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<DIV dir=ltr align=left><SPAN class=191492121-22032011><FONT color=#0000ff
size=2 face=Arial>Sumit,</FONT></SPAN></DIV>
<DIV dir=ltr align=left><SPAN class=191492121-22032011><FONT color=#0000ff
size=2 face=Arial></FONT></SPAN> </DIV>
<DIV dir=ltr align=left><SPAN class=191492121-22032011><FONT color=#0000ff
size=2 face=Arial>Yes you could manually calculate the weight average of light
and heavy chain, but remember it is only the total AA composition that matters,
and for vbar purposes there is no distinction whatever between intra- versus
inter-chain disulfides. Thus the best thing to do is to simply merge
together the 2 sequences (using Notepad for example) and treat the entire
antibody as a covalent dimer of the single fused chain (the order of light
versus heavy is irrelevant). Once SEDNTERP sums the combined sequence, tell it
yes convert all the cysteines to disulfides, and then click the 'make an
oligomer' check box so it converts it to a dimer. Presto!</FONT></SPAN></DIV>
<DIV dir=ltr align=left><SPAN class=191492121-22032011><FONT color=#0000ff
size=2 face=Arial></FONT></SPAN> </DIV>
<DIV dir=ltr align=left><SPAN class=191492121-22032011><FONT color=#0000ff
size=2 face=Arial>That will give you the right vbar for the polypeptide portion,
but does not deal with the carbohydrates which presumably are
present.</FONT></SPAN></DIV>
<DIV dir=ltr align=left><SPAN class=191492121-22032011><FONT color=#0000ff
size=2 face=Arial></FONT></SPAN> </DIV>
<DIV dir=ltr align=left><SPAN class=191492121-22032011><FONT color=#0000ff
size=2 face=Arial>John</FONT></SPAN></DIV><BR>
<DIV dir=ltr lang=en-us class=OutlookMessageHeader align=left>
<HR tabIndex=-1>
<FONT size=2 face=Tahoma><B>From:</B> rasmb-bounces@rasmb.bbri.org
[mailto:rasmb-bounces@rasmb.bbri.org] <B>On Behalf Of </B>sumit
goswami<BR><B>Sent:</B> Tuesday, March 22, 2011 12:22 PM<BR><B>To:</B>
rasmb@server1.bbri.org<BR><B>Subject:</B> [RASMB] V-bar calculation for
mAb<BR></FONT><BR></DIV>
<DIV></DIV>
<DIV>Hello all,</DIV>
<DIV> I
was trying to calculate v-bar of a mAb using SEDNTERP. I have the sequence
of heavy chain (HC) and light chain (LC) seperately as expected. It
seems to be little complicated. Because there are HC-HC and LC-LC disulfide
linkages too.The question is how do I deal with that? Should I calculate the
v-bar of Fab and Fc seperately and then calculate an weight avergae of them?
</DIV>
<DIV> </DIV>
<DIV>With regards,</DIV>
<DIV>Sumit</DIV></BODY></HTML>