CCR XP tries to automate the detection and analysis of such clusters in protein structures.CCR XP is made of two input modules. CCR XP lite can be accessed directly (see query form on top), by uploading a PDB coordinate data or entering a PDB code and CCRs using default parameter settings for all protein chains in the coordinate file will be returned. The server will automatically (1) Extract fasta file from atom records (2) Find aligned sequences and calculate conservation scores (3) Cluster conserved residues and (4) Report several other structural properties of each residue as well as whole clusters, including their solvent accessibility that will allow to distinguish potential interface clusters from stabilizing core residues.
- Web Server
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Nucleic Acids Res. 2010 Jul;38(Web Server issue):W398-401. doi: 10.1093/nar/gkq360. Epub 2010 May 10.
CCRXP: exploring clusters of conserved residues in protein structures.
Ahmad S, Keskin O, Mizuguchi K, Sarai A, Nussinov R.