1. UniProt: Universal Protein Resource
Central Resource of Protein Sequence and Function
International Consortium
PIR at GUMC
European Bioinformatics Institute
Swiss Institute of Bioinformatics
Unifies PIR-PSD, Swiss-Prot, TrEMBL Protein Sequence Databases

2. UniProt Databases
UniParc: Comprehensive Sequence Archive with Sequence History
UniRef: Non-redundant Reference Databases for Sequence Search
UniProtKB: Knowledgebase with Full Classification and Functional Annotation
3-yr, $15M

3. UniProt Archive (UniParc)
An archive for tracking protein sequences
Comprehensive: All published protein sequences
Non-Redundant: Merge identical sequence strings
Traceable: Versioned, with ‘Active’ or ‘Obsolete’ status tag
Concise: no annotation of function, species, tissue, etc.
5 million unique entries from
13 million source-database entries

4. UniProt Reference Clusters (UniRef)
Non-Redundant Reference Clusters for Sequence Searching
UniRef100 for Comprehensive Sequence Similarity Search
100% sequence identity from all species, merging sub-fragments
Derived from UniProtKB – Splice variants as separate entries
Additional UniParc sources (e.g. Ensembl, IPI, EMBL_WGS)
Sub-fragments
WGS (whole genome shotgun)
UniParc since Sep 2004
Splice variants

5. UniProt Reference Clusters (UniRef)
UniRef90/50 for Faster Searches using Reduced Data Sets
UniRef90: 90% sequence identity (35% reduction from UniRef100)
UniRef50: 50% sequence identity (65% reduction)
Representative Sequence for cluster
Release 4.4 (03/29/05)
Database Size
WGS (whole genome shotgun)
UniParc since Sep 2004

6. UniProt Knowledgebase (UniProtKB)
Objective: Stable, Comprehensive, Fully Classified, Richly and Accurately Annotated
Describe in a single record all protein products derived from a certain gene in a given species
Information Content
Isoform Presentation: Alternatively Spliced Forms, Proteolytic Cleavage, and Post-Translational Modification (each with FTid)
Nomenclature: Gene/Protein Names (Nomenclature Committees)
Family Classification and Domain Identification: InterPro and PIRSF
Functional Annotation: Function, Functional Site, Developmental Stage, Catalytic Activity, Modification, Regulation, Induction, Pathway, Tissue Specificity, Subcellular Location, Disease, Process
VARSPLIC
derived by alternative splicing, proteolytic cleavage, and post-translational modification own identifiers

7. UniProtKB Report (I)

8. UniProtKB Report (II)