Proposed systematic nomenclature for orbitides

Shim, Youn Young, Young, Lester W., Arnison, Paul G., Gilding, Edward and Reaney, Martin J. T. (2015) Proposed systematic nomenclature for orbitides. Journal of Natural Products, 78 4: 645-652. doi:10.1021/np500802p

Author Shim, Youn Young
Young, Lester W.
Arnison, Paul G.
Gilding, Edward
Reaney, Martin J. T.
Title Proposed systematic nomenclature for orbitides
Journal name Journal of Natural Products   Check publisher's open access policy
ISSN 1520-6025
Publication date 2015-04-24
Year available 2015
Sub-type Article (original research)
DOI 10.1021/np500802p
Open Access Status
Volume 78
Issue 4
Start page 645
End page 652
Total pages 8
Place of publication Washington, DC, United States
Publisher American Chemical Society
Collection year 2016
Language eng
Formatted abstract
Orbitides are short (5-11 amino acid residue), ribosomally synthesized homodetic plant cyclic peptides characterized by N-to-C amide bonds rather than disulfide bonds. Orbitides can be discovered using mass spectrometry of plant extracts or by identifying DNA sequences coding for the precursor protein. The number of orbitides that have been characterized to date, by a number of different research groups, is modest. The nomenclatural system currently used for the Type VI cyclic peptides has been developed in an ad hoc fashion and is somewhat arbitrary. We propose a systematic naming system specifically for the Type VI cyclic peptides that reflects the taxonomic name of the species producing the orbitides and a numbering system that enables systematic representation of amino acid residues and modifications. The proposed naming system emulates the IUPAC Nomenclature for Natural Products and UniProt, both of which use abbreviations of taxonomic names for the compounds in question. Nomenclature for post-translational modifications also follows the IUPAC precedent, as well as the cyclic peptide literature. Furthermore, the proposed system aims to maintain agreement with the precedents set by the pre-existing literature. An example of the proposed nomenclature is provided using the methionine-containing homodetic peptides of Linum usitatissimum (flaxseed).
Keyword Amino acid sequence
Chemical modification
Mass spectometry
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Official 2016 Collection
Institute for Molecular Bioscience - Publications
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