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Items: 19

1.

MS-Based Approaches Enable the Structural Characterization of Transcription Factor/DNA Response Element Complex.

Slavata L, Chmelík J, Kavan D, Filandrová R, Fiala J, Rosůlek M, Mrázek H, Kukačka Z, Vališ K, Man P, Miller M, McIntyre W, Fabris D, Novák P.

Biomolecules. 2019 Sep 26;9(10). pii: E535. doi: 10.3390/biom9100535.

2.

Reductant-Induced Free Radical Fluoroalkylation of Nitrogen Heterocycles and Innate Aromatic Amino Acid Residues in Peptides and Proteins.

Rahimidashaghoul K, Klimánková I, Hubálek M, Korecký M, Chvojka M, Pokorný D, Matoušek V, Fojtík L, Kavan D, Kukačka Z, Novák P, Beier P.

Chemistry. 2019 Sep 15. doi: 10.1002/chem.201902944. [Epub ahead of print]

PMID:
31523878
3.

Binding of eIF3 in complex with eIF5 and eIF1 to the 40S ribosomal subunit is accompanied by dramatic structural changes.

Zeman J, Itoh Y, Kukačka Z, Rosůlek M, Kavan D, Kouba T, Jansen ME, Mohammad MP, Novák P, Valášek LS.

Nucleic Acids Res. 2019 Sep 5;47(15):8282-8300. doi: 10.1093/nar/gkz570.

4.

First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study.

Iacobucci C, Piotrowski C, Aebersold R, Amaral BC, Andrews P, Bernfur K, Borchers C, Brodie NI, Bruce JE, Cao Y, Chaignepain S, Chavez JD, Claverol S, Cox J, Davis T, Degliesposti G, Dong MQ, Edinger N, Emanuelsson C, Gay M, Götze M, Gomes-Neto F, Gozzo FC, Gutierrez C, Haupt C, Heck AJR, Herzog F, Huang L, Hoopmann MR, Kalisman N, Klykov O, Kukačka Z, Liu F, MacCoss MJ, Mechtler K, Mesika R, Moritz RL, Nagaraj N, Nesati V, Neves-Ferreira AGC, Ninnis R, Novák P, O'Reilly FJ, Pelzing M, Petrotchenko E, Piersimoni L, Plasencia M, Pukala T, Rand KD, Rappsilber J, Reichmann D, Sailer C, Sarnowski CP, Scheltema RA, Schmidt C, Schriemer DC, Shi Y, Skehel JM, Slavin M, Sobott F, Solis-Mezarino V, Stephanowitz H, Stengel F, Stieger CE, Trabjerg E, Trnka M, Vilaseca M, Viner R, Xiang Y, Yilmaz S, Zelter A, Ziemianowicz D, Leitner A, Sinz A.

Anal Chem. 2019 Jun 4;91(11):6953-6961. doi: 10.1021/acs.analchem.9b00658. Epub 2019 May 22.

5.

Oligomeric Architecture of Mouse Activating Nkrp1 Receptors on Living Cells.

Adámková L, Kvíčalová Z, Rozbeský D, Kukačka Z, Adámek D, Cebecauer M, Novák P.

Int J Mol Sci. 2019 Apr 16;20(8). pii: E1884. doi: 10.3390/ijms20081884.

6.

Epitope and affinity determination of recombinant Mycobacterium tuberculosis Ag85B antigen towards anti-Ag85 antibodies using proteolytic affinity-mass spectrometry and biosensor analysis.

Rinaldi F, Lupu L, Rusche H, Kukačka Z, Tengattini S, Bernardini R, Piubelli L, Bavaro T, Maeser S, Pollegioni L, Calleri E, Przybylski M, Temporini C.

Anal Bioanal Chem. 2019 Jan;411(2):439-448. doi: 10.1007/s00216-018-1466-z. Epub 2018 Nov 29.

PMID:
30498982
7.

The C-type lectin-like receptor Nkrp1b: Structural proteomics reveals features affecting protein conformation and interactions.

Hernychová L, Rosůlek M, Kádek A, Mareška V, Chmelík J, Adámková L, Grobárová V, Šebesta O, Kukačka Z, Skála K, Spiwok V, Černý J, Novák P.

J Proteomics. 2019 Mar 30;196:162-172. doi: 10.1016/j.jprot.2018.11.007. Epub 2018 Nov 8.

PMID:
30414947
8.

Antibody Epitope of Human α-Galactosidase A Revealed by Affinity Mass Spectrometry: A Basis for Reversing Immunoreactivity in Enzyme Replacement Therapy of Fabry Disease.

Kukacka Z, Iurascu M, Lupu L, Rusche H, Murphy M, Altamore L, Borri F, Maeser S, Papini AM, Hennermann J, Przybylski M.

ChemMedChem. 2018 May 8;13(9):909-915. doi: 10.1002/cmdc.201800094. Epub 2018 Apr 16.

PMID:
29473701
9.

Crystal structure of native β-N-acetylhexosaminidase isolated from Aspergillus oryzae sheds light onto its substrate specificity, high stability, and regulation by propeptide.

Škerlová J, Bláha J, Pachl P, Hofbauerová K, Kukačka Z, Man P, Pompach P, Novák P, Otwinowski Z, Brynda J, Vaněk O, Řezáčová P.

FEBS J. 2018 Feb;285(3):580-598. doi: 10.1111/febs.14360. Epub 2017 Dec 30.

10.

Impact of Chemical Cross-Linking on Protein Structure and Function.

Rozbeský D, Rosůlek M, Kukačka Z, Chmelík J, Man P, Novák P.

Anal Chem. 2018 Jan 16;90(2):1104-1113. doi: 10.1021/acs.analchem.7b02863. Epub 2018 Jan 2.

PMID:
29232109
11.

Structural Insight into the 14-3-3 Protein-dependent Inhibition of Protein Kinase ASK1 (Apoptosis Signal-regulating kinase 1).

Petrvalska O, Kosek D, Kukacka Z, Tosner Z, Man P, Vecer J, Herman P, Obsilova V, Obsil T.

J Biol Chem. 2016 Sep 23;291(39):20753-65. doi: 10.1074/jbc.M116.724310. Epub 2016 Aug 11.

12.

Recombinant expression, in vitro refolding and characterizing disulfide bonds of a mouse inhibitory C-type lectin-like receptor Nkrp1b.

Hernychová L, Mrázek H, Ivanova L, Kukačka Z, Chmelík J, Novák P.

Physiol Res. 2015;64 Suppl 1:S85-93.

13.

Mapping protein structural changes by quantitative cross-linking.

Kukacka Z, Rosulek M, Strohalm M, Kavan D, Novak P.

Methods. 2015 Nov 1;89:112-20. doi: 10.1016/j.ymeth.2015.05.027. Epub 2015 Jun 3.

PMID:
26048481
14.

Molecular dynamics comparison of E. coli WrbA apoprotein and holoprotein.

Reha D, Harish B, Sinha D, Kukacka Z, McSally J, Ettrichova O, Novak P, Carey J, Ettrich R.

J Mol Model. 2014 Sep;20(9):2400. doi: 10.1007/s00894-014-2400-8. Epub 2014 Aug 26.

PMID:
25152065
15.

Role of the EF-hand-like motif in the 14-3-3 protein-mediated activation of yeast neutral trehalase Nth1.

Kopecka M, Kosek D, Kukacka Z, Rezabkova L, Man P, Novak P, Obsil T, Obsilova V.

J Biol Chem. 2014 May 16;289(20):13948-61. doi: 10.1074/jbc.M113.544551. Epub 2014 Apr 8.

16.

1.2 Å resolution crystal structure of Escherichia coli WrbA holoprotein.

Kishko I, Carey J, Reha D, Brynda J, Winkler R, Harish B, Guerra R, Ettrichova O, Kukacka Z, Sheryemyetyeva O, Novak P, Kuty M, Kuta Smatanova I, Ettrich R, Lapkouski M.

Acta Crystallogr D Biol Crystallogr. 2013 Sep;69(Pt 9):1748-57. doi: 10.1107/S0907444913017162. Epub 2013 Aug 15.

PMID:
23999298
17.

Structural basis of the 14-3-3 protein-dependent activation of yeast neutral trehalase Nth1.

Macakova E, Kopecka M, Kukacka Z, Veisova D, Novak P, Man P, Obsil T, Obsilova V.

Biochim Biophys Acta. 2013 Oct;1830(10):4491-9. doi: 10.1016/j.bbagen.2013.05.025. Epub 2013 May 29.

PMID:
23726992
18.

Enzymatic characterization and molecular modeling of an evolutionarily interesting fungal β-N-acetylhexosaminidase.

Ryšlavá H, Kalendová A, Doubnerová V, Skočdopol P, Kumar V, Kukačka Z, Pompach P, Vaněk O, Slámová K, Bojarová P, Kulik N, Ettrich R, Křen V, Bezouška K.

FEBS J. 2011 Jul;278(14):2469-84. doi: 10.1111/j.1742-4658.2011.08173.x. Epub 2011 Jun 1.

19.

Crystallization and diffraction analysis of β-N-acetylhexosaminidase from Aspergillus oryzae.

Vaněk O, Brynda J, Hofbauerová K, Kukačka Z, Pachl P, Bezouška K, Rezáčová P.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Apr 1;67(Pt 4):498-503. doi: 10.1107/S1744309111004945. Epub 2011 Mar 26.

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