UniProt: the Universal Protein Knowledgebase in 2023

A joint NCBI and EMBL-EBI transcript set for clinical genomics and research

(2022) Joannella Morales et al.   NATURE

Identification of Iron-Sulfur (Fe-S) Cluster and Zinc (Zn) Binding Sites Within Proteomes Predicted by DeepMind’s AlphaFold2 Program Dramatically Expands the Metalloproteome

(2021) Zachary J. Wehrspan et al.   JOURNAL OF MOLECULAR BIOLOGY

Rhea, the reaction knowledgebase in 2022

(2021) Parit Bansal et al.   NUCLEIC ACIDS RESEARCH

AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models

(2021) Mihaly Varadi et al.   NUCLEIC ACIDS RESEARCH

Database resources of the national center for biotechnology information

(2021) Eric W Sayers et al.   NUCLEIC ACIDS RESEARCH

The European Bioinformatics Institute (EMBL-EBI) in 2021

(2021) Gaia Cantelli et al.   NUCLEIC ACIDS RESEARCH

The European Nucleotide Archive in 2021

(2021) Carla Cummins et al.   NUCLEIC ACIDS RESEARCH

Ensembl 2022

(2021) Fiona Cunningham et al.   NUCLEIC ACIDS RESEARCH

Protein embeddings and deep learning predict binding residues for various ligand classes

(2021) Maria Littmann et al.   Scientific Reports

A crowdsourcing open platform for literature curation in UniProt

(2021) Yuqi Wang et al.   PLOS BIOLOGY

A putative long noncoding RNA-encoded micropeptide maintains cellular homeostasis in pancreatic β cells

(2021) Mark Li et al.   Molecular Therapy-Nucleic Acids

RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences

(2020) Stephen K Burley et al.   NUCLEIC ACIDS RESEARCH

UniProt: the universal protein knowledgebase in 2021

(2020) et al.   NUCLEIC ACIDS RESEARCH

Towards a unified open access dataset of molecular interactions

(2020) Pablo Porras et al.   Nature Communications

UniProt Genomic Mapping for Deciphering Functional Effects of Missense Variants

(2019) Peter B. McGarvey et al.   HUMAN MUTATION

Finding enzyme cofactors in Protein Data Bank

(2019) Abhik Mukhopadhyay et al.   BIOINFORMATICS

Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 3.0

(2019) Eric W. Deutsch et al.   JOURNAL OF PROTEOME RESEARCH

COACH-D: improved protein–ligand binding sites prediction with refined ligand-binding poses through molecular docking

(2018) Qi Wu et al.   NUCLEIC ACIDS RESEARCH

Capturing variation impact on molecular interactions in the IMEx Consortium mutations data set

(2018) N. del-Toro et al.   Nature Communications

A Peptide Encoded by a Putative lncRNA HOXB-AS3 Suppresses Colon Cancer Growth

(2017) Jin-Zhou Huang et al.   MOLECULAR CELL

MetalPDB in 2018: a database of metal sites in biological macromolecular structures

(2017) Valeria Putignano et al.   NUCLEIC ACIDS RESEARCH

Minimizing proteome redundancy in the UniProt Knowledgebase

(2016) Borisas Bursteinas et al.   Database-The Journal of Biological Databases and Curation

ChEBI in 2016: Improved services and an expanding collection of metabolites

(2015) Janna Hastings et al.   NUCLEIC ACIDS RESEARCH

FireDB: a compendium of biological and pharmacologically relevant ligands

(2013) Paolo Maietta et al.   NUCLEIC ACIDS RESEARCH

BioLiP: a semi-manually curated database for biologically relevant ligand–protein interactions

(2012) Jianyi Yang et al.   NUCLEIC ACIDS RESEARCH