# This file is the result of combining several RDB files, specifically # T0326.t06.dssp-ebghstl.rdb (weight 1.53986) # T0326.t06.stride-ebghtl.rdb (weight 1.24869) # T0326.t06.str2.rdb (weight 1.54758) # T0326.t06.alpha.rdb (weight 0.659012) # These files were combined by translating their predictions into EHL # predictions with tables generated by compare-real, and then combining # those predictions with weights proportional to their mutual information # with the EHL alphabet. The comments from the individual files follow. # # Comments from T0326.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0326 # Using neural net t04-2621-IDGaaH13-3-13-7-13-9-13-11-ebghstl-dssp-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 7 (1 EBGHSTL ) # The input amino acid frequencies were determined from # alignment T0326.t06-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 378 # # ============================================ # Comments from T0326.t06.stride-ebghtl.rdb # ============================================ # TARGET T0326 # Using neural net t04-2621-IDGaaH13-3-13-7-13-9-13-11-ebghtl-stride-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 6 (1 EBGHTL ) # The input amino acid frequencies were determined from # alignment T0326.t06-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 378 # # ============================================ # Comments from T0326.t06.str2.rdb # ============================================ # TARGET T0326 # Using neural net dunbrack-30pc-1763-t2k-thin90-IDGaaH13-3-13-7-13-9-13-11-t1c2-str2-from-empty.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 13 (1 str2 ) # The input amino acid frequencies were determined from # alignment T0326.t06-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 378 # # ============================================ # Comments from T0326.t06.alpha.rdb # ============================================ # TARGET T0326 # Using neural net t04-2621-IDGaaH13-3-13-7-13-9-13-11-alpha-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 11 (1 ABCDEFGHIST ) # The input amino acid frequencies were determined from # alignment T0326.t06-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 378 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.1001 0.0161 0.8838 2 P 0.2474 0.0132 0.7394 3 I 0.4982 0.0129 0.4889 4 N 0.6361 0.0155 0.3485 5 V 0.3069 0.0224 0.6707 6 P 0.1031 0.1362 0.7607 7 S 0.0268 0.1912 0.7820 8 G 0.0480 0.0889 0.8631 9 L 0.0806 0.0343 0.8851 10 P 0.1059 0.0873 0.8068 11 A 0.0281 0.8106 0.1612 12 V 0.0178 0.9021 0.0802 13 K 0.0180 0.9146 0.0674 14 V 0.0275 0.8998 0.0727 15 L 0.0350 0.8757 0.0893 16 A 0.0320 0.8181 0.1499 17 K 0.0187 0.7307 0.2506 18 E 0.0461 0.3123 0.6416 19 G 0.0513 0.0487 0.9000 20 I 0.2690 0.0292 0.7019 21 F 0.6942 0.0298 0.2760 22 V 0.6398 0.0618 0.2983 23 M 0.3990 0.0805 0.5205 24 T 0.1616 0.0814 0.7570 25 E 0.0164 0.8042 0.1794 26 K 0.0155 0.8085 0.1760 27 R 0.0250 0.7896 0.1854 28 A 0.0469 0.7144 0.2387 29 I 0.0388 0.6572 0.3040 30 H 0.0301 0.5686 0.4013 31 Q 0.0502 0.4075 0.5423 32 D 0.0745 0.3146 0.6109 33 I 0.1389 0.1485 0.7126 34 R 0.1343 0.0562 0.8096 35 P 0.1378 0.1205 0.7418 36 L 0.2163 0.0741 0.7096 37 E 0.7202 0.0379 0.2420 38 I 0.9010 0.0119 0.0871 39 L 0.9109 0.0112 0.0779 40 I 0.9109 0.0104 0.0787 41 L 0.8333 0.0232 0.1435 42 N 0.5454 0.0274 0.4272 43 L 0.2686 0.0445 0.6869 44 M 0.1183 0.0294 0.8523 45 P 0.0513 0.1855 0.7632 46 D 0.0278 0.3028 0.6694 47 K 0.0315 0.4577 0.5108 48 I 0.0603 0.5872 0.3525 49 K 0.0757 0.6660 0.2583 50 T 0.0572 0.7384 0.2044 51 E 0.0210 0.8850 0.0940 52 I 0.0100 0.9347 0.0554 53 Q 0.0107 0.9344 0.0549 54 L 0.0081 0.9508 0.0411 55 L 0.0074 0.9483 0.0443 56 R 0.0076 0.9374 0.0550 57 L 0.0093 0.9020 0.0887 58 L 0.0359 0.6587 0.3054 59 G 0.0311 0.2150 0.7539 60 N 0.0408 0.1033 0.8559 61 T 0.0809 0.0409 0.8782 62 P 0.0924 0.1242 0.7834 63 L 0.2215 0.1231 0.6554 64 Q 0.5431 0.0517 0.4052 65 V 0.7363 0.0196 0.2441 66 N 0.7762 0.0101 0.2137 67 V 0.8341 0.0064 0.1594 68 T 0.8721 0.0091 0.1189 69 L 0.8826 0.0082 0.1091 70 L 0.8579 0.0096 0.1325 71 Y 0.7773 0.0093 0.2134 72 T 0.4740 0.0311 0.4949 73 E 0.2206 0.0783 0.7011 74 T 0.1257 0.1099 0.7643 75 H 0.1625 0.0764 0.7611 76 K 0.1360 0.0388 0.8251 77 P 0.1022 0.1162 0.7816 78 K 0.0688 0.1405 0.7907 79 H 0.1077 0.0735 0.8188 80 T 0.1221 0.0249 0.8530 81 P 0.1419 0.0540 0.8041 82 I 0.1044 0.4911 0.4045 83 E 0.1226 0.5780 0.2994 84 H 0.2260 0.5282 0.2458 85 I 0.3377 0.4616 0.2007 86 L 0.3467 0.4480 0.2053 87 K 0.3836 0.3886 0.2278 88 F 0.3032 0.3230 0.3738 89 Y 0.2691 0.1702 0.5607 90 T 0.2731 0.1129 0.6139 91 T 0.2251 0.0906 0.6842 92 F 0.0619 0.5112 0.4269 93 S 0.0517 0.5685 0.3797 94 A 0.0734 0.5765 0.3501 95 V 0.1376 0.3268 0.5356 96 K 0.1150 0.2190 0.6660 97 D 0.0485 0.4753 0.4762 98 R 0.0391 0.3788 0.5821 99 K 0.0865 0.1978 0.7157 100 F 0.2938 0.0195 0.6867 101 D 0.2941 0.0352 0.6707 102 G 0.8946 0.0042 0.1013 103 F 0.9312 0.0033 0.0655 104 I 0.9318 0.0032 0.0650 105 I 0.8842 0.0058 0.1099 106 T 0.5279 0.0157 0.4563 107 G 0.1452 0.0245 0.8303 108 A 0.0965 0.0248 0.8787 109 P 0.1482 0.0354 0.8164 110 V 0.1477 0.1554 0.6969 111 E 0.1795 0.1803 0.6402 112 L 0.1918 0.1875 0.6206 113 L 0.1723 0.0405 0.7872 114 P 0.1037 0.0476 0.8487 115 F 0.0114 0.8200 0.1686 116 E 0.0112 0.8311 0.1577 117 E 0.0152 0.8201 0.1647 118 V 0.0374 0.6720 0.2906 119 D 0.0206 0.6309 0.3485 120 Y 0.0175 0.6921 0.2903 121 W 0.0151 0.7455 0.2393 122 E 0.0052 0.9352 0.0596 123 E 0.0049 0.9329 0.0622 124 L 0.0049 0.9525 0.0426 125 T 0.0047 0.9593 0.0360 126 E 0.0047 0.9598 0.0356 127 I 0.0047 0.9599 0.0354 128 M 0.0047 0.9594 0.0359 129 E 0.0047 0.9592 0.0361 130 W 0.0049 0.9566 0.0385 131 S 0.0054 0.9466 0.0480 132 R 0.0061 0.9206 0.0733 133 H 0.0132 0.7854 0.2014 134 N 0.0344 0.2876 0.6780 135 V 0.0567 0.0475 0.8959 136 Y 0.0966 0.0155 0.8878 137 S 0.3606 0.0207 0.6188 138 T 0.8484 0.0170 0.1346 139 M 0.8992 0.0170 0.0837 140 F 0.8697 0.0513 0.0791 141 I 0.7333 0.1512 0.1155 142 C 0.2630 0.3082 0.4289 143 W 0.0344 0.6031 0.3625 144 A 0.0048 0.9302 0.0650 145 A 0.0047 0.9560 0.0392 146 Q 0.0047 0.9598 0.0355 147 A 0.0047 0.9575 0.0378 148 G 0.0047 0.9530 0.0423 149 L 0.0048 0.9456 0.0496 150 Y 0.0053 0.9348 0.0599 151 Y 0.0087 0.9009 0.0904 152 F 0.0307 0.7284 0.2409 153 Y 0.0362 0.3104 0.6534 154 G 0.0307 0.0565 0.9129 155 I 0.1016 0.0295 0.8690 156 P 0.2073 0.0312 0.7615 157 K 0.2488 0.0912 0.6600 158 Y 0.2343 0.0936 0.6721 159 E 0.1876 0.0772 0.7351 160 L 0.1326 0.0553 0.8121 161 P 0.1318 0.1057 0.7625 162 Q 0.2430 0.1482 0.6088 163 K 0.3212 0.1459 0.5329 164 L 0.5001 0.1109 0.3890 165 S 0.5108 0.0720 0.4172 166 G 0.5421 0.0414 0.4166 167 V 0.7092 0.0313 0.2596 168 Y 0.7436 0.0202 0.2361 169 K 0.7457 0.0215 0.2328 170 H 0.7941 0.0161 0.1898 171 R 0.8551 0.0127 0.1322 172 V 0.7973 0.0170 0.1856 173 A 0.4298 0.0294 0.5408 174 K 0.1277 0.0821 0.7902 175 D 0.0590 0.0807 0.8602 176 S 0.1075 0.0905 0.8020 177 V 0.1782 0.1928 0.6290 178 L 0.3174 0.2674 0.4152 179 F 0.3149 0.2475 0.4376 180 R 0.1853 0.2011 0.6135 181 G 0.1145 0.1092 0.7762 182 H 0.1414 0.0719 0.7867 183 D 0.1235 0.1205 0.7559 184 D 0.1239 0.1444 0.7317 185 F 0.3403 0.1280 0.5316 186 F 0.6148 0.0528 0.3324 187 W 0.5923 0.0407 0.3670 188 A 0.3920 0.0279 0.5802 189 P 0.2848 0.0785 0.6367 190 H 0.2487 0.1631 0.5882 191 S 0.2214 0.1872 0.5913 192 R 0.1785 0.1927 0.6288 193 Y 0.1749 0.3355 0.4896 194 T 0.2228 0.3119 0.4653 195 E 0.3135 0.2829 0.4036 196 V 0.2915 0.2236 0.4849 197 K 0.1585 0.1768 0.6647 198 K 0.0196 0.6906 0.2898 199 E 0.0149 0.7211 0.2640 200 D 0.0254 0.7512 0.2234 201 I 0.0463 0.7372 0.2165 202 D 0.0291 0.6764 0.2945 203 K 0.0456 0.4989 0.4555 204 V 0.0844 0.0695 0.8461 205 P 0.0262 0.1577 0.8161 206 E 0.0555 0.0902 0.8543 207 L 0.3264 0.0407 0.6329 208 E 0.6826 0.0283 0.2891 209 I 0.8656 0.0192 0.1152 210 L 0.8415 0.0256 0.1330 211 A 0.7706 0.0241 0.2053 212 E 0.6111 0.0264 0.3625 213 S 0.2335 0.0166 0.7499 214 D 0.0269 0.1273 0.8458 215 E 0.0274 0.0889 0.8837 216 A 0.1343 0.0539 0.8118 217 G 0.3861 0.0293 0.5846 218 V 0.8116 0.0137 0.1747 219 Y 0.8766 0.0235 0.0998 220 V 0.9085 0.0161 0.0755 221 V 0.9169 0.0089 0.0742 222 A 0.8931 0.0133 0.0936 223 N 0.7206 0.0180 0.2614 224 K 0.1073 0.1181 0.7746 225 S 0.0471 0.0749 0.8780 226 E 0.1055 0.0437 0.8508 227 R 0.3398 0.0205 0.6397 228 Q 0.8670 0.0061 0.1269 229 I 0.9165 0.0043 0.0793 230 F 0.9216 0.0048 0.0736 231 V 0.9024 0.0057 0.0919 232 T 0.7036 0.0224 0.2740 233 G 0.3120 0.0219 0.6661 234 H 0.1368 0.0341 0.8291 235 P 0.0673 0.2509 0.6817 236 E 0.0724 0.3036 0.6240 237 Y 0.1064 0.2190 0.6746 238 D 0.0944 0.1364 0.7692 239 R 0.0079 0.8501 0.1420 240 Y 0.0073 0.8871 0.1056 241 T 0.0070 0.9023 0.0907 242 L 0.0085 0.9140 0.0774 243 R 0.0068 0.9274 0.0658 244 D 0.0068 0.9337 0.0594 245 E 0.0074 0.9349 0.0577 246 Y 0.0077 0.9324 0.0598 247 Y 0.0087 0.9304 0.0609 248 R 0.0082 0.9278 0.0640 249 D 0.0101 0.9057 0.0842 250 I 0.0152 0.8558 0.1290 251 G 0.0171 0.6855 0.2974 252 R 0.0414 0.4691 0.4895 253 N 0.0462 0.2304 0.7234 254 L 0.0915 0.1063 0.8021 255 K 0.1149 0.0502 0.8349 256 V 0.1036 0.0199 0.8765 257 P 0.1207 0.0195 0.8597 258 I 0.1355 0.0233 0.8412 259 P 0.1011 0.0741 0.8248 260 A 0.0568 0.4272 0.5160 261 N 0.0941 0.3353 0.5706 262 Y 0.1525 0.2234 0.6241 263 F 0.1114 0.0467 0.8419 264 P 0.0600 0.1306 0.8095 265 N 0.0620 0.1187 0.8193 266 D 0.0768 0.1071 0.8161 267 D 0.1002 0.0376 0.8623 268 P 0.0187 0.2803 0.7009 269 T 0.0257 0.2307 0.7436 270 K 0.0654 0.1903 0.7443 271 T 0.0803 0.0557 0.8640 272 P 0.1022 0.1273 0.7705 273 I 0.2346 0.2232 0.5422 274 L 0.2795 0.2539 0.4666 275 T 0.2143 0.3291 0.4565 276 W 0.0714 0.7577 0.1709 277 W 0.0386 0.8012 0.1602 278 S 0.0261 0.8220 0.1519 279 H 0.0086 0.9118 0.0796 280 A 0.0059 0.9328 0.0613 281 H 0.0053 0.9299 0.0648 282 L 0.0056 0.9294 0.0650 283 F 0.0061 0.9239 0.0699 284 F 0.0072 0.9259 0.0669 285 S 0.0085 0.9076 0.0840 286 N 0.0102 0.8928 0.0970 287 W 0.0084 0.9176 0.0740 288 L 0.0142 0.9167 0.0691 289 N 0.0189 0.8993 0.0817 290 Y 0.0648 0.8428 0.0925 291 C 0.1166 0.7795 0.1039 292 I 0.1961 0.6660 0.1379 293 Y 0.3083 0.4949 0.1968 294 Q 0.3944 0.2717 0.3338 295 K 0.3079 0.1760 0.5162 296 T 0.1815 0.0308 0.7878 297 P 0.1593 0.0945 0.7461 298 Y 0.2069 0.0682 0.7249 299 R 0.1902 0.0728 0.7371 300 L 0.0166 0.7972 0.1862 301 E 0.0119 0.8093 0.1788 302 D 0.0191 0.7379 0.2430 303 I 0.1234 0.2944 0.5822 304 H 0.0563 0.1286 0.8151