De novo protein design has advanced rapidly, yet designing binders to polar, solvent-exposed epitopes and small, flexible ligands remains challenging. Such hydrated surfaces and flexible molecules, in...

AbstractMotivation. In phylogenomics, gene tree reconstruction depends on multiple sequence alignment and tree inference, and ongoing work continues to imp

UniProt is the world's leading high-quality, comprehensive and freely accessible resource of protein sequence and functional information.

Free automated phage genome annotation -- pharokka, phold and phynteny in one pipeline.

Protein language models have excelled at modeling individual proteins, but extending these capabilities to protein complexes remains a major challenge. MSA Pairformer, a parameter-efficient protein la...

Data‑Rich, Insight‑Poor? —LXXIX Kim et al.’s Folddisco paper is easy to misread.

Folddisco enables protein structural motif search in million scale databases.

FAMSA2 accurately aligns millions of protein sequences at high speed.

Rapid & standardized genome annotation using protein structural information - gbouras13/baktfold

Foldseek clustered 820M AlphaFold DB + ESMatlas structures

Circular comparative genome visualization tool running entirely in your browser

DIAMOND DeepClust provides an ultra-fast clustering method for organizing the protein universe of life at low sequence identity, enabling large-scale dimensionality reduction and improving downstream ...

Unified protein design for computational researchers and experimentalists

The database of 200 million protein-structure predictions now includes homodimers, adding new biological relevance.

Changelog SeqKit is 10 years old! SeqKit v2.13.0 - 2026-02-28 seqkit: add support for reading and writing LZ4 compression format. new command: seqkit sample2: improved seqkit sample by @stahiga....

Nature Reviews Genetics - In this Review, Ji et al. overview how rapidly advancing experimental and computational methods are enabling improved and automated annotation of gene structure and...

Protein structure is conserved beyond sequence, making multiple structural alignment (MSTA) essential for analyzing distantly related proteins. Computational prediction methods have vastly extended ou...