Publications

2019

• Protein Data Bank: the single global archive for 3D macromolecular structure data

  BURLEY S.K. BERMAN H.M. BHIKADIYA C. BI C.X. CHEN L. DI COSTANZO L. CHRISTIE C. DUARTE J.M. DUTTA S. FENG Z.K. GHOSH S. GOODSELL D.S. GREEN R.K. GURANOVIC V. GUZENKO D. HUDSON B.P. LIANG Y.H. LOWE R. PEISACH E. PERISKOVA I. RANDLE C. ROSE A. SEKHARAN M. SHAO CH. TAO Y.P. VALASATAVA Y. VOIGT M. WESTBROOK J. YOUNG J. ZARDECKI C. ZHURAVLEVA M. KURISU G. NAKAMURA H. KENGAKU Y. CHO H. SATO J. KIM J.Y. IKEGAWA Y. NAKAGAWA A. YAMASHITA R. KUDOU T. BEKKER G.J. SUZUKI H. IWATA T. YOKOCHI M. KOBAYASHI N. FUJIWARA T. VELANKAR S. KLEYWEGT G.J. ANYANGO S. ARMSTRONG D.R. BERRISFORD J.M. CONROY M.J. DANA J.M. DESHPANDE M. GANE P. GÁBOROVÁ Romana GUPTA D. GUTMANAS A. KOČA Jaroslav MAK L. MIR S. MUKHOPADHYAY A. NADZIRIN N. NAIR S. PATWARDHAN A. PAYSAN-LAFOSSE T. PRAVDA Lukáš SALIH O. SEHNAL David VARADI M. SVOBODOVÁ VAŘEKOVÁ Radka MARKLEY J.L. HOCH J.C. ROMERO P.R. BASKARAN K. MAZIUK D. ULRICH E.L. WEDELL J.R. YAO H.Y. LIVNY M. IOANNIDIS Y.E.

  Article in Periodical

  Nucleic Acids Research, year: 2019, volume: 47, edition: D1, DOI

• The bio.tools registry of software tools and data resources for the life sciences

  ISON Jon IENASESCU Hans CHMURA Piotr RYDZA Emil MÉNAGER Hervé KALAŠ Matúš SCHWÄMMLE Veit GRÜNING Björn BEARD Niall LOPEZ Rodrigo DUVAUD Severine STOCKINGER Heinz PERSSON Bengt SVOBODOVÁ VAŘEKOVÁ Radka RAČEK Tomáš VONDRÁŠEK Jiří PETERSON Hedi SALUMETS Ahto JONASSEN Inge HOOFT Rob NYRÖNEN Tommi VALENCIA Alfonso CAPELLA Salvador GELPÍ Josep ZAMBELLI Federico SAVAKIS Babis LESKOŠEK Brane RAPACKI Kristoffer BLANCHET Christophe JIMENEZ Rafael OLIVEIRA Arlindo VRIEND Gert COLLIN Olivier HELDEN Jacques van LONGREEN Peter BRUNAK Soren

  Article in Periodical

  GENOME BIOLOGY, year: 2019, volume: 20, edition: 164, DOI

• ValTrendsDB: bringing Protein Data Bank validation information closer to the user

  HORSKÝ Vladimír BENDOVÁ Veronika TOUŠEK Dominik KOČA Jaroslav SVOBODOVÁ VAŘEKOVÁ Radka

  Article in Periodical

  Bioinformatics, year: 2019, volume: 35, edition: 24, DOI

2018

• ChannelsDB: database of biomacromolecular tunnels and pores

  PRAVDA Lukáš SEHNAL David SVOBODOVÁ VAŘEKOVÁ Radka NAVRÁTILOVÁ Veronika TOUŠEK Dominik BERKA Karel OTYEPKA Michal KOČA Jaroslav

  Article in Periodical

  Nucleic Acids Research, year: 2018, volume: 46, edition: D1, DOI

• Molecular evolution and diversification of the SMXL gene family

  MOTURU Tarakaramji THULA Sravankumar SINGH R.K. NODZYNSKI Tomasz SVOBODOVÁ VAŘEKOVÁ Radka FRIML J. SIMON Sibu

  Article in Periodical

  Journal of Experimental Botany, year: 2018, volume: 69, edition: 9, DOI

• MOLEonline: a web-based tool for analyzing channels, tunnels and pores (2018 update)

  PRAVDA Lukáš SEHNAL David TOUŠEK Dominik NAVRÁTILOVÁ Veronika BAZGIER Václav BERKA Karel SVOBODOVÁ VAŘEKOVÁ Radka KOČA Jaroslav OTYEPKA Michal

  Article in Periodical

  Nucleic Acids Research, year: 2018, volume: 46, edition: W1, DOI

• PDBsum: Structural summaries of PDB entries

  LASKOWSKI R.A. JABŁOŃSKA Jagoda PRAVDA Lukáš SVOBODOVÁ VAŘEKOVÁ Radka THORNTON Janet M

  Article in Periodical

  Protein Science, year: 2018, volume: 27, edition: 1, DOI

• SugarSketcher: Quick and Intuitive Online Glycan Drawing

  ALOCCI Davide SUCHÁNKOVÁ Pavla COSTA Renaud HORY Nicolas MARIETHOZ Julien SVOBODOVÁ VAŘEKOVÁ Radka TOUKACH Philip LISACEK Frederique

  Article in Periodical

  Molecules, year: 2018, volume: 23, edition: 12, DOI

• Validation of ligands in macromolecular structures determined by X-ray crystallography

  SMART Oliver S. HORSKÝ Vladimír GORE Swanand SVOBODOVÁ VAŘEKOVÁ Radka BENDOVÁ Veronika KLEYWEGT Gerard J. VELANKAR Sameer

  Article in Periodical

  Acta Crystallographica Section D, year: 2018, volume: 74, edition: 3, DOI

• Worldwide Protein Data Bank validation information: usage and trends

  SMART Oliver S. HORSKÝ Vladimír GORE Swanand SVOBODOVÁ VAŘEKOVÁ Radka BENDOVÁ Veronika KLEYWEGT Gerard J. VELANKAR Sameer

  Article in Periodical

  Acta Crystallographica Section D, year: 2018, volume: 74, edition: MAR, DOI