# This file is the result of combining several RDB files, specifically # T0449.t2k.str2.rdb (weight 1.54425) # T0449.t2k.str4.rdb (weight 0.924988) # T0449.t2k.pb.rdb (weight 0.789901) # T0449.t2k.bys.rdb (weight 0.748322) # T0449.t2k.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 T0449.t2k.str2.rdb # ============================================ # TARGET T0449 # Using neural net dunbrack-40pc-3157-t2k-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 T0449.t2k-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 464 # # ============================================ # Comments from T0449.t2k.str4.rdb # ============================================ # TARGET T0449 # Using neural net dunbrack-40pc-3157-t2k-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 T0449.t2k-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 464 # # ============================================ # Comments from T0449.t2k.pb.rdb # ============================================ # TARGET T0449 # Using neural net dunbrack-40pc-3157-t2k-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 T0449.t2k-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 464 # # ============================================ # Comments from T0449.t2k.bys.rdb # ============================================ # TARGET T0449 # Using neural net dunbrack-40pc-3157-t2k-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 T0449.t2k-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 464 # # ============================================ # Comments from T0449.t2k.alpha.rdb # ============================================ # TARGET T0449 # Using neural net dunbrack-40pc-3157-t2k-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 T0449.t2k-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 464 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 M 0.5621 0.0287 0.4092 2 D 0.6749 0.0154 0.3097 3 Y 0.7910 0.0090 0.2000 4 T 0.7870 0.0076 0.2054 5 I 0.6997 0.0228 0.2775 6 E 0.4949 0.0688 0.4363 7 N 0.2656 0.0685 0.6659 8 N 0.1948 0.0808 0.7244 9 M 0.4175 0.0391 0.5434 10 I 0.6619 0.0118 0.3263 11 K 0.7817 0.0068 0.2115 12 V 0.8212 0.0049 0.1739 13 V 0.8165 0.0045 0.1790 14 I 0.7710 0.0071 0.2219 15 S 0.6145 0.0314 0.3541 16 D 0.3403 0.1483 0.5114 17 H 0.1989 0.1351 0.6660 18 G 0.2831 0.0578 0.6590 19 A 0.5780 0.0197 0.4024 20 E 0.7266 0.0159 0.2574 21 I 0.7236 0.0168 0.2596 22 Q 0.6897 0.0325 0.2778 23 S 0.7787 0.0159 0.2053 24 V 0.7165 0.0227 0.2608 25 K 0.7042 0.0223 0.2734 26 S 0.4658 0.0444 0.4898 27 A 0.1673 0.2126 0.6201 28 H 0.1190 0.1693 0.7117 29 T 0.1422 0.1611 0.6967 30 D 0.1652 0.1895 0.6453 31 E 0.2125 0.3596 0.4279 32 E 0.3199 0.3354 0.3447 33 F 0.4097 0.2796 0.3108 34 M 0.3029 0.3407 0.3564 35 W 0.2422 0.3511 0.4068 36 Q 0.1777 0.2860 0.5363 37 A 0.1640 0.1725 0.6635 38 N 0.1832 0.0878 0.7291 39 P 0.0645 0.4414 0.4940 40 E 0.1022 0.4445 0.4533 41 I 0.1629 0.3962 0.4409 42 W 0.1655 0.2984 0.5360 43 G 0.1306 0.2427 0.6267 44 R 0.1309 0.2402 0.6288 45 H 0.1717 0.1569 0.6714 46 A 0.2981 0.0896 0.6123 47 P 0.3820 0.0912 0.5269 48 V 0.5369 0.0796 0.3835 49 L 0.6118 0.0773 0.3109 50 F 0.5804 0.0535 0.3662 51 P 0.4406 0.0948 0.4647 52 I 0.3826 0.1330 0.4843 53 V 0.3260 0.1488 0.5253 54 G 0.2751 0.1084 0.6165 55 R 0.3322 0.1002 0.5677 56 L 0.3380 0.0874 0.5746 57 K 0.2278 0.1329 0.6393 58 N 0.1554 0.1003 0.7443 59 D 0.2418 0.1029 0.6553 60 E 0.5703 0.0463 0.3834 61 Y 0.7072 0.0150 0.2778 62 T 0.7132 0.0133 0.2736 63 Y 0.6325 0.0380 0.3296 64 K 0.3515 0.0620 0.5865 65 G 0.1283 0.0902 0.7816 66 K 0.4699 0.0335 0.4966 67 T 0.6432 0.0299 0.3269 68 Y 0.6729 0.0305 0.2966 69 H 0.5989 0.0369 0.3642 70 L 0.4110 0.0957 0.4933 71 G 0.2736 0.2010 0.5254 72 Q 0.2158 0.2634 0.5208 73 H 0.2178 0.1935 0.5887 74 G 0.2312 0.2108 0.5580 75 F 0.2797 0.2537 0.4666 76 A 0.3009 0.2674 0.4317 77 R 0.2428 0.2309 0.5263 78 N 0.2213 0.1245 0.6542 79 A 0.2783 0.1143 0.6074 80 D 0.3402 0.1101 0.5497 81 F 0.5228 0.0589 0.4183 82 E 0.6409 0.0354 0.3237 83 V 0.6459 0.0540 0.3001 84 E 0.5711 0.0956 0.3334 85 N 0.5320 0.0874 0.3806 86 H 0.4104 0.0746 0.5150 87 T 0.3121 0.0568 0.6311 88 K 0.2352 0.2052 0.5596 89 E 0.2724 0.1554 0.5722 90 S 0.5817 0.0488 0.3695 91 I 0.7126 0.0148 0.2725 92 T 0.7858 0.0093 0.2050 93 F 0.7928 0.0088 0.1984 94 L 0.7662 0.0116 0.2222 95 L 0.7023 0.0212 0.2765 96 K 0.4924 0.0580 0.4496 97 D 0.2828 0.0739 0.6434 98 N 0.2046 0.0572 0.7383 99 E 0.0248 0.5769 0.3983 100 E 0.0369 0.6144 0.3486 101 T 0.0878 0.6192 0.2931 102 R 0.0789 0.6577 0.2634 103 K 0.1525 0.4906 0.3569 104 V 0.2245 0.2756 0.4999 105 Y 0.3178 0.0814 0.6008 106 P 0.3259 0.0956 0.5785 107 F 0.4425 0.0604 0.4970 108 K 0.6363 0.0284 0.3353 109 F 0.7421 0.0126 0.2453 110 E 0.8013 0.0058 0.1929 111 F 0.8167 0.0053 0.1780 112 R 0.8216 0.0045 0.1740 113 V 0.8251 0.0045 0.1704 114 N 0.8171 0.0047 0.1782 115 Y 0.8138 0.0058 0.1804 116 N 0.7937 0.0063 0.2000 117 L 0.6999 0.0210 0.2791 118 M 0.4911 0.0653 0.4437 119 N 0.2554 0.0837 0.6608 120 N 0.1823 0.1009 0.7168 121 L 0.5068 0.0456 0.4476 122 L 0.6777 0.0159 0.3064 123 E 0.7583 0.0096 0.2322 124 E 0.7827 0.0107 0.2067 125 N 0.7896 0.0072 0.2032 126 F 0.8137 0.0056 0.1807 127 S 0.8099 0.0056 0.1846 128 V 0.7875 0.0072 0.2053 129 V 0.7088 0.0248 0.2663 130 N 0.5671 0.0189 0.4141 131 K 0.2600 0.1757 0.5643 132 S 0.1511 0.1736 0.6752 133 D 0.1419 0.2028 0.6553 134 E 0.2827 0.1877 0.5296 135 T 0.4720 0.1429 0.3852 136 M 0.5052 0.0847 0.4101 137 I 0.4581 0.1292 0.4127 138 F 0.4172 0.1494 0.4334 139 G 0.3698 0.1476 0.4826 140 V 0.3134 0.1940 0.4926 141 G 0.2595 0.1447 0.5958 142 G 0.2639 0.1287 0.6074 143 H 0.2807 0.0657 0.6535 144 P 0.1600 0.2507 0.5892 145 G 0.2204 0.1898 0.5899 146 F 0.4065 0.0926 0.5009 147 N 0.4532 0.0590 0.4878 148 L 0.3685 0.0321 0.5994 149 P 0.2212 0.0713 0.7075 150 T 0.1180 0.2471 0.6348 151 D 0.1173 0.2779 0.6048 152 H 0.1083 0.2100 0.6817 153 G 0.1135 0.1558 0.7307 154 E 0.2428 0.1397 0.6175 155 N 0.2904 0.1178 0.5918 156 K 0.2690 0.2492 0.4819 157 E 0.2307 0.3136 0.4557 158 D 0.2474 0.2624 0.4902 159 F 0.3493 0.2070 0.4437 160 Y 0.4261 0.1493 0.4246 161 F 0.4642 0.1186 0.4172 162 D 0.4189 0.0990 0.4821 163 M 0.3530 0.0937 0.5533 164 H 0.2328 0.0413 0.7259 165 P 0.1162 0.3379 0.5459 166 S 0.1352 0.3250 0.5398 167 V 0.2847 0.2032 0.5121 168 T 0.3144 0.1460 0.5396 169 R 0.3563 0.1385 0.5052 170 V 0.3192 0.1648 0.5161 171 R 0.3412 0.1305 0.5283 172 I 0.3440 0.0510 0.6050 173 P 0.2869 0.0714 0.6417 174 L 0.2507 0.0734 0.6759 175 K 0.1602 0.1840 0.6558 176 D 0.1527 0.1459 0.7014 177 A 0.1293 0.2371 0.6335 178 S 0.1969 0.1971 0.6060 179 L 0.2840 0.1492 0.5668 180 D 0.2362 0.1327 0.6312 181 W 0.1317 0.3703 0.4980 182 N 0.1303 0.3542 0.5154 183 N 0.1385 0.2686 0.5929 184 R 0.1671 0.2168 0.6161 185 S 0.2193 0.1565 0.6242 186 L 0.2382 0.1464 0.6153 187 A 0.2572 0.0586 0.6842 188 P 0.1620 0.1461 0.6919 189 T 0.1075 0.2939 0.5986 190 D 0.1098 0.3043 0.5858 191 S 0.1668 0.2664 0.5668 192 L 0.2592 0.2566 0.4842 193 I 0.3724 0.1757 0.4519 194 A 0.3254 0.1898 0.4848 195 L 0.2622 0.2111 0.5267 196 S 0.1642 0.2542 0.5816 197 D 0.0779 0.4813 0.4408 198 D 0.0793 0.5209 0.3998 199 L 0.1270 0.4457 0.4272 200 F 0.1600 0.3323 0.5077 201 K 0.1443 0.2836 0.5721 202 D 0.1116 0.3092 0.5792 203 D 0.0797 0.4478 0.4725 204 A 0.1389 0.5001 0.3610 205 L 0.2524 0.4636 0.2840 206 I 0.3591 0.3932 0.2477 207 Y 0.4378 0.3168 0.2454 208 E 0.3986 0.2815 0.3199 209 L 0.3180 0.2235 0.4586 210 R 0.1821 0.1585 0.6594 211 G 0.1275 0.1181 0.7544 212 N 0.1642 0.1231 0.7127 213 D 0.1677 0.1398 0.6925 214 N 0.2509 0.1296 0.6195 215 K 0.4869 0.0761 0.4371 216 V 0.6826 0.0299 0.2874 217 S 0.7531 0.0166 0.2302 218 L 0.7526 0.0179 0.2295 219 R 0.6503 0.0280 0.3217 220 T 0.4422 0.0604 0.4974 221 D 0.2274 0.1288 0.6438 222 K 0.1046 0.2618 0.6336 223 N 0.1066 0.1785 0.7150 224 K 0.2589 0.0864 0.6547 225 F 0.5050 0.0406 0.4544 226 H 0.6859 0.0211 0.2930 227 V 0.7747 0.0128 0.2125 228 N 0.7764 0.0117 0.2119 229 V 0.7554 0.0174 0.2272 230 W 0.6824 0.0298 0.2879 231 T 0.4741 0.0433 0.4825 232 R 0.1692 0.2031 0.6277 233 D 0.1164 0.1624 0.7212 234 A 0.2620 0.0545 0.6835 235 P 0.3265 0.0832 0.5902 236 F 0.5922 0.0436 0.3641 237 V 0.7492 0.0109 0.2400 238 G 0.7824 0.0074 0.2102 239 I 0.7810 0.0095 0.2094 240 W 0.7300 0.0184 0.2516 241 S 0.5217 0.0220 0.4563 242 Q 0.3080 0.1192 0.5728 243 Y 0.2612 0.0725 0.6663 244 P 0.1654 0.1727 0.6619 245 K 0.0999 0.2747 0.6254 246 T 0.1339 0.1925 0.6736 247 D 0.1727 0.1334 0.6939 248 N 0.2288 0.1447 0.6265 249 Y 0.4513 0.0726 0.4761 250 V 0.6345 0.0377 0.3278 251 C 0.6704 0.0322 0.2973 252 I 0.6018 0.0409 0.3573 253 E 0.4512 0.0253 0.5235 254 P 0.2744 0.1517 0.5739 255 W 0.2245 0.2442 0.5313 256 W 0.1858 0.2314 0.5827 257 G 0.1659 0.1502 0.6839 258 I 0.2030 0.1971 0.5999 259 A 0.1812 0.2387 0.5801 260 D 0.1676 0.1963 0.6361 261 R 0.1267 0.3563 0.5171 262 D 0.1455 0.3044 0.5502 263 D 0.1586 0.1892 0.6521 264 A 0.0889 0.4271 0.4840 265 D 0.0936 0.3393 0.5671 266 G 0.0823 0.4054 0.5123 267 D 0.1310 0.4422 0.4267 268 L 0.1636 0.5063 0.3301 269 E 0.1583 0.4811 0.3606 270 H 0.1610 0.3576 0.4814 271 K 0.1520 0.3002 0.5479 272 Y 0.1663 0.1775 0.6562 273 G 0.1835 0.0955 0.7210 274 M 0.4028 0.0715 0.5257 275 N 0.5598 0.0549 0.3853 276 H 0.6387 0.0359 0.3254 277 L 0.5391 0.0397 0.4212 278 K 0.3223 0.0214 0.6563 279 P 0.1759 0.0993 0.7248 280 G 0.0882 0.0815 0.8303 281 K 0.3248 0.0603 0.6150 282 E 0.6150 0.0437 0.3414 283 F 0.6753 0.0413 0.2834 284 Q 0.7130 0.0269 0.2601 285 A 0.7350 0.0204 0.2446 286 G 0.7537 0.0125 0.2337 287 F 0.7950 0.0071 0.1980 288 S 0.7893 0.0056 0.2050 289 M 0.8084 0.0058 0.1857 290 T 0.7905 0.0066 0.2029 291 Y 0.7396 0.0140 0.2464 292 H 0.5757 0.0263 0.3979 293 S 0.3904 0.0574 0.5523 294 T 0.2870 0.0802 0.6327 295 T 0.2129 0.1474 0.6397 296 D 0.1771 0.2071 0.6157 297 E 0.2214 0.1589 0.6197 298 V 0.1942 0.2113 0.5945 299 K 0.2102 0.2044 0.5853 300 L 0.2665 0.2646 0.4689 301 E 0.2651 0.2815 0.4534 302 H 0.2747 0.2380 0.4873 303 H 0.2164 0.2278 0.5557 304 H 0.1922 0.2298 0.5780 305 H 0.1772 0.2219 0.6009 306 H 0.1743 0.1902 0.6355 307 H 0.1687 0.1580 0.6733