|
|||||
|
|
Realm of PD-(D/E)XK nuclease superfamily revisited: detection of novel families with modified transitive meta profile searches |
|
| Authors: | Lukasz Knizewski Lisa N Kinch Nick V Grishin Leszek Rychlewski Krzysztof Ginalski |
| Institution: | (1) Interdisciplinary Centre for Mathematical and Computational Modelling, Warsaw University, Pawinskiego 5a, 02-106 Warsaw, Poland;(2) Howard Hughes Medical Institute and Department of Biochemistry, University of Texas Southwestern Medical Center, 5323 Harry Hines Blvd, Dallas, TX 75390-9050, USA;(3) BioInfoBank Institute, Limanowskiego 24a, 60-744 Poznan, Poland |
| Abstract: | BackgroundPD-(D/E)XK nucleases constitute a large and highly diverse superfamily of enzymes that display little sequence similarity despite retaining a common core fold and a few critical active site residues. This makes identification of new PD-(D/E)XK nuclease families a challenging task as they usually escape detection with standard sequence-based methods. We developed a modified transitive meta profile search approach and to consider the structural diversity of PD-(D/E)XK nuclease fold more thoroughly we analyzed also lower than threshold Meta-BASIC hits to select potentially correct predictions placed among unreliable or incorrect ones. |
| Keywords: | |
| 本文献已被 SpringerLink 等数据库收录！ | |