#ProteinDataBank
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irbbarcelona.org
🌬️This is our #December #ImageOfTheMonth!

🍭🍙"Spike Lollipop on Membrane Rice Cake", by
Adam Hospital & Genís Bayarri (Molecular Modelling and Bioinformatics lab).

📸 2019-nCoV spike glycoprotein with a single receptor-binding domain pointing upwards #ProteinDataBank.

Happy December everyone!☃️

🧪 🐡
December 2, 2024 at 10:13 AM
actacrystd.iucr.org
A global analysis of protein crystal structures in the PDB using a newly developed computational approach reveals many pairs with (nearly) identical main-chain coordinates #DataDuplication #ProteinDataBank #CoordinateComparison doi.org/10.1107/S205...
April 9, 2025 at 2:03 PM
actacrystd.iucr.org
Alexander Wlodawer et al.: Duplicate entries in the Protein Data Bank: how to detect and handle them ##DataDuplication##ProteinDataBank##CoordinateComparison@uva@imperialcollege@livuni...##IUCrhttps://journals.iucr.org/paper?S2059798325001883
Duplicate entries in the Protein Data Bank: how to detect and handle them
A global analysis of protein crystal structures in the Protein Data Bank (PDB) reveals many pairs with (nearly) identical main-chain coordinates. Such cases are identified and analyzed, leading to a proposal about how the PDB could ameliorate this problem.
journals.iucr.org
March 9, 2025 at 1:00 AM
actacrystd.iucr.org
Lucy C. Schofield et al.: Post-translational modifications in the Protein Data Bank ##PostTranslationalModifications##ProteinDataBank##Glycosylation@uniofyork@Cambridge_Uni...##IUCrhttps://journals.iucr.org/paper?S2059798324007794
Post-translational modifications in the Protein Data Bank
This review explores the importance of post-translational modifications (PTMs) in the Protein Data Bank and identifies examples of well modelled PTMs.
journals.iucr.org
August 30, 2024 at 12:00 AM
actacrystd.iucr.org
The role of post-translational modifications in influencing protein structure and function, and the frequency and representation of these modifications in the PDB, are examined #PostTranslationalModifications #ProteinDataBank #Glycosylation t.co/iocwcaTdCy
September 17, 2024 at 1:40 PM
iucrj.iucr.org
Filomeno Sánchez Rodríguez et al.: Using deep-learning predictions reveals a large number of register errors in PDB depositions ##DeepLearning##ProteinDataBank##StructureValidation@livuni@uniofyork...##IUCrhttps://journals.iucr.org/paper?S2052252524009114
Using deep-learning predictions reveals a large number of register errors in PDB depositions
A novel structure-validation method is applied to PDB depositions at 3–5 Å resolution, revealing large numbers of putative register errors.
journals.iucr.org
October 11, 2024 at 12:00 AM