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Structure-based statistical analysis of transmembrane helices

Overview of attention for article published in European Biophysics Journal, May 2012
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Title
Structure-based statistical analysis of transmembrane helices
Published in
European Biophysics Journal, May 2012
DOI 10.1007/s00249-012-0813-9
Pubmed ID
Authors

Carlos Baeza-Delgado, Marc A. Marti-Renom, Ismael Mingarro

Abstract

Recent advances in determination of the high-resolution structure of membrane proteins now enable analysis of the main features of amino acids in transmembrane (TM) segments in comparison with amino acids in water-soluble helices. In this work, we conducted a large-scale analysis of the prevalent locations of amino acids by using a data set of 170 structures of integral membrane proteins obtained from the MPtopo database and 930 structures of water-soluble helical proteins obtained from the protein data bank. Large hydrophobic amino acids (Leu, Val, Ile, and Phe) plus Gly were clearly prevalent in TM helices whereas polar amino acids (Glu, Lys, Asp, Arg, and Gln) were less frequent in this type of helix. The distribution of amino acids along TM helices was also examined. As expected, hydrophobic and slightly polar amino acids are commonly found in the hydrophobic core of the membrane whereas aromatic (Trp and Tyr), Pro, and the hydrophilic amino acids (Asn, His, and Gln) occur more frequently in the interface regions. Charged amino acids are also statistically prevalent outside the hydrophobic core of the membrane, and whereas acidic amino acids are frequently found at both cytoplasmic and extra-cytoplasmic interfaces, basic amino acids cluster at the cytoplasmic interface. These results strongly support the experimentally demonstrated biased distribution of positively charged amino acids (that is, the so-called the positive-inside rule) with structural data.

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Mendeley readers

The data shown below were compiled from readership statistics for 71 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 2 3%
Spain 2 3%
Norway 1 1%
France 1 1%
Germany 1 1%
Unknown 64 90%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 20 28%
Researcher 12 17%
Student > Bachelor 10 14%
Student > Master 7 10%
Professor 6 8%
Other 8 11%
Unknown 8 11%
Readers by discipline Count As %
Agricultural and Biological Sciences 32 45%
Biochemistry, Genetics and Molecular Biology 18 25%
Chemistry 6 8%
Engineering 2 3%
Computer Science 2 3%
Other 2 3%
Unknown 9 13%

Attention Score in Context

This research output has an Altmetric Attention Score of 1. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 26 February 2013.
All research outputs
#9,769,654
of 12,225,829 outputs
Outputs from European Biophysics Journal
#214
of 289 outputs
Outputs of similar age
#95,322
of 136,089 outputs
Outputs of similar age from European Biophysics Journal
#2
of 2 outputs
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So far Altmetric has tracked 289 research outputs from this source. They receive a mean Attention Score of 2.7. This one is in the 19th percentile – i.e., 19% of its peers scored the same or lower than it.
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