Evidence map›Paper›PMID 32195305›Full record

ArticleData in brief2020

Data set of intrinsically disordered proteins analysed at a local protein conformation level.

Akhila Melarkode Vattekatte, Tarun Jairaj Narwani, Aline Floch, Mirjana Maljković, Soubika Bisoo, Nicolas K Shinada, Agata Kranjc, Jean-Christophe Gelly, Narayanaswamy Srinivasan, Nenad Mitić and 1 more

Abstract read
In one paragraph

Article in Data in brief, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Review
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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

11 authors.

Akhila Melarkode VattekatteBiologie Intégrée du Globule Rouge UMR_S1134, Inserm, Univ. Paris, Univ. de la Réunion, Univ. des Antilles, F-75739 Paris, France.
Tarun Jairaj NarwaniBiologie Intégrée du Globule Rouge UMR_S1134, Inserm, Univ. Paris, Univ. de la Réunion, Univ. des Antilles, F-75739 Paris, France.
Aline FlochLaboratoire d'Excellence GR-Ex, F-75739 Paris, France.
Mirjana MaljkovićUniversity of Belgrade, Faculty of Mathematics, Belgrade, Serbia.
Soubika BisooBiologie Intégrée du Globule Rouge UMR_S1134, Inserm, Univ. Paris, Univ. de la Réunion, Univ. des Antilles, F-75739 Paris, France.
Nicolas K ShinadaBiologie Intégrée du Globule Rouge UMR_S1134, Inserm, Univ. Paris, Univ. de la Réunion, Univ. des Antilles, F-75739 Paris, France.
Agata KranjcBiologie Intégrée du Globule Rouge UMR_S1134, Inserm, Univ. Paris, Univ. de la Réunion, Univ. des Antilles, F-75739 Paris, France.
Jean-Christophe GellyBiologie Intégrée du Globule Rouge UMR_S1134, Inserm, Univ. Paris, Univ. de la Réunion, Univ. des Antilles, F-75739 Paris, France.
Narayanaswamy SrinivasanMolecular Biophysics Unit, IISc, Bangalore, India.
Nenad MitićUniversity of Belgrade, Faculty of Mathematics, Belgrade, Serbia.
Alexandre G de BrevernBiologie Intégrée du Globule Rouge UMR_S1134, Inserm, Univ. Paris, Univ. de la Réunion, Univ. des Antilles, F-75739 Paris, France.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Intrinsic Disorder Proteins (IDPs) have become a hot topic since their characterisation in the 90s. The data presented in this article are related to our research entitled "A structural entropy index to analyse local conformations in Intrinsically Disordered Proteins" published in Journal of Structural Biology [1]. In this study, we quantified, for the first time, continuum from rigidity to flexibility and finally disorder. Non-disordered regions were also highlighted in the ensemble of disordered proteins. This work was done using the Protein Ensemble Database (PED), which is a useful database collecting series of protein structures considered as IDPs. The data set consists of a collection of cleaned protein files in classical pdb format that can be readily used as an input with most automatic analysis software. The accompanying data include the coding of all structural information in terms of a structural alphabet, namely Protein Blocks (PBs). An entropy index derived from PBs that allows apprehending the continuum between protein rigidity to flexibility to disorder is included, with information from secondary structure assignment, protein accessibility and prediction of disorder from the sequences. The data may be used for further structural bioinformatics studies of IDPs. It can also be used as a benchmark for evaluating disorder prediction methods.

Indexed as

EnsemblesEntropyLocal protein conformationPDBProtein disorderStructural alphabet

Identifiers

PMID32195305
PMCPMC7078294

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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.