www.electrophoresis-journal.com Page 1 Electrophoresis Received: 03 01, 2017; Revised: 04 14, 2017; Accepted: 04 21, 2017 This article has been accepted for publication and undergone full peer review but has not been through the copyediting, typesetting, pagination and proofreading process, which may lead to differences between this version and the Version of Record. Please cite this article as doi: 10.1002/elps.201700092 . This article is protected by copyright. All rights reserved. Determination of effective charges and ionic mobilities of polycationic antimicrobial peptides by capillary isotachophoresis and capillary zone electrophoresis Tereza Tůmová 1,2 , Lenka Monincová 1 , Ondřej Nešuta 1,2 , Václav Čeřovský 1 , Václav Kašička 1 * 1 Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Flemingovo sq. 2, Prague 6, 166 10, Czech Republic 2 Faculty of Food and Biochemical Technology, University of Chemistry and Technology Prague, Technická 5, Prague 6, 166 28, Czech Republic Correspondence: Dr. Václav Kašička, Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Flemingovo sq. 2, Prague 6, 166 10, Czech Republic E-mail: kasicka@uochb.cas.cz, fax: +420-220-183-578 Keywords: antimicrobial peptides / capillary isotachophoresis / counterion condensation / effective charge / ionic mobility Abbreviations: AAR, amino acid residue; AcOH, acetic acid; AMP, antimicrobial peptide; HPC, hydroxypropylcellulose; HVL, Haarhoff-Van der Linde; LE, leading electrolyte; TE, terminating electrolyte Total number of words: 4508 Abstract Capillary ITP (CITP) and CZE were applied to the determination of effective charges and ionic mobilities of polycationic antimicrobial peptides (AMPs). Twelve AMPs (deca- to hexadecapeptides) containing 3–7 basic amino acid residues (His, Lys, Arg) at variable positions of peptide chain were investigated. Effective charges of the AMPs were determined