# This file is the result of combining several RDB files, specifically # T0387.t06.str2.rdb (weight 1.54425) # T0387.t06.str4.rdb (weight 0.924988) # T0387.t06.pb.rdb (weight 0.789901) # T0387.t06.bys.rdb (weight 0.748322) # T0387.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 T0387.t06.str2.rdb # ============================================ # TARGET T0387 # 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 T0387.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 2612 # # ============================================ # Comments from T0387.t06.str4.rdb # ============================================ # TARGET T0387 # 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 T0387.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 2612 # # ============================================ # Comments from T0387.t06.pb.rdb # ============================================ # TARGET T0387 # 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 T0387.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 2612 # # ============================================ # Comments from T0387.t06.bys.rdb # ============================================ # TARGET T0387 # 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 T0387.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 2612 # # ============================================ # Comments from T0387.t06.alpha.rdb # ============================================ # TARGET T0387 # 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 T0387.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 2612 # # ============================================ Pos AA E H C 10N 1S 5N 5N 5N 1 S 0.2264 0.0853 0.6883 2 M 0.2434 0.0633 0.6933 3 K 0.3618 0.0234 0.6148 4 P 0.5278 0.0165 0.4558 5 K 0.6847 0.0221 0.2933 6 L 0.7605 0.0062 0.2333 7 C 0.7930 0.0069 0.2001 8 R 0.7997 0.0054 0.1950 9 L 0.7429 0.0081 0.2490 10 A 0.6462 0.0198 0.3340 11 K 0.4364 0.0399 0.5237 12 G 0.2484 0.0547 0.6969 13 E 0.1739 0.1793 0.6467 14 N 0.1404 0.1445 0.7151 15 G 0.1818 0.0873 0.7309 16 Y 0.3547 0.0633 0.5820 17 G 0.5561 0.0286 0.4152 18 F 0.7470 0.0082 0.2448 19 H 0.7798 0.0079 0.2124 20 L 0.7410 0.0118 0.2472 21 N 0.6677 0.0331 0.2992 22 A 0.5119 0.0593 0.4288 23 I 0.3568 0.1141 0.5292 24 R 0.2340 0.1381 0.6279 25 G 0.1310 0.0974 0.7716 26 L 0.2180 0.0431 0.7389 27 P 0.1858 0.1148 0.6994 28 G 0.2918 0.0752 0.6330 29 S 0.6374 0.0185 0.3441 30 F 0.7341 0.0130 0.2529 31 I 0.6895 0.0258 0.2847 32 K 0.6273 0.0603 0.3123 33 E 0.6825 0.0490 0.2685 34 V 0.5463 0.0477 0.4060 35 Q 0.3463 0.0517 0.6021 36 K 0.1261 0.2076 0.6662 37 G 0.0537 0.1418 0.8045 38 G 0.1458 0.1310 0.7232 39 P 0.0938 0.4980 0.4082 40 A 0.0551 0.7183 0.2266 41 D 0.0458 0.7663 0.1878 42 L 0.0528 0.6807 0.2665 43 A 0.0682 0.3145 0.6173 44 G 0.0521 0.1182 0.8297 45 L 0.1811 0.0335 0.7855 46 E 0.1971 0.0250 0.7779 47 D 0.0834 0.2647 0.6519 48 E 0.0639 0.1952 0.7410 49 D 0.2406 0.1171 0.6423 50 V 0.6096 0.0576 0.3328 51 I 0.6807 0.0645 0.2548 52 I 0.7200 0.0417 0.2382 53 E 0.7366 0.0446 0.2188 54 V 0.6163 0.0614 0.3223 55 N 0.3118 0.0714 0.6168 56 G 0.1384 0.0525 0.8091 57 V 0.3650 0.0245 0.6106 58 N 0.4307 0.0296 0.5396 59 V 0.3082 0.1662 0.5256 60 L 0.1871 0.2095 0.6035 61 D 0.1261 0.1075 0.7664 62 E 0.2279 0.0542 0.7179 63 P 0.1726 0.0514 0.7760 64 Y 0.0178 0.7333 0.2489 65 E 0.0093 0.8673 0.1233 66 K 0.0084 0.9216 0.0700 67 V 0.0084 0.9222 0.0694 68 V 0.0083 0.9209 0.0708 69 D 0.0083 0.9223 0.0694 70 R 0.0084 0.9194 0.0721 71 I 0.0106 0.9049 0.0845 72 Q 0.0123 0.8591 0.1286 73 S 0.0245 0.6303 0.3452 74 S 0.0675 0.2136 0.7189 75 G 0.0538 0.0805 0.8657 76 K 0.1902 0.0563 0.7535 77 N 0.4981 0.0236 0.4783 78 V 0.7533 0.0083 0.2384 79 T 0.7968 0.0061 0.1971 80 L 0.8022 0.0052 0.1926 81 L 0.7987 0.0063 0.1950 82 V 0.7503 0.0059 0.2437 83 C 0.6456 0.0196 0.3347 84 G 0.3886 0.0305 0.5810 85 K 0.2561 0.1025 0.6414 86 K 0.2369 0.1319 0.6312 87 A 0.2107 0.1532 0.6361 88 Q 0.1922 0.1727 0.6351 89 D 0.1982 0.1316 0.6702 90 T 0.2170 0.0836 0.6994 91 V 0.1718 0.2116 0.6167 92 S 0.2264 0.0853 0.6883 93 M 0.2434 0.0633 0.6933 94 K 0.3618 0.0234 0.6148 95 P 0.5278 0.0165 0.4558 96 K 0.6847 0.0221 0.2933 97 L 0.7605 0.0062 0.2333 98 C 0.7930 0.0069 0.2001 99 R 0.7997 0.0054 0.1950 100 L 0.7429 0.0081 0.2490 101 A 0.6462 0.0198 0.3340 102 K 0.4364 0.0399 0.5237 103 G 0.2484 0.0547 0.6969 104 E 0.1739 0.1793 0.6467 105 N 0.1404 0.1445 0.7151 106 G 0.1818 0.0873 0.7309 107 Y 0.3547 0.0633 0.5820 108 G 0.5561 0.0286 0.4152 109 F 0.7470 0.0082 0.2448 110 H 0.7798 0.0079 0.2124 111 L 0.7410 0.0118 0.2472 112 N 0.6677 0.0331 0.2992 113 A 0.5119 0.0593 0.4288 114 I 0.3568 0.1141 0.5292 115 R 0.2340 0.1381 0.6279 116 G 0.1310 0.0974 0.7716 117 L 0.2180 0.0431 0.7389 118 P 0.1858 0.1148 0.6994 119 G 0.2918 0.0752 0.6330 120 S 0.6374 0.0185 0.3441 121 F 0.7341 0.0130 0.2529 122 I 0.6895 0.0258 0.2847 123 K 0.6273 0.0603 0.3123 124 E 0.6825 0.0490 0.2685 125 V 0.5463 0.0477 0.4060 126 Q 0.3463 0.0517 0.6021 127 K 0.1261 0.2076 0.6662 128 G 0.0537 0.1418 0.8045 129 G 0.1458 0.1310 0.7232 130 P 0.0938 0.4980 0.4082 131 A 0.0551 0.7183 0.2266 132 D 0.0458 0.7663 0.1878 133 L 0.0528 0.6807 0.2665 134 A 0.0682 0.3145 0.6173 135 G 0.0521 0.1182 0.8297 136 L 0.1811 0.0335 0.7855 137 E 0.1971 0.0250 0.7779 138 D 0.0834 0.2647 0.6519 139 E 0.0639 0.1952 0.7410 140 D 0.2406 0.1171 0.6423 141 V 0.6096 0.0576 0.3328 142 I 0.6807 0.0645 0.2548 143 I 0.7200 0.0417 0.2382 144 E 0.7366 0.0446 0.2188 145 V 0.6163 0.0614 0.3223 146 N 0.3118 0.0714 0.6168 147 G 0.1384 0.0525 0.8091 148 V 0.3650 0.0245 0.6106 149 N 0.4307 0.0296 0.5396 150 V 0.3082 0.1662 0.5256 151 L 0.1871 0.2095 0.6035 152 D 0.1261 0.1075 0.7664 153 E 0.2279 0.0542 0.7179 154 P 0.1726 0.0514 0.7760 155 Y 0.0178 0.7333 0.2489 156 E 0.0093 0.8673 0.1233 157 K 0.0084 0.9216 0.0700 158 V 0.0084 0.9222 0.0694 159 V 0.0083 0.9209 0.0708 160 D 0.0083 0.9223 0.0694 161 R 0.0084 0.9194 0.0721 162 I 0.0106 0.9049 0.0845 163 Q 0.0123 0.8591 0.1286 164 S 0.0245 0.6303 0.3452 165 S 0.0675 0.2136 0.7189 166 G 0.0538 0.0805 0.8657 167 K 0.1902 0.0563 0.7535 168 N 0.4981 0.0236 0.4783 169 V 0.7533 0.0083 0.2384 170 T 0.7968 0.0061 0.1971 171 L 0.8022 0.0052 0.1926 172 L 0.7987 0.0063 0.1950 173 V 0.7503 0.0059 0.2437 174 C 0.6456 0.0196 0.3347 175 G 0.3886 0.0305 0.5810 176 K 0.2561 0.1025 0.6414 177 K 0.2369 0.1319 0.6312 178 A 0.2107 0.1532 0.6361 179 Q 0.1922 0.1727 0.6351 180 D 0.1982 0.1316 0.6702 181 T 0.2170 0.0836 0.6994 182 V 0.1718 0.2116 0.6167 183 S 0.2264 0.0853 0.6883 184 M 0.2434 0.0633 0.6933 185 K 0.3618 0.0234 0.6148 186 P 0.5278 0.0165 0.4558 187 K 0.6847 0.0221 0.2933 188 L 0.7605 0.0062 0.2333 189 C 0.7930 0.0069 0.2001 190 R 0.7997 0.0054 0.1950 191 L 0.7429 0.0081 0.2490 192 A 0.6462 0.0198 0.3340 193 K 0.4364 0.0399 0.5237 194 G 0.2484 0.0547 0.6969 195 E 0.1739 0.1793 0.6467 196 N 0.1404 0.1445 0.7151 197 G 0.1818 0.0873 0.7309 198 Y 0.3547 0.0633 0.5820 199 G 0.5561 0.0286 0.4152 200 F 0.7470 0.0082 0.2448 201 H 0.7798 0.0079 0.2124 202 L 0.7410 0.0118 0.2472 203 N 0.6677 0.0331 0.2992 204 A 0.5119 0.0593 0.4288 205 I 0.3568 0.1141 0.5292 206 R 0.2340 0.1381 0.6279 207 G 0.1310 0.0974 0.7716 208 L 0.2180 0.0431 0.7389 209 P 0.1858 0.1148 0.6994 210 G 0.2918 0.0752 0.6330 211 S 0.6374 0.0185 0.3441 212 F 0.7341 0.0130 0.2529 213 I 0.6895 0.0258 0.2847 214 K 0.6273 0.0603 0.3123 215 E 0.6825 0.0490 0.2685 216 V 0.5463 0.0477 0.4060 217 Q 0.3463 0.0517 0.6021 218 K 0.1261 0.2076 0.6662 219 G 0.0537 0.1418 0.8045 220 G 0.1458 0.1310 0.7232 221 P 0.0938 0.4980 0.4082 222 A 0.0551 0.7183 0.2266 223 D 0.0458 0.7663 0.1878 224 L 0.0528 0.6807 0.2665 225 A 0.0682 0.3145 0.6173 226 G 0.0521 0.1182 0.8297 227 L 0.1811 0.0335 0.7855 228 E 0.1971 0.0250 0.7779 229 D 0.0834 0.2647 0.6519 230 E 0.0639 0.1952 0.7410 231 D 0.2406 0.1171 0.6423 232 V 0.6096 0.0576 0.3328 233 I 0.6807 0.0645 0.2548 234 I 0.7200 0.0417 0.2382 235 E 0.7366 0.0446 0.2188 236 V 0.6163 0.0614 0.3223 237 N 0.3118 0.0714 0.6168 238 G 0.1384 0.0525 0.8091 239 V 0.3650 0.0245 0.6106 240 N 0.4307 0.0296 0.5396 241 V 0.3082 0.1662 0.5256 242 L 0.1871 0.2095 0.6035 243 D 0.1261 0.1075 0.7664 244 E 0.2279 0.0542 0.7179 245 P 0.1726 0.0514 0.7760 246 Y 0.0178 0.7333 0.2489 247 E 0.0093 0.8673 0.1233 248 K 0.0084 0.9216 0.0700 249 V 0.0084 0.9222 0.0694 250 V 0.0083 0.9209 0.0708 251 D 0.0083 0.9223 0.0694 252 R 0.0084 0.9194 0.0721 253 I 0.0106 0.9049 0.0845 254 Q 0.0123 0.8591 0.1286 255 S 0.0245 0.6303 0.3452 256 S 0.0675 0.2136 0.7189 257 G 0.0538 0.0805 0.8657 258 K 0.1902 0.0563 0.7535 259 N 0.4981 0.0236 0.4783 260 V 0.7533 0.0083 0.2384 261 T 0.7968 0.0061 0.1971 262 L 0.8022 0.0052 0.1926 263 L 0.7987 0.0063 0.1950 264 V 0.7503 0.0059 0.2437 265 C 0.6456 0.0196 0.3347 266 G 0.3886 0.0305 0.5810 267 K 0.2561 0.1025 0.6414 268 K 0.2369 0.1319 0.6312 269 A 0.2107 0.1532 0.6361 270 Q 0.1922 0.1727 0.6351 271 D 0.1982 0.1316 0.6702 272 T 0.2170 0.0836 0.6994 273 V 0.1718 0.2116 0.6167 274 S 0.2264 0.0853 0.6883 275 M 0.2434 0.0633 0.6933 276 K 0.3618 0.0234 0.6148 277 P 0.5278 0.0165 0.4558 278 K 0.6847 0.0221 0.2933 279 L 0.7605 0.0062 0.2333 280 C 0.7930 0.0069 0.2001 281 R 0.7997 0.0054 0.1950 282 L 0.7429 0.0081 0.2490 283 A 0.6462 0.0198 0.3340 284 K 0.4364 0.0399 0.5237 285 G 0.2484 0.0547 0.6969 286 E 0.1739 0.1793 0.6467 287 N 0.1404 0.1445 0.7151 288 G 0.1818 0.0873 0.7309 289 Y 0.3547 0.0633 0.5820 290 G 0.5561 0.0286 0.4152 291 F 0.7470 0.0082 0.2448 292 H 0.7798 0.0079 0.2124 293 L 0.7410 0.0118 0.2472 294 N 0.6677 0.0331 0.2992 295 A 0.5119 0.0593 0.4288 296 I 0.3568 0.1141 0.5292 297 R 0.2340 0.1381 0.6279 298 G 0.1310 0.0974 0.7716 299 L 0.2180 0.0431 0.7389 300 P 0.1858 0.1148 0.6994 301 G 0.2918 0.0752 0.6330 302 S 0.6374 0.0185 0.3441 303 F 0.7341 0.0130 0.2529 304 I 0.6895 0.0258 0.2847 305 K 0.6273 0.0603 0.3123 306 E 0.6825 0.0490 0.2685 307 V 0.5463 0.0477 0.4060 308 Q 0.3463 0.0517 0.6021 309 K 0.1261 0.2076 0.6662 310 G 0.0537 0.1418 0.8045 311 G 0.1458 0.1310 0.7232 312 P 0.0938 0.4980 0.4082 313 A 0.0551 0.7183 0.2266 314 D 0.0458 0.7663 0.1878 315 L 0.0528 0.6807 0.2665 316 A 0.0682 0.3145 0.6173 317 G 0.0521 0.1182 0.8297 318 L 0.1811 0.0335 0.7855 319 E 0.1971 0.0250 0.7779 320 D 0.0834 0.2647 0.6519 321 E 0.0639 0.1952 0.7410 322 D 0.2406 0.1171 0.6423 323 V 0.6096 0.0576 0.3328 324 I 0.6807 0.0645 0.2548 325 I 0.7200 0.0417 0.2382 326 E 0.7366 0.0446 0.2188 327 V 0.6163 0.0614 0.3223 328 N 0.3118 0.0714 0.6168 329 G 0.1384 0.0525 0.8091 330 V 0.3650 0.0245 0.6106 331 N 0.4307 0.0296 0.5396 332 V 0.3082 0.1662 0.5256 333 L 0.1871 0.2095 0.6035 334 D 0.1261 0.1075 0.7664 335 E 0.2279 0.0542 0.7179 336 P 0.1726 0.0514 0.7760 337 Y 0.0178 0.7333 0.2489 338 E 0.0093 0.8673 0.1233 339 K 0.0084 0.9216 0.0700 340 V 0.0084 0.9222 0.0694 341 V 0.0083 0.9209 0.0708 342 D 0.0083 0.9223 0.0694 343 R 0.0084 0.9194 0.0721 344 I 0.0106 0.9049 0.0845 345 Q 0.0123 0.8591 0.1286 346 S 0.0245 0.6303 0.3452 347 S 0.0675 0.2136 0.7189 348 G 0.0538 0.0805 0.8657 349 K 0.1902 0.0563 0.7535 350 N 0.4981 0.0236 0.4783 351 V 0.7533 0.0083 0.2384 352 T 0.7968 0.0061 0.1971 353 L 0.8022 0.0052 0.1926 354 L 0.7987 0.0063 0.1950 355 V 0.7503 0.0059 0.2437 356 C 0.6456 0.0196 0.3347 357 G 0.3886 0.0305 0.5810 358 K 0.2561 0.1025 0.6414 359 K 0.2369 0.1319 0.6312 360 A 0.2107 0.1532 0.6361 361 Q 0.1922 0.1727 0.6351 362 D 0.1982 0.1316 0.6702 363 T 0.2170 0.0836 0.6994 364 V 0.1718 0.2116 0.6167