# List of top-scoring protein chains for t06-100-30-n_notor2-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1k8kA 418 1.23e-01 c.55.1.1,c.55.1.1 68305,68306 1oa4A 222 3.90e-01 b.29.1.11 86731 1bxoA 323 1.67e+00 2er7E b.50.1.2 26805 1kblA 873 1.98e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1kolA 398 2.34e+00 b.35.1.2,c.2.1.1 77474,77475 1ncwL 219 2.57e+00 b.1.1.1,b.1.1.2 85557,85558 1nrwA 288 2.58e+00 c.108.1.10 86128 2d0oA 610 3.06e+00 1zcjA 463 3.09e+00 1l9kA 305 3.42e+00 c.66.1.25 84569 1gpeA 587 3.78e+00 1gpeA c.3.1.2,d.16.1.1 30387,37951 1w0pA 781 4.38e+00 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1gteA 1025 4.69e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1oqvA 192 5.00e+00 d.24.1.2 87320 2cn3A 737 5.88e+00 1f1xA 322 5.99e+00 d.32.1.3,d.32.1.3 83208,83209 1wmxA 205 6.18e+00 b.18.1.24 109418 1bf2 750 6.42e+00 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1heiA 451 6.47e+00 1heiA c.37.1.14,c.37.1.14 32463,32464 1axiB 236 6.75e+00 1axiB b.1.2.1,b.1.2.1 21997,21998 1kxoA 184 7.26e+00 b.60.1.1 84475 1ct9A 553 7.61e+00 1ct9A c.26.2.1,d.153.1.1 31616,41834 2al2A 436 8.12e+00 1n35A 1267 8.12e+00 e.8.1.4 79935 1ms9A 648 8.28e+00 b.29.1.15,b.68.1.1 85088,85089 1w9pA 433 8.35e+00 1d3gA 367 9.16e+00 1d3gA c.1.4.1 28600 1ng0A 253 9.20e+00 b.121.4.7 80475 1evyA 366 9.37e+00 1evyA a.100.1.6,c.2.1.6 18811,30215 1hyoA 421 1.07e+01 1qcnA b.34.8.1,d.177.1.1 59001,59002 1wb9A 800 1.09e+01 1lehA 364 1.10e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 2cqeA 98 1.11e+01 1oxwA 373 1.11e+01 c.19.1.3 87539 2fh5A 185 1.12e+01 2cvxA 888 1.17e+01 1q9rA 219 1.22e+01 b.1.1.1,b.1.1.2 96305,96306 2f6hX 419 1.31e+01 1on3A 523 1.36e+01 c.14.1.4,c.14.1.4 87107,87108 1kcfA 258 1.55e+01 a.140.2.1,c.55.3.7 68434,68435 1wljA 189 1.55e+01 1uwsA 489 1.68e+01 c.1.8.4 108073 1yc5A 246 1.73e+01 1a0cA 438 1.75e+01 1a0cA c.1.15.3 29529 2cfuA 658 1.78e+01 2giyA 191 1.79e+01 2ahuA 531 1.85e+01 4bcl 366 1.86e+01 4bcl b.75.1.1 27968 1vfgA 390 1.88e+01 a.173.1.1,d.218.1.4 108570,108571 1yp2A 451 1.91e+01 2ajuL 216 1.91e+01 1j1lA 290 1.92e+01 b.82.1.12 90766 1auiB 169 1.94e+01 1auiB a.39.1.5 17325 1k3xA 262 2.01e+01 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 1dzlA 505 2.02e+01 1dzlA b.121.6.1 23586 1cnzA 363 2.07e+01 1cnzA c.77.1.1 35061 1pm4A 119 2.07e+01 b.135.1.1 94891 1nffA 260 2.08e+01 c.2.1.2 80457 1g94A 448 2.14e+01 b.71.1.1,c.1.8.1 65169,65170 1gxrA 337 2.16e+01 b.69.4.1 70722 1cs0A 1073 2.24e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1xtmA 175 2.28e+01 1wp5A 323 2.29e+01 1b65A 375 2.32e+01 1b65A d.154.1.1 42020 1h0pA 182 2.38e+01 b.62.1.1 76450 2sak 121 2.42e+01 2sak d.15.5.1 37711 2gtqA 867 2.43e+01 1rlmA 271 2.45e+01 2fr1A 486 2.56e+01 1c30B 382 2.61e+01 c.8.3.1,c.23.16.1 30736,31413 1budA 197 2.74e+01 1atlA d.92.1.9 40328 2bpa1 426 2.76e+01 2bpa1 1y7bA 542 2.81e+01 1v0wA 506 2.83e+01 d.136.1.2,d.136.1.2 108220,108221 1a9xA 1058 2.83e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1ty0A 211 2.83e+01 b.40.2.2,d.15.6.1 107440,107441 1ohlA 342 2.84e+01 c.1.10.3 87035 1suuA 312 3.09e+01 b.68.10.1 99006 1p32A 209 3.17e+01 1p32A d.25.1.1 38379 2b7kA 200 3.20e+01 1h09A 338 3.22e+01 b.109.1.1,c.1.8.8 83420,83421 1wdyA 285 3.26e+01 2gfoA 396 3.30e+01 1oi0A 124 3.39e+01 c.97.3.1 93045 1gppA 237 3.43e+01 b.86.1.2 76262 1o7fA 469 3.43e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 2gupA 292 3.49e+01 1u7bA 261 3.52e+01 1n8kA 374 3.52e+01 b.35.1.2,c.2.1.1 80298,80299 1qynA 153 3.54e+01 d.33.1.1 96597 1b7yB 785 3.59e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1o5zA 442 3.60e+01 c.59.1.2,c.72.2.2 92530,92531 1zd3A 555 3.64e+01 1mrg 263 3.68e+01 1mrj d.165.1.1 42183 1cdy 178 3.76e+01 1cdy b.1.1.1,b.1.1.3 19719,21658 1gttA 429 3.77e+01 d.177.1.1,d.177.1.1 70529,70530 2fokA 579 3.82e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1n0uA 842 3.84e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1gqzA 274 3.87e+01 d.21.1.1,d.21.1.1 83311,83312 1wwcA 118 3.87e+01 1wwcA b.1.1.4 21778 1yi8A 351 3.88e+01 1kk1A 410 3.90e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1ggzA 148 3.91e+01 a.39.1.5 70176 1hh1A 143 4.02e+01 1gefA c.52.1.18 61036 2f3yA 148 4.03e+01 2f2sA 406 4.09e+01 1p3dA 475 4.24e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1r8nA 185 4.25e+01 b.42.4.1 104851 1ugpB 226 4.27e+01 b.34.4.4 107832 2b59B 172 4.29e+01 1bykA 255 4.29e+01 1bykA c.93.1.1 35706 1efyA 350 4.34e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1ogiA 303 4.39e+01 b.43.4.2,c.25.1.1 92914,92915 1i0dA 332 4.39e+01 1pscA c.1.9.3 61487 1l6sA 323 4.46e+01 c.1.10.3 73627 1mqoA 227 4.59e+01 d.157.1.1 103846 1onwA 390 4.59e+01 b.92.1.7,c.1.9.13 87172,87173 1v7wA 807 4.63e+01 a.102.1.4,b.30.5.3 108411,108412 1yw5A 177 4.63e+01 1e3dA 266 4.67e+01 2frvA e.19.1.1 59188 1e5dA 402 4.74e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1d5rA 324 4.75e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1ta8A 332 4.84e+01 1f0kA 364 4.96e+01 1f0kA c.87.1.2 35465 1fthA 122 5.01e+01 d.150.1.2 60028 2f8lA 344 5.09e+01 2bryA 497 5.11e+01 1kutA 230 5.13e+01 d.143.1.1 73017 1wcgA 464 5.15e+01 1qfhA 212 5.25e+01 1qfhA b.1.18.10,b.1.18.10 21893,21894 1bhe 376 5.29e+01 1bhe b.80.1.3 28030 1jmxB 349 5.36e+01 b.69.2.2 66906 1ri6A 343 5.38e+01 b.69.11.1 97503 1x42A 232 5.40e+01 1poiB 260 5.42e+01 1poiB c.124.1.3 34155 1v4vA 376 5.43e+01 c.87.1.3 100313 1mqeA 207 5.45e+01 d.113.1.1 91394 1juvA 193 5.61e+01 c.71.1.1 90912 1jfzA 154 5.62e+01 a.149.1.1 66655 2pvbA 107 5.62e+01 1a75A a.39.1.4 17205 1kdgA 546 5.63e+01 c.3.1.2,d.16.1.1 77337,77338 1udc 338 5.64e+01 1xel c.2.1.2 29785 1a8d 452 5.66e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1wqaA 455 5.69e+01 2bvlA 543 5.70e+01 1hqsA 423 5.72e+01 1iso c.77.1.1 61154 1y42X 392 5.77e+01 2napA 723 5.78e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1yzyA 413 5.79e+01 1qwnA 1045 5.82e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1eylA 186 5.84e+01 1wba b.42.4.1 25593 1s4iA 175 5.87e+01 2nlrA 234 5.96e+01 2nlrA b.29.1.11 24344 1u9iA 519 6.01e+01 1qwtA 255 6.20e+01 b.26.1.3 96501 1ee8A 266 6.29e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1awd 94 6.43e+01 1awd d.15.4.1 37673 1huxA 270 6.52e+01 1huxA c.55.1.5 61278 2aukA 190 6.54e+01 3thiA 371 6.59e+01 2thiA c.94.1.1 35792 1mo9A 523 6.61e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1no1A 126 6.64e+01 a.179.1.1 85913 1zfjA 491 6.65e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1w2fA 276 6.69e+01 d.143.1.3 109125 2fbwB 252 6.82e+01 1g5aA 628 6.90e+01 b.71.1.1,c.1.8.1 65152,65153 1zanL 214 7.02e+01 1r5yA 386 7.02e+01 c.1.20.1 97134 1dekA 241 7.05e+01 1dekA c.37.1.1 31842 1ztcA 221 7.14e+01 1ni4A 365 7.15e+01 c.36.1.11 85728 1a4iA 301 7.17e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 2fug1 438 7.22e+01 1icpA 376 7.22e+01 1oyc c.1.4.1 62270 1ujnA 348 7.30e+01 e.22.1.1 99460 1r6uA 437 7.35e+01 c.26.1.1 97163 1yf3A 259 7.37e+01 1ihuA 589 7.43e+01 c.37.1.10,c.37.1.10 62394,62395 1xx1A 285 7.46e+01 1pgtA 210 7.52e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1y9aA 360 7.55e+01 1w5qA 337 7.60e+01 1pvxA 194 7.63e+01 1axkA b.29.1.11 24341 1vybA 238 7.65e+01 d.151.1.1 108897 1xkpC 143 7.68e+01 1q1rA 431 7.78e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1zybA 232 7.97e+01 1zu4A 320 8.05e+01 1pot 325 8.09e+01 1pot c.94.1.1 35807 1vjfA 180 8.13e+01 d.116.1.1 100809 2b8nA 429 8.32e+01 1nynA 131 8.42e+01 d.235.1.1 86410 1eu1A 780 8.48e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1nnhA 294 8.49e+01 d.104.1.1 92005 2c2xA 281 8.51e+01 1omoA 322 8.52e+01 c.2.1.13 104017 1t5rA 284 8.62e+01 f.6.1.1 106465 19hcA 292 8.63e+01 19hcA a.138.1.1 19668 1k3iA 656 8.64e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 2tpt 440 8.70e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1yifA 533 8.71e+01 2cw6A 298 8.73e+01 2bbhA 269 8.73e+01 1q7eA 428 8.77e+01 c.123.1.1 96035 1qtwA 285 8.84e+01 1qumA c.1.15.1 29392 1gegA 256 8.85e+01 1ybvA c.2.1.2 29888 1z0sA 278 8.88e+01 1bjt 793 8.95e+01 1bjt e.11.1.1 43249 2sli 679 8.95e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1musA 477 8.98e+01 c.55.3.4 79494