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glossary:grath [2008/08/13 14:57]
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 +{{tag>data}}
  
 +===== GRATH files =====
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 +Grath is a graph-based structure comparison algorithm. It rapidly, and accurately, matches a novel structure against a library of domain structures already classified in CATH to find the most similar ones. GRATH uses a measure of similarity that details the geometric information, number of secondary structures and number of residues within secondary structures, that any two protein structures share.
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 +The file lists the name of the protein structure and the number of secondary structure in that structure (as determined by  [[glossary:sec | Secmake ]] ). For each of those secondary structures, the first and last residue is given. A list then follows that gives the results comparing of each residue in that structure against all others in the format:
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 +First_Residue_Number First_Residue_Type* Second_Residue_Number Second_Residue_Type Distance_Closest_Approach Pairwise_Angle Dihedral_Angle
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 +Grath output files from different structures can then be compared to see whether they are similar in structure.
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 +For more information please go to [[http://www.biochem.ucl.ac.uk/~harry/grath/grath.htm|this page]]. 
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 +=================================================
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 +* S = [[glossary:beta_strand | beta strand]] and H = [[glossary:alpha_helix | alpha helix]]
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 +===== References =====
 +
 +{{pubmed>long:14512345}}
 +{{pubmed>long:12417203}}
 +{{pubmed>long:11125098}}

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