The first round of weight matching leads to an almost complete network. However, during testing, we found that it is very important that ASN, GLN, HIS, and ARG side chains are allowed to form two hydrogen bonds. We therefore perform a second round of matching on the remaining graph with the rule that each pair must contain an ASN, GLN, or ARG bead (HIS is not included because it can form bonds at both the epsilon and delta positions in the first round, due to the coarse-grained mapping, Figure ).