S curve, a graphic representation of protein secondary structure sequence and its applications

Citation
Ct. Zhang et R. Zhang, S curve, a graphic representation of protein secondary structure sequence and its applications, BIOPOLYMERS, 53(7), 2000, pp. 539-549
Citations number
11
Language
INGLESE
art.tipo
Article
Categorie Soggetti
Biochemistry & Biophysics
Journal title
BIOPOLYMERS
ISSN journal
0006-3525 → ACNP
Volume
53
Issue
7
Year of publication
2000
Pages
539 - 549
Database
ISI
SICI code
0006-3525(200006)53:7<539:SCAGRO>2.0.ZU;2-T
Abstract
A secondary structure sequence is a symbolic string composed of three kinds of letters, indicating the helix, strand and coil (including turns), respe ctively. A graphic representation for this abstract symbolic sequence is pr oposed here, called the S curve. The S curve is the unique representation f or a given secondary structure sequence in the sense that the sequence and the S curve can be uniquely determined from the other. Therefore, the S cur ve contains all the information that the secondary structure sequence conta ins. Different geometrical properties of the S curve are studied in details , which reflect the basic characteristics of the secondary structure sequen ces. The S curves are used to display, analyze, and compare the secondary s tructure sequences. Derailed application examples are presented. One advant age of the S curve methodology is that the main patterns of a given seconda ry structure sequence can be grasped quickly in a perceivable form. This is particular useful in rite cases in which longer sequences are involved and structures of proteins are unknown. (C) 2000 John Wiley & Sons, Inc.