# This file is the result of combining several RDB files, specifically # T0558.t06.str2.rdb (weight 1.54425) # T0558.t06.str4.rdb (weight 0.924988) # T0558.t06.pb.rdb (weight 0.789901) # T0558.t06.bys.rdb (weight 0.748322) # T0558.t06.alpha.rdb (weight 0.678173) # 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 T0558.t06.str2.rdb # ============================================ # TARGET T0558 # Using neural net dunbrack-40pc-3157-t06-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 T0558.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 5856 # # ============================================ # Comments from T0558.t06.str4.rdb # ============================================ # TARGET T0558 # Using neural net dunbrack-40pc-3157-t06-IDGaaH13-3-13-7-13-9-13-11-str4-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 21 (1 str4 ) # The input amino acid frequencies were determined from # alignment T0558.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 5856 # # ============================================ # Comments from T0558.t06.pb.rdb # ============================================ # TARGET T0558 # Using neural net dunbrack-40pc-3157-t06-IDGaaH13-3-13-7-13-9-13-11-pb-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 16 (1 pb ) # The input amino acid frequencies were determined from # alignment T0558.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 5856 # # ============================================ # Comments from T0558.t06.bys.rdb # ============================================ # TARGET T0558 # Using neural net dunbrack-40pc-3157-t06-IDGaaH13-3-13-7-13-9-13-11-bys-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 11 (1 Bystroff ) # The input amino acid frequencies were determined from # alignment T0558.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 5856 # # ============================================ # Comments from T0558.t06.alpha.rdb # ============================================ # TARGET T0558 # Using neural net dunbrack-40pc-3157-t06-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 T0558.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 5856 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.2580 0.1314 0.6106 2 K 0.2939 0.1452 0.5609 3 N 0.3692 0.1890 0.4418 4 F 0.4335 0.2210 0.3455 5 I 0.5458 0.1775 0.2767 6 L 0.5247 0.2064 0.2689 7 L 0.4747 0.2551 0.2702 8 V 0.4322 0.2622 0.3057 9 A 0.3526 0.2797 0.3677 10 L 0.2759 0.3004 0.4237 11 F 0.2848 0.2863 0.4288 12 L 0.2918 0.2210 0.4872 13 V 0.3287 0.1396 0.5317 14 A 0.3098 0.0679 0.6223 15 P 0.2764 0.1575 0.5661 16 F 0.3714 0.1346 0.4940 17 A 0.4616 0.1075 0.4309 18 Q 0.5325 0.0701 0.3974 19 G 0.5100 0.0540 0.4360 20 S 0.3728 0.0408 0.5865 21 S 0.2324 0.0773 0.6903 22 P 0.1177 0.1832 0.6991 23 Q 0.1252 0.1100 0.7649 24 H 0.4997 0.0263 0.4740 25 L 0.7467 0.0075 0.2457 26 L 0.7955 0.0068 0.1977 27 V 0.8091 0.0056 0.1853 28 G 0.7282 0.0142 0.2576 29 G 0.5842 0.0277 0.3881 30 S 0.3331 0.0588 0.6081 31 G 0.1605 0.1561 0.6835 32 W 0.1714 0.1188 0.7098 33 N 0.2358 0.0720 0.6922 34 K 0.6295 0.0173 0.3532 35 I 0.7588 0.0063 0.2349 36 A 0.7951 0.0090 0.1959 37 I 0.8097 0.0051 0.1851 38 I 0.7832 0.0128 0.2040 39 N 0.6027 0.0084 0.3888 40 K 0.2178 0.2911 0.4911 41 D 0.1086 0.2945 0.5970 42 T 0.1423 0.1291 0.7286 43 K 0.1485 0.0846 0.7669 44 E 0.5323 0.0290 0.4387 45 I 0.6747 0.0202 0.3051 46 V 0.6803 0.0285 0.2912 47 W 0.7573 0.0214 0.2213 48 E 0.7218 0.0178 0.2605 49 Y 0.7179 0.0132 0.2688 50 P 0.5631 0.0223 0.4146 51 L 0.3044 0.1008 0.5948 52 E 0.1866 0.1547 0.6588 53 K 0.1411 0.1512 0.7077 54 G 0.1531 0.1164 0.7305 55 W 0.2568 0.0784 0.6648 56 E 0.3739 0.0559 0.5703 57 C 0.4520 0.0835 0.4644 58 N 0.4496 0.0782 0.4722 59 S 0.6372 0.0463 0.3165 60 V 0.6578 0.0394 0.3028 61 A 0.7397 0.0249 0.2354 62 A 0.7052 0.0193 0.2755 63 T 0.3959 0.0181 0.5859 64 K 0.1219 0.3101 0.5680 65 A 0.0764 0.1787 0.7448 66 G 0.1265 0.0659 0.8076 67 E 0.4931 0.0158 0.4911 68 I 0.7595 0.0062 0.2343 69 L 0.8056 0.0060 0.1884 70 F 0.8217 0.0050 0.1734 71 S 0.7885 0.0086 0.2029 72 Y 0.6751 0.0249 0.3000 73 S 0.4491 0.0683 0.4826 74 K 0.2370 0.1020 0.6610 75 G 0.2275 0.0605 0.7120 76 A 0.5986 0.0139 0.3876 77 K 0.7406 0.0114 0.2480 78 M 0.7803 0.0078 0.2119 79 I 0.7693 0.0132 0.2176 80 T 0.5616 0.0189 0.4195 81 R 0.1710 0.2595 0.5696 82 D 0.0791 0.1595 0.7614 83 G 0.0804 0.0762 0.8433 84 R 0.3869 0.0347 0.5784 85 E 0.6425 0.0329 0.3246 86 L 0.6584 0.0463 0.2953 87 W 0.7038 0.0508 0.2454 88 N 0.6824 0.0408 0.2767 89 I 0.6717 0.0396 0.2886 90 A 0.5227 0.0561 0.4212 91 A 0.3294 0.0449 0.6257 92 P 0.1747 0.1672 0.6580 93 A 0.1249 0.1824 0.6928 94 G 0.1196 0.1308 0.7496 95 C 0.2256 0.0898 0.6846 96 E 0.3562 0.0762 0.5676 97 M 0.4515 0.0842 0.4643 98 Q 0.4989 0.0792 0.4219 99 T 0.6826 0.0361 0.2814 100 A 0.6792 0.0297 0.2911 101 R 0.7519 0.0185 0.2297 102 I 0.7101 0.0136 0.2764 103 L 0.4076 0.0148 0.5775 104 P 0.1789 0.2776 0.5434 105 D 0.0854 0.1564 0.7583 106 G 0.0997 0.0730 0.8273 107 N 0.2901 0.0405 0.6694 108 A 0.6975 0.0098 0.2927 109 L 0.7872 0.0061 0.2067 110 V 0.8228 0.0047 0.1726 111 A 0.8169 0.0051 0.1780 112 W 0.7619 0.0094 0.2287 113 C 0.5580 0.0268 0.4151 114 G 0.3255 0.0449 0.6296 115 H 0.2758 0.0459 0.6784 116 P 0.1459 0.1560 0.6981 117 S 0.1754 0.1133 0.7113 118 T 0.5701 0.0317 0.3982 119 I 0.7455 0.0086 0.2459 120 L 0.7997 0.0105 0.1898 121 E 0.8112 0.0057 0.1831 122 V 0.7937 0.0098 0.1965 123 N 0.5699 0.0133 0.4168 124 M 0.2908 0.2005 0.5087 125 K 0.1094 0.1554 0.7353 126 G 0.1047 0.0698 0.8254 127 E 0.4048 0.0364 0.5588 128 V 0.6404 0.0302 0.3294 129 L 0.6372 0.0438 0.3190 130 S 0.6690 0.0451 0.2859 131 K 0.6290 0.0543 0.3166 132 T 0.6161 0.0476 0.3363 133 E 0.5332 0.0629 0.4039 134 F 0.3944 0.0932 0.5125 135 E 0.2481 0.1543 0.5976 136 T 0.1652 0.1598 0.6751 137 G 0.1309 0.1467 0.7224 138 I 0.2096 0.1448 0.6456 139 E 0.2364 0.1219 0.6417 140 R 0.2666 0.0605 0.6729 141 P 0.1898 0.1944 0.6158 142 H 0.1977 0.2186 0.5837 143 A 0.2231 0.1839 0.5930 144 Q 0.2695 0.1408 0.5897 145 F 0.3007 0.2497 0.4496 146 R 0.3197 0.2311 0.4492 147 Q 0.4523 0.1566 0.3911 148 I 0.5673 0.0806 0.3520 149 N 0.6348 0.0586 0.3066 150 K 0.6383 0.0404 0.3213 151 N 0.3180 0.0228 0.6591 152 K 0.0757 0.3638 0.5605 153 K 0.0656 0.1886 0.7459 154 G 0.0942 0.0760 0.8298 155 N 0.3781 0.0288 0.5930 156 Y 0.7300 0.0098 0.2602 157 L 0.7721 0.0088 0.2190 158 V 0.7870 0.0073 0.2057 159 P 0.6836 0.0173 0.2991 160 L 0.5803 0.0573 0.3624 161 F 0.4051 0.0689 0.5260 162 A 0.2207 0.1584 0.6209 163 T 0.1913 0.1132 0.6956 164 S 0.2403 0.0760 0.6838 165 E 0.5485 0.0339 0.4176 166 V 0.7348 0.0111 0.2541 167 R 0.7777 0.0159 0.2064 168 E 0.7953 0.0085 0.1961 169 I 0.7663 0.0161 0.2176 170 A 0.4336 0.0122 0.5542 171 P 0.1261 0.3379 0.5360 172 N 0.0687 0.1733 0.7580 173 G 0.0777 0.0749 0.8474 174 Q 0.3590 0.0399 0.6011 175 L 0.6057 0.0375 0.3568 176 L 0.5968 0.0676 0.3356 177 N 0.6658 0.0579 0.2763 178 S 0.6728 0.0452 0.2820 179 V 0.6545 0.0404 0.3052 180 K 0.5147 0.0585 0.4267 181 L 0.3363 0.1245 0.5392 182 S 0.2041 0.1119 0.6840 183 G 0.1614 0.0796 0.7590 184 T 0.2720 0.0345 0.6935 185 P 0.3121 0.0783 0.6096 186 F 0.3959 0.0755 0.5286 187 S 0.5736 0.0532 0.3732 188 S 0.6607 0.0438 0.2956 189 A 0.7374 0.0252 0.2375 190 F 0.7017 0.0193 0.2790 191 L 0.4497 0.0223 0.5280 192 D 0.1598 0.2634 0.5767 193 N 0.0800 0.1648 0.7552 194 G 0.1320 0.0665 0.8015 195 D 0.4360 0.0257 0.5383 196 C 0.7517 0.0068 0.2415 197 L 0.7976 0.0061 0.1963 198 V 0.8231 0.0047 0.1722 199 A 0.7953 0.0072 0.1975 200 C 0.6774 0.0182 0.3045 201 G 0.4016 0.0471 0.5513 202 D 0.2185 0.1488 0.6328 203 A 0.1812 0.1265 0.6923 204 H 0.2520 0.0703 0.6777 205 C 0.6051 0.0193 0.3756 206 F 0.7558 0.0064 0.2379 207 V 0.8082 0.0075 0.1843 208 Q 0.8113 0.0048 0.1839 209 L 0.7937 0.0087 0.1976 210 N 0.6368 0.0079 0.3553 211 L 0.3379 0.2122 0.4499 212 E 0.1381 0.2897 0.5722 213 S 0.1046 0.1514 0.7439 214 N 0.0946 0.0902 0.8152 215 R 0.4663 0.0266 0.5071 216 I 0.6605 0.0232 0.3162 217 V 0.6783 0.0326 0.2891 218 R 0.7505 0.0306 0.2189 219 R 0.7242 0.0249 0.2510 220 V 0.7162 0.0259 0.2579 221 N 0.5474 0.0423 0.4103 222 A 0.2906 0.1585 0.5509 223 N 0.1917 0.1648 0.6435 224 D 0.1824 0.1802 0.6373 225 I 0.1583 0.2465 0.5952 226 E 0.1129 0.2362 0.6509 227 G 0.1096 0.2020 0.6884 228 V 0.2209 0.2286 0.5505 229 Q 0.2937 0.2484 0.4579 230 L 0.3552 0.2038 0.4410 231 F 0.4322 0.1177 0.4501 232 F 0.4933 0.0814 0.4254 233 V 0.4858 0.1325 0.3817 234 A 0.4726 0.1473 0.3801 235 Q 0.6092 0.0758 0.3150 236 L 0.6026 0.0511 0.3463 237 F 0.6873 0.0255 0.2872 238 P 0.6206 0.0300 0.3494 239 L 0.3805 0.0335 0.5860 240 Q 0.1586 0.2664 0.5750 241 N 0.0963 0.1502 0.7535 242 G 0.1345 0.0635 0.8020 243 G 0.4339 0.0263 0.5398 244 L 0.7438 0.0060 0.2502 245 Y 0.8008 0.0057 0.1935 246 I 0.8134 0.0049 0.1817 247 C 0.7721 0.0112 0.2167 248 N 0.6186 0.0231 0.3583 249 W 0.4553 0.0646 0.4800 250 Q 0.2230 0.1219 0.6551 251 G 0.1444 0.0912 0.7643 252 H 0.2325 0.0663 0.7012 253 D 0.5344 0.0342 0.4313 254 R 0.7249 0.0137 0.2614 255 E 0.7643 0.0168 0.2190 256 A 0.7555 0.0167 0.2279 257 G 0.6679 0.0345 0.2976 258 K 0.5968 0.0411 0.3621 259 G 0.3614 0.0759 0.5626 260 K 0.2373 0.1003 0.6624 261 H 0.2690 0.0411 0.6900 262 P 0.2226 0.1629 0.6144 263 Q 0.5059 0.0953 0.3988 264 L 0.6459 0.0332 0.3209 265 V 0.7183 0.0260 0.2557 266 E 0.7231 0.0163 0.2606 267 I 0.6727 0.0235 0.3039 268 D 0.4179 0.0347 0.5474 269 S 0.2221 0.1956 0.5823 270 E 0.1071 0.1604 0.7325 271 G 0.0985 0.0922 0.8092 272 K 0.3334 0.0401 0.6265 273 V 0.6010 0.0328 0.3662 274 V 0.6501 0.0451 0.3049 275 W 0.6647 0.0523 0.2831 276 Q 0.6383 0.0579 0.3037 277 L 0.5614 0.0852 0.3534 278 N 0.4776 0.0818 0.4406 279 D 0.3035 0.1140 0.5826 280 K 0.2011 0.1857 0.6132 281 V 0.1230 0.2882 0.5888 282 K 0.1522 0.2306 0.6172 283 F 0.2772 0.1459 0.5769 284 G 0.3593 0.1153 0.5255 285 M 0.5126 0.0773 0.4101 286 I 0.4597 0.1051 0.4352 287 S 0.3709 0.1646 0.4644 288 T 0.3266 0.1650 0.5085 289 I 0.3378 0.1586 0.5036 290 C 0.3178 0.0996 0.5826 291 P 0.1995 0.2165 0.5840 292 I 0.1962 0.1761 0.6277 293 R 0.1361 0.2471 0.6168 294 E 0.1441 0.2490 0.6069