ColabFold: making protein folding accessible to all
TL;DR: ColabFold as discussed by the authors combines the fast homology search of MMseqs2 with AlphaFold2 or RoseTTAFold for protein folding and achieves 40-60fold faster search and optimized model utilization.
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Abstract: ColabFold offers accelerated prediction of protein structures and complexes by combining the fast homology search of MMseqs2 with AlphaFold2 or RoseTTAFold. ColabFold's 40-60-fold faster search and optimized model utilization enables prediction of close to 1,000 structures per day on a server with one graphics processing unit. Coupled with Google Colaboratory, ColabFold becomes a free and accessible platform for protein folding. ColabFold is open-source software available at https://github.com/sokrypton/ColabFold and its novel environmental databases are available at https://colabfold.mmseqs.com .
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Critical Assessment of Methods for Predicting the 3D Structure of Proteins and Protein Complexes.
TL;DR: In this article , the authors report on two intertwined disciplines in the protein structure prediction field, modeling of single chains and modeling of complexes, that have over decades emulated this pattern, as monitored by the community-wide blind prediction experiments CASP and CAPRI.
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Reconstitution of 3′ end processing of mammalian pre-mRNA reveals a central role of RBBP6
Moritz Schmidt,F Kluge,Felix Sandmeir,Uwe Kühn,Peter Schäfer,Christian Tüting,Christian Ihling,Elena Conti,Elmar Wahle +8 more
TL;DR: Here, Schmidt et al. reconstituted the endonucleolytic cleavage of an extended precursor followed by the addition of a poly(A) tail reaction from overproduced and purified proteins, and provide a minimal list of 14 polypeptides that are essential and two that are stimulatory for RNA processing.
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AlphaFold2-multimer guided high-accuracy prediction of typical and atypical ATG8-binding motifs
Tarhan Ibrahim,Virendrasinh Khandare,Federico Gabriel Mirkin,Yasin Tumtas,Doryen Bubeck,Tolga O. Bozkurt +5 more
TL;DR: In this paper, protein modelling using Alphafold-Multimer (AF2-multimer) identifies both canonical and atypical AIM/LIR motifs with a high level of accuracy.
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Subcellular location defines GPCR signal transduction
TL;DR: In this article , the recruitment of signal transducers to ORs in both compartments was investigated and it was shown that OR activation in the plasma membrane and Golgi apparatus has strikingly different downstream effects on transcription and protein phosphorylation.
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