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    38 repositories

    • pdbe-api-training

      Public
      Interactive Python notebooks for PDBe API training
      Jupyter Notebook
      •
      Other
      •18•45•0•1•Updated Nov 14, 2024Nov 14, 2024

    • pdbe-notebooks

      Public
      Jupyter Notebook
      •
      Apache License 2.0
      •0•0•0•0•Updated Nov 5, 2024Nov 5, 2024

    • Investigations

      Public
      This application is designed to create mmcif files from facilities data.
      Python
      •0•0•0•0•Updated Nov 4, 2024Nov 4, 2024

    • protein-cluster-conformers

      Public
      Clusters protein chains based on CA distance difference
      bioinformaticsclusteringproteinsstructural-biologypdbprotein-structuresuperpositionstructural-bioinformaticsconformal-predictionbioinformatics-tool
      Python
      •
      Other
      •0•10•0•0•Updated Oct 31, 2024Oct 31, 2024

    • rellig

      Public
      Python
      •
      Apache License 2.0
      •0•4•0•0•Updated Oct 31, 2024Oct 31, 2024

    • ccdutils

      Public
      A set of python tools to deal with PDB chemical components definitions for small molecules, taken from the wwPDB Chemical Component Dictionary, uses RDKit
      Python
      •
      Apache License 2.0
      •6•46•1•0•Updated Oct 30, 2024Oct 30, 2024

    • heatmap-component

      Public
      Canvas-based Interactive Heatmap Component
      TypeScript
      •
      Apache License 2.0
      •0•2•0•0•Updated Oct 18, 2024Oct 18, 2024

    • pdb-images

      Public
      Generates images from mmCIF/BCIF files
      TypeScript
      •
      Apache License 2.0
      •4•35•0•0•Updated Oct 17, 2024Oct 17, 2024

    • protvista-pdb

      Public
      PDB ProtVista Viewer
      JavaScript
      •
      Apache License 2.0
      •7•10•0•1•Updated Sep 19, 2024Sep 19, 2024

    • arpeggio

      Public
      Calculation of interatomic interactions in molecular structures
      Python
      •
      GNU General Public License v3.0
      •19•79•9•6•Updated Sep 3, 2024Sep 3, 2024

    • ner_for_protein_structures

      Public
      Python
      •
      Other
      •0•1•0•0•Updated Aug 5, 2024Aug 5, 2024

    • afdb-notebooks

      Public
      Jupyter Notebook
      •
      Creative Commons Zero v1.0 Universal
      •0•0•0•0•Updated Jun 5, 2024Jun 5, 2024

    • ccdc-hotspots

      Public
      A knowledge-based method for determining small molecule binding "hotspots".
      HTML
      •
      MIT License
      •18•0•0•0•Updated Apr 23, 2024Apr 23, 2024

    • pdbe-api-specifications

      Public
      Apache License 2.0
      •2•0•0•0•Updated Dec 7, 2023Dec 7, 2023

    • pdbecif

      Public
      A lightweight pure python package for reading, writing and manipulating mmCIF files distributed by the wwPDB"
      Python
      •
      Apache License 2.0
      •4•35•3•0•Updated Oct 30, 2023Oct 30, 2023

    • pdb-topology-viewer

      Public
      PDB Topology Viewer
      TypeScript
      •
      Apache License 2.0
      •4•5•1•16•Updated Oct 10, 2023Oct 10, 2023

    • pdb-sequence-viewer

      Public
      PDB Sequence-feature Viewer
      JavaScript
      •
      Apache License 2.0
      •1•3•0•0•Updated Apr 17, 2023Apr 17, 2023

    • pdb-rna-viewer

      Public
      The PDB RNA viewer depicts the secondary structure of a RNA in a 2D representation
      TypeScript
      •
      Other
      •3•3•2•1•Updated Mar 3, 2023Mar 3, 2023

    • pdb-redo

      Public
      PDB_REDO
      JavaScript
      •1•0•0•19•Updated Jan 6, 2023Jan 6, 2023

    • pdb-prints

      Public
      TypeScript
      •0•0•0•15•Updated Jan 5, 2023Jan 5, 2023

    • ligand-env

      Public
      Public repository of the PDBe ligand environment component
      TypeScript
      •
      Apache License 2.0
      •0•1•0•0•Updated Feb 9, 2022Feb 9, 2022

    • AFDB-Dictionary

      Public
      AlphaFold Protein Structure Database Dictionary
      0•2•1•0•Updated Dec 7, 2021Dec 7, 2021

    • pdbe-aggregated-api-example

      Public
      A Jupyter Notebook with an example use case for the PDBe Aggregated API
      Jupyter Notebook
      •
      Other
      •0•1•0•0•Updated May 13, 2021May 13, 2021

    • exp-pages

      Public archive
      Angular2 and Polymer components to display experimental information for a PDB entry
      TypeScript
      •
      Other
      •0•0•0•0•Updated Mar 12, 2021Mar 12, 2021

    • pdb-raw-exp-data

      Public
      Polymer component displaying related raw experimental data when available
      HTML
      •
      Other
      •0•0•0•0•Updated Jan 25, 2021Jan 25, 2021

    • api-webinars

      Public
      Study materials for the PDBe API webinar series in September 2020.
      pythonbioinformaticstutorialpdbweb-componentsprotein-structureproteinapi-restwebinarjupyter-notebooks
      Jupyter Notebook
      •2•5•0•0•Updated Oct 22, 2020Oct 22, 2020

    • pdb-3d-complex

      Public
      Summary web-component for the PDB 3D complex, a server that analyses the complexes in crystal structures
      TypeScript
      •
      Apache License 2.0
      •0•3•0•0•Updated Sep 29, 2020Sep 29, 2020

    • pdb-residue-interactions

      Public
      Residue contacts viewer in Protein Contacts Atlas
      TypeScript
      •1•1•0•0•Updated Sep 14, 2020Sep 14, 2020

    • pdb-lite-mol

      Public
      Web-component implementation of LiteMol 3D structure viewer.
      CSS
      •
      Apache License 2.0
      •2•6•2•0•Updated Mar 3, 2020Mar 3, 2020

    • pdb-links

      Public
      JavaScript
      •
      Apache License 2.0
      •0•0•0•0•Updated Mar 3, 2020Mar 3, 2020