# This file is the result of combining several RDB files, specifically # T0278.t04.dssp-ebghstl.rdb (weight 1.53986) # T0278.t04.stride-ebghtl.rdb (weight 1.24869) # T0278.t04.str2.rdb (weight 1.54758) # T0278.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 T0278.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0278 # 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 T0278.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 1975 # # ============================================ # Comments from T0278.t04.stride-ebghtl.rdb # ============================================ # TARGET T0278 # 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 T0278.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 1975 # # ============================================ # Comments from T0278.t04.str2.rdb # ============================================ # TARGET T0278 # 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 T0278.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 1975 # # ============================================ # Comments from T0278.t04.alpha.rdb # ============================================ # TARGET T0278 # 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 T0278.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 1975 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0766 0.0701 0.8532 2 K 0.0885 0.1331 0.7784 3 R 0.1084 0.1686 0.7230 4 L 0.0908 0.1283 0.7808 5 S 0.0969 0.1451 0.7580 6 L 0.0943 0.1118 0.7939 7 R 0.0833 0.1792 0.7376 8 E 0.0804 0.2157 0.7039 9 A 0.0869 0.2302 0.6828 10 W 0.1161 0.2464 0.6375 11 P 0.1235 0.3260 0.5505 12 Y 0.2106 0.4040 0.3854 13 L 0.1872 0.4125 0.4003 14 K 0.1549 0.3652 0.4798 15 D 0.1327 0.3281 0.5393 16 L 0.0662 0.3827 0.5511 17 Q 0.0562 0.2976 0.6462 18 Q 0.0419 0.2438 0.7142 19 D 0.0737 0.1279 0.7984 20 P 0.0109 0.7443 0.2448 21 L 0.0060 0.9234 0.0707 22 A 0.0048 0.9486 0.0466 23 V 0.0050 0.9522 0.0427 24 L 0.0052 0.9527 0.0420 25 L 0.0050 0.9538 0.0411 26 E 0.0051 0.9507 0.0442 27 W 0.0053 0.9314 0.0633 28 G 0.0079 0.8803 0.1118 29 R 0.0106 0.7724 0.2170 30 A 0.0230 0.5921 0.3849 31 H 0.0797 0.0945 0.8258 32 P 0.0511 0.1315 0.8174 33 R 0.1195 0.1714 0.7092 34 L 0.3419 0.1850 0.4731 35 F 0.5619 0.0673 0.3708 36 L 0.5698 0.0277 0.4026 37 P 0.5339 0.0225 0.4437 38 L 0.1674 0.0674 0.7652 39 P 0.0673 0.0714 0.8613 40 R 0.0669 0.0630 0.8700 41 F 0.1042 0.0152 0.8806 42 P 0.2151 0.0091 0.7758 43 L 0.8575 0.0047 0.1379 44 A 0.9245 0.0035 0.0721 45 L 0.9274 0.0035 0.0690 46 I 0.8812 0.0072 0.1116 47 F 0.4781 0.0280 0.4939 48 D 0.0954 0.0097 0.8949 49 P 0.0073 0.8036 0.1891 50 E 0.0060 0.9076 0.0864 51 G 0.0074 0.9177 0.0749 52 V 0.0091 0.9359 0.0550 53 E 0.0084 0.9456 0.0460 54 G 0.0099 0.9455 0.0447 55 A 0.0106 0.9477 0.0417 56 L 0.0134 0.9351 0.0515 57 L 0.0189 0.8947 0.0863 58 A 0.0251 0.7651 0.2098 59 E 0.0451 0.4057 0.5492 60 G 0.0421 0.1321 0.8257 61 T 0.0892 0.1443 0.7665 62 T 0.1642 0.1868 0.6490 63 K 0.1387 0.2728 0.5884 64 A 0.1084 0.2991 0.5924 65 T 0.1044 0.2579 0.6377 66 F 0.1313 0.2320 0.6367 67 Q 0.1390 0.3262 0.5348 68 Y 0.1287 0.5097 0.3617 69 R 0.1147 0.5950 0.2904 70 A 0.0920 0.7006 0.2073 71 L 0.0867 0.6893 0.2240 72 S 0.1023 0.6514 0.2462 73 R 0.0892 0.6397 0.2711 74 L 0.1021 0.5359 0.3620 75 T 0.1288 0.2806 0.5906 76 G 0.1066 0.1069 0.7864 77 R 0.0947 0.1070 0.7982 78 G 0.2018 0.0786 0.7196 79 L 0.5330 0.0546 0.4123 80 L 0.6805 0.0347 0.2849 81 T 0.4472 0.0513 0.5016 82 D 0.1698 0.0543 0.7759 83 W 0.0509 0.0829 0.8662 84 G 0.0446 0.1235 0.8319 85 K 0.0368 0.6530 0.3102 86 S 0.0541 0.7744 0.1715 87 W 0.0166 0.9110 0.0724 88 K 0.0090 0.9483 0.0428 89 E 0.0084 0.9519 0.0397 90 A 0.0063 0.9511 0.0426 91 R 0.0057 0.9482 0.0462 92 K 0.0059 0.9223 0.0718 93 A 0.0074 0.8530 0.1396 94 L 0.0216 0.6818 0.2966 95 K 0.0393 0.3466 0.6141 96 D 0.0491 0.2192 0.7317 97 P 0.0246 0.2959 0.6796 98 F 0.0707 0.1997 0.7296 99 L 0.0754 0.0673 0.8573 100 P 0.0093 0.6937 0.2969 101 K 0.0082 0.7506 0.2412 102 S 0.0181 0.7893 0.1926 103 V 0.0410 0.7475 0.2115 104 R 0.0162 0.7894 0.1945 105 G 0.0202 0.7402 0.2396 106 Y 0.0156 0.8319 0.1525 107 R 0.0084 0.9245 0.0671 108 E 0.0067 0.9499 0.0434 109 A 0.0067 0.9505 0.0428 110 M 0.0056 0.9542 0.0402 111 E 0.0049 0.9576 0.0375 112 E 0.0047 0.9599 0.0354 113 E 0.0047 0.9595 0.0358 114 A 0.0047 0.9594 0.0359 115 W 0.0047 0.9592 0.0361 116 A 0.0049 0.9506 0.0445 117 F 0.0050 0.9403 0.0547 118 F 0.0062 0.9280 0.0658 119 G 0.0065 0.9062 0.0874 120 E 0.0105 0.8343 0.1552 121 W 0.0303 0.6132 0.3564 122 R 0.0348 0.2923 0.6729 123 G 0.0283 0.0823 0.8893 124 E 0.0623 0.0473 0.8904 125 E 0.1863 0.0464 0.7673 126 R 0.3313 0.0350 0.6337 127 D 0.2110 0.0212 0.7678 128 L 0.0335 0.6797 0.2868 129 D 0.0127 0.8540 0.1334 130 H 0.0050 0.9462 0.0488 131 E 0.0052 0.9549 0.0399 132 M 0.0047 0.9595 0.0358 133 L 0.0047 0.9587 0.0366 134 A 0.0047 0.9583 0.0370 135 L 0.0047 0.9574 0.0379 136 S 0.0047 0.9589 0.0364 137 L 0.0047 0.9607 0.0346 138 R 0.0047 0.9602 0.0352 139 L 0.0047 0.9587 0.0366 140 L 0.0047 0.9574 0.0379 141 G 0.0048 0.9554 0.0399 142 R 0.0053 0.9499 0.0448 143 A 0.0074 0.9264 0.0662 144 L 0.0198 0.8400 0.1402 145 F 0.0500 0.5409 0.4091 146 G 0.0513 0.1418 0.8068 147 K 0.0878 0.0566 0.8555 148 P 0.1502 0.0615 0.7882 149 L 0.0976 0.0616 0.8408 150 S 0.0647 0.0270 0.9083 151 P 0.0169 0.4101 0.5730 152 S 0.0151 0.6806 0.3044 153 L 0.0107 0.8233 0.1659 154 A 0.0051 0.9110 0.0839 155 E 0.0047 0.9555 0.0398 156 H 0.0047 0.9575 0.0378 157 A 0.0047 0.9583 0.0370 158 L 0.0047 0.9605 0.0348 159 K 0.0047 0.9605 0.0348 160 A 0.0047 0.9585 0.0368 161 L 0.0047 0.9591 0.0362 162 D 0.0047 0.9598 0.0355 163 R 0.0048 0.9577 0.0375 164 I 0.0049 0.9518 0.0433 165 M 0.0059 0.9357 0.0584 166 A 0.0068 0.8888 0.1044 167 Q 0.0116 0.7815 0.2069 168 T 0.0371 0.4669 0.4960 169 R 0.0384 0.1747 0.7869 170 S 0.0505 0.1632 0.7863 171 P 0.0352 0.4964 0.4684 172 L 0.0436 0.6497 0.3067 173 A 0.0581 0.6156 0.3263 174 L 0.0976 0.4756 0.4268 175 L 0.1216 0.1955 0.6829 176 D 0.1043 0.1266 0.7691 177 L 0.0331 0.4218 0.5451 178 A 0.0210 0.5583 0.4206 179 A 0.0122 0.7674 0.2204 180 E 0.0100 0.8508 0.1392 181 A 0.0086 0.9024 0.0889 182 R 0.0102 0.9129 0.0769 183 F 0.0109 0.9131 0.0760 184 R 0.0080 0.9268 0.0652 185 K 0.0064 0.9291 0.0645 186 D 0.0066 0.9166 0.0769 187 R 0.0085 0.9285 0.0631 188 G 0.0062 0.9317 0.0621 189 A 0.0058 0.9367 0.0575 190 L 0.0056 0.9479 0.0465 191 Y 0.0055 0.9516 0.0429 192 R 0.0047 0.9580 0.0372 193 E 0.0047 0.9577 0.0375 194 A 0.0047 0.9574 0.0379 195 E 0.0050 0.9553 0.0398 196 A 0.0053 0.9473 0.0474 197 L 0.0084 0.9164 0.0752 198 I 0.0227 0.8290 0.1483 199 V 0.0553 0.5515 0.3932 200 H 0.0712 0.1013 0.8275 201 P 0.0589 0.0267 0.9144 202 P 0.0447 0.0809 0.8744 203 L 0.0478 0.1262 0.8259 204 S 0.0593 0.1685 0.7722 205 H 0.0820 0.1106 0.8075 206 L 0.1014 0.0128 0.8857 207 P 0.0673 0.0135 0.9192 208 R 0.0050 0.9368 0.0583 209 E 0.0047 0.9581 0.0371 210 R 0.0048 0.9583 0.0369 211 A 0.0047 0.9590 0.0363 212 L 0.0047 0.9583 0.0370 213 S 0.0048 0.9584 0.0369 214 E 0.0048 0.9497 0.0455 215 A 0.0047 0.9517 0.0435 216 V 0.0047 0.9565 0.0388 217 T 0.0048 0.9546 0.0406 218 L 0.0068 0.9392 0.0539 219 L 0.0123 0.9156 0.0721 220 V 0.0309 0.8570 0.1122 221 A 0.0358 0.6917 0.2725 222 G 0.0349 0.4731 0.4920 223 H 0.0258 0.5951 0.3791 224 E 0.0312 0.7051 0.2638 225 T 0.0184 0.8226 0.1590 226 V 0.0064 0.9363 0.0573 227 A 0.0048 0.9572 0.0380 228 S 0.0047 0.9595 0.0358 229 A 0.0047 0.9606 0.0347 230 L 0.0047 0.9610 0.0344 231 T 0.0046 0.9612 0.0342 232 W 0.0046 0.9614 0.0339 233 S 0.0046 0.9615 0.0339 234 F 0.0046 0.9615 0.0338 235 L 0.0046 0.9615 0.0338 236 L 0.0047 0.9559 0.0395 237 L 0.0051 0.9187 0.0762 238 S 0.0063 0.8139 0.1798 239 H 0.0174 0.4975 0.4851 240 R 0.0855 0.0484 0.8660 241 P 0.0076 0.8216 0.1708 242 D 0.0058 0.9036 0.0906 243 W 0.0048 0.9499 0.0453 244 Q 0.0047 0.9589 0.0364 245 K 0.0047 0.9601 0.0352 246 R 0.0047 0.9593 0.0360 247 V 0.0048 0.9556 0.0395 248 A 0.0048 0.9543 0.0410 249 E 0.0048 0.9550 0.0401 250 S 0.0050 0.9501 0.0449 251 E 0.0049 0.9536 0.0415 252 E 0.0050 0.9550 0.0400 253 A 0.0049 0.9545 0.0406 254 A 0.0050 0.9490 0.0460 255 L 0.0055 0.9470 0.0475 256 A 0.0075 0.9467 0.0458 257 A 0.0095 0.9406 0.0499 258 F 0.0106 0.9398 0.0495 259 Q 0.0175 0.9308 0.0517 260 E 0.0343 0.9072 0.0585 261 A 0.0412 0.8799 0.0789 262 L 0.0516 0.8190 0.1293 263 R 0.0637 0.6844 0.2519 264 L 0.0818 0.4433 0.4748 265 Y 0.0825 0.1048 0.8127 266 P 0.0633 0.0668 0.8700 267 P 0.0560 0.2427 0.7013 268 A 0.1050 0.2931 0.6018 269 W 0.1862 0.2869 0.5269 270 I 0.2794 0.2767 0.4440 271 L 0.2737 0.2398 0.4865 272 T 0.2962 0.2086 0.4952 273 R 0.4272 0.1824 0.3904 274 R 0.5173 0.1021 0.3806 275 L 0.4963 0.0389 0.4647 276 E 0.3855 0.0368 0.5777 277 R 0.4290 0.0191 0.5519 278 P 0.5433 0.0218 0.4349 279 L 0.8187 0.0137 0.1676 280 L 0.8530 0.0090 0.1380 281 L 0.6842 0.0340 0.2818 282 G 0.1897 0.0308 0.7796 283 E 0.1120 0.0448 0.8432 284 D 0.4670 0.0213 0.5117 285 R 0.6579 0.0139 0.3281 286 L 0.4990 0.0093 0.4917 287 P 0.1827 0.0157 0.8016 288 Q 0.0395 0.0671 0.8934 289 G 0.0426 0.0365 0.9209 290 T 0.3099 0.0130 0.6770 291 T 0.8027 0.0055 0.1918 292 L 0.9113 0.0038 0.0849 293 V 0.9010 0.0052 0.0938 294 L 0.7700 0.0124 0.2175 295 S 0.3026 0.0188 0.6786 296 P 0.0639 0.6086 0.3275 297 Y 0.0585 0.6961 0.2454 298 V 0.0659 0.7426 0.1916 299 T 0.1053 0.6792 0.2155 300 Q 0.1150 0.5796 0.3053 301 R 0.0883 0.5261 0.3856 302 L 0.0976 0.2909 0.6115 303 Y 0.0917 0.1725 0.7358 304 F 0.0757 0.0695 0.8548 305 P 0.0489 0.1647 0.7863 306 E 0.0742 0.1371 0.7887 307 G 0.0248 0.5038 0.4714 308 E 0.0285 0.5090 0.4625 309 A 0.0827 0.4485 0.4687 310 F 0.2036 0.1492 0.6472 311 Q 0.1440 0.0359 0.8201 312 P 0.0258 0.6874 0.2868 313 E 0.0170 0.7630 0.2200 314 R 0.0301 0.7823 0.1877 315 F 0.0771 0.6606 0.2623 316 L 0.0785 0.6002 0.3212 317 A 0.0388 0.5711 0.3901 318 E 0.0269 0.4336 0.5395 319 R 0.0615 0.1901 0.7485 320 G 0.0519 0.0442 0.9039 321 T 0.0657 0.0100 0.9242 322 P 0.0890 0.0225 0.8885 323 S 0.0474 0.2100 0.7426 324 G 0.0573 0.2106 0.7321 325 R 0.2036 0.1333 0.6631 326 Y 0.4758 0.0380 0.4863 327 F 0.4069 0.0222 0.5709 328 P 0.3028 0.0357 0.6615 329 F 0.2265 0.0722 0.7012 330 G 0.1592 0.0611 0.7797 331 L 0.1080 0.0935 0.7985 332 G 0.1074 0.1035 0.7890 333 Q 0.1065 0.2580 0.6355 334 R 0.1560 0.2853 0.5587 335 L 0.1775 0.2653 0.5572 336 C 0.1262 0.2247 0.6492 337 L 0.0489 0.3344 0.6166 338 G 0.0349 0.4155 0.5496 339 R 0.0186 0.8351 0.1463 340 D 0.0181 0.8926 0.0893 341 F 0.0103 0.9292 0.0605 342 A 0.0091 0.9440 0.0469 343 L 0.0061 0.9468 0.0471 344 L 0.0053 0.9489 0.0457 345 E 0.0049 0.9504 0.0447 346 G 0.0047 0.9589 0.0364 347 P 0.0047 0.9610 0.0344 348 I 0.0046 0.9614 0.0339 349 V 0.0046 0.9614 0.0340 350 L 0.0047 0.9609 0.0345 351 R 0.0046 0.9610 0.0343 352 A 0.0046 0.9581 0.0372 353 F 0.0048 0.9243 0.0710 354 F 0.0127 0.8493 0.1380 355 R 0.0466 0.7300 0.2234 356 R 0.0905 0.4848 0.4247 357 F 0.2539 0.1855 0.5605 358 R 0.4735 0.0229 0.5036 359 L 0.5299 0.0131 0.4570 360 D 0.4894 0.0109 0.4997 361 P 0.3436 0.0140 0.6424 362 L 0.1414 0.0167 0.8418 363 P 0.0761 0.0551 0.8688 364 F 0.0807 0.0485 0.8708 365 P 0.1241 0.0637 0.8122 366 R 0.2282 0.0561 0.7157 367 V 0.3674 0.0435 0.5891 368 L 0.2785 0.0389 0.6826 369 A 0.2988 0.0704 0.6308 370 Q 0.3957 0.0381 0.5662 371 V 0.5335 0.0185 0.4480 372 T 0.7052 0.0116 0.2832 373 L 0.6820 0.0131 0.3050 374 R 0.5223 0.0149 0.4629 375 P 0.3283 0.0503 0.6215 376 E 0.1357 0.1131 0.7511 377 G 0.1118 0.0575 0.8307 378 G 0.1467 0.0344 0.8190 379 L 0.3285 0.0107 0.6608 380 P 0.6666 0.0074 0.3260 381 A 0.7130 0.0083 0.2787 382 R 0.7855 0.0078 0.2068 383 P 0.6826 0.0094 0.3080 384 R 0.3495 0.0117 0.6388 385 E 0.1634 0.0589 0.7777 386 G 0.0818 0.0361 0.8820 387 V 0.1137 0.0188 0.8674 388 R 0.1190 0.0186 0.8624 389 A 0.0734 0.0291 0.8975