Evidence map›Paper›PMID 36307598›Full record

ArticlePhotosynthesis research2023

Tools for analyzing protonation states and for tracing proton transfer pathways with examples from the Rb. sphaeroides photosynthetic reaction centers.

Rongmei Judy Wei, Umesh Khaniya, Junjun Mao, Jinchan Liu, Victor S Batista, M R Gunner

Abstract read
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In one paragraph

Article in Photosynthesis research, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
0.5field-weighted citation impact, top 38% 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

4 citing papers in PubMed, 6 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

6 authors at 3 institutions in 1 country.

Rongmei Judy WeiPh.D. Program in Chemistry, The Graduate Center, City University of New York, New York, NY, 10016, USA.
Umesh KhaniyaDepartment of Physics, City College of New York, New York, NY, 10031, USA.
Junjun MaoDepartment of Physics, City College of New York, New York, NY, 10031, USA.
Jinchan LiuDepartment of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, 06520, USA.
Victor S BatistaDepartment of Chemistry, Yale University, New Haven, CT, 06520, USA.
M R GunnerPh.D. Program in Chemistry, The Graduate Center, City University of New York, New York, NY, 10016, USA. mgunner@ccny.cuny.edu.ORCID http://orcid.org/0000-0003-1120-5776
The Graduate Center, CUNY · USYale University · USCity College of New York · US

Funding

Savannah River Operations Office, U.S. Department of Energy DESC0001423
6 · The paper itself

Abstract

Protons participate in many reactions. In proteins, protons need paths to move in and out of buried active sites. The vectorial movement of protons coupled to electron transfer reactions establishes the transmembrane electrochemical gradient used for many reactions, including ATP synthesis. Protons move through hydrogen bonded chains of waters and hydroxy side chains via the Grotthuss mechanism and by proton binding and release from acidic and basic residues. MCCE analysis shows that proteins exist in a large number of protonation states. Knowledge of the equilibrium ensemble can provide a rational basis for setting protonation states in simulations that fix them, such as molecular dynamics (MD). The proton path into the Q

Indexed as

Photosynthetic Reaction Center Complex ProteinsRhodobacter sphaeroidesElectron TransportHydrogen-Ion ConcentrationPhotosynthesisProtonsPhotosynthetic Reaction Center Complex ProteinsProtonsHydrogen bond networkMicrostatesProtonation statesProton transferReaction centerSemiquinone

Identifiers

PMID36307598
OpenAlexW4307585232

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.