Accurate contact-based modelling of repeat proteins predicts the structure of new repeats protein families

QMEANDisCo—distance constraints applied on model quality estimation

(2020) Gabriel Studer et al.   BIOINFORMATICS

Improved protein structure prediction using predicted interresidue orientations

(2020) Jianyi Yang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Prediction of interresidue contacts with DeepMetaPSICOV in CASP13

(2019) Shaun M. Kandathil et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Deep learning extends de novo protein modelling coverage of genomes using iteratively predicted structural constraints

(2019) Joe G. Greener et al.   Nature Communications

RepeatsDB-lite: a web server for unit annotation of tandem repeat proteins

(2018) Layla Hirsh et al.   NUCLEIC ACIDS RESEARCH

SWISS-MODEL: homology modelling of protein structures and complexes

(2018) Andrew Waterhouse et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database in 2019

(2018) Sara El-Gebali et al.   NUCLEIC ACIDS RESEARCH

Assessment of hard target modeling in CASP12 reveals an emerging role of alignment-based contact prediction methods

(2017) Luciano A. Abriata et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Structural predictions for curli amyloid fibril subunits CsgA and CsgB

(2017) E. P. DeBenedictis et al.   RSC Advances

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

(2016) Lisanna Paladin et al.   NUCLEIC ACIDS RESEARCH

Uniclust databases of clustered and deeply annotated protein sequences and alignments

(2016) Milot Mirdita et al.   NUCLEIC ACIDS RESEARCH

Positive and strongly relaxed purifying selection drive the evolution of repeats in proteins

(2016) Erez Persi et al.   Nature Communications

Capturing coevolutionary signals inrepeat proteins

(2015) Rocío Espada et al.   BMC BIOINFORMATICS

CONFOLD: Residue-residue contact-guidedab initioprotein folding

(2015) Badri Adhikari et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Aciculin interacts with filamin C and Xin and is essential for myofibril assembly, remodeling and maintenance

(2014) S. Molt et al.   JOURNAL OF CELL SCIENCE

Deep Conservation of Human Protein Tandem Repeats within the Eukaryotes

(2014) Elke Schaper et al.   MOLECULAR BIOLOGY AND EVOLUTION

SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information

(2014) Marco Biasini et al.   NUCLEIC ACIDS RESEARCH

Fast and Accurate Multivariate Gaussian Modeling of Protein Families: Predicting Residue Contacts and Protein-Interaction Partners

(2014) Carlo Baldassi et al.   PLoS One

Improved Contact Predictions Using the Recognition of Protein Like Contact Patterns

(2014) Marcin J. Skwark et al.   PLoS Computational Biology

Identification of Xin-repeat proteins as novel ligands of the SH3 domains of nebulin and nebulette and analysis of their interaction during myofibril formation and remodeling

(2013) Stefan Eulitz et al.   MOLECULAR BIOLOGY OF THE CELL

Tandem repeats in proteins: From sequence to structure

(2011) Andrey V. Kajava   JOURNAL OF STRUCTURAL BIOLOGY

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

(2011) Michael Remmert et al.   NATURE METHODS

PyRosetta: a script-based interface for implementing molecular modeling algorithms using Rosetta

(2010) S. Chaudhury et al.   BIOINFORMATICS

WD40 proteins propel cellular networks

(2010) Christian U. Stirnimann et al.   TRENDS IN BIOCHEMICAL SCIENCES

Pcons: A neural-network-based consensus predictor that improves fold recognition

(2002) Jesper Lundström et al.   PROTEIN SCIENCE