Evidence map›Paper›PMID 16581833›Full record

ArticleBiophysical journal2006

Simple models for extracting mechanical work from the ATP hydrolysis cycle.

Jonathan L Eide, Arup K Chakraborty, George F Oster

Abstract read
In one paragraph

Article in Biophysical journal, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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.

Jonathan L EideDepartment of Chemical Engineering, University of California, Berkeley, California, USA.
Arup K Chakraborty
George F Oster

Funding

MOLECULAR BIOMECHANICSR01GM059875 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI OSTER, GEORGE F · 2000 to 2004
$957k
NIGMS NIH HHS GM59875-02NIGMS NIH HHS R01 GM059875
6 · The paper itself

Abstract

According to the binding-zipper model, the RecA class of ATPase motors converts chemical energy into mechanical force by the progressive annealing of hydrogen bonds between the nucleotide and the catalytic pocket. The role of hydrolysis is to weaken the binding of products, allowing them to be released so that the cycle can repeat. Molecular dynamics can be used to study the unbinding process, but the binding process is more complex, so that inferences about it are made indirectly from structural, mutation, and biochemical studies. Here we present a series of models of varying complexity that illustrate the basic processes involved in force production during ATP binding. These models reveal the role of solvent and geometry in determining the amount of mechanical work that can be extracted from the binding process.

Indexed as

Models, BiologicalModels, ChemicalAdenosine TriphosphatasesAdenosine TriphosphateBinding SitesBiomechanical PhenomenaComputer SimulationElasticityEnergy TransferHydrolysisMolecular Motor ProteinsMotionMovementProtein BindingSignal TransductionStress, MechanicalAdenosine TriphosphatasesAdenosine TriphosphateMolecular Motor Proteins

Identifiers

PMID16581833
PMCPMC1471842

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.