Evidence map›Paper›PMID 26344741›Full record

ArticleExperimental eye research2015

Structure of zebrafish IRBP reveals fatty acid binding.

Debashis Ghosh, Karen M Haswell, Molly Sprada, Federico Gonzalez-Fernandez

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Experimental eye research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing papers in PubMed
0.6field-weighted citation impact, top 32% 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

15 citing papers in PubMed, 15 citations in OpenAlex.

  1. Review
  2. Article
  3. Article
  4. Review
  5. Review
  6. Article
  7. The molecular aspects of absorption and metabolism of carotenoids and retinoids in vertebrates.Biochimica et biophysica acta. Molecular and cell biology of lipids · 2020
    Review
  8. Single particle cryo-EM of the complex between interphotoreceptor retinoid-binding protein and a monoclonal antibody.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2020
    Article
  9. Review
  10. Article
  11. Article
  12. Structural biology of 11-The Biochemical journal · 2018
    Review
  13. Article
  14. Article
  15. Review
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

4 authors at 2 institutions in 1 country.

Debashis GhoshDepartment of Pharmacology, State University of New York Upstate Medical University, Syracuse, NY, USA. Electronic address: ghoshd@upstate.edu.
Karen M HaswellDepartment of Pharmacology, State University of New York Upstate Medical University, Syracuse, NY, USA.
Molly SpradaSUNY Eye Institute, State University of New York, USA.
Federico Gonzalez-FernandezMedical Research & Development Service, G.V. (Sonny) Veterans Affairs Medical Center, Jackson, MS, USA; Departments of Ophthalmology and Pathology, University of Mississippi Medical Center, Jackson, MS, USA; SUNY Eye Institute, State University of New York, USA. Electronic address: fgonzalezfernandez@umc.edu.
State University of New York · USSUNY Upstate Medical University · US

Funding

IRBP--STRUCTURE/FUNCTIONR01EY009412 · NEI · UNIVERSITY OF VIRGINIA CHARLOTTESVILLE · PI GHOSH, DEBASHIS, GONZALEZ-FERNANDEZ, FEDERICO · 1999 to 2011
$3.0M
NEI NIH HHS R01 EY009412NEI NIH HHS R01 EY09412
6 · The paper itself

Abstract

Interphotoreceptor retinoid-binding protein (IRBP) has a remarkable role in targeting and protecting all-trans and 11-cis retinol, and 11-cis retinal during the rod and cone visual cycles. Little is known about how the correct retinoid is efficiently delivered and removed from the correct cell at the required time. It has been proposed that different fatty composition at that the outer-segments and retinal-pigmented epithelium have an important role is regulating the delivery and uptake of the visual cycle retinoids at the cell-interphotoreceptor-matrix interface. Although this suggests intriguing mechanisms for the role of local fatty acids in visual-cycle retinoid trafficking, nothing is known about the structural basis of IRBP-fatty acid interactions. Such regulation may be mediated through IRBP's unusual repeating homologous modules, each containing about 300 amino acids. We have been investigating structure-function relationships of Zebrafish IRBP (zIRBP), which has only two tandem modules (z1 and z2), as a model for the more complex four-module mammalian IRBP's. Here we report the first X-ray crystal structure of a teleost IRBP, and the only structure with a bound ligand. The X-ray structure of z1, determined at 1.90 Å resolution, reveals a two-domain organization of the module (domains A and B). A deep hydrophobic pocket with a single bound molecule of oleic acid was identified within the N-terminal domain A. In fluorescence titrations assays, oleic acid displaced all-trans retinol from zIRBP. Our study, which provides the first structure of an IRBP with bound ligand, supports a potential role for fatty acids in regulating retinoid binding.

Indexed as

Protein ConformationAmino Acid SequenceAnimalsCrystallography, X-RayEye ProteinsLigandsMolecular Sequence DataOleic AcidRetinol-Binding ProteinsRetinol-Binding Proteins, InterstitialSpectrometry, FluorescenceZebrafishZebrafish ProteinsEye ProteinsLigandsOleic AcidRetinol-Binding ProteinsRetinol-Binding Proteins, InterstitialZebrafish ProteinsInterphotoreceptor matrixInterphotoreceptor retinoid-binding proteinOleic acidRBP3RetinaVisual cycleX-ray structureZebrafish

Identifiers

PMID26344741
PMCPMC4624502
OpenAlexW1576222260

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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.