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Items: 42

1.

Detection and Quantification of Carbohydrate-Deficient Transferrin by MALDI-Compatible Protein Chips Prepared by Ambient Ion Soft Landing.

Darebna P, Spicka J, Kucera R, Topolcan O, Navratilova E, Ruzicka V, Volny M, Novak P, Pompach P.

Clin Chem. 2018 Sep;64(9):1319-1326. doi: 10.1373/clinchem.2017.285452. Epub 2018 Jul 12.

PMID:
30002097
2.

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.

3.

Dynamic secretome of Trichomonas vaginalis: Case study of β-amylases.

Štáfková J, Rada P, Meloni D, Žárský V, Smutná T, Zimmann N, Harant K, Pompach P, Hrdý I, Tachezy J.

Mol Cell Proteomics. 2018 Feb;17(2):304-320. doi: 10.1074/mcp.RA117.000434. Epub 2017 Dec 12.

4.

Changes in the expression of N- and O-glycopeptides in patients with colorectal cancer and hepatocellular carcinoma quantified by full-MS scan FT-ICR and multiple reaction monitoring.

Darebna P, Novak P, Kucera R, Topolcan O, Sanda M, Goldman R, Pompach P.

J Proteomics. 2017 Feb 5;153:44-52. doi: 10.1016/j.jprot.2016.09.004. Epub 2016 Sep 16.

5.

Protein Chips Compatible with MALDI Mass Spectrometry Prepared by Ambient Ion Landing.

Pompach P, Benada O, Rosůlek M, Darebná P, Hausner J, Růžička V, Volný M, Novák P.

Anal Chem. 2016 Sep 6;88(17):8526-34. doi: 10.1021/acs.analchem.6b01366. Epub 2016 Aug 12.

PMID:
27478994
7.

Planar Functionalized Surfaces for Direct Immunoaffinity Desorption/Ionization Mass Spectrometry.

Pompach P, Nováková J, Kavan D, Benada O, Růžička V, Volný M, Novák P.

Clin Chem. 2016 Jan;62(1):270-8. doi: 10.1373/clinchem.2015.244004. Epub 2015 Oct 19.

8.

High-throughput workflow for identification of phosphorylated peptides by LC-MALDI-TOF/TOF-MS coupled to in situ enrichment on MALDI plates functionalized by ion landing.

Krásný L, Pompach P, Strnadová M, Hynek R, Vališ K, Havlíček V, Novák P, Volný M.

J Mass Spectrom. 2015 Jun;50(6):802-11. doi: 10.1002/jms.3586.

PMID:
26169134
9.

Quantification of fucosylated hemopexin and complement factor H in plasma of patients with liver disease.

Benicky J, Sanda M, Pompach P, Wu J, Goldman R.

Anal Chem. 2014 Nov 4;86(21):10716-23. doi: 10.1021/ac502727s. Epub 2014 Oct 24.

10.

Protein and site specificity of fucosylation in liver-secreted glycoproteins.

Pompach P, Ashline DJ, Brnakova Z, Benicky J, Sanda M, Goldman R.

J Proteome Res. 2014 Dec 5;13(12):5561-9. doi: 10.1021/pr5005482. Epub 2014 Oct 10.

11.

Retraction: Synthetic N-acetyl-D-glucosamine based fully branched tetrasaccharide, a mimetic of the endogenous ligand for CD69, activates CD69⁺ killer lymphocytes upon dimerization via a hydrophilic flexible linker. Journal of Medicinal Chemistry 2010, 53, 4050-65.

Kovalová A, Ledvina M, Saman D, Zyka D, Kubíčková M, Zídek L, Sklenář V, Pompach P, Kavan D, Bílý J, Vaněk O, Kubínková Z, Libigerová M, Ivanová L, Antolíková M, Mrázek H, Rozbeský D, Hofbauerová K, Křen V, Bezouška K.

J Med Chem. 2014 Jun 26;57(12):5477. doi: 10.1021/jm5007726. Epub 2014 Jun 5. No abstract available.

PMID:
24899138
12.

Exploring site-specific N-glycosylation microheterogeneity of haptoglobin using glycopeptide CID tandem mass spectra and glycan database search.

Chandler KB, Pompach P, Goldman R, Edwards N.

J Proteome Res. 2013 Aug 2;12(8):3652-66. doi: 10.1021/pr400196s. Epub 2013 Jul 22.

13.

LC-MS3 quantification of O-glycopeptides in human serum.

Sanda M, Pompach P, Benicky J, Goldman R.

Electrophoresis. 2013 Aug;34(16):2342-9. doi: 10.1002/elps.201200658. Epub 2013 Jul 24.

14.

Interlaboratory study on differential analysis of protein glycosylation by mass spectrometry: the ABRF glycoprotein research multi-institutional study 2012.

Leymarie N, Griffin PJ, Jonscher K, Kolarich D, Orlando R, McComb M, Zaia J, Aguilan J, Alley WR, Altmann F, Ball LE, Basumallick L, Bazemore-Walker CR, Behnken H, Blank MA, Brown KJ, Bunz SC, Cairo CW, Cipollo JF, Daneshfar R, Desaire H, Drake RR, Go EP, Goldman R, Gruber C, Halim A, Hathout Y, Hensbergen PJ, Horn DM, Hurum D, Jabs W, Larson G, Ly M, Mann BF, Marx K, Mechref Y, Meyer B, Möginger U, Neusüβ C, Nilsson J, Novotny MV, Nyalwidhe JO, Packer NH, Pompach P, Reiz B, Resemann A, Rohrer JS, Ruthenbeck A, Sanda M, Schulz JM, Schweiger-Hufnagel U, Sihlbom C, Song E, Staples GO, Suckau D, Tang H, Thaysen-Andersen M, Viner RI, An Y, Valmu L, Wada Y, Watson M, Windwarder M, Whittal R, Wuhrer M, Zhu Y, Zou C.

Mol Cell Proteomics. 2013 Oct;12(10):2935-51. doi: 10.1074/mcp.M113.030643. Epub 2013 Jun 13.

15.

Erratum to: Purification and characterization of a nitrilase from Aspergillus niger K10.

Kaplan O, Vejvoda V, Plíhal O, Pompach P, Kavan D, Bojarová P, Bezouška K, Macková M, Cantarella M, Jirků V, Křen V, Martínková L.

Appl Microbiol Biotechnol. 2013 Apr;97(8):3745-6. doi: 10.1007/s00253-013-4743-y. No abstract available.

PMID:
23455586
16.

Heat shock-induced accumulation of translation elongation and termination factors precedes assembly of stress granules in S. cerevisiae.

Grousl T, Ivanov P, Malcova I, Pompach P, Frydlova I, Slaba R, Senohrabkova L, Novakova L, Hasek J.

PLoS One. 2013;8(2):e57083. doi: 10.1371/journal.pone.0057083. Epub 2013 Feb 25.

17.

Site-specific glycoforms of haptoglobin in liver cirrhosis and hepatocellular carcinoma.

Pompach P, Brnakova Z, Sanda M, Wu J, Edwards N, Goldman R.

Mol Cell Proteomics. 2013 May;12(5):1281-93. doi: 10.1074/mcp.M112.023259. Epub 2013 Feb 6.

18.

Quantitative liquid chromatography-mass spectrometry-multiple reaction monitoring (LC-MS-MRM) analysis of site-specific glycoforms of haptoglobin in liver disease.

Sanda M, Pompach P, Brnakova Z, Wu J, Makambi K, Goldman R.

Mol Cell Proteomics. 2013 May;12(5):1294-305. doi: 10.1074/mcp.M112.023325. Epub 2013 Feb 6.

19.

In-situ enrichment of phosphopeptides on MALDI plates modified by ambient ion landing.

Krásný L, Pompach P, Strohalm M, Obsilova V, Strnadová M, Novák P, Volný M.

J Mass Spectrom. 2012 Oct;47(10):1294-302. doi: 10.1002/jms.3081.

PMID:
23019160
20.

Dimerization of an immunoactivating peptide derived from mycobacterial hsp65 using N-hydroxysuccinimide based bifunctional reagents is critical for its antitumor properties.

Bezouška K, Kubínková Z, Stříbný J, Volfová B, Pompach P, Kuzma M, Šírová M, Říhová B.

Bioconjug Chem. 2012 Oct 17;23(10):2032-41. doi: 10.1021/bc300056x. Epub 2012 Sep 28. Retraction in: Bioconjug Chem. 2014 Feb 19;25(2):451.

PMID:
22988810
21.

Analysis of tubulin alpha-1A/1B C-terminal tail post-translational poly-glutamylation reveals novel modification sites.

Sahab ZJ, Kirilyuk A, Zhang L, Khamis ZI, Pompach P, Sung Y, Byers SW.

J Proteome Res. 2012 Mar 2;11(3):1913-23. doi: 10.1021/pr2011044. Epub 2012 Feb 15.

22.

Sequencing, cloning and high-yield expression of a fungal β-N-acetylhexosaminidase in Pichia pastoris.

Slámová K, Bojarová P, Gerstorferová D, Fliedrová B, Hofmeisterová J, Fiala M, Pompach P, Křen V.

Protein Expr Purif. 2012 Mar;82(1):212-7. doi: 10.1016/j.pep.2012.01.004. Epub 2012 Jan 11.

PMID:
22266368
23.

Semi-automated identification of N-Glycopeptides by hydrophilic interaction chromatography, nano-reverse-phase LC-MS/MS, and glycan database search.

Pompach P, Chandler KB, Lan R, Edwards N, Goldman R.

J Proteome Res. 2012 Mar 2;11(3):1728-40. doi: 10.1021/pr201183w. Epub 2012 Feb 6.

24.

Molecular architecture of mouse activating NKR-P1 receptors.

Kolenko P, Rozbeský D, Vaněk O, Kopecký V Jr, Hofbauerová K, Novák P, Pompach P, Hašek J, Skálová T, Bezouška K, Dohnálek J.

J Struct Biol. 2011 Sep;175(3):434-41. doi: 10.1016/j.jsb.2011.05.001. Epub 2011 May 12.

PMID:
21600988
25.

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.

26.

The α-galactosidase type A gene aglA from Aspergillus niger encodes a fully functional α-N-acetylgalactosaminidase.

Kulik N, Weignerová L, Filipi T, Pompach P, Novák P, Mrázek H, Slámová K, Bezouska K, Kren V, Ettrich R.

Glycobiology. 2010 Nov;20(11):1410-9. doi: 10.1093/glycob/cwq105. Epub 2010 Jul 4.

PMID:
20601723
27.

Effective removal of nonionic detergents in protein mass spectrometry, hydrogen/deuterium exchange, and proteomics.

Rey M, Mrázek H, Pompach P, Novák P, Pelosi L, Brandolin G, Forest E, Havlícek V, Man P.

Anal Chem. 2010 Jun 15;82(12):5107-16. doi: 10.1021/ac100171m.

PMID:
20507168
28.

Identification of multiple substrates of the StkP Ser/Thr protein kinase in Streptococcus pneumoniae.

Nováková L, Bezousková S, Pompach P, Spidlová P, Sasková L, Weiser J, Branny P.

J Bacteriol. 2010 Jul;192(14):3629-38. doi: 10.1128/JB.01564-09. Epub 2010 May 7.

29.

Synthetic N-acetyl-D-glucosamine based fully branched tetrasaccharide, a mimetic of the endogenous ligand for CD69, activates CD69+ killer lymphocytes upon dimerization via a hydrophilic flexible linker.

Kovalová A, Ledvina M, Saman D, Zyka D, Kubícková M, Zídek L, Sklenár V, Pompach P, Kavan D, Bílý J, Vanek O, Kubínková Z, Libigerová M, Ivanová L, Antolíková M, Mrázek H, Rozbeský D, Hofbauerová K, Kren V, Bezouska K.

J Med Chem. 2010 May 27;53(10):4050-65. doi: 10.1021/jm100055b. Retraction in: Kovalová A, Ledvina M, Saman D, Zyka D, Kubíčková M, Zídek L, Sklenář V, Pompach P, Kavan D, Bílý J, Vaněk O, Kubínková Z, Libigerová M, Ivanová L, Antolíková M, Mrázek H, Rozbeský D, Hofbauerová K, Křen V, Bezouška K. J Med Chem. 2014.

PMID:
20433142
30.

Down-regulation of protein-tyrosine phosphatases activates an immune receptor in the absence of its translocation into lipid rafts.

Heneberg P, Dráberová L, Bambousková M, Pompach P, Dráber P.

J Biol Chem. 2010 Apr 23;285(17):12787-802. doi: 10.1074/jbc.M109.052555. Epub 2010 Feb 15.

31.

Fragmentation of human erythrocyte actin following exposure to hypoxia.

Risso A, Santamaria B, Pistarino E, Cosulich ME, Pompach P, Bezouska K, Antonutto G.

Acta Haematol. 2010;123(1):6-13. doi: 10.1159/000256661. Epub 2009 Nov 10.

PMID:
19907156
32.

Modified electrophoretic and digestion conditions allow a simplified mass spectrometric evaluation of disulfide bonds.

Pompach P, Man P, Kavan D, Hofbauerová K, Kumar V, Bezouska K, Havlícek V, Novák P.

J Mass Spectrom. 2009 Nov;44(11):1571-8. doi: 10.1002/jms.1609.

PMID:
19551705
33.

Utilization of high-accuracy FTICR-MS data in protein quantitation experiments.

Strohalm M, Novak P, Pompach P, Man P, Kavan D, Witt M, Dzubak P, Hajduch M, Havlicek V.

J Mass Spectrom. 2009 Nov;44(11):1565-70. doi: 10.1002/jms.1602.

PMID:
19536796
34.

Soluble recombinant CD69 receptors optimized to have an exceptional physical and chemical stability display prolonged circulation and remain intact in the blood of mice.

Vanek O, Nálezková M, Kavan D, Borovicková I, Pompach P, Novák P, Kumar V, Vannucci L, Hudecek J, Hofbauerová K, Kopecký V Jr, Brynda J, Kolenko P, Dohnálek J, Kaderávek P, Chmelík J, Gorcík L, Zídek L, Sklenár V, Bezouska K.

FEBS J. 2008 Nov;275(22):5589-606. doi: 10.1111/j.1742-4658.2008.06683.x.

35.

VDAC2 and aldolase A identified as membrane proteins of K562 cells with increased expression under iron deprivation.

Valis K, Neubauerova J, Man P, Pompach P, Vohradsky J, Kovar J.

Mol Cell Biochem. 2008 Apr;311(1-2):225-31. doi: 10.1007/s11010-008-9712-x. Epub 2008 Feb 17.

PMID:
18278581
36.

Structure of the dimeric N-glycosylated form of fungal beta-N-acetylhexosaminidase revealed by computer modeling, vibrational spectroscopy, and biochemical studies.

Ettrich R, Kopecký V Jr, Hofbauerová K, Baumruk V, Novák P, Pompach P, Man P, Plíhal O, Kutý M, Kulik N, Sklenár J, Ryslavá H, Kren V, Bezouska K.

BMC Struct Biol. 2007 May 17;7:32.

37.

Large propeptides of fungal beta-N-acetylhexosaminidases are novel enzyme regulators that must be intracellularly processed to control activity, dimerization, and secretion into the extracellular environment.

Plíhal O, Sklenár J, Hofbauerová K, Novák P, Man P, Pompach P, Kavan D, Ryslavá H, Weignerová L, Charvátová-Pisvejcová A, Kren V, Bezouska K.

Biochemistry. 2007 Mar 13;46(10):2719-34. Epub 2007 Feb 16.

PMID:
17302431
38.

Purification and characterization of a nitrilase from Aspergillus niger K10.

Kaplan O, Vejvoda V, Plíhal O, Pompach P, Kavan D, Bojarová P, Bezouska K, Macková M, Cantarella M, Jirků V, Kren V, Martínková L.

Appl Microbiol Biotechnol. 2006 Dec;73(3):567-75. Epub 2006 Oct 24. Erratum in: Appl Microbiol Biotechnol. 2013 Apr;97(8):3745-6.

PMID:
17061133
39.

A chemoenzymatic route to mannosamine derivatives bearing different N-acyl groups.

Kristová V, Martínková L, Husáková L, Kuzma M, Rauvolfová J, Kavan D, Pompach P, Bezouska K, Kren V.

J Biotechnol. 2005 Jan 26;115(2):157-66.

PMID:
15607234
40.

Lymphocyte activation receptors: new structural paradigms in group V of C-type animal lectins.

Pavlícek J, Kavan D, Pompach P, Novák P, Luksan O, Bezouska K.

Biochem Soc Trans. 2004 Dec;32(Pt 6):1124-6.

PMID:
15506986
41.

Mass spectrometry is a powerful tool for identification of proteins associated with lipid rafts of Jurkat T-cell line.

Pompach P, Man P, Novák P, Havlícek V, Fiserová A, Bezouska K.

Biochem Soc Trans. 2004 Nov;32(Pt 5):777-9. Review.

PMID:
15494013
42.

N-glycosylated catalytic unit meets O-glycosylated propeptide: complex protein architecture in a fungal hexosaminidase.

Plíhal O, Sklenár J, Kmonícková J, Man P, Pompach P, Havlícek V, Kren V, Bezouska K.

Biochem Soc Trans. 2004 Nov;32(Pt 5):764-5. Review.

PMID:
15494009

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