Fig. 3.

SecY’s halves are uniquely similar in structure to the Oxa1 superfamily. a Match correlation matrix returned by Dali for a half-SecY query (6itc C). The axes are labelled by a diagram of the SecY transmembrane helices. b The structural models used as Dali queries. The full models and the H1/4/5 subdomains (orange) were used. c Results from querying the PDB25. The top-ranking hits for each query are shown, and any lower-ranking hits that rank higher than the first Oxa1 superfamily hit. Asterisks mark 7d7nA because although it appears twice, those hits are with two non-overlapping parts of the model. Oxa1 superfamily hits are shown by name (EMC3, GET1) instead of PDB code (6ww7C, 6so5C). At bottom are the scores for the SecY hits, which were excluded from the ranking. SecY hits in boldface scored lower than an Oxa1 superfamily hit for that query