کد مقاله | کد نشریه | سال انتشار | مقاله انگلیسی | نسخه تمام متن |
---|---|---|---|---|
4359645 | 1300536 | 2006 | 12 صفحه PDF | دانلود رایگان |
عنوان انگلیسی مقاله ISI
Transmembrane domain prediction and consensus sequence identification of the oligopeptide transport family
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موضوعات مرتبط
علوم زیستی و بیوفناوری
ایمنی شناسی و میکروب شناسی
میکروبیولوژی و بیوتکنولوژی کاربردی
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چکیده انگلیسی
Few polytopic membrane proteins have had their topology determined experimentally. Often, researchers turn to an algorithm to predict where the transmembrane domains might lie. Here we use a consensus method, using six different transmembrane domain prediction algorithms on six members of the oligopeptide transport family, all of which have been experimentally characterized. PSI-BLAST results indicate that the six chosen oligopeptide transport family members are distributed throughout most branches of the phylogram, suggesting that these members represent a broad view of the oligopeptide transport family. We combined the prediction algorithms with a multiple sequence alignment, and consensus transmembrane domains were assigned not only based on algorithmic output, but also based on conserved familial motifs found by analysis of the PSI-BLAST results. The consensus method combined with the “charge-difference rule” yields a model topology for the family containing 12 transmembrane domains with the N- and C-termini facing extracellular.
ناشر
Database: Elsevier - ScienceDirect (ساینس دایرکت)
Journal: Research in Microbiology - Volume 157, Issue 4, May 2006, Pages 395-406
Journal: Research in Microbiology - Volume 157, Issue 4, May 2006, Pages 395-406
نویسندگان
Amy M. Wiles, Fred Naider, Jeffrey M. Becker,