|
|
Target |
Length |
Model_1 |
Model_2 |
Model_3 |
Model_4 |
Model_5 |
Method |
|
1 |
T0283 |
112 |
GA |
MC |
MC |
GA |
MC |
GA: Genetic Algorithm Fragment Assembly, MC: Multicanonical ensemble Fragment
Assembly |
|
2 |
T0284 |
287 |
CM |
CM |
CM |
CM |
CM |
CM: Comparative Modeling |
|
3 |
T0285 |
125 |
MC |
MC |
MC |
MC |
MC |
|
|
4 |
T0286 |
205 |
CM |
CM |
CM |
CM |
CM |
|
|
5 |
T0287 |
199 |
MC |
MC |
MC |
GA |
GA |
|
|
6 |
T0288 |
93 |
CM |
CM |
CM |
CM |
CM |
|
|
7 |
T0289 |
312 |
CM |
CM |
CM |
|
|
|
|
8 |
T0290 |
173 |
CM |
CM |
CM |
CM |
CM |
|
|
9 |
T0291 |
310 |
CM |
CM |
CM |
CM |
CM |
|
|
10 |
T0292 |
277 |
CM |
CM |
CM |
CM |
CM |
|
|
11 |
T0293 |
250 |
CM |
CM |
CM |
CM |
CM |
|
|
12 |
T0296 |
445 |
MC+GA |
MC+GA |
MC+GA |
MC+MC |
MC+MC |
1st domain: 1-186, 2nd domain: 206-445, domain docking by GA |
|
13 |
T0298 |
336 |
CM |
CM |
CM |
CM |
CM |
|
|
14 |
T0299 |
180 |
MC+GA |
MC+GA |
MC+GA |
MC |
MC |
For Model_1-3, GA(1-100) and MC(101-180, Model_4) are docked.
GA partially reassembles these initial models |
|
15 |
T0300 |
102 |
GA |
GA |
GA |
GA |
MC |
After selecting five models, symmetric dimers are predicted by
ZDOCK softwear |
|
16 |
T0301 |
395 |
CM |
CM |
CM |
CM |
CM |
|
|
17 |
T0302 |
132 |
CM |
CM |
CM |
CM |
CM |
|
|
18 |
T0303 |
224 |
CM |
CM |
CM |
CM |
CM |
|
|
19 |
T0304 |
122 |
MC |
MC |
MC |
GA |
GA |
Model_5 is reassembled by GA within sequence 18-56 (submitted
model_5 was not fully sampled at all) |
|
20 |
T0305 |
297 |
CM |
CM |
CM |
CM |
CM |
|
|
21 |
T0306 |
95 |
MC |
MC |
MC |
GA |
GA |
|
|
22 |
T0307 |
133 |
MC |
GA |
MC |
GA |
GA |
|
|
23 |
T0308 |
165 |
CM |
CM |
CM |
CM |
CM |
|
|
24 |
T0309 |
76 |
MC |
MC |
GA |
GA |
MC |
|
|
25 |
T0310 |
425 |
CM |
CM |
CM |
CM |
CM |
|
|
26 |
T0311 |
97 |
CM+GA |
CM+GA |
CM+GA |
CM+GA |
CM+GA |
After modeling a structure for seq. 1-59 using a template, GA
partially assembles seq. 1-10, 60-97 with full length structure |
|
27 |
T0312 |
146 |
CM |
MC |
MC |
MC |
MC |
Mixture submission of CM (Comparative Modeling) and
FA(Fragment Assembly) |
|
28 |
T0313 |
322 |
CM |
CM |
CM |
CM |
CM |
|
|
29 |
T0314 |
106 |
MC |
MC |
MC |
MC |
MC |
|
|
30 |
T0315 |
257 |
CM |
CM |
CM |
CM |
CM |
|
|
31 |
T0316 |
373 |
CM |
CM |
|
|
|
|
32 |
T0317 |
163 |
CM |
CM |
CM |
|
|
|
|
33 |
T0318 |
491 |
CM |
CM |
CM |
CM |
CM |
|
|
34 |
T0319 |
135 |
MC |
MC |
MC |
MC |
MC |
|
|
35 |
T0320 |
306 |
CM+GA |
CM+GA |
|
|
|
1st domain: 1-195(CM), 2nd domain: 196-306(GA), Modeller joins
these two domains |
|
36 |
T0321 |
251 |
CM+GA |
CM+GA |
CM+GA |
CM+GA |
CM+GA |
After modeling a structure for seq. 121-251 using a template,
GA partially assembles seq. 1-125 and 200-251with full length structure |
|
37 |
T0322 |
157 |
CM |
CM |
CM |
CM |
CM |
|
|
38 |
T0323 |
221 |
CM |
CM |
CM |
CM |
CM |
|
|
39 |
T0324 |
208 |
CM |
CM |
CM |
CM |
CM |
|
|
40 |
T0325 |
262 |
CM |
CM |
CM |
CM |
CM |
|
|
41 |
T0326 |
304 |
CM |
CM |
CM |
CM |
CM |
|
|
42 |
T0327 |
102 |
MC |
MC |
MC |
MC |
MC |
|
|
43 |
T0328 |
311 |
CM |
CM |
CM |
CM |
CM |
|
|
44 |
T0329 |
239 |
CM |
CM |
CM |
CM |
CM |
|
|
45 |
T0330 |
233 |
CM |
CM |
CM |
CM |
CM |
|
|
46 |
T0331 |
149 |
CM |
CM |
CM |
CM |
CM |
|
|
47 |
T0332 |
159 |
CM |
CM |
CM |
CM |
CM |
|
|
48 |
T0333 |
376 |
CM |
CM |
CM |
CM |
CM |
|
|
49 |
T0334 |
530 |
CM |
CM |
CM |
CM |
CM |
|
|
50 |
T0335 |
85 |
GA |
GA |
GA |
GA |
GA |
|
|
51 |
T0338 |
256 |
CM |
CM |
CM |
CM |
CM |
|
|
52 |
T0339 |
416 |
CM |
CM |
CM |
CM |
CM |
|
|
53 |
T0340 |
90 |
CM |
CM |
CM |
CM |
CM |
|
|
54 |
T0341 |
259 |
CM |
CM |
CM |
CM |
CM |
|
|
55 |
T0342 |
188 |
CM+GA |
CM+GA |
CM+GA |
CM+GA |
CM+GA |
After modeling a template-based structure, GA partially
assembles seq. 1-18 and 146-188 with full length structure |
|
56 |
T0343 |
104 |
MC |
MC |
GA |
GA |
MC |
|
|
57 |
T0344 |
229 |
CM+GA |
CM+GA |
CM+GA |
CM+GA |
CM+GA |
After modeling a template-based structure, GA partially
assembles seq. 168-229 with full length structure |
|
58 |
T0345 |
185 |
CM |
CM |
CM |
CM |
CM |
|
|
59 |
T0346 |
172 |
CM |
CM |
CM |
CM |
CM |
|
|
60 |
T0347 |
205 |
CM+GA |
CM+GA |
MC |
MC |
MC |
GA partially assembles a template-based model within seq. 1-10
and 89-205 by using full length structure |
|
61 |
T0348 |
68 |
GA |
GA |
GA |
GA |
GA |
|
|
62 |
T0349 |
75 |
CM |
GA |
GA |
GA |
GA |
Mixture submission of CM and FA, CM predicted Model_1 with a
SSE modification regarding to SAM-T02 result |
|
63 |
T0350 |
117 |
MC |
MC |
MC |
MC |
MC |
|
|
64 |
T0351 |
117 |
GA |
GA |
GA |
GA |
GA |
|
|
65 |
T0352 |
117 |
GA |
GA |
GA |
GA |
GA |
|
|
66 |
T0353 |
85 |
MC |
MC |
MC |
MC |
MC |
|
|
67 |
T0354 |
130 |
MC |
MC |
MC |
MC |
MC |
|
|
68 |
T0355 |
288 |
CM |
CM |
CM |
CM |
CM |
|
|
69 |
T0356 |
505 |
CM |
CM+GA |
CM+GA |
CM+GA |
CM |
GA partially assembles a template-based model within seq.
414-505 by using full length structure |
|
70 |
T0357 |
141 |
CM |
CM |
CM |
CM |
CM |
|
|
71 |
T0358 |
87 |
GA |
GA |
GA |
GA |
GA |
|
|
72 |
T0359 |
97 |
CM |
CM |
CM |
CM |
CM |
|
|
73 |
T0360 |
141 |
CM |
CM |
CM |
CM |
CM |
|
|
74 |
T0361 |
169 |
CM |
GA |
GA |
GA |
GA |
Mixture submission of CM and FA |
|
75 |
T0362 |
151 |
CM |
CM |
CM |
CM |
CM |
|
|
76 |
T0363 |
97 |
CM |
MC |
MC |
MC |
MC |
Mixture submission of CM and FA |
|
77 |
T0364 |
156 |
CM |
CM |
CM |
|
|
|
|
78 |
T0365 |
226 |
CM |
CM |
CM |
CM |
CM |
|
|
79 |
T0366 |
106 |
CM |
CM |
CM |
CM |
CM |
|
|
80 |
T0367 |
125 |
CM |
CM |
CM |
CM |
CM |
|
|
81 |
T0368 |
174 |
CM |
CM |
CM |
CM |
CM |
|
|
82 |
T0369 |
148 |
CM |
CM |
CM |
CM |
CM |
|
|
83 |
T0370 |
154 |
CM |
CM |
CM |
CM |
CM |
|
|
84 |
T0371 |
283 |
CM |
CM |
CM |
|
|
|
|
85 |
T0372 |
305 |
CM |
CM |
CM |
CM |
CM |
|
|
86 |
T0373 |
147 |
CM |
CM |
CM |
CM |
CM |
|
|
87 |
T0374 |
160 |
CM |
CM |
CM |
CM |
CM |
|
|
88 |
T0375 |
296 |
CM |
CM |
CM |
CM |
CM |
|
|
89 |
T0376 |
321 |
CM |
CM |
CM |
CM |
CM |
|
|
90 |
T0378 |
254 |
CM |
CM |
CM |
CM |
CM |
|
|
91 |
T0379 |
208 |
CM |
CM |
CM |
CM |
CM |
|
|
92 |
T0380 |
145 |
CM |
CM |
CM |
CM |
CM |
|
|
93 |
T0381 |
265 |
CM |
CM |
CM |
CM |
CM |
|
|
94 |
T0382 |
123 |
MC |
MC |
GA |
GA |
GA |
Model_1 is highly similar to 1kps_B |
|
95 |
T0383 |
127 |
CM |
GA |
GA |
MC |
MC |
Mixture submission of CM and FA |
|
96 |
T0384 |
325 |
CM |
CM |
CM |
CM |
CM |
|
|
97 |
T0385 |
162 |
CM |
CM |
CM |
CM |
CM |
|
|
98 |
T0386 |
299 |
CM+GA |
CM+GA |
CM+GA |
CM+GA |
CM+GA |
GA partially assembles a template-based model within seq. 1-40
and 235-299 by using full length structure |
|
|
|
|
|
|
|
|
|
|
| Method |
Model_1 |
Model_2 |
Model_3 |
Model_4 |
Model_5 |
|
| CM |
|
68 |
62 |
61 |
57 |
58 |
|
| FA |
MC |
14 |
16 |
15 |
12 |
16 |
|
| GA |
7 |
10 |
12 |
16 |
12 |
|
| Combination |
CM+GA |
7 |
8 |
6 |
6 |
5 |
|
|
MC+MC |
0 |
0 |
0 |
1 |
1 |
|
| |
|
MC+GA |
2 |
2 |
2 |
0 |
0 |
|
| Total |
98 |
98 |
96 |
92 |
92 |
|
|
|
|
|
|
|
|
|
| Comment |
|
|
|
|
| Total number of valid CASP7 targets is
100. |
|
|
| ROKKO has submitted 98 targets (T0295
and T0297 were not
submitted) |
|
|
| Mixture submissions of Template-based
and Template-free models are T0312, T0356, T0361, T0363,
T0383 |
| Oligomer submission is T0300 |
|
|
| Multi-domain predictions following
domain parse and monomer modeling are T0296, T320, T0356 |
|
| MC used fragment libraries (200
fragments per site) built by profile-profile correlation of FRET server
(ROKKY-F) |
| GA used fragment libraries (over 200
fragments per site, using certain SSP result for some targets) built by
multi-objective selection of FRET server |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| Team
ROKKO (CASP7) ( Sung-Joon Park, Naoto Hori, Kei-ichi
Okazaki, Shoji Takada) |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|