I have a fragment of antibody (Fab) structure, and I know its amino acid sequences of its heavy chain and light chain. As each chain of Fab can be divided into variable and constant regions, how can I know which residues belong to the variable or constant regions?

I can of course look at its 3-D structure in pymol, but it is difficult to know the belonging of residues between the variable and constant regions.

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This link clearly shows how to identify the CDR regions based on its amino acid sequence. Is there a similar way to differentiate variable and constant regions?

  • $\begingroup$ The CDR is the variable region. I'm not quite sure what you're asking. $\endgroup$ – canadianer May 23 '18 at 20:40
  • $\begingroup$ The CDR is only part of the variable region, i.e. the CDR is only part of the VH, VL. Could you please remove the downvote? Complementarity-determining regions (CDRs) are part of the variable chains $\endgroup$ – lanselibai May 24 '18 at 9:54
  • $\begingroup$ I stand corrected. I did not downvote, but I will upvote. $\endgroup$ – canadianer May 24 '18 at 15:34
  • $\begingroup$ thank you! It is really frustrating to be downvoted without knowing the reason.... $\endgroup$ – lanselibai May 24 '18 at 20:38

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