Fig. 5
From: Algorithms for matching partially labelled sequence graphs
Contacts predicted by the GREMLIN method for 1aoz. The concatenated alignment generated by the topology-based method was submitted to the GREMLIN server with the results shown as a matrix of predicted contacts on a scale of light to dark blue (strongest). The origin is the top-left corner (a). In b the stronger contacts are overlayed on contacts from the closest matches found in known structures (grey dots), using an adaption of Taylor’s double-dynamic programming algorithm. For comparison, c and d show the contacts predicted by GREMLIN when given the full correctly paired concatenated alignment of domains. Bold lines correspond to domain boundaries and feint lines mark residues by 10 and 100s