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Create set of proteins (or PDB chains) from PDB

This page allows user to create set of proteins having desired property like regular secondary structure, irregular secondary structure, ligand/metal interacting residues from PDB help

Type of Dataset Description of set of proteins/chains
Regular Secondary StructureProteins having desired content of secondary structure
Irregular Secondary StructureList of proteins having irregular (e.g., Alpha, Beta turns) structures
Small Nucleotides InteractionGenerate set of proteins which interact with small nucleotides
DNA InteractionsSet of DNA binding proteins
RNA InteractionsSet of RNA binding proteins
Ligand InteractionsList of ligand binding proteins
Metal InteractionsSet of metal binding proteins
Physical propertiesProteins having desired physico-chemical properties
Amino acid compositionExtract PDB chains having specific amino acid composition


Create subset of proteins from user's set of PDB chains

This page allows users to create set of proteins that have desired properties from list of PDB chains provided by user. Following are major types of datasets can be created using these module .

Type of Dataset Description of set of proteins/chains
Regular Secondary StructureProteins having desired content of secondary structure (helix, sheet)
Irregular Secondary Structure Proteins having desired content of irregular secondary (e.g., Alpha, Beta turns) structure
Small Nucleotides InteractionsSmall nucleotide binding proteins
DNA InteractionsDNA binding proteins
RNA InteractionsRNA binding proteins
Ligand Interactions Ligand binding proteins
Metal InteractionsMetal binding proteins
Physical propertiesExtract proteins having desired physico-chemical propeties
Amino acid compositionProteins having specific types of amino acid composition