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Highly accurate protein structure prediction with AlphaFold
Nature, 2021 Proteins are essential to life, and understanding their structure can facilitate a mechanistic understanding of their function. Through an enormous experimental effort1–4, the structures of around 100,000 unique proteins have been determined5, but this ...
John M Jumper +2 more
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Protein structure generation via folding diffusion [PDF]
Nature Communications, 2022 The ability to computationally generate novel yet physically foldable protein structures could lead to new biological discoveries and new treatments targeting yet incurable diseases.
Kevin E. Wu +5 more
semanticscholar +1 more source
Evolutionary-scale prediction of atomic level protein structure with a language model
bioRxiv, 2022 Artificial intelligence has the potential to open insight into the structure of proteins at the scale of evolution. It has only recently been possible to extend protein structure prediction to two hundred million cataloged proteins.
Zeming Lin +14 more
semanticscholar +1 more source
Nucleic Acids Res., 2021 The AlphaFold Protein Structure Database (AlphaFold DB, https://alphafold.ebi.ac.uk) is an openly accessible, extensive database of high-accuracy protein-structure predictions.
M. Váradi +26 more
semanticscholar +1 more source
Highly accurate protein structure prediction for the human proteome
Nature, 2021 Protein structures can provide invaluable information, both for reasoning about biological processes and for enabling interventions such as structure-based drug development or targeted mutagenesis.
Kathryn Tunyasuvunakool +32 more
semanticscholar +1 more source
Scientific Reports, 2022 Vacuolar protein sorting 35 (VPS35) is a major component of the retromer complex that regulates endosomal trafficking in eukaryotic cells. Recent studies have shown that VPS35 promotes tumor cell proliferation and affects the nuclear accumulation of its ...
Xian Hong +9 more
doaj +1 more source
Nucleic Acids Research, 2023 The AlphaFold Database Protein Structure Database (AlphaFold DB, https://alphafold.ebi.ac.uk) has significantly impacted structural biology by amassing over 214 million predicted protein structures, expanding from the initial 300k structures released in ...
M. Váradi +22 more
semanticscholar +1 more source
Fast and accurate protein structure search with Foldseek
bioRxiv, 2022 Foldseek speeds up protein structural search by four to five orders of magnitude. As structure prediction methods are generating millions of publicly available protein structures, searching these databases is becoming a bottleneck.
Michel van Kempen +7 more
semanticscholar +1 more source
BMC Cancer, 2021 Background Anterior gradient-2 (AGR2) is a proto-oncogene involved in tumorigenesis and cancer progression. AGR2, predominantly localized in the endoplasmic reticulum (ER), is also a secreted protein detected in the extracellular compartment in multiple ...
Xian Hong +9 more
doaj +1 more source
De novo design of protein structure and function with RFdiffusion
Nature, 2023 There has been considerable recent progress in designing new proteins using deep-learning methods^ 1 – 9 . Despite this progress, a general deep-learning framework for protein design that enables solution of a wide range of design challenges, including ...
Joseph L. Watson +27 more
semanticscholar +1 more source