Unified access to up-to-date residue-level annotations from UniProtKB and other biological databases for PDB data

por Choudhary, Preeti, Anyango, Stephen, Berrisford, John, Tolchard, James, Varadi, Mihaly, Velankar, Sameer
Publicado 2023

PDBeCIF: an open-source mmCIF/CIF parsing and processing package

por van Ginkel, Glen, Pravda, Lukáš, Dana, José M., Varadi, Mihaly, Keller, Peter, Anyango, Stephen, Velankar, Sameer
Publicado 2021

PDBe aggregated API: programmatic access to an integrative knowledge graph of molecular structure data

por Nair, Sreenath, Váradi, Mihály, Nadzirin, Nurul, Pravda, Lukáš, Anyango, Stephen, Mir, Saqib, Berrisford, John, Armstrong, David, Gutmanas, Aleksandras, Velankar, Sameer
Publicado 2021

PDBe CCDUtils: an RDKit-based toolkit for handling and analysing small molecules in the Protein Data Bank

por Kunnakkattu, Ibrahim Roshan, Choudhary, Preeti, Pravda, Lukas, Nadzirin, Nurul, Smart, Oliver S., Yuan, Qi, Anyango, Stephen, Nair, Sreenath, Varadi, Mihaly, Velankar, Sameer
Publicado 2023

Annotating Macromolecular Complexes in the Protein Data Bank: Improving the FAIRness of Structure Data

por Appasamy, Sri Devan, Berrisford, John, Gaborova, Romana, Nair, Sreenath, Anyango, Stephen, Grudinin, Sergei, Deshpande, Mandar, Armstrong, David, Pidruchna, Ivanna, Ellaway, Joseph I. J., Leines, Grisell Díaz, Gupta, Deepti, Harrus, Deborah, Varadi, Mihaly, Velankar, Sameer
Publicado 2023

PDBe: towards reusable data delivery infrastructure at protein data bank in Europe

por Mir, Saqib, Alhroub, Younes, Anyango, Stephen, Armstrong, David R, Berrisford, John M, Clark, Alice R, Conroy, Matthew J, Dana, Jose M, Deshpande, Mandar, Gupta, Deepti, Gutmanas, Aleksandras, Haslam, Pauline, Mak, Lora, Mukhopadhyay, Abhik, Nadzirin, Nurul, Paysan-Lafosse, Typhaine, Sehnal, David, Sen, Sanchayita, Smart, Oliver S, Varadi, Mihaly, Kleywegt, Gerard J, Velankar, Sameer
Publicado 2018

AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models

por Varadi, Mihaly, Anyango, Stephen, Deshpande, Mandar, Nair, Sreenath, Natassia, Cindy, Yordanova, Galabina, Yuan, David, Stroe, Oana, Wood, Gemma, Laydon, Agata, Žídek, Augustin, Green, Tim, Tunyasuvunakool, Kathryn, Petersen, Stig, Jumper, John, Clancy, Ellen, Green, Richard, Vora, Ankur, Lutfi, Mira, Figurnov, Michael, Cowie, Andrew, Hobbs, Nicole, Kohli, Pushmeet, Kleywegt, Gerard, Birney, Ewan, Hassabis, Demis, Velankar, Sameer
Publicado 2021

PDBe and PDBe‐KB: Providing high‐quality, up‐to‐date and integrated resources of macromolecular structures to support basic and applied research and education

por Varadi, Mihaly, Anyango, Stephen, Appasamy, Sri Devan, Armstrong, David, Bage, Marcus, Berrisford, John, Choudhary, Preeti, Bertoni, Damian, Deshpande, Mandar, Leines, Grisell Diaz, Ellaway, Joseph, Evans, Genevieve, Gaborova, Romana, Gupta, Deepti, Gutmanas, Aleksandras, Harrus, Deborah, Kleywegt, Gerard J., Bueno, Weslley Morellato, Nadzirin, Nurul, Nair, Sreenath, Pravda, Lukas, Afonso, Marcelo Querino Lima, Sehnal, David, Tanweer, Ahsan, Tolchard, James, Abrams, Charlotte, Dunlop, Roisin, Velankar, Sameer
Publicado 2022

PDBe: improved findability of macromolecular structure data in the PDB

por Armstrong, David R, Berrisford, John M, Conroy, Matthew J, Gutmanas, Aleksandras, Anyango, Stephen, Choudhary, Preeti, Clark, Alice R, Dana, Jose M, Deshpande, Mandar, Dunlop, Roisin, Gane, Paul, Gáborová, Romana, Gupta, Deepti, Haslam, Pauline, Koča, Jaroslav, Mak, Lora, Mir, Saqib, Mukhopadhyay, Abhik, Nadzirin, Nurul, Nair, Sreenath, Paysan-Lafosse, Typhaine, Pravda, Lukas, Sehnal, David, Salih, Osman, Smart, Oliver, Tolchard, James, Varadi, Mihaly, Svobodova-Vařeková, Radka, Zaki, Hossam, Kleywegt, Gerard J, Velankar, Sameer
Publicado 2020

3D-Beacons: decreasing the gap between protein sequences and structures through a federated network of protein structure data resources

por Varadi, Mihaly, Nair, Sreenath, Sillitoe, Ian, Tauriello, Gerardo, Anyango, Stephen, Bienert, Stefan, Borges, Clemente, Deshpande, Mandar, Green, Tim, Hassabis, Demis, Hatos, Andras, Hegedus, Tamas, Hekkelman, Maarten L, Joosten, Robbie, Jumper, John, Laydon, Agata, Molodenskiy, Dmitry, Piovesan, Damiano, Salladini, Edoardo, Salzberg, Steven L, Sommer, Markus J, Steinegger, Martin, Suhajda, Erzsebet, Svergun, Dmitri, Tenorio-Ku, Luiggi, Tosatto, Silvio, Tunyasuvunakool, Kathryn, Waterhouse, Andrew Mark, Žídek, Augustin, Schwede, Torsten, Orengo, Christine, Velankar, Sameer
Publicado 2022