A guide to plasma membrane solute carrier proteins
MD Pizzagalli, A Bensimon… - The FEBS …, 2021 - Wiley Online Library
This review aims to serve as an introduction to the solute carrier proteins (SLC) superfamily
of transporter proteins and their roles in human cells. The SLC superfamily currently …
of transporter proteins and their roles in human cells. The SLC superfamily currently …
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 structure prediction with in-cell photo-crosslinking mass spectrometry and deep learning
While AlphaFold2 can predict accurate protein structures from the primary sequence,
challenges remain for proteins that undergo conformational changes or for which few …
challenges remain for proteins that undergo conformational changes or for which few …
SWISS-MODEL: homology modelling of protein structures and complexes
A Waterhouse, M Bertoni, S Bienert… - Nucleic acids …, 2018 - academic.oup.com
Homology modelling has matured into an important technique in structural biology,
significantly contributing to narrowing the gap between known protein sequences and …
significantly contributing to narrowing the gap between known protein sequences and …
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 …
The SWISS-MODEL Repository—new features and functionality
S Bienert, A Waterhouse, TAP De Beer… - Nucleic acids …, 2017 - academic.oup.com
Abstract SWISS-MODEL Repository (SMR) is a database of annotated 3D protein structure
models generated by the automated SWISS-MODEL homology modeling pipeline. It …
models generated by the automated SWISS-MODEL homology modeling pipeline. It …
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 …
SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information
M Biasini, S Bienert, A Waterhouse… - Nucleic acids …, 2014 - academic.oup.com
Protein structure homology modelling has become a routine technique to generate 3D
models for proteins when experimental structures are not available. Fully automated servers …
models for proteins when experimental structures are not available. Fully automated servers …
lDDT: a local superposition-free score for comparing protein structures and models using distance difference tests
Motivation: The assessment of protein structure prediction techniques requires objective
criteria to measure the similarity between a computational model and the experimentally …
criteria to measure the similarity between a computational model and the experimentally …
Toward the estimation of the absolute quality of individual protein structure models
Motivation: Quality assessment of protein structures is an important part of experimental
structure validation and plays a crucial role in protein structure prediction, where the …
structure validation and plays a crucial role in protein structure prediction, where the …