Import protein sequences, analyze biophysical properties and predict secondary structures using Protean 3D's protein sequence analysis view. Read here!
A preprint version of the article is available at bioRxiv.Abstract Significant progress has been made in protein structure prediction in recent years. However, it remains challenging for AlphaFold2 and other deep learning-based methods to predict protein structure with single-sequence input. Here we...
42of the VAE model, meaning the ability of the model to generate new sequences drawn from the model distributionp(S), which are statistically indistinguishable from those of a given “target” protein family.
There is an effective low-end cut-off point for effective homology modeling of ∼20% sequence identity. But even at 20% sequence identity the overall fold of a protein, which describes the arrangement of secondary structural elements comprising the protein in 3D, can often be determined. Such...
Our proposed method, HelixFold-Single, combines a large-scale protein language model with the superior geometric learning capability of AlphaFold2. HelixFold-Single first pre-trains a large-scale protein language model with thousands of millions of primary structures utilizing the self-supervised ...
First, we test the ability of EvoDiff-MSA (msa_oa_dm_maxsub) to generate new query sequences conditioned on the remainder of an MSA, thus generating new members of a protein family without needing to train family-specific generative models. ...
Protein, peptide, protein or peptide, DNA sequence, process for the preparation of a protein or peptide, antibody, pharmaceutical composition, and use of a protein or peptideKATHRYN JANE HALLOWES ROBSONJENNIFER RUTH SADLER HALL
1), coupled with the interactions of disordered protein regions (Fig. 2). Disorder-to-order regions gain a well-defined conformation upon binding, whereas disorder-to-disorder regions remain disordered while interacting with their partners [[27], [28]]. Context-dependent regions exhibit both ...
(sometimes in a slightly modified form) downstream of ten proven or suspected protein coding genes, including RF1 and RF2, and is known to terminate the apocytochrome b messenger RNA. It is suggested from the known distribution of this putative “end-of-messenger” signal, that it could ...
Re-run ISEScan without gene/protein prediction and HMMER searching ISEScan will run much faster if you run it on the same genome sequence more than once (e.g., trying different optimal parameters of near and far regions (see our paper [...] for the definitions of near and far regions)...