# List of top-scoring protein chains for t04-100-30-str2 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 1bkjA 240 2.79e-19 1bkjA d.90.1.1 40243 1f5vA 240 5.12e-19 1bkjA d.90.1.1 40255 1nox 205 8.23e-12 1nox d.90.1.1 40242 1icrA 217 1.01e-06 1vfrA d.90.1.1 62274 1vfrA 218 1.76e-03 1vfrA d.90.1.1 40247 1n81A 186 9.31e-02 a.185.1.1 85388 1qo7A 394 1.47e-01 1qo7A c.69.1.11 34697 1qs0A 407 1.86e-01 1qs0A c.36.1.11 31829 1uanA 227 3.67e-01 1fts 295 3.92e-01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1vk3A 615 3.95e-01 1ojxA 263 4.18e-01 1ig8A 486 4.91e-01 2yhx c.55.1.3 64746 c.55.1.3 64747 1dozA 309 7.24e-01 1ak1 c.92.1.1 35592 1l2uA 245 7.86e-01 c.1.2.3 73516 1gqeA 365 9.31e-01 e.38.1.1 70351 2hvm 273 9.52e-01 1cnv c.1.8.5 28985 1g2qA 187 1.25e+00 c.61.1.1 65117 1uumA 372 1.32e+00 1m5wA 243 1.37e+00 c.1.24.1 84836 1j0aA 325 1.38e+00 c.79.1.1 83871 1kqzA 273 1.42e+00 c.1.8.5 68844 1ufoA 238 1.48e+00 1dik 874 1.86e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1a9xA 1058 2.05e+00 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1vizA 240 2.09e+00 1e7uA 961 2.18e+00 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1ho1A 242 2.45e+00 1ho1A c.1.24.1 61097 1v8gA 329 2.49e+00 1b8fA 509 2.57e+00 1b8fA a.127.1.2 19434 1o4uA 285 2.73e+00 c.1.17.1 86624 d.41.2.1 86625 1gkmA 509 2.76e+00 a.127.1.2 70228 1kblA 873 2.77e+00 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1dqaA 467 2.86e+00 1dqaA d.58.20.1 39364 d.179.1.1 42585 1d3gA 367 2.96e+00 1d3gA c.1.4.1 28600 1f0kA 364 3.05e+00 1f0kA c.87.1.2 35465 1brwA 433 3.11e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 7taa 478 3.12e+00 7taa b.71.1.1 27778 c.1.8.1 28765 1edt 271 3.27e+00 2ebn c.1.8.5 28993 1fsu 492 3.41e+00 1auk c.76.1.2 35032 1k0rA 366 3.70e+00 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1h2wA 710 3.97e+00 b.69.7.1 76596 c.69.1.4 76597 1qfmA 710 3.98e+00 1qfmA b.69.7.1 27673 c.69.1.4 34641 1ejxC 567 4.02e+00 b.92.1.1 83184 c.1.9.2 83185 1iuqA 367 4.03e+00 1ea7A 310 4.21e+00 c.41.1.1 70086 1bw0A 416 4.43e+00 1bw0A c.67.1.1 34385 2tpsA 227 4.46e+00 2tpsA c.1.3.1 28591 1ld8B 437 4.91e+00 a.102.4.3 73839 2shpA 525 4.93e+00 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1k32A 1045 4.96e+00 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1m1nB 522 5.01e+00 c.92.2.3 78418 1d8wA 426 5.09e+00 1de5A c.1.15.2 29394 1n0wA 243 5.35e+00 c.37.1.11 79772 1j9yA 385 5.40e+00 1j9yA c.1.8.3 62791 1jnyA 435 5.47e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1ks8A 433 5.49e+00 a.102.1.2 77519 1p3wA 404 5.84e+00 c.67.1.3 87752 1bgc 174 6.27e+00 1bgc a.26.1.1 16822 1vrtA 560 6.28e+00 1rthA c.55.3.1 33574 e.8.1.2 43023 1dbtA 239 6.35e+00 1dbtA c.1.2.3 28539 1jkmB 361 6.85e+00 1jkmA c.69.1.2 34634 1oaoA 674 7.09e+00 e.26.1.2 86744 1g6hA 257 7.18e+00 1gajA c.37.1.12 60318 1k30A 368 7.29e+00 c.112.1.1 68067 1l1qA 186 7.30e+00 c.61.1.1 77653 1edg 380 7.35e+00 1edg c.1.8.3 28807 1ayl 541 7.36e+00 1ayl c.91.1.1 64718 c.109.1.1 64719 1ccwB 483 7.41e+00 1cb7B c.1.19.2 29646 1f75A 249 7.46e+00 1f75A c.101.1.1 59662 1ir6A 424 7.89e+00 c.107.1.2 71342 1hc7A 477 8.26e+00 1hc7A c.51.1.1 60938 d.68.5.1 60940 d.104.1.1 60939 1zrn 232 8.49e+00 1qq5A c.108.1.1 43323 1auk 489 8.97e+00 1auk c.76.1.2 35030 1ed8A 449 9.45e+00 1b8jA c.76.1.1 34988 1rthA 560 9.89e+00 1rthA c.55.3.1 33576 e.8.1.2 43028 2ebn 289 1.03e+01 2ebn c.1.8.5 28990 1kwgA 645 1.04e+01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1o98A 511 1.04e+01 c.105.1.1 86684 c.76.1.3 86685 1nsj 205 1.05e+01 1nsj c.1.2.4 28560 1uroA 367 1.06e+01 1uroA c.1.22.1 29675 1h09A 338 1.07e+01 b.109.1.1 83420 c.1.8.8 83421 1uouA 474 1.11e+01 1mjhA 162 1.12e+01 1mjhA c.26.2.4 31639 1gci 269 1.12e+01 1gci c.41.1.1 32503 1eqjA 511 1.14e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1gjwA 637 1.15e+01 b.71.1.1 60582 c.1.8.1 60583 1odzA 386 1.21e+01 c.1.8.3 86889 1j96A 323 1.22e+01 c.1.7.1 71616 1hi9A 274 1.24e+01 1hi9A c.99.1.1 61063 1oe4A 247 1.27e+01 c.18.1.3 86895 1vimA 200 1.30e+01 1fgs 428 1.32e+01 1fgs c.59.1.2 33959 c.72.2.2 34962 1j5sA 463 1.33e+01 c.1.9.8 71580 1vjzA 341 1.42e+01 1r3sA 367 1.43e+01 1d8dB 437 1.44e+01 1ft1B a.102.4.3 18866 1l0wA 580 1.47e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1pvtA 238 1.48e+01 4kbpA 432 1.49e+01 4kbpA b.1.12.1 22345 d.159.1.1 42064 1dd9A 338 1.50e+01 1dd9A e.13.1.1 43254 1uhvA 500 1.51e+01 1sfsA 240 1.52e+01 1e79H 146 1.56e+01 1e79H a.2.10.1 15721 b.93.1.1 28438 1q7zA 566 1.63e+01 1o17A 345 1.63e+01 a.46.2.1 80765 c.27.1.1 80766 1dcfA 136 1.69e+01 1dcfA c.23.1.2 31124 1gt6A 269 1.72e+01 c.69.1.17 76342 1dbiA 280 1.72e+01 1gci c.41.1.1 32543 1k6xA 352 1.76e+01 c.2.1.2 68238 1od8A 313 1.76e+01 c.1.8.3 86838 1fc6A 388 1.80e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1fviA 297 1.81e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 1tib 269 1.84e+01 3tgl c.69.1.17 34738 1ex1A 605 1.86e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 1mumA 295 1.87e+01 c.1.12.7 85108 1eudB 396 1.88e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1iso 416 1.88e+01 1iso c.77.1.1 35065 1i50A 1733 1.91e+01 e.29.1.1 61754 1qb7A 236 1.91e+01 1qb7A c.61.1.1 34087 1f8mA 429 1.92e+01 1dquA c.1.12.7 29315 1eceA 358 1.97e+01 1eceA c.1.8.3 28813 1h6zA 913 1.99e+01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1nulA 152 2.00e+01 1nulA c.61.1.1 34011 1hh2P 344 2.01e+01 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1f61A 429 2.02e+01 1dquA c.1.12.7 29319 1pii 452 2.07e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1s9rA 410 2.07e+01 1deoA 233 2.13e+01 1deoA c.23.10.4 31345 1gg4A 452 2.15e+01 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1q74A 303 2.15e+01 1kbpA 432 2.17e+01 4kbpA b.1.12.1 22349 d.159.1.1 42068 1e0wA 313 2.17e+01 1taxA c.1.8.3 59150 1uwsA 489 2.18e+01 1e6wA 260 2.20e+01 1e6wA c.2.1.2 59326 1k7cA 233 2.23e+01 c.23.10.4 68267 1mx3A 347 2.24e+01 c.2.1.4 79638 c.23.12.1 79639 1n08A 163 2.24e+01 b.43.5.1 79730 1i12A 160 2.30e+01 1i21A d.108.1.1 61515 1dosA 358 2.30e+01 1dosA c.1.10.2 29175 2pfkA 320 2.33e+01 3pfk c.89.1.1 35577 1clxA 347 2.33e+01 1taxA c.1.8.3 28899 2bvwA 362 2.37e+01 1bvwA c.6.1.1 30666 1pwxA 254 2.40e+01 1rcqA 357 2.46e+01 1nv8A 284 2.47e+01 c.66.1.30 86224 1d0qA 103 2.52e+01 1d0qA g.41.3.2 45208 1ekjA 221 2.55e+01 1ekjB c.53.2.1 33364 1jltA 122 2.56e+01 a.133.1.2 66867 1sqgA 429 2.56e+01 1cseE 274 2.58e+01 1gci c.41.1.1 32481 1r0rE 274 2.66e+01 1hcl 298 2.68e+01 1hcl d.144.1.7 41593 1eudA 311 2.69e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1g8iA 190 2.70e+01 1rec a.39.1.5 60363 2yhx 457 2.81e+01 2yhx i.12.1.1 46024 1jbwA 428 2.82e+01 c.59.1.2 62860 c.72.2.2 62861 1a0p 290 2.83e+01 1a0p a.60.9.1 18105 d.163.1.1 42165 1b3tA 147 2.84e+01 1b3tA d.58.8.1 39228 1q45A 391 2.84e+01 1jztA 246 2.89e+01 c.104.1.1 63319 1iz5A 249 2.91e+01 d.131.1.2 83834 d.131.1.2 83835 1i19A 561 2.92e+01 1i19A d.58.32.3 61522 d.145.1.1 61523 1e0tA 470 2.98e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1k6wA 426 3.03e+01 b.92.1.2 68236 c.1.9.5 68237 1g5cA 170 3.05e+01 1g5cA c.53.2.1 60264 1vpi 122 3.06e+01 1poa a.133.1.2 19559 1r6dA 337 3.06e+01 1vapA 123 3.10e+01 1poa a.133.1.2 19548 1e4iA 447 3.16e+01 1e70M c.1.8.4 59225 1jtvA 327 3.18e+01 c.2.1.2 84230 1n62B 809 3.19e+01 d.41.1.1 80092 d.133.1.1 80093 1pb1A 416 3.20e+01 c.77.1.1 88014 1sup 275 3.20e+01 1gci c.41.1.1 32510 1e6uA 321 3.21e+01 1bsvA c.2.1.2 29805 1o5zA 442 3.24e+01 1oi7A 288 3.26e+01 c.2.1.8 87049 c.23.4.1 87050 1j2rA 199 3.31e+01 1cfzA 162 3.33e+01 1cfzA c.56.1.1 33754 3xis 387 3.34e+01 4xis c.1.15.3 29423 7odcA 424 3.37e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1qh8A 478 3.37e+01 1qguA c.92.2.3 35633 4xis 387 3.39e+01 4xis c.1.15.3 29421 1m2eA 135 3.43e+01 c.23.1.5 78478 1m1nA 491 3.49e+01 c.92.2.3 78417 1lw6E 281 3.56e+01 c.41.1.1 74293 1rypJ 204 3.61e+01 d.153.1.4 41878 1gz8A 299 3.65e+01 d.144.1.7 83405 1kbjA 412 3.68e+01 c.1.4.1 72280 2tysA 268 3.68e+01 2tysA c.1.2.4 28572 1ml4A 308 3.69e+01 c.78.1.1 79255 c.78.1.1 79256 1oc7A 364 3.71e+01 c.6.1.1 86794 1l2tA 235 3.73e+01 c.37.1.12 73514 2olbA 517 3.75e+01 1jevA c.94.1.1 35721 1j24A 143 3.75e+01 c.52.1.20 84008 1dp4A 435 3.76e+01 1dp4A c.93.1.1 35710 1lzlA 323 3.76e+01 c.69.1.2 78306 1q6cA 495 3.76e+01 1mpxA 615 3.76e+01 b.18.1.13 85041 c.69.1.21 85042 1vddA 228 3.77e+01 1eswA 500 3.78e+01 1cwyA c.1.8.1 59500 1utcA 363 3.80e+01 1otgA 125 3.80e+01 1otgA d.80.1.2 39831 1g5hA 454 3.85e+01 1g5hA c.51.1.1 60270 d.104.1.1 60271 1bg4 302 3.88e+01 1taxA c.1.8.3 28806 1bqcA 302 3.89e+01 1bqcA c.1.8.3 28831 1i1dA 161 3.92e+01 1i21A d.108.1.1 61526 1hkxA 147 3.92e+01 d.17.4.7 83567 1ec7A 446 3.94e+01 1bqg c.1.11.2 29218 d.54.1.1 38862