Services: Proteins And Proteomes

The Mass Centric Peptide Database contains the tryptic in silico digest of all known proteins in UniProt KB, stored in an efficient manner to be quickly searched.

Multivariate Asymptotic Non-Parametric Test of Association

dSysMap (Mapping of Human disease-related mutations at the systemic level) displays Human disease-related mutations on the structural interactome. Mapping of mutations on protein structures and on interaction interfaces allows you to visualize the region of the interactome that they affect and helps in rationalizing their mechanism of action.

A method for estimating disordered stretches in transmembrane proteins

A comprehensive collection of data from manually curated protein-protein interaction databases adhering to the IMEx consortium.

MetaProteomeAnalyzer is an intuitive open-source tool for metaproteomics data analysis and interpretation, which includes multiple search engines and the ability to decrease data redundancy by grouping protein hits into so-called metaproteins. 

A software pipeline for the processing of amplicon sequencing data, from raw sequences to OTU tables, taxonomy classification and phylogenetic tree inference

MicroMiner searches mutations in protein structure databases like the PDB. Retrieved mutant structures can be easily analysed and compared. 

The Molecular INTeraction Database of protein-protein interactions curated from peer-reviewed papers. An ELIXIR Core Data Resources and founder member of the IMEx Consortium.

The Missense3D portal hosts resources developed to characterise and prioritise missense variants (amino acid substitutions) using protein three-dimensional structural information from models or experimental coordinates. Missense3D predicts the structural changes introduced by an amino acid substitution.

A database of protein disorder and mobility annotations, designed centralize resources for annotations of intrinsic protein disorder and its function. Part of the InterPro consortium, an ELIXIR Core Data Resource.

The archive for structural models which are not based on experimental data and complements the PDB archive for experimental structures and PDB- Dev for integrative structures. Any type of macromolecular structure which would otherwise be suitable for the PDB but whose coordinates are not based on experimental data can be deposited in ModelArchive. This includes single chains or complexes consisting of proteins, RNA, DNA, or carbohydrates including small molecules bound to them.

A web application for validation of annotation of ligands and
residues.

Tool to predict peptide fragment ion intensities for mass spectrometry-based proteomics data.

The NERC Environmental Omics Facility (NEOF) will enable environmental researchers in the UK to access the full range of omics supporting technology.

An innovative knowledge platform dedicated to human proteins. It contains a wealth of data on all the human proteins that are produced by the 20'000 protein- coding genes found in the human genome. 

Norine has been and remains the unique resource dedicated to nonribosomal peptides (NRPs). It contains a database complemented with analysis tools (structure comparison, inference of monomer structure from chemical structure, mass spectrum analysis, NRP annotation for submission to the database). NRPs are secondary metabolites produced by bacteria and fungi and display a diverse spectrum of biological activity.

(Oligogenic Resource for Variant Analysis) is the first web bioinformatics platform for the exploration of predicted candidate disease-causing variant combinations, aiming to aid in uncovering the causes of oligogenic diseases (i.e. diseases caused by variants in a small number of genes).

Prediction of Amyloid STructure Aggregation is a web server predictor for amyloid aggregation propensity from protein sequences;

Database of membrane localization of transmembrane proteins with defined spatial structure

A platform for interpretation of proteomics identification results from multiple search engines.

Predictor of human deleterious Single Nucleotide Polymorphisms.

A human protein-protein interaction meta-database employing primary dataset integration via genetic information ontology, which allows the integrated network to be reversibly normalized to any level of genetic reference without loss of source information and enables primary PPI dataset cross-checking. The PICKLE web-based interface allows for the simultaneous query of multiple entities and provides integrated human PPI networks at either the protein or the gene level, at three PPI filtering modes.

An open-source plug-in that provides some of the most popular molecular dynamics (MD) codes with implementations of a variety of different enhanced sampling algorithms and collective variables.

The Protein Model Database stores manually built 3D models of proteins.

Database of localization and post-translational modifications of transmembrane proteins in polarized cells

A method for estimating the localization of transmembrane proteins in polarized cells

PoseView automatically creates two-dimensional diagrams of complexes with known 3D structure according to chemical drawing conventions.

Web application for protein-ligand binding sites analysis and visualization | This repositary contains PrankWeb web application.

A prediction system for GPI-anchored proteins.