Modeling of protein complexes in CAPRI Round 37 using template-based approach combined with model selection

VoroMQA: Assessment of protein structure quality using interatomic contact areas

(2017) Kliment Olechnovič et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein structure determination using metagenome sequence data

(2017) Sergey Ovchinnikov et al.   SCIENCE

Assembly of Ruminococcus flavefaciens cellulosome revealed by structures of two cohesin-dockerin complexes

(2017) Pedro Bule et al.   Scientific Reports

Single versus dual-binding conformations in cellulosomal cohesin–dockerin complexes

(2016) Michael A Nash et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

The MPI bioinformatics Toolkit as an integrative platform for advanced protein sequence and structure analysis

(2016) Vikram Alva et al.   NUCLEIC ACIDS RESEARCH

Lessons from (co-)evolution in the docking of proteins and peptides for CAPRI Rounds 28-35

(2016) Jinchao Yu et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Prediction of homoprotein and heteroprotein complexes by protein docking and template-based modeling: A CASP-CAPRI experiment

(2016) Marc F. Lensink et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Modeling protein-protein and protein-peptide complexes: CAPRI 6th edition

(2016) Marc F. Lensink et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Critical assessment of methods of protein structure prediction: Progress and new directions in round XI

(2016) John Moult et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Cyclic di-GMP mediates a histidine kinase/phosphatase switch by noncovalent domain cross-linking

(2016) B. N. Dubey et al.   Science Advances

Progress and challenges in predicting protein interfaces

(2015) Reyhaneh Esmaielbeiki et al.   BRIEFINGS IN BIOINFORMATICS

Cell-surface Attachment of Bacterial Multienzyme Complexes Involves Highly Dynamic Protein-Protein Anchors

(2015) Kate Cameron et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Signal Transduction in Histidine Kinases: Insights from New Structures

(2015) Manasi P. Bhate et al.   STRUCTURE

Voronota: A fast and reliable tool for computing the vertices of the Voronoi diagram of atomic balls

(2014) Kliment Olechnovič et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

LRAT-specific domain facilitates vitamin A metabolism by domain swapping in HRASLS3

(2014) Marcin Golczak et al.   Nature Chemical Biology

The CAD-score web server: contact area-based comparison of structures and interfaces of proteins, nucleic acids and their complexes

(2014) Kliment Olechnovič et al.   NUCLEIC ACIDS RESEARCH

Assessing the Applicability of Template-Based Protein Docking in the Twilight Zone

(2014) Jacopo Negroni et al.   STRUCTURE

Segmental Helical Motions and Dynamical Asymmetry Modulate Histidine Kinase Autophosphorylation

(2014) Ariel E. Mechaly et al.   PLOS BIOLOGY

The scoring of poses in protein-protein docking: current capabilities and future directions

(2013) Iain H Moal et al.   BMC BIOINFORMATICS

Template-based structure modeling of protein–protein interactions

(2013) Andras Szilagyi et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Helix Bundle Loops Determine Whether Histidine Kinases Autophosphorylate in cis or in trans

(2013) Orr Ashenberg et al.   JOURNAL OF MOLECULAR BIOLOGY

CAD-score: A new contact area difference-based function for evaluation of protein structural models

(2013) Kliment Olechnovič et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Docking, scoring, and affinity prediction in CAPRI

(2013) Marc F. Lensink et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Critical assessment of methods of protein structure prediction (CASP) - round x

(2013) John Moult et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein Modeling: What Happened to the “Protein Structure Gap”?

(2013) Torsten Schwede   STRUCTURE

A comparative assessment and analysis of 20 representative sequence alignment methods for protein structure prediction

(2013) Renxiang Yan et al.   Scientific Reports

NovelClostridium thermocellumType I Cohesin-Dockerin Complexes Reveal a Single Binding Mode

(2012) Joana L. A. Brás et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Templates are available to model nearly all complexes of structurally characterized proteins

(2012) P. J. Kundrotas et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Alternative Protein-Protein Interfaces Are Frequent Exceptions

(2012) Tobias Hamp et al.   PLoS Computational Biology

Atomic-Level Protein Structure Refinement Using Fragment-Guided Molecular Dynamics Conformation Sampling

(2011) Jian Zhang et al.   STRUCTURE

Activated RhoA Binds to the Pleckstrin Homology (PH) Domain of PDZ-RhoGEF, a Potential Site for Autoregulation

(2010) Zhe Chen et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural plasticity and catalysis regulation of a thermosensor histidine kinase

(2009) D. Albanesi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

1,3-Propanediol Dehydrogenase from Klebsiella pneumoniae: Decameric Quaternary Structure and Possible Subunit Cooperativity

(2008) D. Marcal et al.   JOURNAL OF BACTERIOLOGY

TheClostridium cellulolyticumDockerin Displays a Dual Binding Mode for Its Cohesin Partner

(2008) Benedita A. Pinheiro et al.   JOURNAL OF BIOLOGICAL CHEMISTRY