# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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.soe.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 2eo0A 147 2.04e-02 1hh1A 143 2.28e-02 1gefA c.52.1.18 61036 1gefA 123 2.33e-02 1gefA c.52.1.18 60465 1y88A 199 7.01e-02 a.60.4.3,c.52.1.30 116560,116561 1ob8A 135 3.88e-01 c.52.1.18 111627 1sw2A 275 1.04e+00 c.94.1.1 106064 1cliA 345 1.17e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 2jc5A 259 3.51e+00 2inbA 140 3.64e+00 1f9yA 158 4.28e+00 d.58.30.1 83249 1sw5A 275 4.30e+00 c.94.1.1 106069 1nv8A 284 4.30e+00 c.66.1.30 86224 1lvwA 295 5.81e+00 c.68.1.6 84723 1of5B 184 6.26e+00 d.17.4.2 86934 1l1jA 239 6.34e+00 b.47.1.1 84516 1qmvA 197 7.80e+00 1qq2A c.47.1.10 33066 2pzmA 330 9.13e+00 1jq5A 370 9.23e+00 e.22.1.2 67084 1tf4A 605 9.75e+00 1tf4A a.102.1.2,b.2.2.2 18827,22393 8rucI 123 1.11e+01 1rboC d.73.1.1 39629 2q7eA 291 1.12e+01 2v9yA 334 1.18e+01 1sw5B 275 1.20e+01 c.94.1.1 106070 1moq 368 1.25e+01 1moq 1moqA 368 1.25e+01 c.80.1.1 35302 1jmsA 381 1.28e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 2g45A 129 1.32e+01 1jeoA 180 1.36e+01 c.80.1.3 66611 2btuA 346 1.41e+01 2okfA 140 1.50e+01 1f9zA 135 1.52e+01 1qipA d.32.1.1 38484 2ggoA 401 1.57e+01 1gvfA 286 1.62e+01 c.1.10.2 70599 2ex4A 241 1.62e+01 c.66.1.42 132516 1gqeA 365 1.66e+01 e.38.1.1 70351 1vk3A 615 1.73e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 2jrrA 67 1.76e+01 1cs0A 1073 1.77e+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 1i2cA 404 1.81e+01 c.2.1.2 83666 1fa8A 135 1.83e+01 1qipA d.32.1.1 38486 1qrrA 394 1.87e+01 1qrrA c.2.1.2 29824 1o97D 320 1.89e+01 c.26.2.3,c.31.1.2 81233,81234 2q4wA 524 1.93e+01 1i24A 404 2.01e+01 c.2.1.2 83663 1elqA 390 2.05e+01 1elqA c.67.1.3 34436 1eg9A 449 2.12e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1o7nA 449 2.13e+01 b.33.1.2,d.129.3.3 81162,81163 2j5vA 367 2.17e+01 3rubS 123 2.18e+01 1rboC d.73.1.1 39616 2as0A 396 2.27e+01 b.122.1.9,c.66.1.51 127227,127228 1e4eA 343 2.28e+01 1iow c.30.1.2,d.142.1.1 59221,59222 2jerA 389 2.30e+01 2omzB 105 2.31e+01 2ffiA 288 2.35e+01 c.1.9.15 133385 1wwzA 159 2.41e+01 d.108.1.1 121380 2e61A 69 2.42e+01 2pn8A 211 2.43e+01 2jroA 78 2.66e+01 1qb5D 99 2.68e+01 b.40.2.1 88357 2bs9A 503 2.70e+01 b.71.1.2,c.1.8.3 129062,129063 1c4kA 730 2.70e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31273,34502,41123 1y0kA 209 2.71e+01 c.52.1.31 122485 2p4hX 322 2.73e+01 1vrpA 381 2.74e+01 a.83.1.1,d.128.1.2 120473,120474 1tiiD 99 2.86e+01 1tiiD b.40.2.1 24965 1vimA 200 2.95e+01 c.80.1.3 100758 2e5yA 133 2.98e+01 1eluA 390 3.02e+01 1elqA c.67.1.3 34434 2o5vA 359 3.04e+01 1seiA 130 3.05e+01 1seiA d.140.1.1 41463 1k8kF 168 3.07e+01 d.198.2.1 68312 2icgA 160 3.11e+01 2z5bA 151 3.13e+01 2p14A 192 3.13e+01 2c5uA 375 3.13e+01 1iicA 422 3.14e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1r9oA 477 3.15e+01 a.104.1.1 104878 1q7fA 286 3.15e+01 b.68.9.1 96036 1stzA 338 3.21e+01 a.4.5.51,d.110.2.3 106009,106010 1iow 306 3.29e+01 1iow 1iowA 306 3.29e+01 c.30.1.2,d.142.1.1 31713,41481 2exrA 524 3.31e+01 1p3wA 404 3.32e+01 c.67.1.3 87752 1xtoA 311 3.44e+01 d.157.1.6 116030 1brfA 53 3.46e+01 1rb9 g.41.5.1 45236 2zceA 291 3.49e+01 2pvxA 54 3.49e+01 1r6fA 310 3.50e+01 e.46.1.1 97149 1tz9A 367 3.60e+01 c.1.15.6 107466 1u6rA 380 3.69e+01 a.83.1.1,d.128.1.2 119600,119601 1bq9A 54 3.70e+01 1rb9 g.41.5.1 45238 2pbeA 294 3.72e+01 1ov3A 138 3.75e+01 b.34.2.1,b.34.2.1 87451,87452 1mdoA 393 3.76e+01 c.67.1.4 79013 2f5xA 312 3.85e+01 2rauA 354 3.87e+01 1o6sB 105 3.90e+01 b.1.6.1 81096 2hz5A 106 3.98e+01 2bfgA 503 4.04e+01 b.71.1.2,c.1.8.3 128423,128424 2vccA 891 4.13e+01 2jsoA 88 4.17e+01 1z2nX 324 4.18e+01 1uv7A 110 4.26e+01 d.67.4.1 100040 1mkhA 107 4.36e+01 b.40.4.4 79238 2f62A 161 4.37e+01 c.23.14.1 133021 1snzA 344 4.48e+01 b.30.5.4 98930 1dmmA 131 4.50e+01 1opy d.17.4.3 38114 2h2wA 312 4.56e+01 1fe0A 68 4.56e+01 1cc8A d.58.17.1 39345 1m3sA 186 4.61e+01 c.80.1.3 78573 1y791 680 4.63e+01 1we0A 187 4.65e+01 c.47.1.10 120930 2h41A 95 4.66e+01 1rblI 109 4.67e+01 d.73.1.1 118599 2j7uA 635 4.83e+01 1g0cA 364 5.08e+01 7a3hA c.1.8.3 60165 2zctA 249 5.16e+01 1y1pA 342 5.18e+01 c.2.1.2 122550 1hrdA 449 5.33e+01 1k89 c.2.1.7,c.58.1.1 30219,33867 1rscI 111 5.36e+01 d.73.1.1 118620 1qh4A 380 5.37e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1wdjA 187 5.44e+01 c.52.1.27 114536 2ostA 151 5.45e+01 1xmxA 385 5.48e+01 c.52.1.26 115568 3cox 507 5.52e+01 1b8sA 3coxA 507 5.52e+01 c.3.1.2,d.16.1.1 30332,37863 1o6dA 163 5.54e+01 c.116.1.3 92567 1rkd 309 5.58e+01 1rkd 1rkdA 309 5.58e+01 c.72.1.1 34928 1sa3A 262 5.62e+01 c.52.1.23 105400 1sbp 310 5.63e+01 1sbp 1sbpA 310 5.63e+01 c.94.1.1 35760 2q8zA 342 5.64e+01 1tc5A 194 5.68e+01 c.110.1.1 106752 1xvxA 312 5.80e+01 c.94.1.1 116097 2gvkA 317 5.83e+01 d.58.4.14 135782 1oruA 195 5.91e+01 b.58.1.2 93464 2ovgA 66 5.92e+01 1pcxA 810 5.95e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1vetA 124 6.03e+01 d.110.7.1 108553 1z5yE 149 6.05e+01 c.47.1.10 124498 2pb2A 420 6.05e+01 3blnA 143 6.07e+01 2o14A 375 6.13e+01 2e5vA 472 6.18e+01 1wy7A 207 6.20e+01 c.66.1.32 121433 1ukgA 252 6.24e+01 b.29.1.1 99489 2qz7A 194 6.25e+01 2b1kA 168 6.31e+01 1vjtA 483 6.43e+01 c.2.1.5,d.162.1.2 100833,100834 1m1lA 236 6.52e+01 d.260.1.1 91166 2r37A 207 6.69e+01 1yk4A 52 6.71e+01 1o6gA 710 6.76e+01 b.69.7.1,c.69.1.4 81087,81088 1qx4A 274 6.82e+01 b.43.4.2,c.25.1.1 104624,104625 2evbA 74 6.88e+01 1zxtA 76 6.88e+01 1bgvA 449 6.93e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 2pveA 54 6.98e+01 2osoA 163 7.03e+01 2ai4A 119 7.11e+01 b.6.1.7 126816 1eonA 245 7.11e+01 1rvaA c.52.1.2 33238 3bqxA 150 7.12e+01 1qfmA 710 7.17e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 1h2wA 710 7.22e+01 b.69.7.1,c.69.1.4 76596,76597 1eudB 396 7.25e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1iroA 54 7.25e+01 g.41.5.1 45223 2qq5A 260 7.31e+01 1wyuA 438 7.35e+01 c.67.1.7 121452 1bdmA 327 7.38e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1suuA 312 7.38e+01 b.68.10.1 99006 5croA 66 7.47e+01 1orc a.35.1.2 17044 1b13A 54 7.60e+01 1rb9 g.41.5.1 45227 1x8qA 184 7.68e+01 b.60.1.1 114966 2dgxA 96 7.70e+01 d.58.7.1 131515 1vqoU 66 7.70e+01 g.39.1.6 120382 1p5dX 463 7.78e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1jf9A 408 7.81e+01 1c0nA c.67.1.3 62931 1q47A 495 7.86e+01 b.69.12.1 104532 2r76A 152 7.92e+01 2hkjA 469 7.97e+01 a.156.1.3,d.14.1.3,d.122.1.2 136553,136554,136555 1mu5A 471 7.97e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474