Rama dots in wrong position after inserting segments
|Opened on:||Sunday, May 1, 2016 - 23:10|
|Last modified:||Monday, May 2, 2016 - 23:51|
See shared solution "1226 rama dots wrong after inserting" on puzzle 1226. The rama dots for 3 residues are in the wrong place after I inserted other residues.
I inserted 4 residues into a helix (three became residues 24, 25, 26 and one became residue 41), which moved the loops on either end of the helix (they had been parallel to, and the same shape as, the loops on the other helix). Then I used Ideal SS on the newly elongated helix. Then I attempted to copy the loop at 69-71 onto the loop at 42-44, by dragging the dots for 42-44 on top of the dots for 69-71 (my 2nd video shows how it's supposed to work). Even though I made the dots match, the shape of the loop in the protein does not match. The thumbnail above the rama map shows each of the residues (42, 43, 44) having a different shape than its model residue (69, 70, 71), even though the dots are the same. Having identical dots should mean having identical shapes. Loop 42-44 and helix 24-41 should be roughly parallel to loop 69-71 and helix 55-68 in the protein, and their shapes in the thumbnail should be identical.