count the number of contacts of a aminoacid

Question

[kjshanavas]

Hello,

Are there any servers or softwares available to count the number of contacts of aminoacids in a chain with the aminoacids in another chain based on a threshold?

Answer 1

[Pawel Szczesny]

If I understood correctly, you want to obtain contact map for protein structure first, then to analyze it (count the number or whatever), right?

If so, you can do that either interactively (CMView) or programmatically (see that example in Biopython). Probably Python would be better, as for some reason you want only the counts, not the distance matrix.