Evidence map›Paper›PMID 23599284›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2013

Mechanism of tyrosine D oxidation in Photosystem II.

Keisuke Saito, A William Rutherford, Hiroshi Ishikita

Open access · bronzeAbstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.

0numbers the graph read from it
0cells of the map it votes in
27citing papers in PubMed
3.9field-weighted citation impact, top 6% 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

27 citing papers in PubMed, 78 citations in OpenAlex.

  1. Article
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  4. Review
  5. Electron-Transfer Route in the Early Oxidation States of the MnThe journal of physical chemistry. B · 2023
    Article
  6. Functional Water Networks in Fully Hydrated Photosystem II.Journal of the American Chemical Society · 2022
    Article
  7. Article
  8. Review
  9. Article
  10. Article
  11. Acquirement of water-splitting ability and alteration of the charge-separation mechanism in photosynthetic reaction centers.Proceedings of the National Academy of Sciences of the United States of America · 2020
    Article
  12. Article
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  14. Article
  15. Article
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  18. ONature communications · 2018
    Article
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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

3 authors at 2 institutions in 2 countries.

Keisuke SaitoCareer-Path Promotion Unit for Young Life Scientists, Graduate School of Medicine, Kyoto University, Yoshida-Konoe-cho, Sakyo-ku, Kyoto 606-8501, Japan.
A William Rutherford
Hiroshi Ishikita
Japan Science and Technology Agency · JPImperial College London · GB

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Using quantum mechanics/molecular mechanics calculations and the 1.9-Å crystal structure of Photosystem II [Umena Y, Kawakami K, Shen J-R, Kamiya N (2011) Nature 473(7345):55-60], we investigated the H-bonding environment of the redox-active tyrosine D (TyrD) and obtained insights that help explain its slow redox kinetics and the stability of TyrD(•). The water molecule distal to TyrD, located ~4 Å away from the phenolic O of TyrD, corresponds to the presence of the tyrosyl radical state. The water molecule proximal to TyrD, in H-bonding distance to the phenolic O of TyrD, corresponds to the presence of the unoxidized tyrosine. The H(+) released on oxidation of TyrD is transferred to the proximal water, which shifts to the distal position, triggering a concerted proton transfer pathway involving D2-Arg180 and a series of waters, through which the proton reaches the aqueous phase at D2-His61. The water movement linked to the ejection of the proton from the hydrophobic environment near TyrD makes oxidation slow and quasiirreversible, explaining the great stability of the TyrD(•). A symmetry-related proton pathway associated with tyrosine Z is pointed out, and this is associated with one of the Cl(-) sites. This may represent a proton pathway functional in the water oxidation cycle.

Indexed as

Computational BiologyCrystallography, X-RayCyanobacteriaElectronsHydrogen BondingModels, MolecularMolecular ConformationOxidation-ReductionOxygenPhotosystem II Protein ComplexProtonsSoftwareTyrosineWaterOxygenPhotosystem II Protein ComplexProtonsTyrosineWatercontrolling electron transfer ratehydrogen bond direction switchingoxygen-evolving complexproton-coupled electron transferreaction center evolution

Identifiers

PMID23599284
PMCPMC3651498
OpenAlexW2012742986

What OpenQuestion holds

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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.