[HTML][HTML] The trRosetta server for fast and accurate protein structure prediction
The trRosetta (transform-restrained Rosetta) server is a web-based platform for fast and
accurate protein structure prediction, powered by deep learning and Rosetta. With the input …
accurate protein structure prediction, powered by deep learning and Rosetta. With the input …
[HTML][HTML] Toward the solution of the protein structure prediction problem
Since Anfinsen demonstrated that the information encoded in a protein's amino acid
sequence determines its structure in 1973, solving the protein structure prediction problem …
sequence determines its structure in 1973, solving the protein structure prediction problem …
Protein tertiary structure modeling driven by deep learning and contact distance prediction in CASP13
Predicting residue‐residue distance relationships (eg, contacts) has become the key
direction to advance protein structure prediction since 2014 CASP11 experiment, while …
direction to advance protein structure prediction since 2014 CASP11 experiment, while …
Deep architectures for protein contact map prediction
Motivation: Residue–residue contact prediction is important for protein structure prediction
and other applications. However, the accuracy of current contact predictors often barely …
and other applications. However, the accuracy of current contact predictors often barely …
3Drefine: Consistent protein structure refinement by optimizing hydrogen bonding network and atomic‐level energy minimization
D Bhattacharya, J Cheng - Proteins: Structure, Function, and …, 2013 - Wiley Online Library
One of the major limitations of computational protein structure prediction is the deviation of
predicted models from their experimentally derived true, native structures. The limitations …
predicted models from their experimentally derived true, native structures. The limitations …
[HTML][HTML] Automatic prediction of protein 3D structures by probabilistic multi-template homology modeling
A Meier, J Söding - PLoS computational biology, 2015 - journals.plos.org
Homology modeling predicts the 3D structure of a query protein based on the sequence
alignment with one or more template proteins of known structure. Its great importance for …
alignment with one or more template proteins of known structure. Its great importance for …
Homology of SMP domains to the TULIP superfamily of lipid-binding proteins provides a structural basis for lipid exchange between ER and mitochondria
Mitochondria must uptake some phospholipids from the endoplasmic reticulum (ER) for the
biogenesis of their membranes. They convert one of these lipids, phosphatidylserine, to …
biogenesis of their membranes. They convert one of these lipids, phosphatidylserine, to …
[HTML][HTML] Efficient rational modification of non-ribosomal peptides by adenylation domain substitution
Non-ribosomal peptide synthetase (NRPS) enzymes form modular assembly-lines, wherein
each module governs the incorporation of a specific monomer into a short peptide product …
each module governs the incorporation of a specific monomer into a short peptide product …
Proteomic Quantification and Site-Mapping of S-Nitrosylated Proteins Using Isobaric iodoTMT Reagents
Z Qu, F Meng, RD Bomgarden, RI Viner… - Journal of proteome …, 2014 - ACS Publications
S-Nitrosylation is a redox-based protein post-translational modification in response to nitric
oxide signaling and is involved in a wide range of biological processes. Detection and …
oxide signaling and is involved in a wide range of biological processes. Detection and …
Computational Approaches to Predict Protein–Protein Interactions in Crowded Cellular Environments
Investigating protein–protein interactions is crucial for understanding cellular biological
processes because proteins often function within molecular complexes rather than in …
processes because proteins often function within molecular complexes rather than in …