12 Dec
2002
12 Dec
'02
11:49 a.m.
hello modellers, i am trying to model some proteins. but my protein has some region (internal) (15-20 amino acids) which does not have any corresponding region in the template sequence. i DO NOT want to model that region and in my final (3D) strucuture i want to have a gap in the corresponding internal region. other wise that region forms a loop or extended region ( makes the structre ugly ??). i wish to know how my alignement file should look like....
i tried following and did not solve the problem 1) putting " X " for the amino acids for which i dont want the 3D structure to be made
2) puting " - " for the same...
waiting for ur reply
gowthaman Phd Student ICGEB, India.