Classification of intrinsically disordered regions and proteins

R Van Der Lee, M Buljan, B Lang, RJ Weatheritt… - Chemical …, 2014 - ACS Publications
Over the past decade, we have observed a massive increase in the amount of information
describing protein sequences from a variety of organisms. 1, 2 While this may reflect the …

Understanding protein non-folding

VN Uversky, AK Dunker - Biochimica et Biophysica Acta (BBA)-Proteins …, 2010 - Elsevier
This review describes the family of intrinsically disordered proteins, members of which fail to
form rigid 3-D structures under physiological conditions, either along their entire lengths or …

Gapped sequence alignment using artificial neural networks: application to the MHC class I system

M Andreatta, M Nielsen - Bioinformatics, 2016 - academic.oup.com
Motivation: Many biological processes are guided by receptor interactions with linear
ligands of variable length. One such receptor is the MHC class I molecule. The length …

ELM—the eukaryotic linear motif resource in 2020

M Kumar, M Gouw, S Michael… - Nucleic acids …, 2020 - academic.oup.com
Studies on the DNA-binding properties of transcription factors are important in searching for
the downstream genes regulated by these factors. In the present study, we report on the …

Intrinsically disordered proteins: a 10-year recap

P Tompa - Trends in biochemical sciences, 2012 - cell.com
The suggestion that the native state of many proteins is intrinsically disordered (or, as
originally termed, unstructured) is now integral to our general view of protein structure and …

Intrinsically disordered proteins: regulation and disease

MM Babu, R van der Lee, NS de Groot… - Current opinion in …, 2011 - Elsevier
Intrinsically disordered proteins (IDPs) are enriched in signaling and regulatory functions
because disordered segments permit interaction with several proteins and hence the re-use …

Attributes of short linear motifs

NE Davey, K Van Roey, RJ Weatheritt, G Toedt… - Molecular …, 2012 - pubs.rsc.org
Traditionally, protein–protein interactions were thought to be mediated by large, structured
domains. However, it has become clear that the interactome comprises a wide range of …

Phospho. ELM: a database of phosphorylation sites—update 2011

H Dinkel, C Chica, A Via, CM Gould… - Nucleic acids …, 2010 - academic.oup.com
The Phospho. ELM resource (http://phospho. elm. eu. org) is a relational database designed
to store in vivo and in vitro phosphorylation data extracted from the scientific literature and …

Transient protein-protein interactions: structural, functional, and network properties

JR Perkins, I Diboun, BH Dessailly, JG Lees, C Orengo - Structure, 2010 - cell.com
Transient interactions, which involve protein interactions that are formed and broken easily,
are important in many aspects of cellular function. Here we describe structural and functional …

Protein folding and mechanisms of proteostasis

JF Díaz-Villanueva, R Díaz-Molina… - International journal of …, 2015 - mdpi.com
Highly sophisticated mechanisms that modulate protein structure and function, which involve
synthesis and degradation, have evolved to maintain cellular homeostasis. Perturbations in …