Coarse-grained protein models and their applications
The traditional computational modeling of protein structure, dynamics, and interactions
remains difficult for many protein systems. It is mostly due to the size of protein …
remains difficult for many protein systems. It is mostly due to the size of protein …
Protein assembly: versatile approaches to construct highly ordered nanostructures
Nature endows life with a wide variety of sophisticated, synergistic, and highly functional
protein assemblies. Following Nature's inspiration to assemble protein building blocks into …
protein assemblies. Following Nature's inspiration to assemble protein building blocks into …
The ClusPro web server for protein–protein docking
Abstract The ClusPro server (https://cluspro. org) is a widely used tool for protein–protein
docking. The server provides a simple home page for basic use, requiring only two files in …
docking. The server provides a simple home page for basic use, requiring only two files in …
Protein structure modeling with MODELLER
B Webb, A Sali - Functional genomics: Methods and protocols, 2017 - Springer
Genome sequencing projects have resulted in a rapid increase in the number of known
protein sequences. In contrast, only about one-hundredth of these sequences have been …
protein sequences. In contrast, only about one-hundredth of these sequences have been …
How good is automated protein docking?
The protein docking server ClusPro has been participating in critical assessment of
prediction of interactions (CAPRI) since its introduction in 2004. This article evaluates the …
prediction of interactions (CAPRI) since its introduction in 2004. This article evaluates the …
Prediction of protein assemblies, the next frontier: The CASP14‐CAPRI experiment
We present the results for CAPRI Round 50, the fourth joint CASP‐CAPRI protein assembly
prediction challenge. The Round comprised a total of twelve targets, including six dimers …
prediction challenge. The Round comprised a total of twelve targets, including six dimers …
Comparative protein structure modeling using MODELLER
B Webb, A Sali - Current protocols in bioinformatics, 2016 - Wiley Online Library
Comparative protein structure modeling predicts the three‐dimensional structure of a given
protein sequence (target) based primarily on its alignment to one or more proteins of known …
protein sequence (target) based primarily on its alignment to one or more proteins of known …
On the binding affinity of macromolecular interactions: daring to ask why proteins interact
Interactions between proteins are orchestrated in a precise and time-dependent manner,
underlying cellular function. The binding affinity, defined as the strength of these …
underlying cellular function. The binding affinity, defined as the strength of these …
Computational prediction of protein–protein binding affinities
Protein–protein interactions form central elements of almost all cellular processes.
Knowledge of the structure of protein–protein complexes but also of the binding affinity is of …
Knowledge of the structure of protein–protein complexes but also of the binding affinity is of …