Evidence map›Paper›PMID 33940851›Full record

ArticleThe Journal of chemical physics2021

How adding a single methylene to dihydrofolate reductase can change its conformational dynamics.

Ryan W Penhallurick, Alliyah Harold, Maya D Durnal, Toshiko Ichiye

Open access · greenAbstract read
In one paragraph

Article in The Journal of chemical physics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
0.2field-weighted citation impact, top 52% 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

3 citing papers in PubMed, 2 citations in OpenAlex.

  1. Article
  2. Article
  3. 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

4 authors at 1 institution in 1 country.

Ryan W PenhallurickDepartment of Chemistry, Georgetown University, Washington, District of Columbia 20057, USA.ORCID 0000000200370955
Alliyah HaroldDepartment of Chemistry, Georgetown University, Washington, District of Columbia 20057, USA.ORCID 0000000246382492
Maya D DurnalDepartment of Chemistry, Georgetown University, Washington, District of Columbia 20057, USA.ORCID 0000000323000399
Toshiko IchiyeDepartment of Chemistry, Georgetown University, Washington, District of Columbia 20057, USA.ORCID 0000000324745253
Georgetown University · US

Funding

Computational Studies of the Molecular Basis of Natural and Acquired Resistance to Extremes in MicrobesR01GM122441 · NIGMS · GEORGETOWN UNIVERSITY · PI SWIFT, JENNIFER A · 2017 to 2022
$1.8M
NIGMS NIH HHS R01 GM122441
6 · The paper itself

Abstract

Studies of the effects of pressure on proteins from piezophilic (pressure-loving) microbes compared with homologous proteins from mesophilic microbes have been relatively rare. Interestingly, such studies of dihydrofolate reductase show that a single-site mutation from an aspartic acid to a glutamic acid can reverse the pressure-dependent monotonic decrease in activity to that in a monotonic pressure-dependent activation. This residue is near the active site but is not thought to directly participate in the catalytic mechanism. Here, the ways that addition of one carbon to the entire protein could lead to such a profound difference in pressure effects are explored using molecular dynamics simulations. The results indicate that the glutamate changes the coupling between a helix and the β-sheet due to the extra flexibility of the side chain, which further changes correlated motions of other regions of the protein.

Indexed as

PressureAspartic AcidEscherichia coliEscherichia coli ProteinsGlutamic AcidHydrogen BondingMolecular Dynamics SimulationMutationProtein ConformationTetrahydrofolate DehydrogenaseAspartic AcidEscherichia coli ProteinsGlutamic AcidTetrahydrofolate Dehydrogenase

Identifiers

PMID33940851
PMCPMC8068499
OpenAlexW3159606806

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.