Figure 4. Comparison of sequence conservation between individual protein clusters.
Analysis of sequence conservation (A) and amino acid type (B) in sequence fragments spanning five amino acids up- and downstream of the thiol group whose oxidation status was determined by OxICAT. Peptide sequences from clusters A and B were combined as were sequences from clusters D and E. (A) Sequence logos of the 11-amino acid peptides were aligned at the position of the identified cysteine. The color code corresponds to the amino acid type, with Cys shown in black, negatively charged amino acids shown in red, positively charged amino acids shown in blue, non-polar amino acids shown in grey, aromatic amino acids shown in yellow, and polar amino acids shown in green. The residue order in each column corresponds to the relative occurrence of the residue in the specific position. The height of the amino acid corresponds to its relative frequency at the specific position. The logos were created using WebLogo (Crooks et al., 2004). (B) The relative amino acid occurrence, excluding the OxICAT-identified cysteine, in the sequence fragments was analyzed. As in (A), the amino acids were grouped according to their characteristics and the occurrence of the amino acid type was normalized to the distribution of the same amino acid type in the entire library of sequence fragments. A value of 1 indicates that the occurrence of a specific amino acid is identical to the occurrence of this group of amino acids in the total sequence library.