# This file is the result of combining several RDB files, specifically # T0328.t04.dssp-ebghstl.rdb (weight 1.53986) # T0328.t04.stride-ebghtl.rdb (weight 1.24869) # T0328.t04.str2.rdb (weight 1.54758) # T0328.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 T0328.t04.dssp-ebghstl.rdb # ============================================ # TARGET T0328 # 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 T0328.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 163.711 # # ============================================ # Comments from T0328.t04.stride-ebghtl.rdb # ============================================ # TARGET T0328 # 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 T0328.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 163.711 # # ============================================ # Comments from T0328.t04.str2.rdb # ============================================ # TARGET T0328 # 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 T0328.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 163.711 # # ============================================ # Comments from T0328.t04.alpha.rdb # ============================================ # TARGET T0328 # 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 T0328.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 163.711 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.0841 0.0548 0.8611 2 D 0.1664 0.0574 0.7762 3 I 0.1462 0.1053 0.7485 4 Q 0.1071 0.1497 0.7432 5 N 0.0901 0.1290 0.7809 6 M 0.0764 0.0537 0.8699 7 P 0.0783 0.1406 0.7811 8 R 0.0412 0.4171 0.5418 9 E 0.0539 0.4339 0.5122 10 Q 0.0802 0.4443 0.4755 11 L 0.0520 0.4923 0.4558 12 G 0.0909 0.3946 0.5145 13 V 0.2045 0.3509 0.4445 14 C 0.2156 0.2915 0.4929 15 A 0.1261 0.2109 0.6630 16 E 0.0786 0.1941 0.7272 17 G 0.0673 0.1634 0.7693 18 N 0.0866 0.0834 0.8300 19 L 0.1393 0.1733 0.6874 20 H 0.3564 0.0999 0.5437 21 S 0.7419 0.0283 0.2298 22 V 0.8861 0.0100 0.1039 23 Y 0.9237 0.0056 0.0707 24 L 0.9239 0.0047 0.0714 25 M 0.9208 0.0047 0.0745 26 F 0.8897 0.0074 0.1028 27 N 0.8286 0.0061 0.1653 28 A 0.3908 0.0490 0.5602 29 N 0.1236 0.0599 0.8165 30 D 0.0418 0.1515 0.8067 31 N 0.0350 0.1637 0.8013 32 V 0.0253 0.5033 0.4714 33 E 0.0137 0.7836 0.2027 34 S 0.0072 0.8469 0.1459 35 Q 0.0058 0.8830 0.1112 36 L 0.0069 0.9162 0.0770 37 R 0.0047 0.9512 0.0440 38 P 0.0047 0.9476 0.0476 39 C 0.0047 0.9535 0.0418 40 I 0.0047 0.9557 0.0396 41 A 0.0047 0.9448 0.0505 42 N 0.0047 0.9209 0.0744 43 V 0.0049 0.9468 0.0483 44 A 0.0048 0.9515 0.0437 45 Q 0.0047 0.9507 0.0446 46 Y 0.0048 0.9533 0.0419 47 I 0.0048 0.9517 0.0435 48 Y 0.0048 0.9476 0.0476 49 E 0.0050 0.9317 0.0633 50 L 0.0080 0.8876 0.1043 51 T 0.0139 0.7826 0.2036 52 D 0.0187 0.5144 0.4669 53 Q 0.0319 0.3410 0.6270 54 Y 0.0702 0.1322 0.7976 55 S 0.0749 0.1565 0.7687 56 D 0.0417 0.3291 0.6292 57 S 0.0495 0.2979 0.6525 58 A 0.1005 0.1459 0.7536 59 F 0.3750 0.0246 0.6004 60 N 0.6015 0.0303 0.3682 61 G 0.8972 0.0063 0.0966 62 F 0.9211 0.0058 0.0731 63 V 0.9124 0.0097 0.0780 64 A 0.8338 0.0131 0.1531 65 I 0.4585 0.0329 0.5086 66 G 0.1624 0.0419 0.7957 67 A 0.0189 0.5928 0.3884 68 N 0.0120 0.7104 0.2776 69 Y 0.0113 0.8411 0.1476 70 W 0.0105 0.8606 0.1289 71 D 0.0068 0.8236 0.1697 72 S 0.0106 0.7027 0.2867 73 L 0.0326 0.5012 0.4662 74 Y 0.0619 0.1641 0.7741 75 P 0.0270 0.2314 0.7415 76 E 0.0261 0.2647 0.7093 77 S 0.0573 0.2454 0.6972 78 R 0.0975 0.1219 0.7807 79 P 0.0347 0.5794 0.3859 80 E 0.0144 0.7226 0.2630 81 M 0.0209 0.6314 0.3478 82 L 0.0868 0.3183 0.5949 83 K 0.0651 0.1533 0.7816 84 P 0.0824 0.1097 0.8080 85 F 0.0927 0.1012 0.8061 86 P 0.0716 0.2639 0.6646 87 A 0.0971 0.3029 0.5999 88 M 0.1041 0.2115 0.6844 89 Q 0.0736 0.1689 0.7574 90 E 0.0490 0.2214 0.7295 91 G 0.0383 0.1428 0.8189 92 N 0.0873 0.1355 0.7771 93 R 0.1726 0.0871 0.7403 94 E 0.1953 0.0645 0.7402 95 A 0.1079 0.0503 0.8418 96 P 0.0993 0.0970 0.8036 97 A 0.1391 0.1027 0.7583 98 I 0.1667 0.0745 0.7588 99 E 0.1300 0.1428 0.7272 100 Y 0.2167 0.0673 0.7159 101 D 0.3341 0.0302 0.6356 102 L 0.8726 0.0054 0.1220 103 F 0.9264 0.0033 0.0703 104 V 0.9318 0.0034 0.0648 105 H 0.9220 0.0036 0.0744 106 L 0.8491 0.0077 0.1431 107 R 0.6069 0.0137 0.3794 108 C 0.2572 0.0490 0.6938 109 D 0.0551 0.1119 0.8330 110 R 0.0383 0.5248 0.4368 111 Y 0.0112 0.8382 0.1505 112 D 0.0083 0.8975 0.0943 113 I 0.0058 0.9521 0.0422 114 L 0.0049 0.9586 0.0365 115 H 0.0047 0.9603 0.0350 116 L 0.0047 0.9600 0.0353 117 V 0.0048 0.9570 0.0382 118 A 0.0047 0.9595 0.0358 119 N 0.0047 0.9591 0.0362 120 E 0.0048 0.9540 0.0412 121 I 0.0050 0.9474 0.0476 122 S 0.0053 0.9394 0.0553 123 Q 0.0056 0.8746 0.1198 124 M 0.0102 0.7534 0.2364 125 F 0.0205 0.5964 0.3831 126 E 0.0092 0.6427 0.3481 127 D 0.0140 0.5719 0.4141 128 L 0.0709 0.6244 0.3047 129 V 0.1861 0.4763 0.3377 130 E 0.3876 0.3999 0.2125 131 L 0.4778 0.3702 0.1520 132 V 0.5218 0.3196 0.1585 133 E 0.5490 0.2373 0.2137 134 E 0.4600 0.2938 0.2461 135 E 0.3333 0.3038 0.3629 136 R 0.2152 0.1791 0.6056 137 G 0.1537 0.0749 0.7714 138 F 0.2375 0.0488 0.7137 139 R 0.3468 0.0461 0.6072 140 F 0.2286 0.0549 0.7165 141 M 0.1439 0.0674 0.7887 142 D 0.0979 0.0462 0.8559 143 S 0.0331 0.4907 0.4761 144 R 0.0555 0.5038 0.4407 145 D 0.1102 0.5187 0.3711 146 L 0.1431 0.4317 0.4251 147 T 0.1549 0.2526 0.5925 148 G 0.1520 0.1448 0.7032 149 F 0.2468 0.1062 0.6470 150 V 0.3548 0.0759 0.5692 151 D 0.2126 0.0665 0.7209 152 G 0.1397 0.1037 0.7567 153 T 0.1822 0.1214 0.6963 154 E 0.1887 0.1063 0.7050 155 N 0.0999 0.0453 0.8548 156 P 0.0546 0.1158 0.8296 157 K 0.0480 0.1244 0.8276 158 G 0.0479 0.1692 0.7829 159 R 0.0604 0.2523 0.6873 160 H 0.1232 0.2504 0.6264 161 R 0.1836 0.2238 0.5926 162 Q 0.2501 0.1173 0.6326 163 E 0.3902 0.0775 0.5323 164 V 0.7471 0.0365 0.2164 165 A 0.8365 0.0213 0.1422 166 L 0.8733 0.0124 0.1143 167 V 0.6619 0.0302 0.3079 168 G 0.3029 0.0309 0.6662 169 S 0.1136 0.0585 0.8279 170 E 0.0703 0.0626 0.8671 171 D 0.0806 0.0393 0.8801 172 P 0.0170 0.3877 0.5953 173 E 0.0291 0.3950 0.5759 174 F 0.0708 0.3749 0.5543 175 K 0.0456 0.2718 0.6826 176 G 0.0320 0.1905 0.7775 177 G 0.0500 0.4039 0.5462 178 S 0.0669 0.6759 0.2571 179 Y 0.0393 0.8952 0.0655 180 I 0.0458 0.9045 0.0497 181 H 0.0294 0.9304 0.0403 182 V 0.0280 0.9300 0.0420 183 Q 0.0128 0.9450 0.0422 184 K 0.0144 0.9368 0.0488 185 Y 0.0106 0.9242 0.0652 186 A 0.0083 0.9015 0.0902 187 H 0.0198 0.7241 0.2561 188 N 0.0371 0.4138 0.5491 189 L 0.0143 0.7130 0.2726 190 S 0.0080 0.8122 0.1798 191 K 0.0100 0.7993 0.1908 192 W 0.0179 0.7831 0.1990 193 H 0.0196 0.5182 0.4622 194 R 0.0319 0.3280 0.6401 195 L 0.0713 0.0775 0.8512 196 P 0.0610 0.0530 0.8859 197 L 0.0070 0.8672 0.1258 198 K 0.0082 0.8944 0.0974 199 K 0.0112 0.8839 0.1048 200 Q 0.0168 0.8847 0.0986 201 E 0.0266 0.8424 0.1310 202 D 0.0540 0.7452 0.2008 203 I 0.1637 0.5531 0.2832 204 I 0.2320 0.3947 0.3733 205 G 0.2003 0.1405 0.6592 206 R 0.1954 0.0580 0.7466 207 T 0.2141 0.0385 0.7474 208 K 0.1365 0.0510 0.8125 209 Q 0.0926 0.0648 0.8426 210 D 0.0544 0.1130 0.8326 211 N 0.0973 0.1379 0.7649 212 I 0.2087 0.1824 0.6088 213 E 0.3327 0.1276 0.5397 214 Y 0.3734 0.0913 0.5353 215 E 0.1241 0.0426 0.8333 216 S 0.0333 0.1940 0.7727 217 E 0.0267 0.1472 0.8261 218 D 0.0398 0.0974 0.8629 219 K 0.1010 0.0315 0.8675 220 P 0.1909 0.0378 0.7713 221 L 0.2485 0.1654 0.5861 222 T 0.3042 0.1899 0.5059 223 S 0.2700 0.3730 0.3571 224 H 0.3414 0.3130 0.3456 225 I 0.3949 0.3409 0.2642 226 K 0.4808 0.2980 0.2213 227 R 0.4719 0.2146 0.3136 228 V 0.4023 0.0852 0.5125 229 N 0.3224 0.0361 0.6415 230 L 0.2399 0.1596 0.6005 231 K 0.2888 0.1714 0.5398 232 D 0.0998 0.0995 0.8007 233 E 0.0151 0.1493 0.8356 234 N 0.0466 0.0278 0.9256 235 G 0.0406 0.0426 0.9168 236 K 0.1415 0.0690 0.7895 237 S 0.4824 0.1362 0.3814 238 I 0.5110 0.2521 0.2369 239 E 0.4554 0.3786 0.1661 240 I 0.4837 0.4076 0.1087 241 L 0.4356 0.4388 0.1256 242 R 0.3874 0.4070 0.2056 243 Q 0.2904 0.2968 0.4128 244 S 0.1547 0.1176 0.7277 245 M 0.1089 0.0285 0.8625 246 P 0.1014 0.0496 0.8490 247 Y 0.0798 0.0710 0.8492 248 G 0.0636 0.0775 0.8589 249 S 0.0967 0.0960 0.8073 250 L 0.0418 0.5527 0.4055 251 K 0.0490 0.5588 0.3922 252 E 0.1123 0.5277 0.3600 253 Q 0.1718 0.3097 0.5185 254 G 0.3450 0.1447 0.5103 255 L 0.6546 0.0595 0.2860 256 M 0.8755 0.0326 0.0919 257 F 0.8929 0.0362 0.0709 258 I 0.8442 0.0825 0.0733 259 S 0.7768 0.1219 0.1013 260 T 0.6791 0.1059 0.2150 261 C 0.4206 0.0691 0.5103 262 R 0.1429 0.0586 0.7985 263 T 0.0869 0.0185 0.8946 264 P 0.0064 0.6892 0.3044 265 D 0.0068 0.7652 0.2280 266 H 0.0059 0.9145 0.0796 267 F 0.0048 0.9517 0.0435 268 E 0.0050 0.9583 0.0367 269 K 0.0047 0.9611 0.0342 270 M 0.0052 0.9588 0.0360 271 L 0.0059 0.9550 0.0391 272 H 0.0070 0.9443 0.0488 273 S 0.0090 0.9155 0.0754 274 M 0.0204 0.8320 0.1476 275 V 0.0532 0.6521 0.2947 276 F 0.0813 0.3898 0.5289 277 G 0.0719 0.1831 0.7450 278 D 0.0629 0.0615 0.8756 279 G 0.0458 0.0862 0.8679 280 A 0.0500 0.0910 0.8589 281 G 0.0451 0.0912 0.8637 282 N 0.0803 0.1512 0.7685 283 H 0.1501 0.1794 0.6705 284 D 0.0911 0.1853 0.7236 285 H 0.0552 0.3836 0.5612 286 L 0.0740 0.4331 0.4929 287 M 0.0912 0.3973 0.5115 288 H 0.1169 0.3158 0.5673 289 F 0.2911 0.2077 0.5012 290 T 0.4050 0.1397 0.4552 291 S 0.4241 0.0919 0.4840 292 A 0.3165 0.1422 0.5413 293 L 0.2833 0.1176 0.5991 294 T 0.2198 0.1038 0.6765 295 G 0.1374 0.3022 0.5603 296 S 0.2371 0.3801 0.3828 297 S 0.4535 0.3214 0.2251 298 F 0.5134 0.2405 0.2461 299 F 0.4902 0.1866 0.3232 300 A 0.3000 0.2334 0.4666 301 P 0.1469 0.2455 0.6077 302 S 0.0637 0.4341 0.5022 303 L 0.0104 0.8731 0.1165 304 D 0.0077 0.8971 0.0952 305 F 0.0062 0.8930 0.1008 306 L 0.0067 0.8713 0.1220 307 M 0.0086 0.7565 0.2348 308 Q 0.0164 0.5430 0.4406 309 F 0.0504 0.1878 0.7618 310 D 0.0427 0.0887 0.8686 311 N 0.0314 0.0819 0.8867