AlphaFold2 reveals commonalities and novelties in protein structure space for 21 model organisms
Deep-learning (DL) methods like DeepMind's AlphaFold2 (AF2) have led to substantial
improvements in protein structure prediction. We analyse confident AF2 models from 21 …
improvements in protein structure prediction. We analyse confident AF2 models from 21 …
[HTML][HTML] An atlas of protein homo-oligomerization across domains of life
Protein structures are essential to understanding cellular processes in molecular detail.
While advances in artificial intelligence revealed the tertiary structure of proteins at scale …
While advances in artificial intelligence revealed the tertiary structure of proteins at scale …
PED in 2024: improving the community deposition of structural ensembles for intrinsically disordered proteins
Abstract The Protein Ensemble Database (PED)(URL: https://proteinensemble. org) is the
primary resource for depositing structural ensembles of intrinsically disordered proteins. This …
primary resource for depositing structural ensembles of intrinsically disordered proteins. This …
Promiscuity in drug discovery on the verge of the structural revolution: recent advances and future chances
SN Bolz, M Schroeder - Expert Opinion on Drug Discovery, 2023 - Taylor & Francis
Introduction Promiscuity denotes the ability of ligands and targets to specifically interact with
multiple binding partners. Despite negative aspects like side effects, promiscuity is receiving …
multiple binding partners. Despite negative aspects like side effects, promiscuity is receiving …
[HTML][HTML] ModelCIF: An extension of PDBx/mmCIF data representation for computed structure models
B Vallat, G Tauriello, S Bienert, J Haas… - Journal of molecular …, 2023 - Elsevier
Abstract ModelCIF (github. com/ihmwg/ModelCIF) is a data information framework
developed for and by computational structural biologists to enable delivery of Findable …
developed for and by computational structural biologists to enable delivery of Findable …
FuzPred: a web server for the sequence-based prediction of the context-dependent binding modes of proteins
Proteins form complex interactions in the cellular environment to carry out their functions.
They exhibit a wide range of binding modes depending on the cellular conditions, which …
They exhibit a wide range of binding modes depending on the cellular conditions, which …
PDBminer to Find and Annotate Protein Structures for Computational Analysis
Computational methods relying on protein structure strongly depend on the structure
selected for investigation. Typical sources of protein structures include experimental …
selected for investigation. Typical sources of protein structures include experimental …
Challenges in bridging the gap between protein structure prediction and functional interpretation
M Varadi, M Tsenkov, S Velankar - Proteins: Structure, Function …, 2023 - Wiley Online Library
The rapid evolution of protein structure prediction tools has significantly broadened access
to protein structural data. Although predicted structure models have the potential to …
to protein structural data. Although predicted structure models have the potential to …
EMBL's European bioinformatics institute (EMBL-EBI) in 2023
M Thakur, A Buniello, C Brooksbank… - Nucleic Acids …, 2024 - academic.oup.com
Abstract The European Molecular Biology Laboratory's European Bioinformatics Institute
(EMBL-EBI) is one of the world's leading sources of public biomolecular data. Based at the …
(EMBL-EBI) is one of the world's leading sources of public biomolecular data. Based at the …
Mg2+-Ion Dependence Revealed for a BAHD 13-O-β-Aminoacyltransferase from Taxus Plants
A Taxus baccatin III: 3-amino-3-phenylpropanoyltransferase (BAPT, Accession: AY082804)
in clade 6 of the BAHD family catalyzed a Mg2+-dependent transfer of isoserines from their …
in clade 6 of the BAHD family catalyzed a Mg2+-dependent transfer of isoserines from their …