AI Article Synopsis
- The Novel Metagenome Protein Families Database (NMPFamsDB) compiles over 100,000 unique protein families derived from metagenomes and metatranscriptomes, focusing on proteins not found in reference genomes or existing databases.
- Each protein family includes detailed data such as sequence alignments, models for prediction of structure, and taxonomic as well as ecological context.
- NMPFamsDB significantly expands the understanding of protein sequence diversity and is anticipated to aid in the exploration of microbial functions and their ecological roles.
Article Abstract
The Novel Metagenome Protein Families Database (NMPFamsDB) is a database of metagenome- and metatranscriptome-derived protein families, whose members have no hits to proteins of reference genomes or Pfam domains. Each protein family is accompanied by multiple sequence alignments, Hidden Markov Models, taxonomic information, ecosystem and geolocation metadata, sequence and structure predictions, as well as 3D structure models predicted with AlphaFold2. In its current version, NMPFamsDB hosts over 100 000 protein families, each with at least 100 members. The reported protein families significantly expand (more than double) the number of known protein sequence clusters from reference genomes and reveal new insights into their habitat distribution, origins, functions and taxonomy. We expect NMPFamsDB to be a valuable resource for microbial proteome-wide analyses and for further discovery and characterization of novel functions. NMPFamsDB is publicly available in http://www.nmpfamsdb.org/ or https://bib.fleming.gr/NMPFamsDB.
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Source |
|---|---|
| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10767849 | PMC |
| http://dx.doi.org/10.1093/nar/gkad800 | DOI Listing |
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