TMVisDB: A Resource for Transmembrane Protein Annotations and 3D Visualizations DOI Creative Commons
Tobias Olenyi, Céline Marquet, Anastasiia Grekova

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Nov. 23, 2024

Abstract Since the rise of cellular life, transmembrane proteins (TMPs) have been crucial to various processes through their central role as gates and gatekeepers. Despite importance, experimental high-resolution structures for TMPs remain underrepresented due challenges. Given its performance leap, structure predictions begun close gap. However, identifying membrane regions topology in three-dimensional files on a large scale still requires additional silico predictions. Here, we introduce TMVisDB sieve millions predicted TMPs. This resource enables both browsing 46 million visualizing them along with topological annotations without having tap into costly AlphaFold3-style. joins AlphaFoldDB from protein language model (pLM) based method TMbed . We showcase utility analysis two use cases, namely B-lymphocyte antigen CD 20 ( Homo sapiens ) cellulose synthase Novosphingobium sp. P6W ). demonstrate value large-scale analyses findings pertaining all human proteome. is freely available at https://tmvisdb.rostlab.org

Language: Английский

TMVisDB: A Resource for Transmembrane Protein Annotations and 3D Visualizations DOI Creative Commons
Tobias Olenyi, Céline Marquet, Anastasiia Grekova

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Nov. 23, 2024

Abstract Since the rise of cellular life, transmembrane proteins (TMPs) have been crucial to various processes through their central role as gates and gatekeepers. Despite importance, experimental high-resolution structures for TMPs remain underrepresented due challenges. Given its performance leap, structure predictions begun close gap. However, identifying membrane regions topology in three-dimensional files on a large scale still requires additional silico predictions. Here, we introduce TMVisDB sieve millions predicted TMPs. This resource enables both browsing 46 million visualizing them along with topological annotations without having tap into costly AlphaFold3-style. joins AlphaFoldDB from protein language model (pLM) based method TMbed . We showcase utility analysis two use cases, namely B-lymphocyte antigen CD 20 ( Homo sapiens ) cellulose synthase Novosphingobium sp. P6W ). demonstrate value large-scale analyses findings pertaining all human proteome. is freely available at https://tmvisdb.rostlab.org

Language: Английский

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