Evidence map›Paper›PMID 24889635›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2014

Pathway for Mn-cluster oxidation by tyrosine-Z in the S2 state of photosystem II.

Daniele Narzi, Daniele Bovi, Leonardo Guidoni

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.

0numbers the graph read from it
0cells of the map it votes in
31citing 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

31 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Article
  6. Review
  7. The SPhotosynthesis research · 2024
    Article
  8. Unravelling MnPhysical chemistry chemical physics : PCCP · 2024
    Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Redox Isomerism in the SChemistry (Weinheim an der Bergstrasse, Germany) · 2021
    Article
  20. 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.

Daniele NarziDipartimento di Fisica, Sapienza Università di Roma, 00185 Rome, Italy; and.
Daniele BoviDipartimento di Fisica, Sapienza Università di Roma, 00185 Rome, Italy; and.
Leonardo GuidoniDipartimento di Fisica, Sapienza Università di Roma, 00185 Rome, Italy; andDipartimento di Scienze Fisiche e Chimiche, Università degli Studi dell' Aquila, 67100 L' Aquila, Italy l.guidoni@gmail.com.

Funding

European Research Council 240624
6 · The paper itself

Abstract

Water oxidation in photosynthetic organisms occurs through the five intermediate steps S0-S4 of the Kok cycle in the oxygen evolving complex of photosystem II (PSII). Along the catalytic cycle, four electrons are subsequently removed from the Mn4CaO5 core by the nearby tyrosine Tyr-Z, which is in turn oxidized by the chlorophyll special pair P680, the photo-induced primary donor in PSII. Recently, two Mn4CaO5 conformations, consistent with the S2 state (namely, S2(A) and S2(B) models) were suggested to exist, perhaps playing a different role within the S2-to-S3 transition. Here we report multiscale ab initio density functional theory plus U simulations revealing that upon such oxidation the relative thermodynamic stability of the two previously proposed geometries is reversed, the S2(B) state becoming the leading conformation. In this latter state a proton coupled electron transfer is spontaneously observed at ∼100 fs at room temperature dynamics. Upon oxidation, the Mn cluster, which is tightly electronically coupled along dynamics to the Tyr-Z tyrosyl group, releases a proton from the nearby W1 water molecule to the close Asp-61 on the femtosecond timescale, thus undergoing a conformational transition increasing the available space for the subsequent coordination of an additional water molecule. The results can help to rationalize previous spectroscopic experiments and confirm, for the first time to our knowledge, that the water-splitting reaction has to proceed through the S2(B) conformation, providing the basis for a structural model of the S3 state.

Indexed as

BiomimeticsAlgorithmsChlorophyllComputer SimulationConservation of Natural ResourcesElectronsEnergy-Generating ResourcesGreen Chemistry TechnologyKineticsManganeseMolecular Dynamics SimulationOxygenPhotochemistryPhotosynthesisPhotosystem II Protein ComplexSoftwareChlorophyllManganeseOxygenPhotosystem II Protein ComplexTyrosineWatermolecular dynamicsphotosynthesisQM/MMreaction mechanisms

Identifiers

PMID24889635
PMCPMC4066536

What OpenQuestion holds

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Registered trials

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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.