doc. RNDr. Radka Svobodová, Ph.D.

2021

• Mol* Viewer: modern web app for 3D visualization and analysis of large biomolecular structures

  SEHNAL David BITTRICH S. DESHPANDE M. SVOBODOVÁ Radka BERKA K. BAZGIER V. VELANKAR S. BURLEY S.K. KOČA Jaroslav ROSE A.S.

  Article in Periodical

  Nucleic acids research, year: 2021, volume: 49, edition: W1, DOI

• Optimized SQE atomic charges for peptides accessible via a web application

  SCHINDLER Ondřej RAČEK Tomáš MARŠAVELSKI Aleksandra KOČA Jaroslav BERKA Karel SVOBODOVÁ Radka

  Article in Periodical

  Journal of Cheminformatics, year: 2021, volume: 13, edition: 1, DOI

• Partial atomic charges for proteins

  SCHINDLER Ondřej RAČEK Tomáš MARŠAVELSKI Aleksandra SVOBODOVÁ Radka KOČA Jaroslav

  Appeared in Conference without Proceedings

  Year: 2021, type: Appeared in Conference without Proceedings

• QM-like partial atomic charges for proteins available online

  SCHINDLER Ondřej RAČEK Tomáš SVOBODOVÁ Radka BERKA Karel

  Conference abstract

  Year: 2021, type: Conference abstract

• Uncovering of cytochrome P450 anatomy by SecStrAnnotator

  MIDLIK Adam NAVRÁTILOVÁ Veronika MOTURU Tarakaramji KOČA Jaroslav SVOBODOVÁ Radka BERKA K.

  Article in Periodical

  Nature Scientific Reports, year: 2021, volume: 11, edition: 1, DOI

2020

• Atomic Charge Calculator II: web-based tool for the calculation of partial atomic charges

  RAČEK Tomáš SCHINDLER Ondřej TOUŠEK Dominik HORSKÝ Vladimír BERKA Karel KOČA Jaroslav SVOBODOVÁ Radka

  Article in Periodical

  Nucleic acids research, year: 2020, volume: 48, edition: W1, DOI

• BinaryCIF and CIFTools-Lightweight, efficient and extensible macromolecular data management

  SEHNAL David BITTRICH Sebastian VELANKAR Sameer KOČA Jaroslav SVOBODOVÁ Radka BURLEY Stephen K. ROSE Alexander S.

  Article in Periodical

  PLoS Computational Biology, year: 2020, volume: 16, edition: 10, DOI

• High-performance macromolecular data delivery and visualization for the web

  SEHNAL David SVOBODOVÁ Radka BERKA Karel ROSE Alexander S. BURLEY Stephen K. VELANKAR Sameer KOČA Jaroslav

  Article in Periodical

  Acta Crystallographica Section D: Structural Biology, year: 2020, volume: 76, edition: December 2020, DOI

• Molecular Evolution and Diversification of Proteins Involved in miRNA Maturation Pathway

  MOTURU Tarakaramji SINHA Sansrity SALAVA Hymavathi THULA Sravankumar NODZYNSKI Tomasz SVOBODOVÁ Radka FRIML Jiří SIMON Sibu

  Article in Periodical

  Plants, year: 2020, volume: 9, edition: 3, DOI

• PDBe: improved findability of macromolecular structure data in the PDB

  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 SVOBODOVÁ Radka ZAKI Hossam KLEYWEGT Gerard J. VELANKAR Sameer

  Article in Periodical

  Nucleic acids research, year: 2020, volume: 48, edition: D1, DOI