Applied Medical Informatics 2008;22(1-2):39-46.
Homo Sapiens Type I Collagen: Patterns Analysis
Sorana D. BOLBOACĂ 1,*, Lorentz JÄNTSCHI 2
1 “Iuliu Haţieganu” University of Medicine and Pharmacy Cluj-Napoca, Department of Medical Informatics and Biostatistics, 6 Louis Pasteur, 400349 Cluj-Napoca, Romania.
2 Technical University of Cluj-Napoca, Department of Chemistry, 103-105 Muncii Bvd, 400641 Cluj-Napoca, Romania.
E-mail(s): sbolboaca@umfcluj.ro; lori@academicdirect.org
Abstract
The aim of the study was to investigate patterns within and among α1 and α2 chains of Homo Sapiens type I collagen. The sequences of amino acids on alpha 1 and alpha 2 chains of type I collagen were taken from the National Center for Biotechnology Information. The CLC Proteine Workbench software was used in the investigation of amino acids patterns on type I collagen (within and among chains). Forty-seven patterns of 2 to 7 amino acids were identified on each chain. The patterns comprised the top-three frequent amino acids: glycine, proline and alanine on both chains. Seventeen out of forty-seven patterns (36%) were common on both chains. The patterns identified on the α2 chain comprise more amino acids compared with the patterns identified on α1 chain. The analysis among type I collagen chains identified patterns of 3 to up to 7 amino acids. Almost 13% of patterns identified on analysis among chains were seen on both chains. Future researcher will be necessary for studying the existence of the same patterns on type I collagen on different species as well as the usefulness of start and end position of the pattern in characterization of repetition and/or cyclicity of amino acids.
Keywords: Type I collagen; Homo sapiens; Pattern analysis.