Interface analysis servers: Difference between revisions
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[https://www.molnac.unisa.it/BioTools/cocomaps/ COCOMAPS]<ref>PMID: 21873642</ref> analyzes and visualizes interfaces in biological complexes (such as protein-protein, protein-DNA and protein-RNA complexes). The interface(s) to analyze are specified with the chain identifiers in the [[PDB file]]. Output includes three different contact maps, as well as tables reporting detailed information about the interacting residues (defined on the basis of a cut-off distance that can be customized by the user), the residues at the interfaces (defined on the basis of the buried surface upon complex formation), the inter-molecular H-bonds, the buried area, and the interface areas (both as Å<sup>2</sup> and percentages). | [https://www.molnac.unisa.it/BioTools/cocomaps/ COCOMAPS]<ref>PMID: 21873642</ref> analyzes and visualizes interfaces in biological complexes (such as protein-protein, protein-DNA and protein-RNA complexes). The interface(s) to analyze are specified with the chain identifiers in the [[PDB file]]. Output includes three different contact maps, as well as tables reporting detailed information about the interacting residues (defined on the basis of a cut-off distance that can be customized by the user), the residues at the interfaces (defined on the basis of the buried surface upon complex formation), the inter-molecular H-bonds, the buried area, and the interface areas (both as Å<sup>2</sup> and percentages). | ||
===Comments=== | |||
*The buried and interfacial areas are not affected by the distance specified when submitting the job. | |||
*Not all interatomic contacts within the specified distance are reported. For example, (February 2012) [[4mdh]] chains A vs. B with a cutoff of 6 Å failed to report (in the Table of Minimum Distances) Tyr 17 CE2 chain A - Arg 237 NH2 chain B, distance 3.89 Å. | |||
==References== | ==References== | ||
<references /> | <references /> | ||
