Evidence map›Paper›PMID 18821776›Full record

ArticleBiochemistry2008

Switch from conventional to distributed kinetics in the bacteriorhodopsin photocycle.

Andrei K Dioumaev, Janos K Lanyi

Open access · greenAbstract read
In one paragraph

Article in Biochemistry, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
0.6field-weighted citation impact, top 41% 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

5 citing papers in PubMed, 9 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

2 authors at 1 institution in 1 country.

Andrei K DioumaevDepartment of Physiology and Biophysics, University of California, Irvine, California 92697-4560, USA. dioumaev@uci.edu
Janos K Lanyi
University of California, Irvine · US

Funding

LIGHT-DRIVEN ION TRANSPORT IN BACTERIAL RHODOPSINSR37GM029498 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI LANYI, JANOS K · 2000 to 2009
$4.5M
MECHANISM OF CHLORIDE TRANSPORT BY HALORHODOPSINR01GM029498 · NIGMS · UNIVERSITY OF CALIFORNIA-IRVINE · PI LANYI, JANOS K · 1985 to 2013
$2.1M
NIGMS NIH HHS R01 GM029498NIGMS NIH HHS (R01-GM29498NIGMS NIH HHS R37 GM029498
6 · The paper itself

Abstract

Below 195 K, the bacteriorhodopsin photocycle could not be adequately described with exponential kinetics [Dioumaev, A. K., and Lanyi, J. K. (2007) Proc. Natl. Acad. Sci. U.S.A. 104, 9621-9626] but required distributed kinetics, previously found in hemoglobin and myoglobin at temperatures below the vitrification point of the surrounding solvent. The aim of this study is to determine which factors cause the switch from this low-temperature regime to the conventional kinetics observed at ambient temperature. The photocycle was monitored by time-resolved FTIR between 180 and 280 K, using the D96N mutant. Depending on the temperature, decay and temporal redistribution of two or three intermediates (L, M, and N) were observed. Above approximately 245 K, an abrupt change in the kinetic behavior of the photocycle takes place. It does not affect the intermediates present but greatly accelerates their decay. Below approximately 240 K, a kinetic pattern with partial decay that cannot be explained by conventional kinetics, but suggesting distributed kinetics, was dominant, while above approximately 250 K, there were no significant deviations from exponential behavior. The approximately 245 K critical point is >/=10 K below the freezing point of interbilayer water, and we were unable to correlate it with any FTIR-detectable transition of the lipids. Therefore, we attribute the change from distributed to conventional kinetics to a thermodynamic phase transition in the protein. Most probably, it is related to the freezing and thawing of internal fluctuations of the protein, known as the dynamic phase transition, although in bacteriorhodopsin the latter is usually believed to take place at least 15 K below the observed critical temperature of approximately 245 K.

Indexed as

BacteriorhodopsinsHalobacterium salinarumKineticsMutagenesis, Site-DirectedPhase TransitionPhotobiologyPurple MembraneRecombinant ProteinsSpectroscopy, Fourier Transform InfraredThermodynamicsBacteriorhodopsinsRecombinant Proteins

Identifiers

PMID18821776
PMCPMC2692533
OpenAlexW2009923592

What OpenQuestion holds

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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.