Evidence map›Paper›PMID 25185561›Full record

ArticleBiophysical journal2014

QM/MM model of the mouse olfactory receptor MOR244-3 validated by site-directed mutagenesis experiments.

Sivakumar Sekharan, Mehmed Z Ertem, Hanyi Zhuang, Eric Block, Hiroaki Matsunami, Ruina Zhang, Jennifer N Wei, Yi Pan, Victor S Batista

Abstract readLetterValidation Study
PubMed Full text at PMC Publisher
In one paragraph

Article in Biophysical journal, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.

0numbers the graph read from it
0cells of the map it votes in
16citing 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

16 citing papers in PubMed.

  1. Article
  2. Basis for high-affinity ethylene binding by the ethylene receptor ETR1 of Arabidopsis.Proceedings of the National Academy of Sciences of the United States of America · 2023
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  8. Molecular mechanism of activation of human musk receptors OR5AN1 and OR1A1 by (Proceedings of the National Academy of Sciences of the United States of America · 2018
    Article
  9. Article
  10. Article
  11. Article
  12. Review
  13. Article
  14. G protein-coupled odorant receptors: From sequence to structure.Protein science : a publication of the Protein Society · 2015
    Article
  15. Article
  16. Implausibility of the vibrational theory of olfaction.Proceedings of the National Academy of Sciences of the United States of America · 2015
    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

9 authors.

Sivakumar SekharanDepartment of Chemistry, Yale University, New Haven, Connecticut. Electronic address: sivakumar.sekharan@yale.edu.
Mehmed Z ErtemDepartment of Chemistry, Yale University, New Haven, Connecticut; Chemistry Department, Brookhaven National Laboratory, Upton, New York. Electronic address: mzertem@bnl.gov.
Hanyi ZhuangDepartment of Pathophysiology, Key Laboratory of Cell Differentiation and Apoptosis of the Chinese Ministry of Education, Shanghai Jiao Tong University School of Medicine, Shanghai, P. R. China; Institute of Health Sciences, Shanghai Jiao Tong University School of Medicine/Shanghai Institutes for Biological Sciences of Chinese Academy of Sciences, Shanghai, P. R. China. Electronic address: hanyizhuang@sjtu.edu.cn.
Eric BlockDepartment of Chemistry, University at Albany, State University of New York, Albany, New York.
Hiroaki MatsunamiDepartment of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, North Carolina; Department of Neurobiology, Duke University Medical Center, Durham, North Carolina.
Ruina ZhangDepartment of Pathophysiology, Key Laboratory of Cell Differentiation and Apoptosis of the Chinese Ministry of Education, Shanghai Jiao Tong University School of Medicine, Shanghai, P. R. China.
Jennifer N WeiDepartment of Chemistry, Yale University, New Haven, Connecticut.
Yi PanDepartment of Pathophysiology, Key Laboratory of Cell Differentiation and Apoptosis of the Chinese Ministry of Education, Shanghai Jiao Tong University School of Medicine, Shanghai, P. R. China.
Victor S BatistaDepartment of Chemistry, Yale University, New Haven, Connecticut. Electronic address: victor.batista@yale.edu.

Funding

Molecular Mechanisms Underlying Odorant RecognitionR01DC005782 · NIDCD · DUKE UNIVERSITY · PI MATSUNAMI, HIROAKI · 2002 to 2012
$3.5M
NIDCD NIH HHS DC005782NIDCD NIH HHS R01 DC005782
6 · The paper itself

Abstract

Understanding structure/function relationships of olfactory receptors is challenging due to the lack of x-ray structural models. Here, we introduce a QM/MM model of the mouse olfactory receptor MOR244-3, responsive to organosulfur odorants such as (methylthio)methanethiol. The binding site consists of a copper ion bound to the heteroatoms of amino-acid residues H105, C109, and N202. The model is consistent with site-directed mutagenesis experiments and biochemical measurements of the receptor activation, and thus provides a valuable framework for further studies of the sense of smell at the molecular level.

Indexed as

AnimalsBinding SitesComputer SimulationCopperHumansIonsMiceModels, MolecularMolecular Sequence DataMutagenesis, Site-DirectedProtein Structure, SecondaryQuantum TheoryReceptor, Muscarinic M2Receptors, OdorantSequence AlignmentStructure-Activity RelationshipCopperIonsMOR244-3 protein, mouseOlfr256 protein, mouseReceptor, Muscarinic M2Receptors, OdorantWater

Identifiers

PMID25185561
PMCPMC4156664

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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.