Uniprot

The UniProt knowledgebase is a large resource of protein sequences and associated detailed annotation. The database contains uniprot 60 million sequences, uniprot, of which over half a million sequences have been curated by experts who critically review experimental and predicted data for each protein.

The aim of the UniProt Knowledgebase is to provide users with a comprehensive, high-quality and freely accessible set of protein sequences annotated with functional information. In this article, we describe significant updates that we have made over the last two years to the resource. The number of sequences in UniProtKB has risen to approximately million, despite continued work to reduce sequence redundancy at the proteome level. We have adopted new methods of assessing proteome completeness and quality. We continue to extract detailed annotations from the literature to add to reviewed entries and supplement these in unreviewed entries with annotations provided by automated systems such as the newly implemented Association-Rule-Based Annotator ARBA. We have developed a credit-based publication submission interface to allow the community to contribute publications and annotations to UniProt entries.

Uniprot

Federal government websites often end in. The site is secure. UniProt releases are published every eight weeks. We provide customizable views and downloads in a range of formats via the website, and file sets at the FTP site www. The aim of the UniProt Knowledgebase is to provide users with a comprehensive, high-quality and freely accessible set of protein sequences annotated with functional information. In this publication we describe enhancements made to our data processing pipeline and to our website to adapt to an ever-increasing information content. The number of sequences in UniProtKB has risen to over million and we are working towards including a reference proteome for each taxonomic group. We continue to extract detailed annotations from the literature to update or create reviewed entries, while unreviewed entries are supplemented with annotations provided by automated systems using a variety of machine-learning techniques. In addition, the scientific community continues their contributions of publications and annotations to UniProt entries of their interest. The UniProt databases enable the research community to explore the diversity of life as described by the complement of proteins expressed by each organism. The UniRef databases cluster sequence sets at various levels of sequence identity and the UniProt Archive UniParc delivers a complete set of known unique sequences, including historical obsolete sequences. Data from selected resources are additionally integrated into UniProtKB records to add biological knowledge and associated metadata enabling the database to act as a central hub from which users can link out to other resources. Community functional annotation adds further value to the entry annotations. The integration of these data and the manual curation of protein features, such as functional domains and active sites, amino acid variants, ligand binding sites and post-translational modifications PTMs in the UniProt record, provide our users with mechanistic insights into how, for example, specific variants can lead to disease or resistance to a drug or to a pathogen.

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All materials are free cultural works licensed under a Creative Commons Attribution 4. UniProt provides the scientific community with a comprehensive, high-quality and freely accessible resource of protein sequence and functional information. As the number of completely sequenced genomes continues to increase, huge efforts are being made in the research community to understand as much as possible about the proteins encoded by these genomes. This work is critical to many areas of science including biology, medicine and biotechnology — and is generating a wealth of data. UniProt provides an up-to-date, comprehensive body of protein information. The resource facilitates scientific discovery by collecting, interpreting and organising this information, which saves researchers countless hours of work. You can use UniProt for a wide range of tasks, from finding out about your protein of interest and comparing its protein sequence with other proteins, to mapping a list of identifiers from an external database to UniProtKB or vice versa. Around 90 people are involved across the three groups through a range of tasks such as database curation, software development and user support. Continue on to the final pages of this online tutorial for recommendations on what to learn next and to tell us what you thought of this tutorial.

Uniprot

The UniProt Knowledgebase is a collection of sequences and annotations for over million proteins across all branches of life. Detailed annotations extracted from the literature by expert curators have been collected for over half a million of these proteins. These annotations are supplemented by annotations provided by rule based automated systems, and those imported from other resources. In this article we describe significant updates that we have made over the last 2 years to the resource. We have greatly expanded the number of Reference Proteomes that we provide and in particular we have focussed on improving the number of viral Reference Proteomes. The UniProt website has been augmented with new data visualizations for the subcellular localization of proteins as well as their structure and interactions. The proteins expressed in a cell at any moment of time determine its function, its topology, how it reacts to changes in environment and ultimately its longevity and well-being. Improvements in experimental techniques are providing ever deeper information on the structure and function of individual proteins, whilst large-scale sequencing efforts are driving increased coverage of the complete proteomes of the breadth of organisms that populate the tree of life.

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A powerful search engine allows searching for any piece of information e. For each annotation value ARBA aggregates the prediction models into one comprehensive rule. Unfortunately much of this information has not been readily available to medical geneticists. Rhea, the reaction knowledgebase in Garavelli J. We have developed a credit-based publication submission interface to allow the community to contribute publications and annotations to UniProt entries. Structural analysis. In the course of PTM curation, curators also check that the annotation content of enzymes that mediate modifications is up-to-date. Submit Cancel. Get help with access Accessibility Contact us Advertising Media enquiries. Clustering huge protein sequence sets in linear time. Representative proteomes: a stable, scalable and unbiased proteome set for sequence analysis and functional annotation. Advanced Search.

The aim of the UniProt Knowledgebase is to provide users with a comprehensive, high-quality and freely accessible set of protein sequences annotated with functional information.

Clicking on the conditions highlights the corresponding annotations applied if the conditions hold true and vice versa clicking on the annotations highlights the corresponding conditions. Protein science is entering a new era that promises to unlock many of the mysteries of the cell's inner workings. As part of the redesign process, we have redeveloped both the UniProt interaction viewer Figure 6A and ProtVista viewer, which graphically represents protein sequence features, such as domains, sites, post-translational modifications and variants, and structures. Possible oligosaccharide structures on proteins from masses. Proteome Res. To achieve this, UniProt provides reference proteomes to give a selection of species representing a broad coverage of the tree of life. Huang J. Wu, Cecilia N. Close mobile search navigation Article Navigation. Community submissions are quickly reviewed by a curator to ensure content is appropriate and that the publication has been linked to the relevant entry. C Block chart showing the relative distribution of annotations by categories. The tracks can be expanded, as shown in this Figure with the Variants track.