Analysis and prediction of protective continuous B-cell epitopes on pathogen proteins

Sollner, Johannes; Grohmann, Rainer; Rapberger, Ronald; Perco, Paul; Lukas, Arno; Mayer, Bernd

doi:10.1186/1745-7580-4-1

Immunome Research

Table 1 protectivity AROC values for individual proteins separately derived from predictions based either on antigenicity, 1 – modifications or 1 – variability as well as a combined (sum) score for individual proteins

From: Analysis and prediction of protective continuous B-cell epitopes on pathogen proteins

protein function	protein	antigenicity	modifications	variability	combined
attachment/fusion	P11224	0,51	0,15	0,42	0,15
attachment/fusion	2327073	0,77	0,69	0,77	0,77
attachment/fusion	1930067	0,83	0,51	0,64	0,65
attachment/fusion	P09592	0,66	0,77	0,57	0,74
RNA encapsidation	13559809	0,62	0,48	0,50	0,46
enzyme/secreted cytolysin	P13128	0,45	0,47	0,43	0,45
RNA encapsidation	37724690	0,29	0,74	0,26	0,67
toxin/translocation/binary-toxin	Q46221	0,42	0,28	0,10	0,11
attachment/capsid	P30129	0,77	0,35	0,07	0,29
DNA replication	138881	0,31	0,31	0,14	0,13
toxin	P01558	0,41	0,49	0,29	0,41
host evasion/IgG binding	13622466	0,88	0,61	0,86	0,76
attachment/fusion	116774	0,60	0,40	0,26	0,41
enzyme/host evasion	15644702	0,68	0,55	0,65	0,63
enzyme/protease	P10845	0,91	0,55	0,60	0,77
attachment/fusion	P03449	0,59	0,50	0,45	0,49
transport	P13794	0,82	0,75	0,64	0,81
attachment/fusion	P08669	0,63	0,58	0,67	0,70
attachment (?)	Q02938	0,82	0,60	0,54	0,73
enzyme/protease/tissue invasion	30260755	0,18	0,80	0,94	0,85
unknown function	P13403	0,55	0,75	0,51	0,73
unknown function	P13664	0,46	0,68	0,91	0,70
unknown function	42374894	0,62	0,58	0,64	0,66
toxin/translocation/binary-toxin	P13423	0,59	0,62	0,22	0,56
unknown function	14162008	0,23	0,23	0,11	0,08
attachment/fusion	P59594	0,57	0,45	0,59	0,52
transport	P16567	0,47	0,51	0,20	0,31
unknown function	13621499	0,35	0,30	0,65	0,36
attachment (?)	13622014	0,27	0,46	0,16	0,39
unknown function	15675130	0,64	0,96	0,73	0,92
unknown function	13622584	0,63	0,56	0,72	0,65
unknown function	790646	0,98	0,83	0,25	0,95
host evasion/resistance to phagocytosis (?)	P26948	0,62	0,57	0,61	0,70
unknown function	P21206	0,54	0,52	0,43	0,58
enzyme	153640	0,35	0,88	0,80	0,87
transport	13623184	0,55	0,70	0,65	0,69
attachment/fusion	P35253	0,56	0,45	0,27	0,38
host evasion/resistance to phagocytosis/toxin	P55128	1,00	0,40	0,54	0,73
attachment/fusion	P03524	0,54	0,73	0,65	0,73
host evasion/superantigen	P06886	0,90	0,68	0,37	0,80
toxin	P0A0L2	0,43	0,54	0,49	0,46
host evasion/superantigen	P01552	0,34	0,59	0,38	0,53
attachment	97812	0,80	0,57	0,80	0,73
attachment/fusion	P27662	0,66	0,43	0,72	0,50
host evasion/resistance to phagocytosis	P12379	0,44	0,47	0,35	0,41
host evasion/resistance to phagocytosis	P02977	0,32	0,37	0,25	0,33
transport	13621681	0,64	0,41	0,54	0,46
toxin/peptidase/binary-toxin	P15917	0,51	0,22	0,65	0,21
attachment/fusion	P33478	0,71	0,61	0,69	0,69
unknown function	P19597	0,85	0,87	0,61	0,86
attachment/fusion	P07946	0,71	0,46	0,31	0,53
attachment/fusion	Q05320	0,43	0,54	0,18	0,38
attachment/RNA encapsidation	P03308	0,88	0,86	0,71	0,82
attachment/fusion/neuraminidase	O89343	0,19	0,88	0,31	0,71
attachment/fusion	P05769	0,93	0,97	0,91	0,97
attachment/RNA encapsidation	P08617	0,86	0,82	0,86	0,90
attachment/fusion	Q69091	0,89	0,69	0,45	0,78
merged (contaminated)		0,66	0,62	0,62	0,65
mean non-contaminated		0,60	0,56	0,52	0,59
mean contaminated		0,60	0,57	0,51	0,59
median non-contaminated		0,62	0,56	0,56	0,65
median contaminated		0,55	0,59	0,51	0,63

Proteins highlighted in bold are markedly homologous or identical to sequences used for the training of the PCA19 antigenicity classifier. Values derived from those proteins are denoted as "contaminated". The last five rows compare overall (global) classification performances of concatenated (merged) proteins as well as mean and median values between individual parameters and the combined score. Note that "merged" does not mean averaged and is thus biased by the length of individual proteins.

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