Inspired by: AlphaFold
The application of artificial intelligence to the study of protein structures.
2023 Articles
25 684 articles
Undersampling and the inference of coevolution in proteins
- Yaakov Kleeorin, William P Russ, Olivier Rivoire, …, William P Russ, Olivier Rivoire, Rama Ranganathan
- Cell Syst, 10.1016/j.cels.2022.12.013
AlphaFold and the future of structural biology
- Randy J Read, Edward N Baker, Charles S Bond, …, Charles S Bond, Elspeth F Garman, Mark J van Raaij
- Acta Crystallogr D Struct Biol, 10.1107/s2059798323004928
AlphaFold and the future of structural biology
- Randy J Read, Edward N Baker, Charles S Bond, …, Charles S Bond, Elspeth F Garman, Mark J van Raaij
- Acta Crystallogr F Struct Biol Commun, 10.1107/s2053230x23004934
Ion channel chameleons: Switching ion selectivity by alternative splicing
- Allen L Hsu, Manu Ben-Johny, Allen L Hsu, …, Manu Ben-Johny, Allen L Hsu, Manu Ben-Johny
- J Biol Chem, 10.1016/j.jbc.2023.102946
Evolutionary selection of proteins with two folds
- Joseph W Schafer, Lauren L Porter, Joseph W Schafer, Lauren L Porter, Joseph W Schafer, Lauren L Porter
- bioRxiv : the preprint server for biology, 10.1101/2023.01.18.524637
Computational Resources for Molecular Biology 2023
- David H Mathews, Rita Casadio, Michael J E Sternberg, …, David H Mathews, Rita Casadio, Michael J E Sternberg
- J Mol Biol, 10.1016/j.jmb.2023.168160
Combining phylogeny and coevolution improves the inference of interaction partners among paralogous proteins
- Carlos A Gandarilla-Pérez, Sergio Pinilla, Anne-Florence Bitbol, …, Sergio Pinilla, Anne-Florence Bitbol, Martin Weigt
- PLoS Comput Biol, 10.1371/journal.pcbi.1011010
Generative power of a protein language model trained on multiple sequence alignments
- Damiano Sgarbossa, Umberto Lupo, Anne-Florence Bitbol, …, Damiano Sgarbossa, Umberto Lupo, Anne-Florence Bitbol
- Elife, 10.7554/elife.79854
Functional Protein Dynamics Directly from Sequences
- Kejue Jia, Mesih Kilinc, Robert L Jernigan, …, Kejue Jia, Mesih Kilinc, Robert L Jernigan
- J Phys Chem B, 10.1021/acs.jpcb.2c05766
Impact of phylogeny on structural contact inference from protein sequence data
- Nicola Dietler, Umberto Lupo, Anne-Florence Bitbol, …, Nicola Dietler, Umberto Lupo, Anne-Florence Bitbol
- J R Soc Interface, 10.1098/rsif.2022.0707
2022 Articles
2 545 articles
Editorial: Machine learning, epistasis, and protein engineering: From sequence-structure-function relationships to regulation of metabolic pathways
- Frederic Cadet, Emma Saavedra, Per-Olof Syren, …, Emma Saavedra, Per-Olof Syren, Brigitte Gontero
- None, 10.3389/fmolb.2022.1098289
State-of-the-Art Estimation of Protein Model Accuracy Using AlphaFold
- James P Roney, Sergey Ovchinnikov, James P Roney, Sergey Ovchinnikov, James P Roney, Sergey Ovchinnikov
- Phys Rev Lett, 10.1103/physrevlett.129.238101
The curse of the protein ribbon diagram
- Philip E Bourne, Eli J Draizen, Cameron Mura, …, Philip E Bourne, Eli J Draizen, Cameron Mura
- PLoS Biol, 10.1371/journal.pbio.3001901
The COMER web server for protein analysis by homology
- Justas Dapkūnas, Mindaugas Margelevičius, Justas Dapkūnas, …, Mindaugas Margelevičius, Justas Dapkūnas, Mindaugas Margelevičius
- Bioinformatics, 10.1093/bioinformatics/btac807
DPAM: A domain parser for AlphaFold models
- Jing Zhang, R Dustin Schaeffer, Jesse Durham, …, Jesse Durham, Qian Cong, Nick V Grishin
- Protein Sci, 10.1002/pro.4548
Accurate protein stability predictions from homology models
- Audrone Valanciute, Lasse Nygaard, Henrike Zschach, …, Michael Maglegaard Jepsen, Kresten Lindorff-Larsen, Amelie Stein
- None, 10.1016/j.csbj.2022.11.048
Deep embedding and alignment of protein sequences
- Felipe Llinares-López, Quentin Berthet, Mathieu Blondel, …, Mathieu Blondel, Olivier Teboul, Jean-Philippe Vert
- Nat Methods, 10.1038/s41592-022-01700-2
Entropy and Variability: A Second Opinion by Deep Learning
- Daniel T Rademaker, Li C Xue, Peter A C ‘t Hoen, …, Li C Xue, Peter A C ‘t Hoen, Gert Vriend
- Biomolecules, 10.3390/biom12121740
Novel machine learning approaches revolutionize protein knowledge
- Nicola Bordin, Christian Dallago, Michael Heinzinger, …, Martin Steinegger, Burkhard Rost, Christine Orengo
- Trends Biochem Sci, 10.1016/j.tibs.2022.11.001
Prediction and verification of glycosyltransferase activity by bioinformatics analysis and protein engineering
- Dietlind L Gerloff, Elena I Ilina, Camille Cialini, …, Uxue Mata Salcedo, Michel Mittelbronn, Tanja Müller
- STAR Protoc, 10.1016/j.xpro.2022.101905