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Statements

Subject Item
n2:RIV%2F61388971%3A_____%2F13%3A00399080%21RIV14-MSM-61388971
rdf:type
skos:Concept n12:Vysledek
dcterms:description
We have developed a de novo sequencing software tool (CYCLONE) and applied it for determination of cyclic peptides. The program uses a non-redundant database of 312 nonribosomal building blocks identified to date in bacteria and fungi (more than 230 additional residues in the database list were isobaric). The software was used to fully characterize the tandem mass spectrum of several cyclic peptides and provide sequence tags. The general strategy of the script was based on fragment ion pre-characterization to accomplish unambiguous b-ion series assignments. Showcase examples were a cyclic tetradepsipeptide beauverolide, a cyclic hexadepsipeptide roseotoxin A, a lasso-like hexapeptide pseudacyclin A, and a cyclic undecapeptide cyclosporin A. The extent of ion scrambling in smaller peptides was as low as 5 % of total ion current; this demonstrated the feasibility of CYCLONE de novo sequencing. The robustness of the script was also tested against database sets of various sizes and isotope-containing data. We have developed a de novo sequencing software tool (CYCLONE) and applied it for determination of cyclic peptides. The program uses a non-redundant database of 312 nonribosomal building blocks identified to date in bacteria and fungi (more than 230 additional residues in the database list were isobaric). The software was used to fully characterize the tandem mass spectrum of several cyclic peptides and provide sequence tags. The general strategy of the script was based on fragment ion pre-characterization to accomplish unambiguous b-ion series assignments. Showcase examples were a cyclic tetradepsipeptide beauverolide, a cyclic hexadepsipeptide roseotoxin A, a lasso-like hexapeptide pseudacyclin A, and a cyclic undecapeptide cyclosporin A. The extent of ion scrambling in smaller peptides was as low as 5 % of total ion current; this demonstrated the feasibility of CYCLONE de novo sequencing. The robustness of the script was also tested against database sets of various sizes and isotope-containing data.
dcterms:title
CYCLONE-A Utility for De Novo Sequencing of Microbial Cyclic Peptides CYCLONE-A Utility for De Novo Sequencing of Microbial Cyclic Peptides
skos:prefLabel
CYCLONE-A Utility for De Novo Sequencing of Microbial Cyclic Peptides CYCLONE-A Utility for De Novo Sequencing of Microbial Cyclic Peptides
skos:notation
RIV/61388971:_____/13:00399080!RIV14-MSM-61388971
n12:predkladatel
n13:ico%3A61388971
n4:aktivita
n15:P n15:I
n4:aktivity
I, P(GAP206/12/1150), P(ME10013)
n4:cisloPeriodika
8
n4:dodaniDat
n8:2014
n4:domaciTvurceVysledku
n5:4140702 n5:1927469 n5:8652406 n5:4316851
n4:druhVysledku
n11:J
n4:duvernostUdaju
n9:S
n4:entitaPredkladatele
n6:predkladatel
n4:idSjednocenehoVysledku
67619
n4:idVysledku
RIV/61388971:_____/13:00399080
n4:jazykVysledku
n18:eng
n4:klicovaSlova
Peptide; Cyclic; Sequencing
n4:klicoveSlovo
n14:Sequencing n14:Cyclic n14:Peptide
n4:kodStatuVydavatele
US - Spojené státy americké
n4:kontrolniKodProRIV
[4E7639BF9659]
n4:nazevZdroje
Journal of the American Society for Mass Spectrometry
n4:obor
n19:CE
n4:pocetDomacichTvurcuVysledku
4
n4:pocetTvurcuVysledku
5
n4:projekt
n16:GAP206%2F12%2F1150 n16:ME10013
n4:rokUplatneniVysledku
n8:2013
n4:svazekPeriodika
24
n4:tvurceVysledku
Lemr, Karel Kuzma, Marek Havlíček, Vladimír Kavan, Daniel Schug, K. A.
n4:wos
000321923100004
s:issn
1044-0305
s:numberOfPages
8
n17:doi
10.1007/s13361-013-0652-7