UniProt Tools: BLAST, Align, Peptide Search, and ID Mapping

AbstractThe Universal Protein Resource (UniProt) is a comprehensive resource for protein sequence and annotation data (UniProt Consortium, 2023). The UniProt website receives about 800,000 unique visitors per month and is the primary means to access UniProt. Along with various datasets that you can search, UniProt provides four main tools. These are the “BLAST” tool for sequence similarity searching, the “Align” tool for multiple sequence alignment, the “Peptide Search” tool for retrieving proteins containing a short peptide sequence, and the “Retrieve/ID Mapping” tool for using a list of identifiers to retrieve UniProt Knowledgebase (UniProtKB) proteins and to convert database identifiers from UniProt to external databases or vice versa. This article provides four basic protocols and seven alternate protocols for using UniProt tools. © 2023 The Authors. Current Protocols published by Wiley Periodicals LLC.Basic Protocol 1: Basic local alignment search tool (BLAST) in UniProtAlternate Protocol 1: BLAST through UniProt text search results pagesAlternate Protocol 2: BLAST through UniProt basketBasic Protocol 2: Multiple sequence alignment in UniProtAlternate Protocol 3: Align tool through UniProt results pages and entry pagesAlternate Protocol 4: Align tool through UniProt basketBasic Protocol 3: Peptide search in UniProtBasic Protocol 4: Batch retrieval and ID mapping in UniProtAlternate Protocol 5: Retrieve/ID Mapping tool through UniProt text search results pages and BLAST and Align results pagesAlternate Protocol 6: Retrieve/ID Mapping tool through UniProt basketAlternate Protocol 7: Retrieve/ID Mapping tool through UniProt search box