Protein Selection	SCOP_ID (d + 6 characters, including underline '_'),ex. d1g4pa_) PDB CODE ID CHAIN (4 characters. ex. 1sry) UPLOAD your new protein
Parameters:	Report the TOP Hits Substitution Matrix : IDENTITY TRISUM-169 E-value : 1e-25 1e-24 1e-23 1e-22 1e-21 1e-20 1e-15 1e-10 1e-9 2e-9 4e-9 6e-9 8e-9 1e-8 1e-7 1e-6 1e-5 1e-4 1.5e-4 2.5e-4 5e-4 1e-3 2.5e-2 5e-2 7.5e-1 0.1 0.5 1 Database : SCOP-1.73-all SCOP-1.73-95% SCOP-1.73-40% SCOP-1.71-all SCOP-1.71-95% SCOP-1.71-40% First gap penalty : ; Extention gap penalty : Maximum length ratio : % ; Minimum length ratio : %
Resources	Get Protein Structural Alphabet in SCOP Database Structural Alphabet Sequences in PDB Structural Alphabet Sequences in SCOP-1.73 Structural Alphabet Sequences in SCOP-1.71

Reference : Ku SY, Hu YJ. Protein structure search and local structure characterization. BMC Bioinformatics. 2008; 9:[PDF] You need to install CHIME to see the 3D view of motifs. Note: Please register to MDL before using CHIME.

Mail to Authors : Shih-Yen Ku or Yuh-Jyh Hu
Last Update : 2010/03/14