Table 1 Features that potentially influence peptide fragmentation.
ID | Features | Abbreviation |
|---|---|---|
1 | Identity of residue C-terminal to fragmentation site | RB_C |
2 | Identity of residue N-terminal to fragmentation site | RB_N |
3 | Distance from fragmentation site to peptide N-terminus | DB_N |
4 | Distance from fragmentation site to peptide C-terminus | DB_C |
5 | Distance from fragmentation site to peptide center | DB_M |
6 | Whether fragmentation site is at either end of peptide | B_E |
7 | Basicity of residue N-terminal to fragmentation site | BaRB_N |
8 | Basicity of residue C-terminal to fragmentation site | BaRB_C |
9 | Average basicity of residues N/C terminal to fragmentation site | BaRB_A |
10 | Difference in basicity of residues N/C terminal to fragmentation site | BaRB_D |
11 | Basicity of fragmented y-ion | BaYI |
12 | Basicity of whole peptide | BaP |
13 | Helicity of residue N-terminal to fragmentation site | HeRB_N |
14 | Helicity of residue C-terminal to fragmentation site | HeRB_C |
15 | Average helicity of residues N/C terminal to fragmentation site | HeRB_A |
16 | Difference in helicity of residues N/C terminal to fragmentation site | HeRB_D |
17 | Hydrophobicity of residue N-terminal to fragmentation site | HyRB_N |
18 | Hydrophobicity of residue C-terminal to fragmentation site | HyRB_C |
19 | Average Hydrophobicity of residues N/C terminal to fragmentation site | HyRB_A |
20 | Difference in Hydrophobicity of residues N/C terminal to fragmentation site | HyRB_D |
21 | Hydrophobicity of fragmented y-ion | HyYI |
22 | Hydrophobicity of whole peptide | HyP |
23 | pI value of residue N-terminal to fragmentation site | PIRB_N |
24 | pI value of residue C-terminal to fragmentation site | PIRB_C |
25 | Average pI of residues N/C terminal to fragmentation site | PIRB_A |
26 | Difference in pI of residues N/C terminal to fragmentation site | PIRB_D |
27 | Length of whole peptide | LP |
28 | Length of fragmented y-ion | LYI |
29 | Ratio of length of fragmented y-ion and peptide | RLIP |
30 | Number of basic residues in whole peptide | NBaR_P |
31 | Number of basic residues in fragmented y-ion | NBaR_YI |
32 | Mass of whole peptide | MP |
33 | Mass of fragmented y-ion | MYI |
34 | Ratio of mass of fragmentated y-ion and peptide | RMIP |
35 | Distance from fragmentation site to basic residues | DBBa |