Protein disulfide topology determination through the fusion of mass spectrometric analysis and sequence-based prediction using Dempster-Shafer theory

Table 1 Results of S-S bond determination on a set of Glycosyltransferases using MS-based and sequence-based methods.

Swiss-Prot ID	Known S-S bonds	Methods that detected the bond	Methodology
Q92187	142-292	MassMatrix	MS-based
	156-356	MassMatrix	MS-based
P02754	82-176	MassMatrix, DisLocate, DiANNA 1.1	MS-based, Sequence-based
	122-135	-	-
Q11130	68-176	MassMatrix, PreCys	MS-based, Sequence-based (cysteine separation profile)
	211-214	MassMatrix, PreCys	As above
	318-321	MassMatrix, PreCys	As above
P08037	134-176	MassMatrix	MS-based
	247-266	MassMatrix	MS-based
Q09324	59-413	-	-
	100-172	-	-
	151-199	-	-
	372-381	-	-
P00698	24-145	DISULFIND, DiANNA 1.1	Sequence-based
	48-133	MassMatrix, DiANNA 1.1, DISULFIND	MS-based, Sequence-based
P21217	81-338	-	-
	91-341	-	-

The molecules and their Swiss-Prot ID are: ST8Sia IV [Swiss-Prot:Q92187], Beta-lactoglobulin [Swiss-Prot:P02754], FucT VII [Swiss-Prot:Q11130], C2GnT-I [Swiss-Prot:Q09324], Lysozyme [Swiss-Prot:P00698], FT III [Swiss-Prot:P21217], β1-4GalT [Swiss-Prot:P08037], Aldolase [Swiss-Prot:P00883], and Aspa [Swiss-Prot:Q9R1T5]. The methods investigated include MassMatrix [21], DisLocate [24], DISULFIND [14], PreCys [4], and DiANNA 1.1 [17].

ISSN: 1471-2105