# This file is the result of combining several RDB files, specifically # T0289.t06.dssp-ebghstl.rdb (weight 1.53986) # T0289.t06.stride-ebghtl.rdb (weight 1.24869) # T0289.t06.str2.rdb (weight 1.54758) # T0289.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 T0289.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0289 # 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 T0289.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 991 # # ============================================ # Comments from T0289.t06.stride-ebghtl.rdb # ============================================ # TARGET T0289 # 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 T0289.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 991 # # ============================================ # Comments from T0289.t06.str2.rdb # ============================================ # TARGET T0289 # 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 T0289.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 991 # # ============================================ # Comments from T0289.t06.alpha.rdb # ============================================ # TARGET T0289 # 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 T0289.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 991 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.1324 0.0324 0.8351 2 T 0.3516 0.0280 0.6203 3 S 0.5508 0.0280 0.4212 4 C 0.5000 0.0353 0.4647 5 V 0.3471 0.0394 0.6135 6 A 0.1469 0.0761 0.7770 7 E 0.0826 0.1036 0.8138 8 E 0.0760 0.0939 0.8301 9 P 0.0896 0.0790 0.8314 10 I 0.1793 0.0194 0.8013 11 K 0.2991 0.0108 0.6901 12 K 0.7868 0.0053 0.2079 13 I 0.9266 0.0033 0.0700 14 A 0.9329 0.0032 0.0639 15 I 0.9290 0.0033 0.0677 16 F 0.8832 0.0055 0.1113 17 G 0.6179 0.0200 0.3621 18 G 0.3099 0.0316 0.6585 19 T 0.3014 0.0498 0.6488 20 H 0.1889 0.0615 0.7495 21 G 0.0516 0.2138 0.7346 22 N 0.0477 0.2208 0.7315 23 E 0.0690 0.4480 0.4830 24 L 0.0595 0.6538 0.2867 25 T 0.0294 0.7560 0.2146 26 G 0.0064 0.9399 0.0537 27 V 0.0047 0.9593 0.0360 28 F 0.0046 0.9612 0.0341 29 L 0.0046 0.9614 0.0340 30 V 0.0046 0.9612 0.0341 31 T 0.0046 0.9614 0.0340 32 H 0.0046 0.9607 0.0347 33 W 0.0047 0.9580 0.0374 34 L 0.0048 0.9517 0.0435 35 K 0.0053 0.9050 0.0898 36 N 0.0182 0.7287 0.2531 37 G 0.0187 0.4992 0.4821 38 A 0.0294 0.4518 0.5187 39 E 0.0329 0.6022 0.3648 40 V 0.0648 0.5744 0.3608 41 H 0.0775 0.4515 0.4710 42 R 0.0999 0.3569 0.5432 43 A 0.0435 0.1863 0.7702 44 G 0.0457 0.0468 0.9075 45 L 0.4308 0.0103 0.5590 46 E 0.8654 0.0045 0.1301 47 V 0.9061 0.0039 0.0901 48 K 0.8629 0.0055 0.1316 49 P 0.7526 0.0082 0.2392 50 F 0.5867 0.0276 0.3857 51 I 0.4878 0.0287 0.4835 52 T 0.2921 0.0432 0.6647 53 N 0.1812 0.0366 0.7822 54 P 0.0512 0.5205 0.4283 55 R 0.0349 0.6422 0.3229 56 A 0.0605 0.7731 0.1665 57 V 0.1134 0.7556 0.1310 58 E 0.1256 0.7155 0.1589 59 K 0.1252 0.6222 0.2526 60 C 0.1951 0.4070 0.3979 61 T 0.2582 0.2400 0.5018 62 R 0.3185 0.1924 0.4891 63 Y 0.3187 0.1579 0.5234 64 I 0.1699 0.1153 0.7148 65 D 0.1496 0.0607 0.7897 66 C 0.2573 0.0745 0.6683 67 D 0.3806 0.0685 0.5509 68 L 0.1630 0.3124 0.5245 69 N 0.1716 0.3242 0.5042 70 R 0.2138 0.3337 0.4524 71 V 0.2140 0.1669 0.6191 72 F 0.1649 0.0668 0.7683 73 D 0.1187 0.0824 0.7989 74 L 0.0354 0.5861 0.3785 75 E 0.0287 0.6294 0.3419 76 N 0.0411 0.6202 0.3388 77 L 0.0571 0.4481 0.4948 78 S 0.0533 0.3780 0.5687 79 K 0.0737 0.3045 0.6218 80 E 0.1067 0.2107 0.6826 81 M 0.1086 0.1901 0.7013 82 S 0.0614 0.0904 0.8481 83 E 0.0192 0.2476 0.7332 84 D 0.0270 0.1525 0.8206 85 L 0.0569 0.1423 0.8007 86 P 0.0228 0.5597 0.4176 87 Y 0.0096 0.8892 0.1012 88 E 0.0070 0.9378 0.0552 89 V 0.0056 0.9555 0.0389 90 R 0.0050 0.9579 0.0371 91 R 0.0050 0.9547 0.0403 92 A 0.0047 0.9597 0.0357 93 Q 0.0047 0.9604 0.0349 94 E 0.0047 0.9590 0.0363 95 I 0.0048 0.9540 0.0411 96 N 0.0054 0.9457 0.0489 97 H 0.0067 0.9118 0.0815 98 L 0.0120 0.8552 0.1327 99 F 0.0422 0.6878 0.2701 100 G 0.0441 0.1426 0.8133 101 P 0.0401 0.2669 0.6930 102 K 0.0507 0.2326 0.7166 103 N 0.0602 0.1709 0.7689 104 S 0.0579 0.2083 0.7338 105 D 0.0531 0.2033 0.7437 106 D 0.0694 0.1161 0.8145 107 A 0.2047 0.0373 0.7579 108 Y 0.5120 0.0076 0.4804 109 D 0.7228 0.0110 0.2662 110 V 0.9260 0.0033 0.0706 111 V 0.9330 0.0032 0.0638 112 F 0.9270 0.0040 0.0690 113 D 0.8848 0.0036 0.1116 114 L 0.5246 0.0329 0.4425 115 H 0.2457 0.0615 0.6928 116 N 0.1250 0.1374 0.7376 117 T 0.1070 0.1605 0.7325 118 T 0.1238 0.1950 0.6811 119 S 0.0871 0.2686 0.6443 120 N 0.1070 0.2589 0.6340 121 M 0.1225 0.2030 0.6745 122 G 0.1370 0.0868 0.7762 123 C 0.2957 0.0629 0.6414 124 T 0.5201 0.0687 0.4112 125 L 0.5767 0.0967 0.3266 126 I 0.5248 0.1062 0.3690 127 L 0.4097 0.1441 0.4462 128 E 0.2812 0.1337 0.5852 129 D 0.1159 0.1757 0.7084 130 S 0.0651 0.1938 0.7411 131 R 0.0612 0.1616 0.7772 132 N 0.0635 0.1780 0.7585 133 D 0.0193 0.6206 0.3602 134 F 0.0129 0.7658 0.2213 135 L 0.0096 0.8398 0.1506 136 I 0.0082 0.8920 0.0997 137 Q 0.0086 0.9026 0.0888 138 M 0.0065 0.9148 0.0788 139 F 0.0062 0.9073 0.0865 140 H 0.0053 0.9189 0.0758 141 Y 0.0058 0.9156 0.0785 142 I 0.0090 0.9041 0.0869 143 K 0.0081 0.9077 0.0842 144 T 0.0125 0.8632 0.1242 145 C 0.0262 0.7465 0.2272 146 M 0.0508 0.4766 0.4726 147 A 0.0574 0.1864 0.7562 148 P 0.0496 0.0932 0.8573 149 L 0.0948 0.0386 0.8666 150 P 0.1343 0.0767 0.7890 151 C 0.2803 0.1118 0.6079 152 S 0.4133 0.1080 0.4787 153 V 0.4480 0.1425 0.4096 154 Y 0.4437 0.1332 0.4231 155 L 0.3460 0.1437 0.5103 156 I 0.2215 0.1452 0.6333 157 E 0.1322 0.0954 0.7724 158 H 0.0937 0.0780 0.8282 159 P 0.0419 0.2057 0.7524 160 S 0.0677 0.2198 0.7125 161 L 0.0960 0.3834 0.5206 162 K 0.0679 0.5153 0.4168 163 Y 0.0644 0.6479 0.2877 164 A 0.0527 0.7690 0.1783 165 T 0.0615 0.7737 0.1648 166 T 0.0576 0.7840 0.1583 167 R 0.0482 0.7648 0.1870 168 S 0.0534 0.6567 0.2899 169 I 0.0674 0.4146 0.5180 170 A 0.1043 0.1556 0.7401 171 K 0.1450 0.0669 0.7882 172 Y 0.2030 0.0195 0.7775 173 P 0.5133 0.0274 0.4594 174 V 0.8487 0.0175 0.1339 175 G 0.9061 0.0102 0.0837 176 I 0.9114 0.0084 0.0802 177 E 0.8623 0.0089 0.1289 178 V 0.5131 0.0259 0.4610 179 G 0.2095 0.0172 0.7733 180 P 0.1349 0.0515 0.8136 181 Q 0.0953 0.0432 0.8615 182 P 0.0534 0.1179 0.8287 183 H 0.0543 0.1326 0.8131 184 G 0.0646 0.1194 0.8160 185 V 0.1237 0.1375 0.7388 186 L 0.1241 0.1263 0.7496 187 R 0.0533 0.3205 0.6262 188 A 0.0062 0.8775 0.1164 189 D 0.0070 0.8912 0.1019 190 I 0.0062 0.9247 0.0691 191 L 0.0047 0.9496 0.0457 192 D 0.0046 0.9572 0.0381 193 Q 0.0046 0.9567 0.0386 194 M 0.0047 0.9591 0.0363 195 R 0.0047 0.9609 0.0344 196 R 0.0047 0.9588 0.0366 197 M 0.0047 0.9577 0.0377 198 L 0.0047 0.9596 0.0358 199 K 0.0047 0.9602 0.0352 200 H 0.0047 0.9553 0.0400 201 A 0.0048 0.9544 0.0408 202 L 0.0047 0.9568 0.0385 203 D 0.0048 0.9504 0.0448 204 F 0.0050 0.9441 0.0509 205 I 0.0060 0.9325 0.0615 206 Q 0.0067 0.8959 0.0974 207 R 0.0121 0.8544 0.1335 208 F 0.0450 0.6662 0.2889 209 N 0.0449 0.4625 0.4926 210 E 0.0277 0.2264 0.7459 211 G 0.0305 0.0662 0.9033 212 K 0.0845 0.0411 0.8744 213 E 0.2043 0.0277 0.7680 214 F 0.0968 0.0389 0.8643