Group Prof. Dr. Oliver Seitz
Oligonucleotide- and Peptide calculations
PNA, Peptide und PNA-Peptide-Conjugate mass
To calculate the mass of a PNA, a peptide or a PNA-Peptide-conjugate
just enter the sequence (separated by blanks) in the corresponding
field, select the N- and C-terminal modifications and click on
You can enter the four PNA-nucleobases (lower case letters!) as well as
amino acids (single letter code upper case or three letter code!).
The three letter code is case sensitive! E.g.
"gly" would be ignored!
Side chain modifications have to be entered bracketed after the
corresponding monomer e.g. Lys(Alloc) or Lys(Biotin). Known
modifications right now are the protecting groups Alloc, Fmoc, Boc,
Bhoc, Z, Trt, Mmt, Mtt, tBu, Bzl, the fluorophores Dansyl, IAEDANS,
Dabcyl, Dabsyl, TAMRA, NBD, EDANS and FAM as well as Biotin.
Furthermore you can enter phosphorylated amino acids by using "p Tyr",
"p Ser",... and mark Cystine bridges by using the tilde as side chain
modification "Cys(~)" at the relevant positions.
To calculate DNA-properties just enter the sequence (separated by
blanks) in the corresponding field, select 3'- and 5'-modification and
click on "Calculate!".
Right now you can only enter the four nucleobases A, C, G, T as upper
case letters. More terminal and internal modifications like
fluorophores will be added later on.