[HTML][HTML] Integrating cellular electron microscopy with multimodal data to explore biology across space and time
Biology spans a continuum of length and time scales. Individual experimental methods only
glimpse discrete pieces of this spectrum but can be combined to construct a more holistic …
glimpse discrete pieces of this spectrum but can be combined to construct a more holistic …
[HTML][HTML] Structure-guided metagenome mining to tap microbial functional diversity
SL Robinson - Current Opinion in Microbiology, 2023 - Elsevier
Scientists now have access to millions of accurate three-dimensional (3D) models of protein
structures. How do we leverage 3D structural models to learn about microbial functions …
structures. How do we leverage 3D structural models to learn about microbial functions …
Birth of protein folds and functions in the virome
The rapid evolution of viruses generates proteins that are essential for infectivity and
replication but with unknown functions, due to extreme sequence divergence. Here, using a …
replication but with unknown functions, due to extreme sequence divergence. Here, using a …
Exploring structural diversity across the protein universe with The Encyclopedia of Domains
The AlphaFold Protein Structure Database (AFDB) contains more than 214 million predicted
protein structures composed of domains, which are independently folding units found in …
protein structures composed of domains, which are independently folding units found in …
AlphaFold two years on: Validation and impact
O Kovalevskiy, J Mateos-Garcia… - Proceedings of the …, 2024 - pnas.org
Two years on from the initial release of AlphaFold, we have seen its widespread adoption as
a structure prediction tool. Here, we discuss some of the latest work based on AlphaFold …
a structure prediction tool. Here, we discuss some of the latest work based on AlphaFold …
GTalign: spatial index-driven protein structure alignment, superposition, and search
M Margelevičius - Nature Communications, 2024 - nature.com
With protein databases growing rapidly due to advances in structural and computational
biology, the ability to accurately align and rapidly search protein structures has become …
biology, the ability to accurately align and rapidly search protein structures has become …
Structural phylogenetics unravels the evolutionary diversification of communication systems in gram-positive bacteria and their viruses
Recent advances in AI-based protein structure modeling have yielded remarkable progress
in predicting protein structures. Since structures are constrained by their biological function …
in predicting protein structures. Since structures are constrained by their biological function …
The landscape and perspectives of the human gut metaproteomics
The human gut microbiome is closely associated with human health and diseases.
Metaproteomics has emerged as a valuable tool for studying the functionality of the gut …
Metaproteomics has emerged as a valuable tool for studying the functionality of the gut …
Machine learning sheds light on microbial dark proteins
AT Hammack, CE Blaby-Haas - Nature Reviews Microbiology, 2024 - nature.com
Machine learning sheds light on microbial dark proteins | Nature Reviews Microbiology Skip to
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Clustering protein functional families at large scale with hierarchical approaches
Proteins, fundamental to cellular activities, reveal their function and evolution through their
structure and sequence. CATH functional families (FunFams) are coherent clusters of …
structure and sequence. CATH functional families (FunFams) are coherent clusters of …