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GPI Lipid Anchor Project Sequence analysis of GPI-anchored proteins on the proprotein level Prediction of potential GPI-modification sites in proprotein sequences Big-PI predictor Occurence of potentially GPI modified proteins in complete genomes Prediction of GPI lipid anchors in plants Big-PI Plant Predictor Prediction of GPI lipid anchors in fungi Big-PI Fungal Predictor

Comparison: Application of the big-PI fungal predictor on the S.cerevisiae protein list created by de Groot et al., Yeast. 2003 Jul 15;20(9):781-96

Contact:
Birgit Eisenhaber (IMP/Austria)
Georg Schneider (IMP/Austria)
Michael Wildpaner (IMP/Austria)
Frank Eisenhaber (IMP/Austria)

Summary Table:

	Prediction Quality	Rate	Percentage
	1:P	48/66	72.72%
	1:S	4/66	6.06%
	1:S (Positive Total Score)	3/66	4.54%
	1:S (Negative Total Score)	1/66	1.52%
	1:I	13/66	19.70%
	1:N	1/66	1.52%
	Not Predicted	15/66	22.74%
	Predicted	51/66	77.26%

Reasons for not predicted proteins are detailed below

N		ID	Length	Prediction Quality	Site	Profile Score	Function Score	Total Score	PValue
1		YAL063C	1322	1:P	1299	16.34	-5.97	10.37	3.562914e-05
2		YAR050W	1537	1:P	1514	16.34	-5.97	10.37	3.562914e-05
3		YAR066W	203	1:I	184	13.14	-13.86	-0.72	8.986647e-04
4		YBR067C	210	1:P	186	20.05	-0.43	19.62	7.750742e-07
5		YBR078W	468	1:I	444	-9.93	-50.53	-60.46	4.002212e-01
6		YCL048W	463	1:P	440	15.12	-1.24	13.88	9.585261e-06
7		YCR089W	1609	1:P	1588	14.61	-4.38	10.23	3.746978e-05
8		YDR055W	444	1:P	419	18.03	-3.65	14.38	7.870454e-06
9		YDR077W	338	1:P	318	19.28	-1.80	17.48	2.095550e-06
10		YDR134C	136	1:P	115	19.52	-2.27	17.25	2.323900e-06
11		YDR261C	562	1:I	539	3.07	-22.70	-19.63	2.424033e-02
12		YDR534C	528	1:P	506	18.84	-0.29	18.55	1.286022e-06
13		YEL040W	467	1:P	445	16.55	-0.58	15.97	4.065408e-06
14		YER011W	254	1:P	233	17.71	-0.79	16.92	2.690687e-06
15		YER150W	148	1:P	127	20.06	-1.05	19.01	1.034709e-06
16		YGL228W	577	1:I	560	-2.34	-21.35	-23.69	3.872450e-02
17		YGR189C	507	1:P	482	14.84	-2.56	12.28	1.779857e-05
18		YHR126C	159	1:P	137	17.08	-0.57	16.51	3.220714e-06
19		YHR143W	325	1:S	308	2.85	-4.32	-1.47	1.073079e-03
20		YHR204W	796	1:I	779	-10.98	-17.19	-28.17	6.055387e-02

N		ID	Length	Prediction Quality	Site	Profile Score	Function Score	Total Score	PValue
21		YHR211W	1075	1:P	1052	16.34	-5.97	10.37	3.562914e-05
22		YHR214W	203	1:I	184	13.14	-13.86	-0.72	8.986647e-04
23		YIL011W	269	1:P	245	19.43	-0.96	18.47	1.333957e-06
24		YIR019C	1367	1:P	1346	13.57	-3.00	10.57	3.324204e-05
25		YIR039C	537	1:P	515	13.80	-2.78	11.02	2.831236e-05
26		YJL078C	881	1:P	853	15.07	-2.40	12.67	1.536207e-05
27		YJR004C	650	1:P	627	9.35	-6.18	3.17	3.330099e-04
28		YJR150C	298	1:P	275	20.07	-0.58	19.49	8.231140e-07
29		YJR151C	1161	1:P	1137	18.18	-1.34	16.84	2.781958e-06
30		YJR153W	361	1:I	343	5.09	-57.52	-52.43	2.922627e-01
31		YKL046C	449	1:P	428	12.98	-8.96	4.02	2.633158e-04
32		YKL096W	239	1:P	218	14.41	-0.06	14.35	7.943714e-06
33		YKL096W-A	92	1:P	71	18.86	-1.24	17.62	1.969735e-06
34		YKR073C	106	1:I	81	-7.72	-16.08	-23.80	3.918536e-02
35		YKR102W	1169	1:I	1135	6.16	-21.09	-14.93	1.292145e-02
36		YLR040C	224	1:P	203	14.67	-1.39	13.28	1.213639e-05
37		YLR110C	133	1:P	112	19.02	-1.27	17.75	1.855228e-06
38		YLR120C	569	1:S	548	8.90	-8.25	0.65	6.441821e-04
39		YLR121C	508	1:P	483	16.42	-1.63	14.79	6.638689e-06
40		YLR194C	254	1:P	232	17.55	-0.25	17.30	2.270712e-06

N		ID	Length	Prediction Quality	Site	Profile Score	Function Score	Total Score	PValue
41		YLR343W	555	1:S	531	6.49	-4.97	1.52	5.167992e-04
42		YLR390W-A	238	1:P	217	16.59	-1.95	14.64	7.055745e-06
43		YMR006C	706	1:P	681	16.44	-0.05	16.39	3.383570e-06
44		YMR008C	664	1:P	634	12.83	-2.99	9.84	4.279396e-05
45		YMR103C	120	1:I	102	4.63	-20.56	-15.93	1.490886e-02
46		YMR158W-B	106	1:I	91	3.50	-36.11	-32.61	8.885783e-02
47		YMR200W	256	1:P	235	12.41	-4.24	8.17	7.496052e-05
48		YMR215W	524	1:P	492	16.42	-0.28	16.14	3.768587e-06
49		YMR238W	458	1:P	437	12.65	-10.02	2.63	3.854745e-04
50		YMR251W-A	59	1:P	30	17.74	-5.36	12.38	1.712620e-05
51		YMR307W	559	1:P	528	17.09	-3.35	13.74	1.012428e-05
52		YNL190W	204	1:P	174	14.85	-1.44	13.41	1.153841e-05
53		YNL300W	102	1:P	80	15.37	-1.10	14.27	8.208180e-06
54		YNL322C	313	1:I	288	8.30	-10.69	-2.39	1.322547e-03
55		YNL327W	1041	1:P	1020	17.26	-0.98	16.28	3.554759e-06
56		YNR044W	725	1:P	700	12.82	-4.61	8.21	7.395845e-05
57		YNR067C	1117	1:I	1099	3.29	-8.46	-5.17	2.400528e-03
58		YOL011W	686	1:P	659	15.86	-3.41	12.45	1.667253e-05
59		YOL052C-A	61	1:P	31	16.53	-1.03	15.50	4.954383e-06
60		YOL132W	471	1:S	447	10.07	-8.40	1.67	4.963281e-04

N		ID	Length	Prediction Quality	Site	Profile Score	Function Score	Total Score	PValue
61		YOL154W	249	1:N	217	-2.48	-19.09	-21.57	3.054983e-02
62		YOL155C	967	1:P	946	7.68	-5.02	2.66	3.832043e-04
63		YOR009W	487	1:P	465	18.83	-2.32	16.51	3.219705e-06
64		YOR010C	251	1:P	231	16.26	-0.94	15.32	5.346892e-06
65		YOR382W	153	1:P	129	21.12	0.00	21.12	3.681945e-07
66		YOR383C	204	1:P	182	19.65	-0.36	19.29	9.063640e-07

15 proteins described in the paper have not been predicted as suitable candidates for GPI anchoring:

1. We could not detect a suitable omega-site for 6 proteins:

YDR261C
YGL228W
YHR204W
YKR073C
YNL322C
YNR067C


2. 5 proteins lack an appropriately constructed hydrophobic tail:

YAR066W
YHR143W
YHR214W
YJR153W
YMR103C


3. For 1 protein the GPI motif length is out of the interval [17..32] AAs:

YKR102W


4. 3 sequences are non-compatible with our prediction function at all:

YBR078W (*) A corrected sequence for this ORF was given in Hamada et al., 1999, see entry EC33_YEAST in the learning set. After this correction the sequence would be predicted as suitable candidate for GPI anchoring.
YMR158W-B
YOL154W

Last modified: 22nd September 2003