Pfam: the protein families database

RD Finn, A Bateman, J Clements, P Coggill… - Nucleic acids …, 2014 - academic.oup.com
Pfam, available via servers in the UK (http://pfam. sanger. ac. uk/) and the USA (http://pfam.
janelia. org/), is a widely used database of protein families, containing 14 831 manually …

DisProt: intrinsic protein disorder annotation in 2020

A Hatos, B Hajdu-Soltész, AM Monzon… - Nucleic acids …, 2020 - academic.oup.com
Abstract The Database of Protein Disorder (DisProt, URL: https://disprot. org) provides
manually curated annotations of intrinsically disordered proteins from the literature. Here we …

MobiDB-lite: fast and highly specific consensus prediction of intrinsic disorder in proteins

M Necci, D Piovesan, Z Dosztányi, SCE Tosatto - Bioinformatics, 2017 - academic.oup.com
Motivation Intrinsic disorder (ID) is established as an important feature of protein sequences.
Its use in proteome annotation is however hampered by the availability of many methods …

Why do eukaryotic proteins contain more intrinsically disordered regions?

W Basile, M Salvatore, C Bassot… - PLoS computational …, 2019 - journals.plos.org
Intrinsic disorder is more abundant in eukaryotic than prokaryotic proteins. Methods
predicting intrinsic disorder are based on the amino acid sequence of a protein. Therefore …

GUIDES: sgRNA design for loss-of-function screens

JA Meier, F Zhang, NE Sanjana - Nature methods, 2017 - nature.com
To the Editor: Genome-scale CRISPR–Cas9 knockout libraries have emerged as powerful
tools for unbiased phenotypic screens1. These libraries contain a fixed number of Cas9 …

MobiDB-lite 3.0: fast consensus annotation of intrinsic disorder flavors in proteins

M Necci, D Piovesan, D Clementel, Z Dosztányi… - …, 2020 - academic.oup.com
Motivation The earlier version of MobiDB-lite is currently used in large-scale proteome
annotation platforms to detect intrinsic disorder. However, new theoretical models allow for …

RepeatsDB: a database of tandem repeat protein structures

T Di Domenico, E Potenza, I Walsh… - Nucleic acids …, 2014 - academic.oup.com
Abstract RepeatsDB (http://repeatsdb. bio. unipd. it/) is a database of annotated tandem
repeat protein structures. Tandem repeats pose a difficult problem for the analysis of protein …

Deep conservation of human protein tandem repeats within the eukaryotes

E Schaper, O Gascuel… - Molecular biology and …, 2014 - academic.oup.com
Tandem repeats (TRs) are a major element of protein sequences in all domains of life. They
are particularly abundant in mammals, where by conservative estimates one in three …

Evolution of sequence-diverse disordered regions in a protein family: order within the chaos

T Shafee, A Bacic, K Johnson - Molecular Biology and Evolution, 2020 - academic.oup.com
Approaches for studying the evolution of globular proteins are now well established yet are
unsuitable for disordered sequences. Our understanding of the evolution of proteins …

RepeatsDB 2.0: improved annotation, classification, search and visualization of repeat protein structures

L Paladin, L Hirsh, D Piovesan… - Nucleic acids …, 2017 - academic.oup.com
Abstract RepeatsDB 2.0 (URL: http://repeatsdb. bio. unipd. it/) is an update of the database
of annotated tandem repeat protein structures. Repeat proteins are a widespread class of …