التفاصيل البيبلوغرافية
| العنوان: |
LoopX: A Graphical User Interface-Based Database for Comprehensive Analysis and Comparative Evaluation of Loops from Protein Structures. |
| المؤلفون: |
Kadumuri, Rajashekar Varma, Vadrevu, Ramakrishna |
| المصدر: |
Journal of Computational Biology. Oct2017, Vol. 24 Issue 10, p1043-1049. 7p. |
| مصطلحات موضوعية: |
*PROTEIN structure, *COMPUTATIONAL biology, *PROTEIN folding, *GRAPHICAL user interfaces, *HYDROGEN bonding, *PROTEIN conformation |
| مستخلص: |
Due to their crucial role in function, folding, and stability, protein loops are being targeted for grafting/designing to create novel or alter existing functionality and improve stability and foldability. With a view to facilitate a thorough analysis and effectual search options for extracting and comparing loops for sequence and structural compatibility, we developed, LoopX a comprehensively compiled library of sequence and conformational features of ∼700,000 loops from protein structures. The database equipped with a graphical user interface is empowered with diverse query tools and search algorithms, with various rendering options to visualize the sequence- and structural-level information along with hydrogen bonding patterns, backbone φ, ψ dihedral angles of both the target and candidate loops. Two new features (i) conservation of the polar/nonpolar environment and (ii) conservation of sequence and conformation of specific residues within the loops have also been incorporated in the search and retrieval of compatible loops for a chosen target loop. Thus, the LoopX server not only serves as a database and visualization tool for sequence and structural analysis of protein loops but also aids in extracting and comparing candidate loops for a given target loop based on user-defined search options. [ABSTRACT FROM AUTHOR] |
| قاعدة البيانات: |
Academic Search Index |
