The Protein Inter-Chain Interacton (PICI) web server is designed and developed for depicting various interactions at the protein-protein binding interface. Upon given a pdb identifier or a structure coordinate file uploaded by the user, PICI identifies and calculates the interactions of a selected chain with other chains in the protein. It shows the interface interactions interactively with JSmol structure viewer, a sequence visualization tool, and an interaction matrix. This tool also generates a plain text file and a xml file of all the interaction data for the users to download.
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For presubmitted structures
Types of interactions calculated | ||
Hydrogen bonds | Other interactions | |
Strong | Weak | Disulfide bond, Hydrophobic interaction, Electrostatic interaction, Π-Π interaction, Cation-Π interaction, Anion-Π interaction, Lone pair-Π interaction, Non-bonded contacts |
N-H···(O / N / S), O-H···(O / N / S), S-H···(O / N / S) |
C-H···(O / N / S), (N / O / S / C)-H···Π |
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Details of the interaction calculation has been explained in the help section. |
Note:
- Histidine is considered as in neutral form.
- For NMR structures only the first model is taken into consideration.
- Water molecules and heteroatoms have been excluded from calculation.
- Time to calculate interactions between chains depends on
( i ) size of the protein
( ii ) internet speed. - User submitted structures wil be kept on repository for 30 days.