[HTML][HTML] Homology modeling in the time of collective and artificial intelligence
Homology modeling is a method for building protein 3D structures using protein primary
sequence and utilizing prior knowledge gained from structural similarities with other …
sequence and utilizing prior knowledge gained from structural similarities with other …
Molecular docking in organic, inorganic, and hybrid systems: a tutorial review
M Mohanty, PS Mohanty - Monatshefte für Chemie-Chemical Monthly, 2023 - Springer
Molecular docking simulation is a very popular and well-established computational
approach and has been extensively used to understand molecular interactions between a …
approach and has been extensively used to understand molecular interactions between a …
Accurate prediction of protein structures and interactions using a three-track neural network
DeepMind presented notably accurate predictions at the recent 14th Critical Assessment of
Structure Prediction (CASP14) conference. We explored network architectures that …
Structure Prediction (CASP14) conference. We explored network architectures that …
Improved protein structure prediction using a new multi‐scale network and homologous templates
The accuracy of de novo protein structure prediction has been improved considerably in
recent years, mostly due to the introduction of deep learning techniques. In this work …
recent years, mostly due to the introduction of deep learning techniques. In this work …
Prediction of protein structures, functions and interactions using the IntFOLD7, MultiFOLD and ModFOLDdock servers
LJ McGuffin, NS Edmunds, AG Genc… - Nucleic acids …, 2023 - academic.oup.com
The IntFOLD server based at the University of Reading has been a leading method over the
past decade in providing free access to accurate prediction of protein structures and …
past decade in providing free access to accurate prediction of protein structures and …
GraphQA: protein model quality assessment using graph convolutional networks
Motivation Proteins are ubiquitous molecules whose function in biological processes is
determined by their 3D structure. Experimental identification of a protein's structure can be …
determined by their 3D structure. Experimental identification of a protein's structure can be …
ModFOLD8: accurate global and local quality estimates for 3D protein models
LJ McGuffin, FMF Aldowsari, SMA Alharbi… - Nucleic acids …, 2021 - academic.oup.com
Methods for estimating the quality of 3D models of proteins are vital tools for driving the
acceptance and utility of predicted tertiary structures by the wider bioscience community …
acceptance and utility of predicted tertiary structures by the wider bioscience community …
Processing of NODULE INCEPTION controls the transition to nitrogen fixation in root nodules
Legume nodules create an environment for intracellular bacterial symbionts to fix
atmospheric nitrogen. The master regulator NODULE INCEPTION (NIN) controls many …
atmospheric nitrogen. The master regulator NODULE INCEPTION (NIN) controls many …
Estimation of model accuracy in CASP13
J Cheng, MH Choe, A Elofsson, KS Han… - Proteins: Structure …, 2019 - Wiley Online Library
Methods to reliably estimate the accuracy of 3D models of proteins are both a fundamental
part of most protein folding pipelines and important for reliable identification of the best …
part of most protein folding pipelines and important for reliable identification of the best …
Building structural models of a whole mycoplasma cell
Building structural models of entire cells has been a long-standing cross-discipline
challenge for the research community, as it requires an unprecedented level of integration …
challenge for the research community, as it requires an unprecedented level of integration …