Pravda L - Search Results

1

MotiveValidator: interactive web-based validation of ligand and residue structure in biomolecular complexes.

Vařeková RS, Jaiswal D, Sehnal D, Ionescu CM, Geidl S, Pravda L, Horský V, Wimmerová M, Koča J. Vařeková RS, et al. Among authors: pravda l. Nucleic Acids Res. 2014 Jul;42(Web Server issue):W227-33. doi: 10.1093/nar/gku426. Epub 2014 May 21. Nucleic Acids Res. 2014. PMID: 24848013 Free PMC article.

2

ValidatorDB: database of up-to-date validation results for ligands and non-standard residues from the Protein Data Bank.

Sehnal D, Svobodová Vařeková R, Pravda L, Ionescu CM, Geidl S, Horský V, Jaiswal D, Wimmerová M, Koča J. Sehnal D, et al. Among authors: pravda l. Nucleic Acids Res. 2015 Jan;43(Database issue):D369-75. doi: 10.1093/nar/gku1118. Epub 2014 Nov 11. Nucleic Acids Res. 2015. PMID: 25392418 Free PMC article.

3

PatternQuery: web application for fast detection of biomacromolecular structural patterns in the entire Protein Data Bank.

Sehnal D, Pravda L, Svobodová Vařeková R, Ionescu CM, Koča J. Sehnal D, et al. Among authors: pravda l. Nucleic Acids Res. 2015 Jul 1;43(W1):W383-8. doi: 10.1093/nar/gkv561. Epub 2015 May 26. Nucleic Acids Res. 2015. PMID: 26013810 Free PMC article.

4

AtomicChargeCalculator: interactive web-based calculation of atomic charges in large biomolecular complexes and drug-like molecules.

Ionescu CM, Sehnal D, Falginella FL, Pant P, Pravda L, Bouchal T, Svobodová Vařeková R, Geidl S, Koča J. Ionescu CM, et al. Among authors: pravda l. J Cheminform. 2015 Oct 22;7:50. doi: 10.1186/s13321-015-0099-x. eCollection 2015. J Cheminform. 2015. PMID: 26500704 Free PMC article.

5

LiteMol suite: interactive web-based visualization of large-scale macromolecular structure data.

Sehnal D, Deshpande M, Vařeková RS, Mir S, Berka K, Midlik A, Pravda L, Velankar S, Koča J. Sehnal D, et al. Among authors: pravda l. Nat Methods. 2017 Nov 30;14(12):1121-1122. doi: 10.1038/nmeth.4499. Nat Methods. 2017. PMID: 29190272 No abstract available.

6

PDBsum: Structural summaries of PDB entries.

Laskowski RA, Jabłońska J, Pravda L, Vařeková RS, Thornton JM. Laskowski RA, et al. Among authors: pravda l. Protein Sci. 2018 Jan;27(1):129-134. doi: 10.1002/pro.3289. Epub 2017 Oct 27. Protein Sci. 2018. PMID: 28875543 Free PMC article.

7

ChannelsDB: database of biomacromolecular tunnels and pores.

Pravda L, Sehnal D, Svobodová Vareková R, Navrátilová V, Toušek D, Berka K, Otyepka M, Koca J. Pravda L, et al. Nucleic Acids Res. 2018 Jan 4;46(D1):D399-D405. doi: 10.1093/nar/gkx868. Nucleic Acids Res. 2018. PMID: 29036719 Free PMC article.

8

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

Pravda L, Sehnal D, Toušek D, Navrátilová V, Bazgier V, Berka K, Svobodová Vareková R, Koca J, Otyepka M. Pravda L, et al. Nucleic Acids Res. 2018 Jul 2;46(W1):W368-W373. doi: 10.1093/nar/gky309. Nucleic Acids Res. 2018. PMID: 29718451 Free PMC article.

9

Visualization and Analysis of Protein Structures with LiteMol Suite.

Sehnal D, Svobodová R, Berka K, Pravda L, Midlik A, Koča J. Sehnal D, et al. Among authors: pravda l. Methods Mol Biol. 2020;2112:1-13. doi: 10.1007/978-1-0716-0270-6_1. Methods Mol Biol. 2020. PMID: 32006274

10

MOLE 2.0: advanced approach for analysis of biomacromolecular channels.

Sehnal D, Svobodová Vařeková R, Berka K, Pravda L, Navrátilová V, Banáš P, Ionescu CM, Otyepka M, Koča J. Sehnal D, et al. Among authors: pravda l. J Cheminform. 2013 Aug 16;5(1):39. doi: 10.1186/1758-2946-5-39. J Cheminform. 2013. PMID: 23953065 Free PMC article.

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