# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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 1jtgB 165 8.65e-13 d.98.1.1 67267 2g2uB 165 9.95e-13 d.98.1.1 134541 1h6vA 499 2.11e-01 3grs c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 1knwA 425 3.33e-01 b.49.2.3,c.1.6.1 90969,90970 2fikA 287 5.02e-01 b.1.1.2,d.19.1.1 133524,133525 1qksA 567 6.42e-01 1qksA a.3.1.2,b.70.2.1 15951,27710 1j7lA 264 6.64e-01 d.144.1.6 62697 2bkkA 264 9.38e-01 2v6oA 596 9.92e-01 1ta8A 332 1.02e+00 d.142.2.2 112375 2akrA 285 1.03e+00 b.1.1.2,d.19.1.1 126931,126932 2h36X 112 1.10e+00 1wdvA 152 2.11e+00 d.116.1.1 114539 2j4jA 226 2.20e+00 1hruA 188 2.44e+00 1hruA d.115.1.1 40926 2iorA 235 2.54e+00 1wy2A 351 2.58e+00 1qdlA 422 2.70e+00 1qdlA d.161.1.1 42088 1zkiA 133 2.81e+00 d.38.1.5 125199 2qqrA 118 3.22e+00 1gq6A 313 3.30e+00 c.42.1.1 70341 2r78A 117 3.75e+00 1zghA 260 3.90e+00 b.46.1.1,c.65.1.1 125028,125029 2c2aA 258 4.50e+00 a.30.2.1,d.122.1.3 129662,129663 2j3mA 572 4.72e+00 1konA 249 4.79e+00 e.39.1.1 72823 1fo0A 116 4.90e+00 1tvdA b.1.1.1 20610 1pv9A 348 5.20e+00 c.55.2.1,d.127.1.1 95157,95158 1vr5A 547 5.29e+00 c.94.1.1 120437 1u6lA 149 5.51e+00 d.32.1.7 113067 1j7jA 178 5.79e+00 c.61.1.1 84131 1mzbA 136 5.88e+00 a.4.5.42 91497 1b04A 318 5.95e+00 1b04A d.142.2.2 41579 2qolA 376 6.26e+00 2eqaA 352 6.30e+00 2gfaA 119 6.64e+00 b.34.9.1,b.34.9.1 135089,135090 1gpiA 431 6.76e+00 b.29.1.10 65450 2iskA 230 7.24e+00 2r9zA 463 7.37e+00 1vjpA 394 7.65e+00 c.2.1.3,d.81.1.3 100828,100829 3cinA 394 7.65e+00 1i58A 189 8.39e+00 1b3qA d.122.1.3 61773 1gqvA 135 8.90e+00 d.5.1.1 70376 2pebA 122 9.77e+00 1vkiA 181 1.00e+01 d.116.1.1 108664 2fug7 129 1.03e+01 3c4aA 381 1.12e+01 1yoeA 322 1.14e+01 2isbA 192 1.16e+01 c.8.9.1 137601 1v30A 124 1.22e+01 d.269.1.1 113496 1u59A 287 1.24e+01 d.144.1.7 107681 1vr6A 350 1.27e+01 c.1.10.4 120439 1nls 237 1.35e+01 1nls 2uu8A 237 1.35e+01 1p7gA 222 1.38e+01 a.2.11.1,d.44.1.1 94223,94224 1gp6A 356 1.38e+01 b.82.2.1 65441 1lfpA 249 1.38e+01 e.39.1.1 73885 1xxqA 161 1.39e+01 2b0vA 153 1.42e+01 d.113.1.1 127650 1tu5A 746 1.46e+01 1xxgA 233 1.49e+01 1jilA 420 1.54e+01 c.26.1.1 66745 2yvyA 278 1.59e+01 1jenA 267 1.60e+01 1jenA 1c3pA 375 1.64e+01 1c3pA c.42.1.2 32606 1n8fA 350 1.65e+01 c.1.10.4 85397 1hq0A 295 1.67e+01 1hzgA d.194.1.1 61122 3c96A 415 1.71e+01 1tueB 218 1.75e+01 b.91.1.1 107324 1gg1A 350 1.83e+01 1qr7A c.1.10.4 29187 2optA 234 1.92e+01 1bolA 222 1.93e+01 1bolA d.124.1.1 41120 1j3wA 163 1.95e+01 d.110.7.1 90833 2gx5A 170 1.95e+01 2ff7A 247 2.04e+01 c.37.1.12 133377 1xv2A 237 2.04e+01 d.290.1.1 116076 1jl0A 334 2.05e+01 1jenA d.156.1.1 63155 2pmkA 243 2.07e+01 1vz0A 230 2.09e+01 a.4.14.1,d.268.1.1 108929,108930 1aop 497 2.11e+01 2aop 1aopA 497 2.11e+01 d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1bsmA 201 2.15e+01 1avmA a.2.11.1,d.44.1.1 15780,38743 1avmA 201 2.22e+01 1avmA a.2.11.1,d.44.1.1 15782,38745 1ucrA 78 2.28e+01 a.4.5.45 99188 1nox 205 2.34e+01 1nox 1noxA 205 2.34e+01 d.90.1.1 40242 1oi6A 205 2.34e+01 b.82.1.1 103940 2pvfA 334 2.37e+01 3bemA 218 2.41e+01 2reiA 318 2.43e+01 1ieaA 192 2.44e+01 1iakA b.1.1.2,d.19.1.1 21631,38205 2ch4A 320 2.45e+01 b.40.7.1,d.122.1.3 130447,130448 1w61A 414 2.50e+01 1fxlA 167 2.54e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1vkpA 383 2.55e+01 d.126.1.6 108686 1a3c 181 2.56e+01 1a3c 1a3cA 181 2.56e+01 c.61.1.1 34095 1u1iA 392 2.64e+01 c.2.1.3,d.81.1.3 107582,107583 1v5rA 97 2.68e+01 d.82.4.1 119854 2ie7A 318 2.73e+01 a.65.1.1 137293 1wzcA 249 2.78e+01 c.108.1.10 121491 1fngA 192 2.89e+01 1iakA b.1.1.2,d.19.1.1 59904,59905 2j04B 524 2.95e+01 2amyA 246 2.96e+01 c.108.1.10 127026 2p9wA 334 3.00e+01 1mhyG 169 3.00e+01 1mtyG a.23.3.1 16518 2gu3A 136 3.02e+01 1d3bA 75 3.02e+01 1d3bA b.38.1.1 24798 1y56A 493 3.03e+01 1u07A 90 3.06e+01 d.212.1.2 112902 2r01A 210 3.06e+01 2c60A 111 3.06e+01 d.15.2.2 129966 2va8A 715 3.07e+01 1q0sA 259 3.07e+01 c.66.1.28 95509 1i1nA 226 3.07e+01 c.66.1.7 71102 2okgA 255 3.08e+01 2b18A 164 3.09e+01 1ka1A 357 3.29e+01 e.7.1.1 68369 1qqhA 144 3.32e+01 1dtoA b.91.1.1 28404 2bf5A 98 3.33e+01 d.137.1.1 128405 2olnA 397 3.38e+01 1h8dH 260 3.39e+01 5ptp 1grx 85 3.46e+01 1kte 1bywA 110 3.47e+01 1bywA d.110.3.6 40912 2awpA 198 3.48e+01 2gysA 419 3.48e+01 b.1.2.1,b.1.2.1,b.1.2.1,b.1.2.1 135865,135866,135867,135868 1msk 331 3.51e+01 1msk 1mskA 331 3.51e+01 d.173.1.1 42495 2q3uA 383 3.54e+01 d.126.1.6 139809 1wjxA 122 3.59e+01 b.111.1.1 114716 1w96A 554 3.63e+01 b.84.2.1,c.30.1.1,d.142.1.2 114397,114398,114399 2gu1A 361 3.65e+01 2gaiA 633 3.78e+01 1sfp 114 3.81e+01 1sfp 1sfpA 114 3.81e+01 b.23.1.1 23895 2ns2A 242 3.83e+01 1h7sA 365 3.83e+01 d.14.1.3,d.122.1.2 65705,65706 1v47A 349 3.85e+01 b.122.1.3,c.26.1.5 100292,100293 1f42A 306 3.88e+01 1f42A b.1.1.4,b.1.2.1,b.1.2.1 59636,59637,59638 1ogpA 393 3.90e+01 b.1.18.6,d.176.1.1 92927,92928 2z2nA 299 3.93e+01 1eysH 259 3.94e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 1qgxA 357 3.98e+01 1qgxA e.7.1.1 42973 1wcdJ 441 4.06e+01 b.121.4.9 120887 1dkiA 371 4.19e+01 1dkiA d.3.1.1 37090 1fvrA 327 4.19e+01 d.144.1.7 60047 1g0oA 283 4.21e+01 1ybvA c.2.1.2 60181 2z1aA 552 4.24e+01 2j3wB 188 4.25e+01 2phcB 225 4.39e+01 1v6fA 151 4.39e+01 d.109.1.2 108395 1vzyA 291 4.43e+01 d.193.1.1,g.81.1.1 114042,114043 1k5cA 335 4.45e+01 b.80.1.3 72076 2choA 716 4.46e+01 a.246.1.1,c.1.8.10,d.92.2.3 130479,130480,130481 1ze3D 125 4.49e+01 b.167.1.1 124976 2qf2A 624 4.50e+01 2vokA 188 4.59e+01 3bwuD 125 4.61e+01 2ouaA 188 4.63e+01 1yukA 103 4.69e+01 1qloA 34 4.75e+01 1qloA j.35.1.1 46281 1prxA 224 4.86e+01 1prxA c.47.1.10 33076 2ip2A 334 4.87e+01 1w7jB 151 4.88e+01 a.39.1.5 120690 1a41 234 4.91e+01 1a41 1a41A 234 4.91e+01 d.163.1.2 42174 2a9dA 372 4.93e+01 b.1.18.6,d.176.1.1 126431,126432 2f9dA 125 4.94e+01 d.58.7.1 133159 1soxA 466 4.94e+01 1soxA b.1.18.6,d.120.1.1,d.176.1.1 21947,41090,42563 2qe6A 274 4.96e+01 2ebbA 101 5.00e+01 3stdA 165 5.01e+01 3stdA d.17.4.1 38073 1e0cA 271 5.02e+01 1e0cA c.46.1.2,c.46.1.2 32717,32718 1o17A 345 5.02e+01 a.46.2.1,c.27.1.1 80765,80766 2nvmA 126 5.03e+01 d.326.1.1 138631 1poiA 317 5.06e+01 1poiA c.124.1.2 34153 2o0mA 345 5.17e+01 1yoxA 250 5.19e+01 b.82.5.2 123789 1j1jA 240 5.20e+01 a.118.16.1 90762 2iwgB 181 5.20e+01 1idpA 172 5.26e+01 d.17.4.1 83685 2ghsA 326 5.30e+01 b.68.6.1 135209 3cddA 361 5.38e+01 1k07A 263 5.39e+01 d.157.1.1 77218 2p25A 126 5.42e+01 2gq1A 332 5.47e+01 1whzA 70 5.52e+01 d.50.3.2 114656 2hj0A 519 5.54e+01 1eu3A 210 5.60e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 2bduA 297 5.61e+01 1on3A 523 5.61e+01 c.14.1.4,c.14.1.4 87107,87108 1aipA 405 5.61e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 3c1mA 473 5.62e+01 2volB 180 5.73e+01 2joeA 139 5.77e+01 1lvwA 295 5.80e+01 c.68.1.6 84723 1r6jA 82 5.83e+01 b.36.1.1 97151 1f0xA 571 5.85e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 2d5wA 603 5.89e+01 1keyA 235 5.92e+01 a.118.16.1 72389 1vdhA 249 5.92e+01 d.58.4.10 108523 2afbA 351 6.00e+01 c.72.1.1 126674 2boyA 254 6.02e+01 2g09A 297 6.13e+01 2ouxA 286 6.21e+01 1t95A 240 6.22e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1xwvA 129 6.29e+01 b.1.18.7 116134 2aexA 346 6.32e+01 2qtdA 105 6.35e+01 1l3kA 196 6.47e+01 d.58.7.1,d.58.7.1 73539,73540 1jofA 365 6.49e+01 b.69.10.1 71775 3bmzA 199 6.50e+01 2azwA 148 6.54e+01 d.113.1.1 127615 1xknA 355 6.57e+01 d.126.1.6 115414 3biaX 116 6.64e+01 1pwaA 162 6.67e+01 b.42.1.1 95211 1ha1 184 6.69e+01 1ha1 2i5gA 325 6.71e+01 2ipxA 233 6.75e+01 1ni9A 338 6.77e+01 e.7.1.2 85739 2jrnA 163 6.89e+01 1vkmA 297 6.90e+01 c.138.1.1 108670 2h8gA 267 6.92e+01 2bpa2 175 6.92e+01 2bpa2 2nxbA 123 6.99e+01 1rl3A 288 7.03e+01 b.82.3.2,b.82.3.2 104975,104976 1tv8A 340 7.09e+01 c.1.28.3 107352 2nwhA 317 7.23e+01 1vjnA 220 7.27e+01 d.157.1.4 100825 2fk5A 200 7.28e+01 2a6zA 222 7.36e+01 b.29.1.13 126319 2ahjB 212 7.39e+01 2ahjB b.34.4.4 24599 2cz1B 212 7.39e+01 b.34.4.4 131034 2gojA 197 7.39e+01 2c5uA 375 7.45e+01 2qtpA 194 7.45e+01 2yv1A 294 7.69e+01 1a0rB 340 7.69e+01 1tbgA b.69.4.1 27658 1w30A 201 7.73e+01 c.61.1.1 114118 1xoyA 161 7.74e+01 b.18.1.26 115718 2clqA 295 7.77e+01 2hb0A 369 7.78e+01 1eupA 403 7.79e+01 1rom a.104.1.1 18967 1vquA 374 7.85e+01 2c9wA 169 7.93e+01 2fb2A 340 7.97e+01 2p8jA 209 7.98e+01