Transzmembrán fehérjék in-silico szerkezet vizsgálata. = In-silico study of transmembrane protein's structures.

Ebben a palyazatban a FEBS Letters felkeresere osszefoglalot keszitettunk a human ABC feherjek membran topologiajarol, tovabbfejlesztettuk a BiSearch PCR primer-tervező szoftvert (http://bisearch.enzim.hu), amelyről a BMC Bioinformatics-ban szamoltunk be. Felkeresre irtunk egy osszefoglalo konyvfejezetet is erről a temarol, ami a Methods in Molecular Biology-ban jelent meg. Letrehoztunk tovabba ket topologiai adatokat tartalmazo adatbazist, amelyeket TOPDB (http://topdb.enzim.hu) es TOPDOM (http://topdom.enzim.hu) adatbazisnak neveztunk el. A TOPDB adatbazis az ismert szerkezetű transzmembran feherjek topologiai adatait, valamint az irodalomban talalhato kulonboző fizikai-kemiai, molekularis biologiai modszerrel nyert topologiai adatokat tartalmazza. A TOPDOM adatbazis olyan domen es szekvencia motivum adatokat tartalmaz, amelyek a transzmembran feherjekben konzervativ modon talalhatoak meg. Ezeket a munkakat a Nucleic Acids Research, illetve a Bioinformatics folyoiratban kozoltuk. A palyazatban kozreműkodő Simon Istvan tovabbi 16 cikket publikalt a jelen palyazat futamidejeben, amelyek kozul 13 cikk a T049073 sz. OTKA palyazat zarojelenteseben kerultek kifejtesre, illetve 3 a T072569 sz. OTKA palyazat első reszjelenteseben lesz talalhato. | In this project we have written a minireview to the FEBS Letters about the topology of ABC transporters. We improved the BiSearch primer design and PCR algorithm (http://bisearch.enzim.hu), which was reported in BMC Bioinformatics. We also have written a review in this fild in the Methods in Molecular Biology. We have created two databases containing topology data of transmembrane proteins, called TOPDB (http://topdb.enzim.hu) and TOPDOM (http://topdom.enzim.hu), respectively. The TOPDB database contains the topology data of transmembrane proteins with known 3D structure, as well as the details of various physico-chemical and molecular biology experiments carried out to learn about the topology of these proteins. TOPDOM is a collection of domains and sequence motifs located conservatively in one side of transmembrane proteins. These works have been published in Nucleic Acids Research and Bioinformatics, respectively. Moreover, Istvan Simon, the participant of this project has published 16 articles in the time of this project, from which 13 articles have been reported in the final report of the T049073 OTKA project, and 3 articles will be reported in the first progress report of the T072569 OTKA project.