# List of top-scoring protein chains for t2k-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.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 1zq9A 285 1.84e-28 1a3aC 148 9.43e-01 1a3aA d.112.1.1 40919 1a3aA 148 1.01e+00 1a3aA d.112.1.1 40917 2g7gA 213 1.14e+00 1fs1B 141 1.63e+00 1vcbB a.157.1.1,d.42.1.1 19252,38664 1jmsA 381 1.72e+00 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1vb3A 428 2.55e+00 1yf3A 259 3.79e+00 1q0sA 259 4.12e+00 c.66.1.28 95509 1xclA 235 4.43e+00 1wy1A 172 5.12e+00 1j8uA 325 5.15e+00 d.178.1.1 71611 2f4lA 297 5.40e+00 1dmwA 307 5.60e+00 4pah d.178.1.1 42580 2bjfA 329 5.65e+00 1mvwC 147 5.97e+00 i.15.1.1 79525 1o1fC 147 5.97e+00 i.15.1.1 80997 1cxqA 162 6.08e+00 1cxqA c.55.3.2 33621 1nxuA 333 6.13e+00 c.122.1.1 86389 1vsd 152 6.66e+00 1cxqA c.55.3.2 33625 1gcvB 136 6.91e+00 1cg5B a.1.1.2 15589 4pah 308 7.06e+00 4pah d.178.1.1 42576 1pah 308 7.08e+00 4pah d.178.1.1 42578 1a5v 162 7.83e+00 1cxqA c.55.3.2 33629 1zrn 232 7.88e+00 1qq5A c.108.1.1 43323 1asu 162 7.88e+00 1cxqA c.55.3.2 33626 1gaxA 862 8.12e+00 1gaxA b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 1jud 232 8.16e+00 1qq5A c.108.1.1 43325 1zk8A 183 8.98e+00 1fyvA 161 9.01e+00 1fyvA c.23.2.1 31127 2ba2A 85 9.02e+00 1i58A 189 9.51e+00 1b3qA d.122.1.3 61773 1s69A 124 9.77e+00 a.1.1.1 105305 2ch4A 320 9.98e+00 1b2vA 188 1.03e+01 1b2vA d.35.1.1 38532 2azqA 311 1.05e+01 1onqA 283 1.06e+01 b.1.1.2,d.19.1.1 93365,93366 2f05A 105 1.07e+01 1lvaA 258 1.08e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1tl9A 339 1.10e+01 1dk0A 188 1.10e+01 1b2vA d.35.1.1 38530 1rwtA 232 1.12e+01 f.43.1.1 97992 1ek8A 185 1.15e+01 1ek8A d.67.3.1 59444 1cfpA 92 1.15e+01 1b4cA a.39.1.2 17172 1kjvA 284 1.16e+01 b.1.1.2,d.19.1.1 77421,77422 1zu4A 320 1.19e+01 2fxaA 207 1.22e+01 2fm9A 215 1.23e+01 1v97A 1332 1.23e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1p35A 299 1.24e+01 1p35A b.28.1.1 23925 1ap4 89 1.26e+01 1ncx a.39.1.5 17253 1it2A 146 1.29e+01 a.1.1.2 66365 1cy5A 97 1.30e+01 1cy5A a.77.1.3 18430 2ygsA 92 1.32e+01 1cy5A a.77.1.3 18431 1fqvD 149 1.40e+01 1fqvD a.157.1.1,d.42.1.1 19263,38667 1fqvJ 149 1.42e+01 1fqvD a.157.1.1,d.42.1.1 19266,38670 1dguA 183 1.43e+01 1dguA a.39.1.5 17333 1glaG 501 1.56e+01 1glcG c.55.1.4,c.55.1.4 33507,33508 1kcw 1046 1.58e+01 1kcw b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3 23151,23152,23153,23154,23155,23156 1t3cA 421 1.65e+01 d.92.1.7 106343 1pmaA 233 1.70e+01 1pmaA d.153.1.4 41918 1dseA 292 1.71e+01 1ryc a.93.1.1 59130 2ax3A 502 1.72e+01 1sazA 381 1.76e+01 2gfnA 209 1.77e+01 1mlwA 301 1.84e+01 d.178.1.1 79289 1i4wA 353 1.85e+01 c.66.1.24 66028 1s5lA 344 1.89e+01 1hqvA 191 1.91e+01 1hqvA a.39.1.8 61160 1eyhA 144 1.92e+01 1eduA a.118.9.1 19214 1t4hA 290 1.93e+01 d.144.1.7 106420 1p57B 255 1.96e+01 b.47.1.2 94126 1eduA 149 1.97e+01 1eduA a.118.9.1 19215 1x0vA 354 1.97e+01 1iseA 185 1.99e+01 d.67.3.1 90691 1cwwA 102 2.02e+01 1cy5A a.77.1.3 18434 2cyp 294 2.02e+01 1ryc a.93.1.1 18600 1g73A 162 2.10e+01 1fewA a.7.4.1 16332 1ryc 294 2.11e+01 1ryc a.93.1.1 18601 1bu6O 501 2.16e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 9gafA 295 2.17e+01 1apyA d.153.1.5 42008 2eutA 294 2.21e+01 1m65A 245 2.25e+01 c.6.3.1 84847 1ockA 412 2.41e+01 c.117.1.1 86802 1yzyA 413 2.45e+01 1h8dH 260 2.50e+01 5ptp 1vljA 407 2.54e+01 e.22.1.2 108832 1p4kA 295 2.55e+01 d.153.1.5 87772 1fo4A 1332 2.59e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1fs7A 485 2.60e+01 1qdbA a.138.1.3 19691 1kb9I 55 2.61e+01 f.23.14.1 77324 2ff4A 388 2.65e+01 1ds4A 292 2.66e+01 1ryc a.93.1.1 59129 2ah5A 210 2.69e+01 1khhA 198 2.74e+01 c.66.1.16 68615 1yarA 233 2.76e+01 2mysC 149 2.82e+01 1wdcC a.39.1.5 17323 1qcwA 410 2.86e+01 1gox c.1.4.1 28622 1h0aA 158 2.87e+01 a.118.9.1 76434 2bvpA 276 2.93e+01 1ezvI 55 2.94e+01 1be3J f.23.14.1 59553 1z53A 294 2.99e+01 1e7uA 961 3.04e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1vjvA 415 3.05e+01 d.3.1.9 108632 2awpA 198 3.11e+01 1ux5A 411 3.25e+01 a.207.1.1 100144 1a2f 291 3.25e+01 1ryc a.93.1.1 18619 1k9dA 679 3.28e+01 c.1.8.10,d.92.2.2 77292,77293 1zbyA 294 3.33e+01 1bw0A 416 3.53e+01 1bw0A c.67.1.1 34385 1rtxA 123 3.55e+01 a.1.1.1 97827 2oatA 439 3.61e+01 2dkb c.67.1.4 34452 1elvA 333 3.63e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1mkrA 294 3.67e+01 a.93.1.1 84997 1p1cA 199 3.69e+01 c.66.1.16 87669 1cem 363 3.76e+01 1cem a.102.1.2 18826 1ccg 291 3.81e+01 1ryc a.93.1.1 18627 1zcoA 262 3.97e+01 1ofdA 1520 4.00e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1a7s 221 4.02e+01 1a7s b.47.1.2 26284 2anxA 146 4.04e+01 1kwfA 363 4.05e+01 a.102.1.2 73078 1a2g 291 4.07e+01 1ryc a.93.1.1 18620 1l8nA 679 4.08e+01 c.1.8.10,d.92.2.2 84564,84565 1b3jA 274 4.18e+01 1agdA b.1.1.2,d.19.1.1 20855,38319 1jdrA 294 4.21e+01 1ryc a.93.1.1 62908 1b4cA 92 4.28e+01 1b4cA a.39.1.2 17169 1zs4A 83 4.29e+01 2byjA 439 4.34e+01 1fp1D 372 4.34e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1fxkA 107 4.36e+01 1fxkA a.2.5.1 15703 1mfqC 129 4.37e+01 a.36.1.1 79046 1fxkB 109 4.41e+01 1fxkA a.2.5.1 15704 1h3nA 878 4.67e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1ggzA 148 4.69e+01 a.39.1.5 70176 1p1mA 406 4.73e+01 b.92.1.4,c.1.9.9 87696,87697 1fewA 184 4.76e+01 1fewA a.7.4.1 16334 1qrzA 246 4.80e+01 5ptp b.47.1.2 26366 1j6pA 418 4.81e+01 b.92.1.4,c.1.9.9 77089,77090 1ac4 294 4.84e+01 1ryc a.93.1.1 18657 2fh5A 185 4.86e+01 2b0jA 358 4.89e+01 1j6rA 214 4.91e+01 d.173.1.2 71598 2bylA 439 4.95e+01 2fe8A 315 4.97e+01 1vgmA 378 5.07e+01 2ac3A 316 5.32e+01 1oatA 439 5.32e+01 2dkb c.67.1.4 34461 1lj8A 493 5.33e+01 a.100.1.9,c.2.1.6 90392,90393 1llwA 1520 5.34e+01 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 1ahtH 259 5.37e+01 5ptp 1xl7A 612 5.39e+01 1zlqA 502 5.40e+01 1uiuA 502 5.51e+01 c.94.1.1 99434 1g8jA 825 5.52e+01 1g8jA b.52.2.2,c.81.1.1 26924,35332 1fcyA 236 5.56e+01 2lbd a.123.1.1 19282 1qyrA 252 5.68e+01 c.66.1.24 104657 1fzpB 123 5.99e+01 1fznD a.4.5.28 19008 1dkxA 219 6.00e+01 1dkzA a.8.4.1,b.130.1.1 90339,90340 1c02A 166 6.03e+01 1qspA a.24.10.2 16633 1bd3A 243 6.04e+01 1bd3A c.61.1.1 34098 1y82A 157 6.06e+01 1m33A 258 6.08e+01 c.69.1.26 78514 1dkzA 219 6.10e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1jbaA 204 6.33e+01 1rec a.39.1.5 17330 4lbd 267 6.43e+01 2lbd a.123.1.1 19289 2lbd 267 6.44e+01 2lbd a.123.1.1 19287 2f62A 161 6.53e+01 2abk 211 6.53e+01 2abk a.96.1.1 18743 2a0kA 161 6.57e+01 2f2tA 161 6.57e+01 2a5vA 213 6.59e+01 1dp3A 55 6.78e+01 1dp3A a.55.1.2 59128 1cnzA 363 6.83e+01 1cnzA c.77.1.1 35061 1gr0A 367 6.83e+01 c.2.1.3,d.81.1.3 70379,70380 1hwxA 501 6.99e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 1g8kA 825 7.01e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1nkpB 83 7.05e+01 a.38.1.1 80574 1x31D 99 7.05e+01 1wmbA 260 7.07e+01 1a6dB 543 7.11e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19489,30820,38937 1pq4A 291 7.11e+01 c.92.2.2 94995 1fpxA 352 7.15e+01 1fpxA a.4.5.29,c.66.1.12 59950,59951 1wy6A 172 7.21e+01 1ponB 36 7.22e+01 1ponB 1q8cA 151 7.23e+01 a.79.1.2 96202 1kyqA 274 7.31e+01 c.2.1.11,e.37.1.1 73281,73282 1scuA 288 7.56e+01 2scuA c.2.1.8,c.23.4.1 30307,31135 1ton 235 7.60e+01 5ptp b.47.1.2 26307 1nox 205 7.77e+01 1nox d.90.1.1 40242 1fexA 59 7.82e+01 a.4.1.3 59803 2bcqA 335 7.83e+01 1a1mA 278 7.83e+01 1agdA b.1.1.2,d.19.1.1 20753,38266 1q41A 424 7.87e+01 d.144.1.7 95774 1sk7A 198 7.89e+01 a.132.1.2 105671 1sb8A 352 7.97e+01 c.2.1.2 105410 1htjF 210 7.99e+01 1htjF a.91.1.1 61254 8kme2 259 8.02e+01 1ucyE 1b33A 160 8.05e+01 1qgwC a.1.1.3 15649 1sd4A 126 8.26e+01 a.4.5.39 105428 1mvcA 240 8.33e+01 a.123.1.1 79499 1hx1B 114 8.44e+01 1hx1B a.7.7.1 61350 1mznA 240 8.47e+01 a.123.1.1 79704 1j1bA 420 8.49e+01 d.144.1.7 90758 1jcrA 377 8.50e+01 a.118.6.1 66506 1hyt 316 8.58e+01 1hyt d.92.1.2 59005 8tlnE 316 8.58e+01 1hyt d.92.1.2 59075 2tmnE 316 8.60e+01 1hyt d.92.1.2 59055 1ioj 57 8.64e+01 1ioj j.39.1.1 46293 6tmnE 316 8.65e+01 1hyt d.92.1.2 59071 1ojrA 274 8.69e+01 c.74.1.1 93147 1kbuA 349 8.70e+01 a.60.9.1,d.163.1.1 72284,72285 1w36B 1180 8.70e+01 1keiA 316 8.70e+01 d.92.1.2 77349 1qgpA 77 8.76e+01 1qbjA a.4.5.19 16158 1e6yA 569 8.83e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 2aq5A 402 8.84e+01 1abv 134 8.85e+01 1abv a.70.1.1 18317 2aj2A 208 8.86e+01