Jessica Shapiro
Amit P. Singh
Douglas L. Brutlag
Bioinformatics Group
Stanford University
Query
Enter
PDB or SCOP code
:
OR
Upload file:
Specify chain (if present):
Target
Enter
PDB or SCOP codes
for all targets to be aligned:
Alignment Options
Numbering of Aligned Residues
Distance Threshold
(for aligned residues)
Geometric Hashing
Permit non-sequential residue alignments Sequential numbering
Do not permit non-sequential residue alignments
Fewer Initial Superpositions
More Initial Superpositions
References:
Shapiro, J.C. and Brutlag, D.L. (2004). FoldMiner: Structural Motif Discovery Using an Improved Superposition Algorithm
Protein Science
13(1) 278-294.
Singh, A.P. and Brutlag, D.L. (1997). Hierarchical Protein Structure Superposition using both Secondary Structure and Atomic Representations.
Proc. Intelligent Systems for Molecular Biology
5
:284-293.
Suggestions, comments, bugs to:
Jessica Shapiro
.