AminoFAT

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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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== Questions we wish to address on PDB file ==
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Assigning secondary structure in a PDB file using dssp
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Assigning turns in PDB
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PDB have highest/lowest composition of a particular residue type
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PDB files having highest/lowest types of residues (charged, polar, hydrophobicity)
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RNA interacting residues
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DNA interacting residues
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Protein/peptides interacting residues
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Protein-small molecules interaction
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Protein-carbohydrate interacting residues
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Post translation modification
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Disordered regions in a protein

Revision as of 15:18, 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


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