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O
O
O
O
N
N
N
N
Alanine (A)
Glycine (G)
Valine (V)
Leucine (L)
O
O
O
O
O
O
S
N
N
N
N
Threonine (T)
Isoleucine (I)
Serine (S)
Cysteine (C)
O
O
O
N
O
S
O
N
O
N
N
N
N
N
Methionine (M)
Lysine (K)
Asparagine (N)
Glutamine (Q)
N
O
O
O
O
N
N
O
O
O
N
N
O
N
N
N
N
Glutamic acid (E)
Histidine (H)
Aspartic acid (D)
Arginine (R)
O
O
O
O
N
O
N
N
N
N
Tryptophan (W)
Phenylalanine (F)
Tyrosine (Y)
Proline (P)
hydrophobic aromatic
hydroxyl
carbon alpha
thiol
carboxylic acid
Amide
hydrophobic
amine
amine aromatic
guanidinium
Fig. 1.1
New set of “objects” in SuMo. Correspondence between amino acids and chemical
groups as de fi ned in the new set
backbone a too much high importance weight. The new set was tested on the two
different protein families previously used for SuMo (Jambon et al.
2003
) and a
comparative analysis result of the two versions is given hereafter. The definition of
the chemical groups that are defined for each amino acid is shown in Fig.
1.1
.
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