MemDis: Predicting Disordered Regions in Transmembrane Proteins

Overview

Journal Int J Mol Sci

Publisher MDPI

Specialties Biochemistry
Chemistry
Molecular Biology

Date 2021 Nov 27

PMID 34830151

Citations 9

Authors

Laszlo Dobson

Gabor E Tusnady

Affiliations

Soon will be listed here.

Abstract

Transmembrane proteins (TMPs) play important roles in cells, ranging from transport processes and cell adhesion to communication. Many of these functions are mediated by intrinsically disordered regions (IDRs), flexible protein segments without a well-defined structure. Although a variety of prediction methods are available for predicting IDRs, their accuracy is very limited on TMPs due to their special physico-chemical properties. We prepared a dataset containing membrane proteins exclusively, using X-ray crystallography data. MemDis is a novel prediction method, utilizing convolutional neural network and long short-term memory networks for predicting disordered regions in TMPs. In addition to attributes commonly used in IDR predictors, we defined several TMP specific features to enhance the accuracy of our method further. MemDis achieved the highest prediction accuracy on TMP-specific dataset among other popular IDR prediction methods.

Citing Articles

Evaluation of predictions of disordered binding regions in the CAID2 experiment.

Zhang F, Kurgan L Comput Struct Biotechnol J. 2025; 27():78-88.

PMID: 39811792 PMC: 11732247. DOI: 10.1016/j.csbj.2024.12.009.

Assessment of Disordered Linker Predictions in the CAID2 Experiment.

Wang K, Hu G, Wu Z, Uversky V, Kurgan L Biomolecules. 2024; 14(3).

PMID: 38540707 PMC: 10968229. DOI: 10.3390/biom14030287.

Comparative evaluation of AlphaFold2 and disorder predictors for prediction of intrinsic disorder, disorder content and fully disordered proteins.

Zhao B, Ghadermarzi S, Kurgan L Comput Struct Biotechnol J. 2024; 21:3248-3258.

PMID: 38213902 PMC: 10782001. DOI: 10.1016/j.csbj.2023.06.001.

How AlphaFold2 shaped the structural coverage of the human transmembrane proteome.

Jambrich M, Tusnady G, Dobson L Sci Rep. 2023; 13(1):20283.

PMID: 37985809 PMC: 10662385. DOI: 10.1038/s41598-023-47204-7.

LeishMANIAdb: a comparative resource for Leishmania proteins.

Tusnady G, Zeke A, Kalman Z, Fatoux M, Ricard-Blum S, Gibson T Database (Oxford). 2023; 2023.

PMID: 37935582 PMC: 10627299. DOI: 10.1093/database/baad074.

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