Evidence map›Paper›PMID 33319183›Full record

ArticleiScience2020

Terpene Chain Length Affects the Base Pairing Discrimination of

Phensinee Haruehanroengra, Sweta Vangaveti, Srivathsan V Ranganathan, Song Mao, Max Daniel Su, Alan A Chen, Jia Sheng

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in iScience, 2020. 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
–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

2 citing papers in PubMed.

  1. Article
  2. 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

7 authors.

Phensinee HaruehanroengraDepartment of Chemistry, University at Albany, State University of New York, 1400 Washington Avenue, Albany, NY 12222, USA.
Sweta VangavetiThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.
Srivathsan V RanganathanThe RNA Institute, University at Albany, State University of New York, Albany, NY 12222, USA.
Song MaoDepartment of Chemistry, University at Albany, State University of New York, 1400 Washington Avenue, Albany, NY 12222, USA.
Max Daniel SuDepartment of Chemistry, University at Albany, State University of New York, 1400 Washington Avenue, Albany, NY 12222, USA.
Alan A ChenDepartment of Chemistry, University at Albany, State University of New York, 1400 Washington Avenue, Albany, NY 12222, USA.
Jia ShengDepartment of Chemistry, University at Albany, State University of New York, 1400 Washington Avenue, Albany, NY 12222, USA.

Funding

Thermodynamically Calibrated RNA Simulations to Decode Mechanisms of RNAMolecular RecognitionR35GM133469 · NIGMS · STATE UNIVERSITY OF NEW YORK AT ALBANY · PI Alan Austin Chen · 2019 to 2026
$2.9M
NIGMS NIH HHS R35 GM133469
6 · The paper itself

Abstract

Geranylation is a hydrophobic modification discovered in several bacteria tRNAs with the function of promoting codon bias during translation. However, why nature selects this C10-geranyl group remains a question. We conduct synthesis, UV-thermal denaturation, and molecular simulation studies in RNA duplexes and reveal possible reasons behind this natural selection. Among methyl-(C1), dimethylallyl-(C5), geranyl-(C10), and farnesyl-(C15) modified 2-thiouridines, only geranyl-group promotes U:G over U:A pair. Molecular simulation shows all the modified terpene groups point to the minor groove of RNA duplexes. The discrimination between U:G and U:A pairs derives from the difference in hydrogen bonding and interactions of the chain with the hydrophobic area in the minor groove. Geranyl group has perfect length to discriminate U:G and U:A pairs, whereas the others are either too long or too short to achieve the same behavior. This work indicates that geranyl group cannot be replaced by other terpene groups in promoting codon-specificity.

Indexed as

BiochemistryMolecular StructureStructural Biology

Identifiers

PMID33319183
PMCPMC7726334

What OpenQuestion holds

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LicenceCC BY-NC-ND
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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.