Interface analysis servers: Difference between revisions
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==PISA== | ==PISA== | ||
[http://www.ebi.ac.uk/pdbe/pisa/ The PISA server] (Proteins, Interfaces, Structures and Assemblies), is also termed PDBePISA. Entries in the PDB are pre-calculated, or you can upload your own [[atomic coordinate file]]. PISA analyses interfaces occurring in [[asymmetric unit]]s and also predicts probable quaternary structures based on interactions occurring in the macromolecular crystal. Its pre-calculated database is searchable. '''Click on a row number''' to see full details for any interacting pair of entities. For each chain in a pair of contacting chains, or ligand-chain interaction, it reports total surface area, interfacial area, numbers and percentages of atoms and residues on the surface and in the interface, and numbers of disulfide and hydrogen bonds and salt bridges in the interface, and interfacial free energy changes. | [http://www.ebi.ac.uk/pdbe/pisa/ The PISA server] (Proteins, Interfaces, Structures and Assemblies), is also termed PDBePISA. Entries in the PDB are pre-calculated, or you can upload your own [[atomic coordinate file]]. PISA analyses interfaces occurring in [[asymmetric unit]]s and also predicts probable quaternary structures based on interactions occurring in the macromolecular crystal. Its pre-calculated database is searchable. '''Click on a row number''' to see full details for any interacting pair of entities. For each chain in a pair of contacting chains, or ligand-chain interaction, it reports total surface area, interfacial area, numbers and percentages of atoms and residues on the surface and in the interface, and numbers of disulfide and hydrogen bonds and salt bridges in the interface, and interfacial free energy changes. There is also an annotated list of all residues in each chain. | ||
Details are reported only for pairs of entities. If one wanted to know the total number of contacting atoms on one chain that is contacting multiple other chains, one would have to add them up manually. | Details are reported only for pairs of entities. If one wanted to know the total number of contacting atoms on one chain that is contacting multiple other chains, one would have to add them up manually. | ||