GPI Lipid Anchor Project |
Origin of information on GPI-modification sites
Annotated proteins with known GPI-modification carry the keyword "GPI-anchor" and the token "FT LIPID" in SWISS-PROT.
Annotated entries from SWISS-NEW (27th of Jan. 1999) |
9 |
9 |
||
Annotated entries from SWISS-PROT (rel. 36) |
179 |
|||
|
7 |
|||
|
4 |
|||
|
1 |
|||
|
167 |
|||
Non-annotated entries but full information in literature (CAH4_HUMAN, Okuyama et al., Arch. Biochem. Biophys., 1995, 10, 315-322) |
1 |
|||
Total number of entries |
177 |
This set of 177 entries contains information on 126 metazoan sequences, 40 protozoan sequences, one viral sequence and 10 fungal sequences. The omega-sites for ACES_TORMA and ACES_TORCA have been edited in accordance with new literature data (Bucht and Hjalmarsson, BBA, 1996, 1292, 223-232).
Comments to protozoan entries
Four protozoan sequences attracted attention as a result of their deviating propeptide length and other strange sequence properties. In all four cases, the omega-site annotated in the database was not verified experimentally. Two entries (GP46_LEIAM, GP63_LEIGU) were deleted due to their extreme propeptide length (>31 residues) and the absence of an obviously reasonable alternative omega-site. In two entries with extremely short propeptide (<16 residues), the omega-site was edited in accordance with homology considerations and/or an expert sequence property analysis. The final learning set for protozoa consists of 38 sequences.
entry |
Sequence length |
annotated site in SWISS-PROT |
new site |
MSA1_SARMU |
280 |
264 |
256 |
PAG1_TRYBB |
405 |
396 |
391 |
Comments to metazoan entries
Out of the original set of 126 entries, 6 were deleted due to extreme propeptide length and the absence of an alternative omega-site. For another 21 sequences, the site has been edited in accordance with homology considerations and/or an expert sequence property analysis. In all 27 cases, the omega-site was not validated with an adequate experimental method. Thus, the final learning set contained 120 sequences.
List of deleted entries with extreme propeptide length (totally 6 entries)
Entry |
motiv length |
GDNR_CHICK |
>31 |
GDNR_HUMAN |
>31 |
GDNR_MOUSE |
>31 |
GDNR_RAT |
>31 |
GP42_RAT |
<17 |
VCA1_MOUSE |
<17 |
List of entries with extreme propeptide length for which an alternative site was assigned (totally 10 entries)
entry |
sequence length |
annotated site in SWISS-PROT |
New site |
LY6A_MOUSE |
134 |
119 |
112 |
LY6C_MOUSE |
131 |
116 |
109 |
LY6E_MOUSE |
136 |
121 |
108 |
LY6F_MOUSE |
134 |
119 |
112 |
LY6G_MOUSE |
111 |
96 |
89 |
HYA1_CAVPO |
529 |
492 |
499 |
BST1_MOUSE |
311 |
279 |
286 |
BST1_RAT |
319 |
287 |
294 |
CNTR_HUMAN |
372 |
336 |
342 |
CNTR_RAT |
372 |
336 |
342 |
List of entries with normal propeptide length for which an alternative site was assigned (totally 11 entries)
entry |
sequence length |
annotated site in SWISS-PROT |
strange amino acid at omega-site or homologous sequence |
new site
|
NRTR_MOUSE |
463 |
443 |
NRTR_CHICK |
444 |
PRIO_MOUSE |
254 |
230 |
PRIO_RAT |
231 |
TREA_HUMAN |
583 |
559 |
K |
556 |
TREA_RABIT |
578 |
558 |
Q |
555 |
BST1_HUMAN |
318 |
300 |
Q |
293 |
CNTR_CHICK |
362 |
334 |
CNTR_HUMAN |
341 |
CD24_RAT |
76 |
56 |
CD24_HUMAN |
55 |
CD24_MOUSE |
76 |
53 |
CD24_HUMAN |
55 |
CD59_PIG |
123 |
97 |
K |
99 |
CONN_DROME |
682 |
665 |
Q |
658 |
NRTR_HUMAN |
464 |
444 |
P at -1, R at +1 |
440 |
Last modified: 12th June 2000