Evidence map›Paper›PMID 24692562›Full record

ArticleThe Journal of biological chemistry2014

Intramolecular interactions that induce helical rearrangement upon rhodopsin activation: light-induced structural changes in metarhodopsin IIa probed by cysteine S-H stretching vibrations.

Yoichi Yamazaki, Tomoko Nagata, Akihisa Terakita, Hideki Kandori, Yoshinori Shichida, Yasushi Imamoto

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
0.6field-weighted citation impact, top 33% 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

2 citing papers in PubMed, 15 citations in OpenAlex.

  1. 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

6 authors at 3 institutions in 1 country.

Yoichi YamazakiFrom the Department of Biophysics, Graduate School of Science, Kyoto University, Kyoto 606-8502, Japan, the Graduate School of Materials Science, Nara Institute of Science and Technology, Nara, 630-0192, Japan.
Tomoko NagataFrom the Department of Biophysics, Graduate School of Science, Kyoto University, Kyoto 606-8502, Japan.
Akihisa TerakitaFrom the Department of Biophysics, Graduate School of Science, Kyoto University, Kyoto 606-8502, Japan, the Department of Biology and Geosciences, Graduate School of Science, Osaka City University, Osaka 558-8585, Japan, and.
Hideki KandoriFrom the Department of Biophysics, Graduate School of Science, Kyoto University, Kyoto 606-8502, Japan, the Department of Frontier Materials, Graduate School of Engineering, Nagoya Institute of Technology, Nagoya 466-8555, Japan.
Yoshinori ShichidaFrom the Department of Biophysics, Graduate School of Science, Kyoto University, Kyoto 606-8502, Japan.
Yasushi ImamotoFrom the Department of Biophysics, Graduate School of Science, Kyoto University, Kyoto 606-8502, Japan, imamoto@rh.biophys.kyoto-u.ac.jp.
Kyoto University · JPNagoya Institute of Technology · JPNara Institute of Science and Technology · JP

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Rhodopsin undergoes rearrangements of its transmembrane helices after photon absorption to transfer a light signal to the G-protein transducin. To investigate the mechanism by which rhodopsin adopts the transducin-activating conformation, the local environmental changes in the transmembrane region were probed using the cysteine S-H group, whose stretching frequency is well isolated from the other protein vibrational modes. The S-H stretching modes of cysteine residues introduced into Helix III, which contains several key residues for the helical movements, and of native cysteine residues were measured by Fourier transform infrared spectroscopy. This method was applied to metarhodopsin IIa, a precursor of the transducin-activating state in which the intramolecular interactions are likely to produce a state ready for helical movements. No environmental change was observed near the ionic lock between Arg-135 in Helix III and Glu-247 in Helix VI that maintains the inactive conformation. Rather, the cysteine residues that showed environmental changes were located around the chromophore, Ala-164, His-211, and Phe-261. These findings imply that the hydrogen bond between Helix III and Helix V involving Glu-122 and His-211 and the hydrophobic packing between Helix III and Helix VI involving Gly-121, Leu-125, Phe-261, and Trp-265 are altered before the helical rearrangement leading toward the active conformation.

Indexed as

LightVibrationAmino Acid SequenceCysteineHEK293 CellsHumansLiposomesModels, MolecularMolecular Sequence DataMutationPhosphatidylcholinesProtein BindingProtein Structure, SecondaryRhodopsinCysteineLiposomesmetarhodopsinsPhosphatidylcholinesRhodopsinFourier Transform IR (FTIR)G-protein-coupled Receptor (GPCR)PhototransductionProtein ConformationRhodopsinVision

Identifiers

PMID24692562
PMCPMC4022853
OpenAlexW2047005446

What OpenQuestion holds

Textmetadata
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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.