# This file is the result of combining several RDB files, specifically # T0295.t04.dssp-ebghstl.rdb (weight 1.53986) # T0295.t04.stride-ebghtl.rdb (weight 1.24869) # T0295.t04.str2.rdb (weight 1.54758) # T0295.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 T0295.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0295 # 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 T0295.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 2108 # # ============================================ # Comments from T0295.t04.stride-ebghtl.rdb # ============================================ # TARGET T0295 # 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 T0295.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 2108 # # ============================================ # Comments from T0295.t04.str2.rdb # ============================================ # TARGET T0295 # 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 T0295.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 2108 # # ============================================ # Comments from T0295.t04.alpha.rdb # ============================================ # TARGET T0295 # 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 T0295.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 2108 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 H 0.0838 0.0883 0.8279 2 L 0.1259 0.1922 0.6819 3 L 0.1540 0.1818 0.6642 4 K 0.1063 0.1355 0.7581 5 N 0.0817 0.0389 0.8794 6 P 0.0076 0.8138 0.1786 7 G 0.0085 0.8708 0.1207 8 I 0.0067 0.9338 0.0594 9 L 0.0047 0.9573 0.0380 10 D 0.0049 0.9593 0.0357 11 K 0.0050 0.9585 0.0366 12 I 0.0050 0.9569 0.0381 13 I 0.0050 0.9516 0.0434 14 Y 0.0066 0.9276 0.0658 15 A 0.0098 0.8617 0.1285 16 A 0.0571 0.5581 0.3848 17 K 0.0805 0.1487 0.7708 18 I 0.1007 0.1126 0.7867 19 K 0.0658 0.0546 0.8797 20 S 0.0333 0.1364 0.8302 21 S 0.0402 0.0805 0.8793 22 D 0.1345 0.0516 0.8139 23 I 0.7451 0.0088 0.2461 24 V 0.9011 0.0057 0.0932 25 L 0.9138 0.0066 0.0796 26 E 0.8736 0.0093 0.1171 27 I 0.5791 0.0368 0.3841 28 G 0.2265 0.0327 0.7408 29 C 0.1018 0.0741 0.8241 30 G 0.0712 0.0788 0.8500 31 T 0.0570 0.3293 0.6137 32 G 0.0210 0.6974 0.2816 33 N 0.0153 0.8836 0.1012 34 L 0.0091 0.9205 0.0704 35 T 0.0096 0.9197 0.0707 36 V 0.0074 0.9154 0.0772 37 K 0.0087 0.8682 0.1231 38 L 0.0115 0.7989 0.1896 39 L 0.0261 0.7325 0.2414 40 P 0.0123 0.7230 0.2647 41 L 0.0248 0.5404 0.4348 42 A 0.0921 0.2423 0.6656 43 K 0.0899 0.1226 0.7875 44 K 0.5135 0.0387 0.4478 45 V 0.8578 0.0106 0.1316 46 I 0.9022 0.0119 0.0859 47 T 0.8967 0.0087 0.0946 48 I 0.8420 0.0109 0.1471 49 D 0.6071 0.0143 0.3786 50 I 0.1073 0.0404 0.8524 51 D 0.0750 0.0211 0.9039 52 S 0.0052 0.8820 0.1128 53 R 0.0052 0.9146 0.0802 54 M 0.0051 0.9420 0.0529 55 I 0.0047 0.9571 0.0382 56 S 0.0047 0.9592 0.0361 57 E 0.0047 0.9594 0.0359 58 V 0.0047 0.9593 0.0360 59 K 0.0047 0.9590 0.0363 60 K 0.0050 0.9546 0.0404 61 R 0.0052 0.9473 0.0475 62 C 0.0058 0.9332 0.0610 63 L 0.0069 0.9141 0.0791 64 Y 0.0095 0.8726 0.1179 65 E 0.0409 0.4582 0.5009 66 G 0.0340 0.0521 0.9139 67 Y 0.0902 0.0488 0.8611 68 N 0.0848 0.0885 0.8268 69 N 0.3441 0.0480 0.6078 70 L 0.7332 0.0095 0.2573 71 E 0.8992 0.0071 0.0938 72 V 0.9241 0.0042 0.0716 73 Y 0.8908 0.0137 0.0955 74 E 0.7780 0.0266 0.1953 75 G 0.3860 0.0439 0.5701 76 D 0.2732 0.0702 0.6567 77 A 0.1453 0.4150 0.4396 78 I 0.1393 0.4600 0.4007 79 K 0.1335 0.3983 0.4683 80 T 0.1348 0.1511 0.7141 81 V 0.1321 0.0786 0.7893 82 F 0.0891 0.0678 0.8431 83 P 0.0450 0.1414 0.8137 84 K 0.0833 0.1258 0.7909 85 F 0.2326 0.0285 0.7390 86 D 0.3206 0.0459 0.6335 87 V 0.9057 0.0050 0.0893 88 C 0.9286 0.0035 0.0679 89 T 0.9259 0.0038 0.0702 90 A 0.8355 0.0100 0.1545 91 N 0.4067 0.0218 0.5715 92 I 0.2121 0.0374 0.7505 93 P 0.2035 0.1687 0.6279 94 Y 0.2946 0.2725 0.4329 95 K 0.2733 0.2571 0.4695 96 I 0.1709 0.2010 0.6281 97 S 0.0965 0.1028 0.8006 98 S 0.0538 0.2091 0.7371 99 P 0.0147 0.7794 0.2059 100 L 0.0060 0.9105 0.0835 101 I 0.0061 0.9336 0.0603 102 F 0.0065 0.9419 0.0517 103 K 0.0080 0.9263 0.0657 104 L 0.0083 0.9014 0.0903 105 I 0.0093 0.8435 0.1472 106 S 0.0123 0.6958 0.2919 107 H 0.0244 0.6134 0.3623 108 R 0.0463 0.3545 0.5992 109 P 0.0211 0.4890 0.4899 110 L 0.0422 0.4898 0.4679 111 F 0.1429 0.2708 0.5863 112 K 0.1317 0.2098 0.6585 113 C 0.0848 0.4012 0.5140 114 A 0.1072 0.3395 0.5532 115 V 0.3654 0.3462 0.2884 116 L 0.5258 0.3355 0.1387 117 M 0.5272 0.3648 0.1080 118 F 0.4783 0.3906 0.1310 119 Q 0.2501 0.5738 0.1762 120 K 0.1056 0.7424 0.1520 121 E 0.0642 0.7865 0.1493 122 F 0.0276 0.8101 0.1623 123 A 0.0377 0.7933 0.1690 124 E 0.0435 0.8210 0.1355 125 R 0.0353 0.7950 0.1697 126 M 0.0584 0.7223 0.2192 127 L 0.0699 0.6431 0.2870 128 A 0.0751 0.4956 0.4293 129 N 0.0810 0.2648 0.6542 130 V 0.0457 0.2735 0.6808 131 G 0.0438 0.1402 0.8160 132 D 0.0718 0.1520 0.7762 133 S 0.0378 0.3795 0.5827 134 N 0.0451 0.4231 0.5318 135 Y 0.0812 0.4062 0.5125 136 S 0.1128 0.3485 0.5387 137 R 0.1817 0.3476 0.4708 138 L 0.2808 0.3035 0.4158 139 T 0.4037 0.2672 0.3290 140 I 0.5116 0.2540 0.2345 141 N 0.5752 0.2202 0.2047 142 V 0.6819 0.1706 0.1475 143 K 0.6785 0.1533 0.1682 144 L 0.6322 0.1803 0.1875 145 F 0.6279 0.1421 0.2301 146 C 0.5978 0.0927 0.3094 147 K 0.5528 0.0679 0.3793 148 V 0.6210 0.0766 0.3024 149 T 0.6760 0.0673 0.2568 150 K 0.7173 0.0686 0.2141 151 V 0.6307 0.1020 0.2673 152 C 0.6015 0.0871 0.3115 153 N 0.4997 0.0492 0.4511 154 V 0.2997 0.0285 0.6718 155 N 0.1434 0.0349 0.8217 156 R 0.0196 0.6026 0.3778 157 S 0.0216 0.5961 0.3823 158 S 0.0551 0.5413 0.4036 159 F 0.1777 0.1052 0.7171 160 N 0.1061 0.0324 0.8616 161 P 0.0836 0.0153 0.9011 162 P 0.0760 0.0170 0.9070 163 P 0.1165 0.0342 0.8493 164 K 0.2352 0.0447 0.7201 165 V 0.4762 0.0293 0.4945 166 D 0.5349 0.0418 0.4233 167 S 0.8039 0.0097 0.1865 168 V 0.8910 0.0046 0.1044 169 I 0.9247 0.0035 0.0719 170 V 0.9198 0.0046 0.0757 171 K 0.9080 0.0045 0.0874 172 L 0.8535 0.0064 0.1401 173 I 0.6558 0.0083 0.3359 174 P 0.4227 0.0218 0.5555 175 K 0.1173 0.0607 0.8220 176 E 0.0663 0.1109 0.8228 177 S 0.0728 0.1557 0.7715 178 S 0.0487 0.2782 0.6731 179 F 0.0923 0.2319 0.6759 180 L 0.1607 0.1325 0.7068 181 T 0.0741 0.0638 0.8621