Evidence map›Paper›PMID 32968135›Full record

ArticleScientific reports2020

Structural analysis of a new carotenoid-binding protein: the C-terminal domain homolog of the OCP.

Maria Agustina Dominguez-Martin, Michal Hammel, Sayan Gupta, Sigal Lechno-Yossef, Markus Sutter, Daniel J Rosenberg, Yan Chen, Christopher J Petzold, Corie Y Ralston, Tomáš Polívka and 1 more

Open access · goldAbstract read
In one paragraph

Article in Scientific reports, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
1.4field-weighted citation impact, top 18% 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

11 citing papers in PubMed, 28 citations in OpenAlex.

  1. Article
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  5. Review
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  8. Integrated Structural Studies for Elucidating Carotenoid-Protein Interactions.Advances in experimental medicine and biology · 2022
    Article
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  10. 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

11 authors at 3 institutions in 2 countries.

Maria Agustina Dominguez-MartinEnvironmental Genomics and Systems Biology and Molecular Biophysics and Integrated Bioimaging Divisions, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Michal HammelMolecular Biophysics and Integrated Bioimaging Division and Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Sayan GuptaMolecular Biophysics and Integrated Bioimaging Division and Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Sigal Lechno-YossefMSU-Department of Energy Plant Research Laboratory, Michigan State University, East Lansing, MI, 48824, USA.
Markus SutterEnvironmental Genomics and Systems Biology and Molecular Biophysics and Integrated Bioimaging Divisions, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Daniel J RosenbergMolecular Biophysics and Integrated Bioimaging Division and Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Yan ChenBiological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Christopher J PetzoldBiological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Corie Y RalstonMolecular Foundry, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Tomáš PolívkaInstitute of Physics, Faculty of Science, University of South Bohemia, Branišovská 31, 370 05, Ceske Budejovice, Czech Republic.
Cheryl A KerfeldEnvironmental Genomics and Systems Biology and Molecular Biophysics and Integrated Bioimaging Divisions, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA. ckerfeld@lbl.gov.
Lawrence Berkeley National Laboratory · USMichigan State University · USUniversity of South Bohemia in České Budějovice · CZ

Funding

User Training and OutreachP30GM124169 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI PAUL David ADAMS, Gregory L Hura · 2017 to 2026
$28.6M
Development of high-dose time-resolved x-ray footprinting technologies to enable the next level of structural analysis for challenging biological problemsR01GM126218 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI RALSTON, CORIE Y · 2018 to 2025
$3.4M
Marie Curie 795070NIGMS NIH HHS P30 GM124169NIGMS NIH HHS R01 GM126218NIH HHS 1R01GM126218
6 · The paper itself

Abstract

The Orange Carotenoid Protein (OCP) is a water-soluble protein that governs photoprotection in many cyanobacteria. The 35 kDa OCP is structurally and functionally modular, consisting of an N-terminal effector domain (NTD) and a C-terminal regulatory domain (CTD); a carotenoid spans the two domains. The CTD is a member of the ubiquitous Nuclear Transport Factor-2 (NTF2) superfamily (pfam02136). With the increasing availability of cyanobacterial genomes, bioinformatic analysis has revealed the existence of a new family of proteins, homologs to the CTD, the C-terminal domain-like carotenoid proteins (CCPs). Here we purify holo-CCP2 directly from cyanobacteria and establish that it natively binds canthaxanthin (CAN). We use small-angle X-ray scattering (SAXS) to characterize the structure of this carotenoprotein in two distinct oligomeric states. A single carotenoid molecule spans the two CCPs in the dimer. Our analysis with X-ray footprinting-mass spectrometry (XFMS) identifies critical residues for carotenoid binding that likely contribute to the extreme red shift (ca. 80 nm) of the absorption maximum of the carotenoid bound by the CCP2 dimer and a further 10 nm shift in the tetramer form. These data provide the first structural description of carotenoid binding by a protein consisting of only an NTF2 domain.

Indexed as

Bacterial ProteinsCanthaxanthinCrystallography, X-RayCyanobacteriaNucleocytoplasmic Transport ProteinsProtein BindingProtein DomainsScattering, Small AngleBacterial ProteinsCanthaxanthinNucleocytoplasmic Transport Proteinsorange carotenoid protein, Synechocystis

Identifiers

PMID32968135
PMCPMC7512017
OpenAlexW3089188101

What OpenQuestion holds

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LicenceCC BY
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.