GproteinDb release notes
Feb. 12, 2024
- New Structure superposition workflow for G protein α subunits (experimental structures and models) with custom segment and residue selection
- Chimera mapping fixed for structures with Gq chimeras
- New structures
- Minor bug and performance fixes
Oct. 25, 2023
- New GPCR - G protein couplings with dedicated pages describing the datasets and biosensors
- Coupling selectivity tree and Venn updated with new coupling data
- Structural superposition for all type of models (complex, non-complex)
- Structural superposition for G protein structures and complex models
- Full G protein heterotrimer AlphaFold2-Multimer complex models increased to 1121
- Minor bug and performance fixes
Sept. 22, 2023
- New AlphaFold2-Multimer GPCR - G protein complex models
- Coupling data added to complex models table
- New refined complex structures
- New refined complex structures
- Updated interface interaction matrix with refined structures and AlphaFold2-Multimer models
- New visualisation modes for GPCR - G protein interactions (biflare plot, matrix, 3D view)
- Coupling interactions between residues with no generic residue number added
- Receptor sequences updated to latest UniProt canonical sequence
- Gα segment names changed to include domain annotation (e.g. from H5 to G.H5)
- API calls added for G protein data
- New structures
- Minor bug and performance fixes
June 19, 2023
- Drugs, targets and indications page layout updated
- 54 new structures
- All PDB files updated to their most recent version
- G protein chimera mapping improved
- Improved GPCR - G protein interface interactions
- Interaction bug fixes
- Hydrogen atoms removed from AlphaFold models
- Minor bug and performance fixes
March 9, 2023
- 195 new structures added (up until December 2022)
- New automated structure segment annotation based on DSSP and custom rules
- New ligand interaction calculation process using RDKit for higher precision and accuracy
- Van der Waals interactions added
- Class C activation state reverted to author based annotation instead of degree active calculation
- New API calls for ligand data
- GPCR - G protein interface interactions figures are now downloadable
- Structure annotation fixes
- Minor bug and performance fixes
Nov. 3, 2022
- New refined GPCR structures using AlphaFold
- New full-length and state-specific AlphaFold models for all human GPCRs
- New functionality for searching ligands by name, database identifier, or SMILES/InChIKey
- Updated the ligand and bioactivity pages
- Updated GPCR ligands and bioactivities with data from Guide to Pharmacology and PDSP Ki
- Updated the new Endogenous ligands browser
- Minor bug and performance fixes
Sept. 9, 2022
- New state-specific AlphaFold models for all human GPCRs
- Updated GPCR ligands from the Guide to Pharmacology
- Minor bug and performance fixes
July 28, 2022
- New Endogenous ligands browser
- New ligand information page, click here for an example
- Adding GPCR ligands from the Guide to Pharmacology
- Adding GPCR ligands from the PDSP Ki database
- Updated layout for the main page and the menu system
- Minor bug and performance fixes
March 30, 2022
- Release of the new Biased Signaling resource
- Bias calculations according to the recently published Community Guidelines for GPCR Ligand Bias
- In-depth browsing and plotting of biased signaling data for individual receptors on transducer family and subtype level
- Visualisation of the trends in the signaling data via the statistics pages
- Annotation of endogenous ligands via the Guide to Pharmacology for identifying physiology-biased ligands
- Comparison of receptor-signaling profiles between any ligand with signaling data for a given receptor
- Revamped ligand handling in GPCRdb
- Improved ligand identification, processing, curation, integration, and crosslinking
- Updated GPCR ligand and bioactivity data from ChEMBL
- Updated ligand vendor data from PubChem
- Linking ligands to external sources (Guide to Pharmacology, ChEMBL, PubChem, Drug Central, and DrugBank)
- Updated GPCR and G protein structures
- Updated GPCR homology and refined structure models
- Minor bug and performance fixes
Oct. 7, 2021
- Updated GPCR and G protein structures
- Updated GPCR homology and refined structure models
- Updated documentation
- Minor bug and performance fixes
Sept. 10, 2021
- Official release of the research hub: GPCRdb, GproteinDb, and ArrestinDb
- Extension of the G protein and Arrestin couplings with new data and new functionalities
- Updated documentation
- Updated GPCR and G protein structures
- Updated GPCR homology and refined structure models
- Minor bug and performance fixes
July 20, 2021
- Updated GPCR structures
- Updated GPCR homology and refined structure models
- Minor bug and performance fixes
June 14, 2021
- Updated GPCR structures
- Updated GPCR homology and refined structure models
- Minor bug and performance fixes
May 14, 2021
- Updated GPCR structures
- Updated GPCR homology and refined structure models
- Minor bug and performance fixes
April 14, 2021
- Release of structure comparison resources (see preprint):
- Improved complex homology modeling workflow:
- Utilizing alternative backbone templates and rotamer switching
- For GPCR-G protein complex structures, the G protein is now refined as well
- Updated GPCR and G protein structures
- Updated GPCR homology and refined structure models
- Updated references
- Minor bug and performance fixes
March 18, 2021
- Improved tree visualizations on all statistics pages
- Updated GPCR and G protein structures
- Updated GPCR homology and refined structure models
- Added community-contributed mutation data
- Updated references
- Minor bug and performance fixes
Feb. 11, 2021
- Improved structure download and superpositioning workflow
- Updated GPCR structures
- Updated GPCR homology and refined structure models
- Minor bug and performance fixes
Jan. 12, 2021
- Added G protein structures not in complex with GPCRs to the G protein structure browser
- Updated GPCR structures
- Updated GPCR homology and refined structure models
- Updated documentation
- Minor bug and performance fixes
Dec. 7, 2020
- Accompanying our 2021 GPCRdb publication in Nucleic Acids Research are:
- A new receptor selection page (present in e.g. sequence alignments)
- Receptor model statistics page analyzing the accuracy of our models upon release of experimental structures
- Official release of the class D1 numbering system accompanying the Nature publication of the first structure of a class D GPCR
- Updated GPCR structures - now up to a total of 500!
- Updated GPCR homology and refined structure models
- Updated GPCR species orthologs from UniProt
- Updated documentation
- Updated references
- Minor bug and performance fixes
Nov. 4, 2020
- New Isoforms resource accompanying the publication of this Nature article
- Updated GPCR structures
- Updated GPCR homology and refined structure models
- Minor bug and performance fixes
Oct. 8, 2020
- Updated GPCR structures
- Updated GPCR homology and refined structure models
- Minor bug and performance fixes
Sept. 3, 2020
- Updated GPCR annotated structures and it's encompassing browser and accordingly updated statistics
- Updated GPCR homology and refined structure models
- Updated GPCR-G protein complex structure models
- Updated ligand database
- New and faster phylogenetic tree tool
- New easy citation tool
- New join us tool
- Updated menu layout
Oct. 25, 2019
- Updated GPCR structures and statistics
- Updated homology and refined models
- GPCR-G protein complex structure models
- New G protein browser
March 11, 2019
- Updated GPCR structures and statistics
- All homology and refined models updated
- Final release of resources assisting structure determination as published in Nature Methods
Jan. 21, 2019
- Updated GPCR structures and statistics
- New tools to analyse structure constructs engineering
April 5, 2018
- Updated GPCR structures and statistics
- New tools to analyse structure construct engineering
Nov. 15, 2017
- GPCR ligand section with pXC50 values (ChEMBL) and commercial availability (PubChem)
- High-precision structure models of all human non-olfactory GPCRs
- Inactive state models of all and intermediate and active state models for classes A-B
- Drug browser along with a statistics page and drug mapping page
- Updated to include new crystal structures and statistics
- Version 2.0 of the construct design tool
July 25, 2017
- Updated to include newest crystal structures along with additions to the statistics page
- Minor bug fixes
May 17, 2017
- Updated to include newest crystal structures (190)
- Further refinement of crystal construct data browser
- Extended functionality of G-protein data & statistics
- General speed improvements
Sept. 21, 2016
- Significantly improved alignments for all proteins
- More mutation data (>10.000) and a mutation statistics page
- Crystal construct data browser
- G-protein data & statistics
- General speed improvements
May 18, 2016
- New Mutation Design Tool
- More mutant data
- Updated alignments for all proteins
- Homology models (Class A)
- B2-adrenoceptor - Gs protein interface
- G protein assocation statistics
- Import/export of receptor selections
- Import/export of segment selections
Sept. 30, 2015
- Re-designed interface
- NC-IUPHAR nomenclature
- Updated alignments for all proteins
- New web services
- Site search from PDB files
- Improved mutant browser
- More mutant data
- Ligand interaction diagrams
- BLAST search