Comparative Analysis of Structural Features in SLiMs from Eukaryotes, Bacteria, and Viruses with Importance for Host-Pathogen Interactions

Use of viral motif mimicry improves the proteome-wide discovery of human linear motifs

(2022) Bishoy Wadie et al.   Cell Reports

Dynamic, but Not Necessarily Disordered, Human-Virus Interactions Mediated through SLiMs in Viral Proteins

(2021) Heidy Elkhaligy et al.   Viruses-Basel

SciPy 1.0: fundamental algorithms for scientific computing in Python

(2020) Pauli Virtanen et al.   NATURE METHODS

Structural Insight into the Mechanism of N-Linked Glycosylation by Oligosaccharyltransferase

(2020) Smita Mohanty et al.   Biomolecules

Mimicry of Short Linear Motifs by Bacterial Pathogens: A Drugging Opportunity

(2020) Hugo Sámano-Sánchez et al.   TRENDS IN BIOCHEMICAL SCIENCES

Evolutionary Study of Disorder in Protein Sequences

(2020) Kristina Kastano et al.   Biomolecules

NetSurfP-2.0: Improved prediction of protein structural features by integrated deep learning

(2019) Michael Schantz Klausen et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Envelope Protein Glycosylation Mediates Zika Virus Pathogenesis

(2019) Derek L. Carbaugh et al.   JOURNAL OF VIROLOGY

Resources to Discover and Use Short Linear Motifs in Viral Proteins

(2019) Peter Hraber et al.   TRENDS IN BIOTECHNOLOGY

ELM—the eukaryotic linear motif resource in 2020

(2019) Manjeet Kumar et al.   NUCLEIC ACIDS RESEARCH

IUPred2A: context-dependent prediction of protein disorder as a function of redox state and protein binding

(2018) Bálint Mészáros et al.   NUCLEIC ACIDS RESEARCH

Short linear motif core and flanking regions modulate retinoblastoma protein binding affinity and specificity

(2018) Nicolás Palopoli et al.   PROTEIN ENGINEERING DESIGN & SELECTION

Breaking Bad: How Viruses Subvert the Cell Cycle

(2018) Ying Fan et al.   Frontiers in Cellular and Infection Microbiology

Discovery of short linear motif-mediated interactions through phage display of intrinsically disordered regions of the human proteome

(2017) Norman E. Davey et al.   FEBS Journal

Biological and phylogenetic characteristics of West African lineages of West Nile virus

(2017) Gamou Fall et al.   PLoS Neglected Tropical Diseases

Uniclust databases of clustered and deeply annotated protein sequences and alignments

(2016) Milot Mirdita et al.   NUCLEIC ACIDS RESEARCH

Pathogen mimicry of host protein-protein interfaces modulates immunity

(2016) Emine Guven-Maiorov et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

DC-SIGN as an attachment factor mediates Japanese encephalitis virus infection of human dendritic cells via interaction with a single high-mannose residue of viral E glycoprotein

(2016) Ping Wang et al.   VIROLOGY

Experimental detection of short regulatory motifs in eukaryotic proteins: tips for good practice as well as for bad

(2015) Toby J. Gibson et al.   Cell Communication and Signaling

Short linear motifs – ex nihilo evolution of protein regulation

(2015) Norman E. Davey et al.   Cell Communication and Signaling

Fuzzy complexes: Specific binding without complete folding

(2015) Rashmi Sharma et al.   FEBS LETTERS

The multifaceted roles of intrinsic disorder in protein complexes

(2015) Vladimir N. Uversky   FEBS LETTERS

Exceptionally abundant exceptions: comprehensive characterization of intrinsic disorder in all domains of life

(2014) Zhenling Peng et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Classification of Intrinsically Disordered Regions and Proteins

(2014) Robin van der Lee et al.   CHEMICAL REVIEWS

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Marked Variability in the Extent of Protein Disorder within and between Viral Families

(2013) Ravindra Pushker et al.   PLoS One

N-Linked Protein Glycosylation in the Endoplasmic Reticulum

(2013) J. Breitling et al.   Cold Spring Harbor Perspectives in Biology

Utilization of protein intrinsic disorder knowledge in structural proteomics

(2012) Christopher J. Oldfield et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

History of protein-protein interactions: From egg-white to complex networks

(2012) Pascal Braun et al.   PROTEOMICS

Versatility from Protein Disorder

(2012) M. M. Babu et al.   SCIENCE

Requirement of Glycosylation of West Nile Virus Envelope Protein for Infection of, but Not Spread within, Culex quinquefasciatus Mosquito Vectors

(2011) Robin M. Moudy et al.   AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE

Kinetic Recognition of the Retinoblastoma Tumor Suppressor by a Specific Protein Target

(2011) Lucía B. Chemes et al.   JOURNAL OF MOLECULAR BIOLOGY

Attributes of short linear motifs

(2011) Norman E. Davey et al.   Molecular BioSystems

Fuzziness: linking regulation to protein dynamics

(2011) Monika Fuxreiter   Molecular BioSystems

HHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment

(2011) Michael Remmert et al.   NATURE METHODS

How viruses hijack cell regulation

(2010) Norman E. Davey et al.   TRENDS IN BIOCHEMICAL SCIENCES

Masking residues using context-specific evolutionary conservation significantly improves short linear motif discovery

(2009) Norman E. Davey et al.   BIOINFORMATICS

Jalview Version 2--a multiple sequence alignment editor and analysis workbench

(2009) A. M. Waterhouse et al.   BIOINFORMATICS

A structure filter for the Eukaryotic Linear Motif Resource

(2009) Allegra Via et al.   BMC BIOINFORMATICS

Cotranslational and Posttranslational N-Glycosylation of Polypeptides by Distinct Mammalian OST Isoforms

(2009) Catalina Ruiz-Canada et al.   CELL

Structural basis for the preferential recognition of immature flaviviruses by a fusion-loop antibody

(2009) Mickaël V Cherrier et al.   EMBO JOURNAL

ELM: the status of the 2010 eukaryotic linear motif resource

(2009) Cathryn M. Gould et al.   NUCLEIC ACIDS RESEARCH