摘要
Protein-peptide interactions, where one partner is a globular protein （domain） and the other is a flexible linear peptide, are key components of cellular processes predominantly in signal- ing and regulatory networks, hence are prime targets for drug design. To derive the details of the protein-peptide interaction mechanism is often a cumbersome task, though it can be made easier with the availability of specific databases and tools. The Peptide Binding Protein Database （Pep- Bind） is a curated and searchable repository of the structures, sequences and experimental observa- tions of 3100 protein^eptide complexes. The web interface contains a computational tool, protein inter-chain interaction （PICI）, for computing several types of weak or strong interactions at the pro- tein peptide interaction interface and visualizing the identified interactions between residues in Jmol viewer. This initial database release focuses on providing protein-peptide interface informa- tion along with structure and sequence information for protein-peptide complexes deposited in the Protein Data Bank （PDB）. Structures in PepBind are classified based on their cellular activity. More than 40% of the structures in the database are found to be involved in different regulatory pathways and nearly 20% in the immune system. These data indicate the importance of protein- peptide complexes in the regulation of cellular processes. PepBind is freely accessible at http：// pepbind.bicpu.edu.in/.
Protein-peptide interactions, where one partner is a globular protein （domain） and the other is a flexible linear peptide, are key components of cellular processes predominantly in signal- ing and regulatory networks, hence are prime targets for drug design. To derive the details of the protein-peptide interaction mechanism is often a cumbersome task, though it can be made easier with the availability of specific databases and tools. The Peptide Binding Protein Database （Pep- Bind） is a curated and searchable repository of the structures, sequences and experimental observa- tions of 3100 protein^eptide complexes. The web interface contains a computational tool, protein inter-chain interaction （PICI）, for computing several types of weak or strong interactions at the pro- tein peptide interaction interface and visualizing the identified interactions between residues in Jmol viewer. This initial database release focuses on providing protein-peptide interface informa- tion along with structure and sequence information for protein-peptide complexes deposited in the Protein Data Bank （PDB）. Structures in PepBind are classified based on their cellular activity. More than 40% of the structures in the database are found to be involved in different regulatory pathways and nearly 20% in the immune system. These data indicate the importance of protein- peptide complexes in the regulation of cellular processes. PepBind is freely accessible at http：// pepbind.bicpu.edu.in/.
基金
the Department of Biotechnology (Grant No. BT/BI/03/015/2002)
Department of Information Technology (Grant No. DIT/R&D/15 (9)2007), Government of India
