The structural Bioinformatics Community (3D-BioInfo) has the mission to better integrate protein structure-based data and tools across Europe, and to improve standardisation through better ontologies and agreed benchmarking. The ties with the structural biology research communities in Europe will be strengthened and dedicated training and outreach efforts will be taken. Four major topics form the basis of this study:

• WP1: Infrastructure for FAIR structural and functional annotations

Following previous work by the ELIXIR Proteomics Community, PRIDE public proteomics datasets, as well as some open proteomics data analysis pipelines are starting to become available.This follow-on ELIXIR implementation study will use previous results as the base to develop a set of open and user-friendly analysis pipelines, which will be applied to  assess the possibilities for performing  more automated re-analyses using the metadata SDRF-encoded annotations of public datasets. Additionally, common ideas in this context and in others overlapping topics of interest will be explored e.g.

The increasingly well-documented role of intrinsic disorder in protein behavior and function requires infrastructure improvements to enable enhanced researcher access to related tools and data. A key existing infrastructure is MobiDB, which provides sequence-based predictions for the entire set of UniProtKB proteins from a number of different prediction tools.

The ELIXIR Tools Platform Ecosystem, initiated by the ELIXIR Tools Platform, is a diverse and open initiative focused on the metadata exchange across registries and repositories. Its goal is to facilitate coordination among them, enhance interoperability, reduce mismatching information, promote good practices for resources enabling community curation and contribute towards the sustainability of each of its components over time. Hence, this project seeks to sustain and support this “Ecosystem” through three complimentary work packages:

This project focuses on the enhancement of Galaxy's data management features to provide additional provenance information and improve the integration of Galaxy in the existing data management ecosystem. Existing technologies and services in ELIXIR will be supported and ongoing international projects (ELIXIR-CONVERGE, the COVID-19 Data Portal, EOSC-Life, etc.) will be complemented while building on national initiatives (German NFDI, ELIXIR Belgium strategy, UK BioFAIR, etc.).

This implementation study will create infrastructure to chart the experimentally sampled conformational diversity of native proteins by exploiting data from the PDB, augmented with results of state-of-the-art computational tools. By integrating resources and tools, workflows will be developed to:

• compare and cluster different conformations adopted by homologs of the same protein and
• identify protein regions with different flexibility properties. 

Pipelines will be created to characterize conformational ensembles in terms of:

Though the Plant Sciences Community has already implemented some critical elements of its roadmap, the project plan for this community implementation study features three key objectives, with each objective addressed in a corresponding work package:

The aim of this new strategic implementation study (SIS) is to build on the current progress made through the ongoing implementation study, enabling the adoption and deployment of protocols and services by the broader ELIXIR community at scale.

The first SIS Containers study (2019-2021) has successfully convened and established a growing ELIXIR wide consensus on high-level community-driven service needs and related standards including: