimalsApoferritinsCryoprotective AgentsCrystallizationCrystallography, X-RaySolventsTemperatureApoferritinsCryoprotective AgentsSolventscold denaturationcryocrystallographyprotein crystallographysolvent behaviourthermal expansion

Identifiers

PMID31692472
PMCPMC6834080

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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.