# This file is the result of combining several RDB files, specifically # T0383.t04.dssp-ebghstl.rdb (weight 1.53986) # T0383.t04.stride-ebghtl.rdb (weight 1.24869) # T0383.t04.str2.rdb (weight 1.54758) # T0383.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 T0383.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0383 # Using neural net t06-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 T0383.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 7.6274 # # ============================================ # Comments from T0383.t04.stride-ebghtl.rdb # ============================================ # TARGET T0383 # 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 T0383.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 7.6274 # # ============================================ # Comments from T0383.t04.str2.rdb # ============================================ # TARGET T0383 # 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 T0383.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 7.6274 # # ============================================ # Comments from T0383.t04.alpha.rdb # ============================================ # TARGET T0383 # 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 T0383.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 7.6274 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.1207 0.1148 0.7645 2 N 0.2688 0.1286 0.6026 3 A 0.5578 0.1064 0.3359 4 M 0.6481 0.0623 0.2896 5 N 0.7217 0.0567 0.2217 6 L 0.6833 0.0677 0.2490 7 K 0.5709 0.1063 0.3228 8 R 0.4851 0.0916 0.4233 9 E 0.2871 0.1117 0.6012 10 Q 0.1582 0.5848 0.2570 11 E 0.2240 0.5638 0.2122 12 F 0.2640 0.5607 0.1752 13 V 0.2704 0.5523 0.1773 14 S 0.2331 0.5294 0.2376 15 Q 0.2675 0.4509 0.2816 16 Y 0.3359 0.3400 0.3240 17 H 0.3759 0.2019 0.4222 18 F 0.3678 0.1463 0.4859 19 D 0.2699 0.1117 0.6184 20 A 0.1068 0.2914 0.6018 21 R 0.0826 0.2365 0.6809 22 N 0.1137 0.1275 0.7588 23 F 0.0655 0.3698 0.5647 24 E 0.1271 0.4185 0.4544 25 W 0.1601 0.4622 0.3777 26 E 0.1640 0.4718 0.3642 27 N 0.1388 0.3685 0.4927 28 E 0.0852 0.3553 0.5595 29 N 0.0814 0.1652 0.7534 30 G 0.0691 0.0469 0.8840 31 A 0.1160 0.0144 0.8696 32 P 0.1762 0.0251 0.7988 33 E 0.3386 0.1005 0.5609 34 T 0.5061 0.0665 0.4274 35 K 0.6892 0.0312 0.2796 36 V 0.7327 0.0156 0.2517 37 D 0.7058 0.0153 0.2789 38 V 0.5390 0.0733 0.3876 39 N 0.3678 0.1302 0.5020 40 F 0.2936 0.2693 0.4371 41 Q 0.3131 0.3119 0.3750 42 L 0.3129 0.3557 0.3315 43 L 0.2206 0.3151 0.4644 44 Q 0.1909 0.2882 0.5209 45 H 0.1086 0.3209 0.5705 46 D 0.0946 0.2226 0.6827 47 Q 0.0584 0.4254 0.5162 48 E 0.0704 0.4136 0.5160 49 N 0.0829 0.2579 0.6592 50 Q 0.1398 0.1341 0.7261 51 V 0.4245 0.0567 0.5188 52 T 0.6075 0.0432 0.3493 53 S 0.8487 0.0128 0.1385 54 L 0.9156 0.0039 0.0806 55 I 0.9223 0.0039 0.0738 56 V 0.9234 0.0037 0.0729 57 I 0.9158 0.0037 0.0804 58 L 0.8869 0.0056 0.1076 59 S 0.8759 0.0045 0.1195 60 F 0.8893 0.0057 0.1050 61 M 0.8917 0.0059 0.1024 62 I 0.8975 0.0038 0.0987 63 V 0.7663 0.0139 0.2198 64 F 0.5290 0.0434 0.4275 65 D 0.2196 0.1081 0.6723 66 K 0.2280 0.0840 0.6880 67 F 0.7360 0.0187 0.2453 68 V 0.8719 0.0110 0.1171 69 I 0.8589 0.0147 0.1264 70 S 0.6811 0.0323 0.2867 71 G 0.6427 0.0468 0.3105 72 T 0.7432 0.0636 0.1932 73 I 0.8066 0.0602 0.1331 74 S 0.7588 0.0595 0.1818 75 Q 0.7690 0.0625 0.1685 76 V 0.8055 0.0631 0.1314 77 N 0.8241 0.0534 0.1224 78 H 0.7919 0.0621 0.1459 79 I 0.6323 0.1253 0.2423 80 D 0.2532 0.1110 0.6358 81 G 0.1082 0.0716 0.8201 82 R 0.3992 0.0721 0.5287 83 I 0.5827 0.0495 0.3678 84 V 0.2814 0.0592 0.6594 85 N 0.1072 0.0480 0.8448 86 E 0.0985 0.0275 0.8740 87 P 0.0294 0.4728 0.4978 88 S 0.0215 0.5515 0.4270 89 E 0.0441 0.5695 0.3863 90 L 0.1174 0.1562 0.7263 91 N 0.0685 0.0827 0.8488 92 Q 0.0056 0.9137 0.0807 93 E 0.0047 0.9465 0.0488 94 E 0.0050 0.9482 0.0468 95 V 0.0050 0.9547 0.0404 96 E 0.0048 0.9504 0.0448 97 T 0.0054 0.9105 0.0841 98 L 0.0052 0.8352 0.1596 99 A 0.0068 0.8313 0.1619 100 R 0.0051 0.8828 0.1121 101 P 0.0049 0.9139 0.0812 102 C 0.0052 0.9344 0.0604 103 L 0.0051 0.9502 0.0447 104 N 0.0050 0.9487 0.0463 105 M 0.0051 0.9359 0.0590 106 L 0.0087 0.9145 0.0768 107 N 0.0132 0.8848 0.1020 108 R 0.0221 0.8244 0.1535 109 L 0.0481 0.7199 0.2321 110 T 0.1333 0.5360 0.3307 111 Y 0.1698 0.5735 0.2567 112 E 0.1877 0.6296 0.1827 113 V 0.1818 0.6533 0.1650 114 T 0.1832 0.6261 0.1907 115 E 0.2419 0.6150 0.1431 116 I 0.2852 0.5663 0.1485 117 A 0.3160 0.4559 0.2281 118 L 0.3406 0.2755 0.3839 119 D 0.2453 0.1293 0.6253 120 L 0.1099 0.0651 0.8251 121 P 0.0538 0.1016 0.8445 122 G 0.1361 0.0711 0.7927 123 I 0.4289 0.0274 0.5437 124 N 0.5802 0.0199 0.3999 125 L 0.5673 0.0309 0.4018 126 E 0.4503 0.0299 0.5198 127 F 0.2765 0.0347 0.6889