# This file is the result of combining several RDB files, specifically # T0195.t04.dssp-ebghstl.rdb (weight 1.53986) # T0195.t04.stride-ebghtl.rdb (weight 1.24869) # T0195.t04.str2.rdb (weight 1.54758) # T0195.t04.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 T0195.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0195 # 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 T0195.t04-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 2175 # # ============================================ # Comments from T0195.t04.stride-ebghtl.rdb # ============================================ # TARGET T0195 # 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 T0195.t04-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 2175 # # ============================================ # Comments from T0195.t04.str2.rdb # ============================================ # TARGET T0195 # Using neural net t04-2621-IDGaaH13-3-13-7-13-9-13-11-str2-seeded.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 T0195.t04-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 2175 # # ============================================ # Comments from T0195.t04.alpha.rdb # ============================================ # TARGET T0195 # 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 T0195.t04-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 2175 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.1031 0.0496 0.8474 2 K 0.1995 0.0717 0.7288 3 V 0.2657 0.1092 0.6251 4 V 0.1989 0.1819 0.6192 5 K 0.2113 0.2429 0.5458 6 E 0.2140 0.2595 0.5265 7 F 0.2513 0.2104 0.5383 8 S 0.2393 0.1882 0.5725 9 V 0.1994 0.2006 0.6001 10 C 0.1611 0.1325 0.7063 11 G 0.1073 0.0760 0.8168 12 G 0.1717 0.0382 0.7901 13 R 0.4272 0.0257 0.5472 14 L 0.7605 0.0144 0.2251 15 I 0.8488 0.0081 0.1431 16 K 0.8896 0.0068 0.1036 17 L 0.8442 0.0088 0.1470 18 S 0.7788 0.0105 0.2107 19 H 0.6125 0.0175 0.3700 20 N 0.4453 0.0275 0.5273 21 S 0.3315 0.0410 0.6275 22 N 0.1810 0.0907 0.7284 23 S 0.1529 0.1179 0.7292 24 T 0.1533 0.0746 0.7721 25 K 0.1048 0.0629 0.8323 26 T 0.2904 0.0300 0.6796 27 S 0.6783 0.0121 0.3096 28 M 0.8289 0.0055 0.1656 29 N 0.8722 0.0039 0.1239 30 V 0.9008 0.0040 0.0952 31 N 0.9176 0.0040 0.0784 32 I 0.9131 0.0043 0.0825 33 Y 0.8790 0.0055 0.1155 34 L 0.6556 0.0079 0.3365 35 P 0.2620 0.0170 0.7209 36 K 0.0741 0.1879 0.7379 37 H 0.0645 0.2173 0.7182 38 Y 0.0965 0.2709 0.6326 39 Y 0.1277 0.1966 0.6757 40 A 0.1065 0.2734 0.6201 41 Q 0.0746 0.2252 0.7002 42 D 0.0892 0.1729 0.7379 43 F 0.0923 0.0574 0.8503 44 P 0.0519 0.1299 0.8182 45 R 0.0420 0.2089 0.7491 46 N 0.0424 0.2141 0.7436 47 K 0.0718 0.1256 0.8026 48 R 0.1235 0.0450 0.8316 49 I 0.1737 0.0108 0.8155 50 P 0.3619 0.0058 0.6323 51 T 0.9092 0.0036 0.0872 52 V 0.9337 0.0032 0.0631 53 F 0.9333 0.0033 0.0634 54 Y 0.9288 0.0036 0.0677 55 L 0.8639 0.0070 0.1292 56 S 0.4686 0.0170 0.5144 57 G 0.1721 0.0334 0.7945 58 L 0.1325 0.0668 0.8007 59 T 0.1154 0.0888 0.7958 60 C 0.1210 0.0717 0.8073 61 T 0.0798 0.0314 0.8888 62 P 0.0253 0.2257 0.7490 63 D 0.0350 0.1963 0.7686 64 N 0.0681 0.2228 0.7091 65 A 0.0224 0.6727 0.3050 66 S 0.0272 0.6982 0.2746 67 E 0.0314 0.7226 0.2460 68 K 0.0326 0.7439 0.2235 69 A 0.0334 0.7808 0.1859 70 F 0.0209 0.8409 0.1382 71 W 0.0193 0.8855 0.0953 72 Q 0.0188 0.9080 0.0731 73 F 0.0146 0.9180 0.0674 74 Q 0.0134 0.9251 0.0614 75 A 0.0107 0.9265 0.0628 76 D 0.0073 0.9073 0.0854 77 K 0.0113 0.7917 0.1970 78 Y 0.0519 0.2058 0.7423 79 G 0.0582 0.0144 0.9273 80 F 0.3386 0.0071 0.6543 81 A 0.8991 0.0040 0.0969 82 I 0.9268 0.0033 0.0699 83 V 0.9000 0.0085 0.0915 84 F 0.7890 0.0062 0.2048 85 P 0.3546 0.0297 0.6157 86 D 0.1724 0.0271 0.8005 87 T 0.1183 0.0348 0.8469 88 S 0.0908 0.0271 0.8821 89 P 0.0976 0.0913 0.8111 90 R 0.1130 0.0903 0.7967 91 G 0.1041 0.0935 0.8025 92 D 0.0902 0.1303 0.7796 93 E 0.1208 0.1514 0.7278 94 V 0.1266 0.1406 0.7328 95 A 0.1105 0.1329 0.7566 96 N 0.1133 0.1057 0.7810 97 D 0.1135 0.0627 0.8238 98 P 0.0828 0.0966 0.8206 99 E 0.0827 0.1217 0.7957 100 G 0.1232 0.1117 0.7651 101 S 0.1575 0.1161 0.7264 102 W 0.1729 0.1057 0.7214 103 D 0.1909 0.0821 0.7270 104 F 0.1119 0.1213 0.7668 105 G 0.1001 0.1033 0.7966 106 Q 0.1278 0.1152 0.7570 107 G 0.1201 0.1164 0.7635 108 A 0.1197 0.1797 0.7006 109 G 0.1351 0.2218 0.6430 110 F 0.1762 0.2567 0.5671 111 Y 0.1870 0.2278 0.5852 112 L 0.1655 0.2310 0.6034 113 N 0.1097 0.1989 0.6914 114 A 0.0751 0.2411 0.6839 115 T 0.0660 0.2494 0.6846 116 Q 0.0636 0.2143 0.7221 117 E 0.0721 0.0950 0.8329 118 P 0.0634 0.2109 0.7256 119 Y 0.0830 0.2533 0.6637 120 A 0.0691 0.3631 0.5678 121 Q 0.0583 0.3898 0.5518 122 H 0.0756 0.3983 0.5261 123 Y 0.0856 0.4320 0.4824 124 Q 0.0860 0.4787 0.4353 125 M 0.0146 0.8868 0.0987 126 Y 0.0112 0.9244 0.0644 127 D 0.0068 0.9442 0.0490 128 Y 0.0054 0.9541 0.0406 129 I 0.0048 0.9520 0.0431 130 H 0.0049 0.9473 0.0478 131 K 0.0050 0.9105 0.0845 132 E 0.0059 0.8679 0.1262 133 L 0.0054 0.9094 0.0851 134 P 0.0049 0.9479 0.0472 135 Q 0.0047 0.9576 0.0377 136 T 0.0047 0.9583 0.0370 137 L 0.0048 0.9513 0.0439 138 D 0.0050 0.9355 0.0595 139 S 0.0072 0.8699 0.1229 140 H 0.0175 0.6498 0.3327 141 F 0.0551 0.3032 0.6417 142 N 0.0479 0.1571 0.7950 143 K 0.0741 0.1479 0.7780 144 N 0.0793 0.0607 0.8600 145 G 0.0215 0.4438 0.5346 146 D 0.0360 0.4929 0.4711 147 V 0.0759 0.4232 0.5009 148 K 0.0917 0.3364 0.5719 149 L 0.0762 0.5134 0.4104 150 D 0.0994 0.4559 0.4447 151 F 0.1165 0.3651 0.5184 152 L 0.1645 0.2569 0.5785 153 D 0.1181 0.2021 0.6798 154 N 0.2914 0.1064 0.6022 155 V 0.7647 0.0221 0.2132 156 A 0.8958 0.0095 0.0947 157 I 0.8942 0.0102 0.0957 158 T 0.7569 0.0386 0.2045 159 G 0.3963 0.0517 0.5519 160 H 0.1793 0.1118 0.7089 161 S 0.1044 0.2058 0.6897 162 M 0.0419 0.5167 0.4414 163 G 0.0158 0.7861 0.1981 164 G 0.0050 0.9419 0.0531 165 Y 0.0048 0.9557 0.0395 166 G 0.0047 0.9596 0.0358 167 A 0.0047 0.9605 0.0349 168 I 0.0047 0.9595 0.0358 169 C 0.0047 0.9574 0.0379 170 G 0.0049 0.9415 0.0537 171 Y 0.0057 0.8870 0.1072 172 L 0.0123 0.7985 0.1892 173 K 0.0392 0.4916 0.4691 174 G 0.0256 0.3080 0.6664 175 Y 0.0386 0.2831 0.6784 176 S 0.0572 0.1627 0.7801 177 G 0.0251 0.2851 0.6898 178 K 0.0430 0.3227 0.6343 179 R 0.1724 0.2693 0.5583 180 Y 0.3807 0.0928 0.5264 181 K 0.4204 0.1021 0.4776 182 S 0.8573 0.0377 0.1049 183 C 0.9027 0.0246 0.0726 184 S 0.9091 0.0163 0.0746 185 A 0.8757 0.0192 0.1051 186 F 0.6318 0.0278 0.3404 187 A 0.3000 0.0219 0.6781 188 P 0.1614 0.0748 0.7639 189 I 0.2085 0.0790 0.7126 190 V 0.2160 0.0641 0.7199 191 N 0.1307 0.0258 0.8436 192 P 0.0240 0.3729 0.6031 193 S 0.0284 0.2840 0.6876 194 N 0.0455 0.2929 0.6616 195 V 0.0754 0.0849 0.8397 196 P 0.0771 0.1699 0.7531 197 W 0.0697 0.2802 0.6500 198 G 0.0708 0.2989 0.6303 199 Q 0.0651 0.5582 0.3767 200 K 0.0551 0.6995 0.2454 201 A 0.0629 0.7257 0.2114 202 F 0.0653 0.6916 0.2431 203 K 0.0500 0.6583 0.2916 204 G 0.0415 0.5322 0.4263 205 Y 0.0650 0.4429 0.4921 206 L 0.0902 0.2889 0.6209 207 G 0.0569 0.1434 0.7997 208 E 0.0586 0.1984 0.7430 209 E 0.0625 0.2205 0.7170 210 K 0.0133 0.7990 0.1877 211 A 0.0122 0.8473 0.1405 212 Q 0.0148 0.8622 0.1229 213 W 0.0166 0.8571 0.1262 214 E 0.0199 0.8001 0.1800 215 A 0.0252 0.6942 0.2806 216 Y 0.0439 0.4590 0.4971 217 D 0.0945 0.0984 0.8071 218 P 0.0089 0.7276 0.2635 219 C 0.0151 0.7634 0.2216 220 L 0.0209 0.7995 0.1796 221 L 0.0278 0.7970 0.1752 222 I 0.0284 0.8174 0.1542 223 K 0.0207 0.7914 0.1879 224 N 0.0241 0.7288 0.2471 225 I 0.0461 0.6070 0.3469 226 R 0.0363 0.5354 0.4283 227 H 0.0397 0.3564 0.6039 228 V 0.0723 0.1628 0.7648 229 G 0.0568 0.0984 0.8448 230 D 0.0829 0.0522 0.8648 231 D 0.1334 0.0179 0.8487 232 R 0.4104 0.0109 0.5787 233 I 0.8654 0.0050 0.1296 234 L 0.9234 0.0036 0.0729 235 I 0.9229 0.0039 0.0732 236 H 0.8931 0.0060 0.1009 237 V 0.6610 0.0173 0.3217 238 G 0.2352 0.0353 0.7295 239 D 0.1122 0.0988 0.7891 240 S 0.0825 0.1213 0.7963 241 D 0.0954 0.0835 0.8211 242 P 0.0220 0.2786 0.6994 243 F 0.0442 0.2937 0.6621 244 L 0.1105 0.2659 0.6236 245 E 0.0816 0.2539 0.6645 246 E 0.0214 0.4520 0.5266 247 H 0.0280 0.3068 0.6652 248 L 0.0783 0.1790 0.7427 249 K 0.0745 0.0763 0.8492 250 P 0.0067 0.9224 0.0709 251 E 0.0050 0.9521 0.0428 252 L 0.0049 0.9551 0.0400 253 L 0.0052 0.9530 0.0418 254 L 0.0047 0.9583 0.0369 255 E 0.0048 0.9583 0.0370 256 A 0.0049 0.9569 0.0382 257 V 0.0052 0.9514 0.0434 258 K 0.0054 0.9267 0.0679 259 A 0.0077 0.8307 0.1616 260 T 0.0462 0.3875 0.5663 261 S 0.0411 0.0731 0.8858 262 W 0.0613 0.0624 0.8763 263 Q 0.0520 0.1887 0.7593 264 D 0.0647 0.2282 0.7071 265 Y 0.1918 0.1007 0.7075 266 V 0.5279 0.0168 0.4553 267 E 0.8152 0.0081 0.1767 268 I 0.8997 0.0063 0.0940 269 K 0.8945 0.0074 0.0981 270 K 0.8788 0.0065 0.1147 271 V 0.6149 0.0160 0.3691 272 H 0.1483 0.0550 0.7968 273 G 0.0443 0.0372 0.9185 274 F 0.1325 0.0548 0.8127 275 D 0.2053 0.0594 0.7352 276 H 0.2695 0.0955 0.6350 277 S 0.2215 0.1824 0.5961 278 Y 0.2472 0.2824 0.4703 279 Y 0.2622 0.2710 0.4668 280 F 0.2340 0.2848 0.4812 281 V 0.1427 0.3295 0.5278 282 S 0.0631 0.3947 0.5422 283 T 0.0352 0.4609 0.5039 284 F 0.0369 0.4590 0.5041 285 V 0.0366 0.6109 0.3526 286 P 0.0063 0.9134 0.0803 287 E 0.0064 0.9309 0.0627 288 H 0.0049 0.9486 0.0465 289 A 0.0047 0.9548 0.0405 290 E 0.0047 0.9581 0.0372 291 F 0.0047 0.9571 0.0381 292 H 0.0047 0.9558 0.0394 293 A 0.0048 0.9509 0.0443 294 R 0.0064 0.9197 0.0739 295 N 0.0093 0.8170 0.1737 296 L 0.0519 0.4884 0.4597 297 G 0.0314 0.1584 0.8102 298 L 0.0523 0.0821 0.8655 299 I 0.0477 0.0524 0.8999