Intgeom: A server for the calculation of the interaction geometry between planar groups in proteins

Abstract

IntGeom is a server for the calculation of the relative orientation between any two planar groups in protein side chains. IntGeom1 considers ten planar groups, while IntGeom2 is meant for studying the contact between a S-containing group and an aromatic residue. When the interaction is between two aromatic residues or involving an aromatic ring with Pro or Arg or an amide side chain, the occurrence of any C-H ···π (N-H···π) interaction is also studied. All contacts between any two of the above types of residues juxtaposed on the protein structure can be displayed. The software is available at: http://www.boseinst.ernet.in/resources/bioinfo/stag.html.