# This file is the result of combining several RDB files, specifically # T0294.t06.dssp-ebghstl.rdb (weight 1.53986) # T0294.t06.stride-ebghtl.rdb (weight 1.24869) # T0294.t06.str2.rdb (weight 1.54758) # T0294.t06.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 T0294.t06.dssp-ebghstl.rdb # ============================================ # TARGET T0294 # 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 T0294.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 2029 # # ============================================ # Comments from T0294.t06.stride-ebghtl.rdb # ============================================ # TARGET T0294 # 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 T0294.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 2029 # # ============================================ # Comments from T0294.t06.str2.rdb # ============================================ # TARGET T0294 # 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 T0294.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 2029 # # ============================================ # Comments from T0294.t06.alpha.rdb # ============================================ # TARGET T0294 # 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 T0294.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 2029 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.0720 0.0670 0.8610 2 R 0.0899 0.0333 0.8768 3 P 0.1093 0.0728 0.8178 4 V 0.1338 0.1486 0.7176 5 R 0.1581 0.1117 0.7302 6 L 0.3519 0.0352 0.6129 7 M 0.5313 0.0074 0.4613 8 K 0.8674 0.0052 0.1273 9 V 0.9259 0.0034 0.0707 10 F 0.9260 0.0038 0.0702 11 V 0.9100 0.0047 0.0854 12 T 0.6937 0.0165 0.2898 13 R 0.2220 0.0387 0.7393 14 R 0.0930 0.0476 0.8594 15 I 0.0867 0.0227 0.8907 16 P 0.0520 0.0226 0.9254 17 A 0.0085 0.8257 0.1657 18 E 0.0056 0.8968 0.0977 19 G 0.0053 0.9291 0.0656 20 R 0.0064 0.9475 0.0462 21 V 0.0052 0.9567 0.0382 22 A 0.0058 0.9558 0.0385 23 L 0.0062 0.9503 0.0435 24 A 0.0091 0.9359 0.0550 25 R 0.0074 0.8970 0.0957 26 A 0.0154 0.7880 0.1966 27 A 0.0536 0.2432 0.7032 28 D 0.0545 0.0324 0.9131 29 C 0.2557 0.0151 0.7291 30 E 0.7362 0.0074 0.2564 31 V 0.8731 0.0045 0.1223 32 E 0.8640 0.0086 0.1274 33 Q 0.8257 0.0074 0.1669 34 W 0.4978 0.0143 0.4879 35 D 0.1792 0.0239 0.7969 36 S 0.0504 0.0809 0.8687 37 D 0.0362 0.0715 0.8922 38 E 0.0689 0.0307 0.9004 39 P 0.0895 0.0260 0.8846 40 I 0.1382 0.0153 0.8465 41 P 0.0649 0.0203 0.9149 42 A 0.0056 0.9112 0.0832 43 K 0.0047 0.9459 0.0494 44 E 0.0049 0.9485 0.0466 45 L 0.0048 0.9493 0.0459 46 E 0.0050 0.9363 0.0587 47 R 0.0067 0.8542 0.1391 48 G 0.0096 0.7439 0.2464 49 V 0.0440 0.4160 0.5400 50 A 0.0189 0.2852 0.6959 51 G 0.0365 0.0981 0.8654 52 A 0.2565 0.0208 0.7227 53 H 0.3918 0.0392 0.5690 54 G 0.9130 0.0041 0.0829 55 L 0.9317 0.0033 0.0650 56 L 0.9310 0.0033 0.0658 57 C 0.9072 0.0048 0.0880 58 L 0.7291 0.0094 0.2615 59 L 0.3272 0.0271 0.6458 60 S 0.0951 0.0694 0.8355 61 D 0.0950 0.0607 0.8443 62 H 0.1083 0.0921 0.7996 63 V 0.1158 0.0615 0.8227 64 D 0.0742 0.0639 0.8619 65 K 0.0048 0.9433 0.0518 66 R 0.0047 0.9538 0.0415 67 I 0.0048 0.9553 0.0399 68 L 0.0051 0.9502 0.0448 69 D 0.0052 0.8919 0.1029 70 A 0.0084 0.7728 0.2188 71 A 0.0429 0.5648 0.3922 72 G 0.0328 0.2196 0.7476 73 A 0.0293 0.2106 0.7602 74 N 0.0664 0.1176 0.8160 75 L 0.4378 0.0449 0.5173 76 K 0.7760 0.0431 0.1809 77 V 0.9141 0.0171 0.0688 78 I 0.9039 0.0247 0.0714 79 S 0.9036 0.0194 0.0770 80 T 0.8237 0.0342 0.1421 81 M 0.5976 0.0571 0.3454 82 S 0.3862 0.0785 0.5354 83 V 0.2393 0.1256 0.6350 84 G 0.1853 0.1088 0.7059 85 I 0.1980 0.2319 0.5701 86 D 0.1078 0.2732 0.6189 87 H 0.1146 0.3892 0.4962 88 L 0.2181 0.2914 0.4905 89 A 0.2268 0.2709 0.5024 90 L 0.0104 0.9138 0.0758 91 D 0.0055 0.9508 0.0437 92 E 0.0050 0.9562 0.0388 93 I 0.0048 0.9564 0.0388 94 K 0.0050 0.9459 0.0491 95 K 0.0056 0.9075 0.0869 96 R 0.0426 0.3648 0.5926 97 G 0.0409 0.0191 0.9400 98 I 0.1502 0.0082 0.8416 99 R 0.7230 0.0063 0.2706 100 V 0.8597 0.0094 0.1309 101 G 0.7905 0.0160 0.1935 102 Y 0.5837 0.0215 0.3948 103 T 0.1774 0.0251 0.7976 104 P 0.0702 0.1011 0.8286 105 D 0.0597 0.1419 0.7984 106 V 0.0943 0.1950 0.7107 107 L 0.0944 0.1869 0.7187 108 T 0.0366 0.5405 0.4230 109 D 0.0133 0.8091 0.1777 110 T 0.0089 0.9173 0.0738 111 T 0.0049 0.9535 0.0416 112 A 0.0047 0.9600 0.0353 113 E 0.0046 0.9613 0.0341 114 L 0.0046 0.9613 0.0341 115 A 0.0046 0.9612 0.0341 116 V 0.0046 0.9612 0.0342 117 S 0.0046 0.9616 0.0338 118 L 0.0046 0.9616 0.0337 119 L 0.0047 0.9610 0.0344 120 L 0.0047 0.9605 0.0349 121 T 0.0047 0.9582 0.0371 122 T 0.0049 0.9468 0.0483 123 C 0.0055 0.8869 0.1076 124 R 0.0074 0.6333 0.3593 125 R 0.0144 0.4181 0.5674 126 L 0.0269 0.3999 0.5733 127 P 0.0113 0.7466 0.2420 128 E 0.0060 0.8513 0.1428 129 A 0.0063 0.8464 0.1472 130 I 0.0062 0.9267 0.0670 131 E 0.0047 0.9569 0.0384 132 E 0.0049 0.9552 0.0399 133 V 0.0065 0.9455 0.0480 134 K 0.0072 0.9029 0.0899 135 N 0.0419 0.4806 0.4775 136 G 0.0322 0.1319 0.8359 137 G 0.0548 0.0726 0.8725 138 W 0.1397 0.1154 0.7449 139 T 0.1174 0.1762 0.7065 140 S 0.1298 0.1889 0.6813 141 W 0.1291 0.1538 0.7171 142 K 0.1431 0.1120 0.7449 143 P 0.1850 0.2894 0.5257 144 L 0.2526 0.3172 0.4302 145 W 0.2981 0.2782 0.4237 146 L 0.2754 0.1922 0.5323 147 C 0.2221 0.1333 0.6446 148 G 0.1849 0.1127 0.7024 149 Y 0.2882 0.1122 0.5996 150 G 0.3209 0.0933 0.5857 151 L 0.2326 0.1323 0.6351 152 T 0.1293 0.1270 0.7437 153 Q 0.1037 0.0706 0.8257 154 S 0.3312 0.0184 0.6504 155 T 0.7911 0.0053 0.2036 156 V 0.9204 0.0036 0.0760 157 G 0.9299 0.0035 0.0666 158 I 0.9298 0.0032 0.0670 159 I 0.8468 0.0325 0.1208 160 G 0.5452 0.0229 0.4319 161 L 0.1612 0.0998 0.7391 162 G 0.0667 0.2148 0.7185 163 R 0.0343 0.7647 0.2011 164 I 0.0070 0.9295 0.0635 165 G 0.0053 0.9516 0.0431 166 Q 0.0047 0.9603 0.0350 167 A 0.0046 0.9611 0.0343 168 I 0.0047 0.9593 0.0360 169 A 0.0047 0.9571 0.0382 170 R 0.0050 0.9481 0.0469 171 R 0.0057 0.9192 0.0751 172 L 0.0121 0.8304 0.1575 173 K 0.0083 0.7247 0.2670 174 P 0.0129 0.7171 0.2701 175 F 0.0510 0.3965 0.5525 176 G 0.0689 0.1082 0.8229 177 V 0.1391 0.0309 0.8300 178 Q 0.3287 0.0661 0.6052 179 R 0.7979 0.0126 0.1896 180 F 0.9018 0.0048 0.0934 181 L 0.9186 0.0046 0.0768 182 Y 0.8988 0.0055 0.0957 183 T 0.7444 0.0191 0.2366 184 G 0.2738 0.0270 0.6992 185 R 0.1087 0.0468 0.8445 186 Q 0.1029 0.0227 0.8744 187 P 0.0771 0.0379 0.8850 188 R 0.0627 0.0277 0.9096 189 P 0.0314 0.6394 0.3293 190 E 0.0142 0.8368 0.1490 191 E 0.0229 0.8431 0.1340 192 A 0.0440 0.7965 0.1595 193 A 0.0651 0.7269 0.2080 194 E 0.0754 0.6298 0.2948 195 F 0.1074 0.3920 0.5005 196 Q 0.1295 0.1864 0.6841 197 A 0.2922 0.0971 0.6107 198 E 0.5192 0.0761 0.4047 199 F 0.6215 0.0320 0.3465 200 V 0.3949 0.0200 0.5850 201 S 0.1824 0.0146 0.8030 202 T 0.0075 0.9051 0.0874 203 P 0.0048 0.9505 0.0447 204 E 0.0048 0.9525 0.0427 205 L 0.0052 0.9455 0.0493 206 A 0.0050 0.9096 0.0854 207 A 0.0069 0.6588 0.3343 208 Q 0.0166 0.4254 0.5580 209 S 0.1095 0.0859 0.8046 210 D 0.0904 0.0710 0.8387 211 F 0.8060 0.0246 0.1695 212 I 0.9214 0.0100 0.0686 213 V 0.9294 0.0056 0.0650 214 V 0.8966 0.0127 0.0907 215 A 0.6589 0.0192 0.3220 216 C 0.2664 0.0235 0.7101 217 S 0.1646 0.0321 0.8033 218 L 0.0996 0.0602 0.8402 219 T 0.0648 0.0384 0.8968 220 P 0.0161 0.3367 0.6472 221 A 0.0263 0.3111 0.6625 222 T 0.0524 0.3245 0.6231 223 E 0.0297 0.4000 0.5702 224 G 0.0334 0.3135 0.6531 225 L 0.0934 0.3255 0.5811 226 C 0.1860 0.1373 0.6767 227 N 0.0816 0.0700 0.8483 228 K 0.0051 0.9339 0.0610 229 D 0.0048 0.9495 0.0458 230 F 0.0051 0.9457 0.0492 231 F 0.0053 0.9374 0.0573 232 Q 0.0055 0.8674 0.1271 233 K 0.0109 0.6242 0.3649 234 M 0.0653 0.3596 0.5750 235 K 0.0502 0.1322 0.8176 236 E 0.0202 0.1619 0.8179 237 T 0.1195 0.0654 0.8151 238 A 0.7871 0.0096 0.2033 239 V 0.9240 0.0033 0.0727 240 F 0.9335 0.0031 0.0634 241 I 0.9242 0.0046 0.0712 242 N 0.8543 0.0066 0.1391 243 I 0.4275 0.0411 0.5314 244 S 0.1819 0.0489 0.7692 245 R 0.0992 0.0814 0.8195 246 G 0.0692 0.0713 0.8595 247 D 0.1251 0.1394 0.7354 248 V 0.3441 0.1153 0.5406 249 V 0.3616 0.0568 0.5816 250 N 0.1518 0.0513 0.7968 251 Q 0.0049 0.9320 0.0631 252 D 0.0047 0.9549 0.0404 253 D 0.0048 0.9553 0.0400 254 L 0.0047 0.9597 0.0356 255 Y 0.0047 0.9596 0.0358 256 Q 0.0046 0.9608 0.0345 257 A 0.0047 0.9601 0.0352 258 L 0.0047 0.9526 0.0426 259 A 0.0060 0.8998 0.0942 260 S 0.0431 0.3810 0.5759 261 G 0.0289 0.0512 0.9199 262 K 0.0726 0.0603 0.8671 263 I 0.5325 0.0328 0.4347 264 A 0.6873 0.0438 0.2688 265 A 0.8510 0.0223 0.1267 266 A 0.8712 0.0208 0.1079 267 G 0.8700 0.0189 0.1111 268 L 0.8458 0.0194 0.1348 269 D 0.7555 0.0202 0.2243 270 V 0.5199 0.0522 0.4280 271 T 0.3039 0.0599 0.6362 272 S 0.1928 0.0531 0.7541 273 P 0.1139 0.0681 0.8181 274 E 0.1040 0.0245 0.8715 275 P 0.1175 0.0261 0.8563 276 L 0.1164 0.0187 0.8649 277 P 0.0739 0.0367 0.8894 278 T 0.0449 0.1269 0.8282 279 N 0.0422 0.1034 0.8544 280 H 0.0805 0.0680 0.8515 281 P 0.0510 0.3135 0.6355 282 L 0.0532 0.4827 0.4640 283 L 0.0947 0.4147 0.4905 284 T 0.1336 0.2128 0.6536 285 L 0.1020 0.0605 0.8376 286 K 0.0305 0.1459 0.8236 287 N 0.0946 0.0710 0.8344 288 C 0.6064 0.0192 0.3744 289 V 0.8415 0.0072 0.1513 290 I 0.8562 0.0081 0.1357 291 L 0.6753 0.0223 0.3024 292 P 0.3820 0.0684 0.5496 293 H 0.2319 0.1076 0.6604 294 I 0.1260 0.2840 0.5900 295 G 0.0947 0.3230 0.5823 296 S 0.0746 0.3956 0.5298 297 A 0.0729 0.3890 0.5382 298 T 0.0525 0.4722 0.4753 299 H 0.0054 0.9385 0.0561 300 R 0.0047 0.9546 0.0407 301 T 0.0047 0.9563 0.0389 302 R 0.0047 0.9591 0.0362 303 N 0.0047 0.9600 0.0353 304 T 0.0047 0.9596 0.0357 305 M 0.0047 0.9601 0.0352 306 S 0.0046 0.9612 0.0342 307 L 0.0046 0.9618 0.0336 308 L 0.0046 0.9618 0.0336 309 A 0.0046 0.9609 0.0345 310 A 0.0046 0.9603 0.0350 311 N 0.0047 0.9565 0.0388 312 N 0.0047 0.9337 0.0616 313 L 0.0047 0.9383 0.0570 314 L 0.0047 0.9457 0.0495 315 A 0.0052 0.9298 0.0649 316 G 0.0058 0.8881 0.1061 317 L 0.0152 0.7118 0.2731 318 R 0.0311 0.3003 0.6686 319 G 0.0234 0.0619 0.9146 320 E 0.0760 0.0238 0.9002 321 P 0.1277 0.0222 0.8501 322 M 0.0936 0.0362 0.8702 323 P 0.0617 0.1751 0.7632 324 S 0.0683 0.1757 0.7560 325 E 0.1110 0.1945 0.6945 326 L 0.1533 0.1277 0.7190 327 K 0.1400 0.0992 0.7608 328 L 0.0722 0.0743 0.8534