AminoFAT
From DrugPedia: A Wikipedia for Drug discovery
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[http://www.csb.yale.edu/userguides/datamanip/hbplus/hbplus_descrip.html HBPLUS]: is a hydrogen bond calculation program | [http://www.csb.yale.edu/userguides/datamanip/hbplus/hbplus_descrip.html HBPLUS]: is a hydrogen bond calculation program | ||
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| + | [http://www.bioinf.manchester.ac.uk/naccess/ NACCESS]: A program for calculating accessible area | ||
Revision as of 16:09, 26 March 2010
AminoFAT: Functional Annotation of Amino Acids
This page maintain software or databases important for predicting functional properties of amino acids in a protein.
Important Software
DSSP: For assigning secondary structure of proteins from PDB
pdb-tools: A set of tools for manipulating and doing calculations on wwPDB macromolecule structure files
HBPLUS: is a hydrogen bond calculation program
NACCESS: A program for calculating accessible area
Questions we wish to address on PDB file
Assigning secondary structure in a PDB file using dssp
Assigning turns in PDB
PDB have highest/lowest composition of a particular residue type
PDB files having highest/lowest types of residues (charged, polar, hydrophobicity) RNA interacting residues
DNA interacting residues
Protein/peptides interacting residues
Protein-small molecules interaction
Protein-carbohydrate interacting residues
Post translation modification
Disordered regions in a protein
