# List of top-scoring protein chains for t06-100-30-alpha-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 1oa4A 222 2.12e-01 b.29.1.11 86731 1hfuA 503 2.85e-01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1d3gA 367 5.29e-01 1d3gA c.1.4.1 28600 1sx5A 244 6.50e-01 c.52.1.2 99023 1vqqA 646 7.54e-01 1twyA 290 8.50e-01 1qwtA 255 8.68e-01 b.26.1.3 96501 1md6A 154 1.46e+00 b.42.1.2 91242 1wsrA 375 1.74e+00 1wtaA 275 1.91e+00 1pm4A 119 1.92e+00 b.135.1.1 94891 2fe5A 94 2.00e+00 1cpo 299 2.17e+00 1cpo a.39.3.1,a.39.3.1 17390,17391 2fmpA 335 2.22e+00 1gk9B 557 2.40e+00 1e0cA 271 2.49e+00 1e0cA c.46.1.2,c.46.1.2 32717,32718 1gttA 429 2.63e+00 d.177.1.1,d.177.1.1 70529,70530 2cqeA 98 2.69e+00 1yrrA 382 2.76e+00 1wocA 103 2.77e+00 1rf6A 427 2.94e+00 d.68.2.2 97366 1c1lA 136 3.02e+00 1c1lA b.29.1.3 24219 1rxdA 159 3.23e+00 1tueA 212 4.42e+00 c.37.1.20 107323 1m8uA 173 5.31e+00 b.11.1.1,b.11.1.1 91233,91234 2bcqA 335 5.49e+00 1pvxA 194 5.92e+00 1axkA b.29.1.11 24341 1is3A 135 5.94e+00 b.29.1.3 76773 1yge 839 5.97e+00 1yge a.119.1.1,b.12.1.1 19234,23634 1gqzA 274 6.09e+00 d.21.1.1,d.21.1.1 83311,83312 1oh0A 131 6.32e+00 d.17.4.3 87004 2gkeA 274 6.52e+00 1kcfA 258 6.66e+00 a.140.2.1,c.55.3.7 68434,68435 1na6A 404 6.66e+00 b.142.1.1,c.52.1.22 91748,91749 1eu8A 409 6.86e+00 1eu8A c.94.1.1 59502 1paz 123 7.08e+00 1bqk b.6.1.1 22878 1lo6A 223 7.31e+00 b.47.1.2 74143 1o6dA 163 7.33e+00 c.116.1.3 92567 1v5vA 401 7.36e+00 1bf5A 545 7.57e+00 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1uwfA 158 7.71e+00 1wk2A 121 8.29e+00 4ubpB 126 8.67e+00 1ubpB b.85.3.1 28345 1wyxA 69 8.77e+00 1l6pA 125 8.78e+00 b.1.17.1 73626 1sxvA 172 8.97e+00 2nlrA 234 9.18e+00 2nlrA b.29.1.11 24344 1kutA 230 1.06e+01 d.143.1.1 73017 1q33A 292 1.12e+01 d.113.1.1 95657 2ahmE 203 1.14e+01 1xmkA 79 1.18e+01 2b4wA 315 1.18e+01 1qfoA 119 1.18e+01 1qfoA b.1.1.1 19708 2bjfA 329 1.19e+01 1nb9A 147 1.34e+01 b.43.5.1 85515 1u6zA 513 1.35e+01 1spjA 238 1.36e+01 1v0jA 399 1.40e+01 2dp5A 332 1.42e+01 1lkqA 21 1.44e+01 1q45A 391 1.44e+01 c.1.4.1 95780 2az4A 429 1.54e+01 1ko3A 230 1.59e+01 d.157.1.1 90974 1pidA 21 1.60e+01 1r4pA 297 1.62e+01 d.165.1.2 97025 1wojA 214 1.63e+01 1q4vA 21 1.63e+01 1xe1A 116 1.64e+01 b.43.3.1 109571 1b06A 210 1.72e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1lktA 104 1.79e+01 1lktA b.90.1.1 28398 1qqp4 85 1.81e+01 1qqp4 1v7pB 128 1.82e+01 d.169.1.1 108407 1jcaA 21 1.86e+01 1bs0A 384 1.89e+01 1bs0A c.67.1.4 34490 1i8kA 107 1.96e+01 b.1.1.1 71130 2gcfA 73 1.96e+01 1oqvA 192 1.96e+01 d.24.1.2 87320 1w0nA 131 2.01e+01 1rweA 21 2.02e+01 1rdfA 267 2.02e+01 c.108.1.3 104884 1nlnA 204 2.22e+01 d.3.1.7 91962 1msoA 21 2.23e+01 1yna 194 2.25e+01 1axkA b.29.1.11 24335 1x3eA 165 2.27e+01 1cjaA 342 2.27e+01 1cjaA d.144.1.3 41708 2aegA 268 2.35e+01 2evrA 246 2.38e+01 1wj9A 211 2.46e+01 1xw7A 21 2.49e+01 1fonA 240 2.52e+01 5ptp b.47.1.2 26231 1xypA 190 2.55e+01 1axkA b.29.1.11 24327 2csoA 127 2.56e+01 1w6vA 141 2.57e+01 1l7dA 384 2.57e+01 c.2.1.4,c.23.12.2 77774,77775 1mqeA 207 2.60e+01 d.113.1.1 91394 1j55A 95 2.61e+01 a.39.1.2 77078 1uwcA 261 2.62e+01 c.69.1.17 100101 1lk9A 448 2.72e+01 c.67.1.1 78057 1j2gA 319 2.72e+01 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 2g1lA 104 2.81e+01 1se8A 301 2.82e+01 b.40.4.3 105448 1k3mA 21 2.85e+01 1jjzA 29 2.88e+01 g.3.3.1 71699 1pc3A 350 2.89e+01 c.94.1.1 104102 1v97A 1332 2.91e+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 3gcb 470 2.93e+01 3gcb d.3.1.1 37032 2bs3A 656 2.94e+01 1xjuA 163 2.94e+01 2hlcA 230 2.97e+01 5ptp b.47.1.2 26074 1m6dA 214 2.99e+01 d.3.1.1 84849 1ng2A 193 3.20e+01 b.34.2.1,b.34.2.1 85660,85661 2covD 104 3.21e+01 2fauA 341 3.21e+01 1kk1A 410 3.21e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1a73A 163 3.23e+01 1a73A d.4.1.3 37145 1el5A 389 3.23e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1swvA 267 3.29e+01 1q2yA 140 3.30e+01 d.108.1.1 95655 1eajA 126 3.31e+01 1f5wA b.1.1.1 59401 1qwnA 1045 3.34e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1wmxA 205 3.38e+01 b.18.1.24 109418 1fmb 104 3.47e+01 1fmb b.50.1.1 26777 1a70 97 3.57e+01 1awd d.15.4.1 37678 1mo9A 523 3.62e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 2bcmA 165 3.63e+01 1rvkA 382 3.67e+01 c.1.11.2,d.54.1.1 97928,97929 1cb0A 283 3.68e+01 1cb0A c.56.2.1 33790 1gpc 218 3.75e+01 1gpc b.40.4.7 25393 1vkpA 383 3.79e+01 d.126.1.6 108686 1dp4A 435 3.79e+01 1dp4A c.93.1.1 35710 2rslA 140 3.88e+01 2rslA c.53.1.1 33345 2aq5A 402 3.91e+01 2gzqA 200 3.93e+01 1reqA 727 3.97e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1xvsA 126 3.98e+01 1u5dA 108 3.98e+01 1ahsA 126 4.00e+01 1ahsA b.19.1.1 23794 1tjyA 316 4.01e+01 c.93.1.1 107062 2fdbM 164 4.03e+01 2a1vA 144 4.10e+01 1gvp 87 4.13e+01 1gvp b.40.4.7 25369 2crbA 97 4.13e+01 1bw0A 416 4.17e+01 1bw0A c.67.1.1 34385 2ajuL 216 4.36e+01 1c3cA 429 4.44e+01 1c3cA a.127.1.1 19425 1flcB 175 4.45e+01 1flcB h.3.1.1 45716 1wzzA 334 4.48e+01 1os8A 223 4.49e+01 b.47.1.1 93481 1eazA 125 4.51e+01 b.55.1.1 70113 1yo3A 102 4.53e+01 1ifrA 121 4.53e+01 b.1.16.1 71203 1faoA 126 4.55e+01 1faoA b.55.1.1 26974 1zx0A 236 4.57e+01 1ncwH 222 4.58e+01 b.1.1.1,b.1.1.2 85555,85556 2c43A 323 4.61e+01 1m40A 263 4.63e+01 e.3.1.1 74437 1ogaD 215 4.63e+01 b.1.1.1,b.1.1.2 86990,86991 1agjA 242 4.63e+01 1agjA b.47.1.1 25827 1hn3A 40 4.65e+01 j.91.1.1 65892 1wznA 252 4.66e+01 1yt8A 539 4.67e+01 1bb9 115 4.68e+01 1bb9 b.34.2.1 24554 1sd4A 126 4.75e+01 a.4.5.39 105428 1xg8A 111 4.81e+01 1vi6A 208 4.82e+01 c.23.15.1 100736 1m9zA 111 4.83e+01 g.7.1.3 78881 1umgA 362 4.88e+01 d.280.1.1 107956 1i0lA 221 4.91e+01 c.61.1.1 71096 2bbhA 269 5.04e+01 1khqA 212 5.06e+01 d.3.1.1 90964 1gxrA 337 5.06e+01 b.69.4.1 70722 2bkaA 242 5.10e+01 1lvwA 295 5.12e+01 c.68.1.6 84723 1elvA 333 5.13e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1i6pA 220 5.13e+01 1ddzA c.53.2.1 61848 1a53 247 5.16e+01 1a53 c.1.2.4 28564 1upiA 225 5.22e+01 b.82.1.1 99757 2cioA 212 5.23e+01 2d3jA 157 5.25e+01 2fneA 117 5.29e+01 2cb5A 453 5.32e+01 3gcb d.3.1.1 37035 1y7bA 542 5.33e+01 1n08A 163 5.33e+01 b.43.5.1 79730 2bn3A 21 5.36e+01 1kn6A 90 5.36e+01 d.58.3.3 72770 1oyc 400 5.37e+01 1oyc c.1.4.1 28603 1oxdA 227 5.43e+01 d.22.1.1 93687 1uwsA 489 5.45e+01 c.1.8.4 108073 1sgoA 139 5.45e+01 d.82.3.1 98857 2a8yA 270 5.46e+01 1gvhA 396 5.50e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1yqzA 438 5.51e+01 1dro 122 5.55e+01 1btn b.55.1.1 26954 1vjvA 415 5.56e+01 d.3.1.9 108632 1eemA 241 5.59e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1zirA 173 5.59e+01 1qmyA 167 5.69e+01 1qmyA d.3.1.2 37094 1vp6A 138 5.76e+01 1iogA 21 5.77e+01 1ugpB 226 5.78e+01 b.34.4.4 107832 2g6yA 217 5.90e+01 1r1gA 31 5.91e+01 g.3.7.2 96816 2a74A 643 5.93e+01 2azwA 148 5.93e+01 1ngzA 213 5.95e+01 b.1.1.1,b.1.1.2 80500,80501 1nw1A 429 6.06e+01 d.144.1.8 86286 1tksA 204 6.10e+01 d.115.1.2 107114 1dleA 298 6.11e+01 1dleA b.47.1.2 26312 1neu 124 6.16e+01 1neu b.1.1.1 19704 1h2bA 359 6.29e+01 b.35.1.2,c.2.1.1 90543,90544 1cghA 224 6.31e+01 1a7s b.47.1.2 26290 1usuB 170 6.34e+01 d.83.2.1 99886 2g3aA 152 6.37e+01 1g31A 111 6.47e+01 1g31A b.35.1.1 24656 1y96A 86 6.48e+01 1ztcA 221 6.60e+01 1f8rA 498 6.61e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 2bmeA 186 6.63e+01 1mtyD 512 6.65e+01 1mhyD a.25.1.2 16742 1vq3A 94 6.79e+01 1e9gA 286 6.83e+01 1wgjA b.40.5.1 59393 1jb0L 154 6.95e+01 1jb0L f.31.1.1 62829 1nqeA 594 7.05e+01 f.4.3.3 86027 1zs4A 83 7.06e+01 1zyoA 191 7.08e+01 1qynA 153 7.09e+01 d.33.1.1 96597 1dj0A 264 7.09e+01 1dj0A d.265.1.1 90337 1ng0A 253 7.12e+01 b.121.4.7 80475 1ocsA 162 7.18e+01 d.189.1.1 92776 1zuoA 186 7.22e+01 1kxoA 184 7.27e+01 b.60.1.1 84475 1trb 320 7.35e+01 1trb c.3.1.5,c.3.1.5 30529,30530 2aiqA 231 7.42e+01 1k8kC 372 7.44e+01 b.69.4.1 68308 1pufA 77 7.44e+01 a.4.1.1 95131 1uzpA 162 7.51e+01 g.3.11.1,g.3.11.1,g.23.1.1 100232,100233,100234 1vkdA 338 7.56e+01 b.67.2.4 108644 2bg5A 324 7.57e+01 2a72A 146 7.65e+01 1n7vA 555 7.66e+01 b.126.1.1 85377 2c4nA 250 7.72e+01 2b7nA 273 7.78e+01 1aba 87 7.79e+01 1aba c.47.1.1 32760 1a6jA 163 7.80e+01 1a6jA d.112.1.1 40915 1fqtA 112 7.84e+01 1fqtA b.33.1.1 24441 1qwyA 291 7.92e+01 b.84.3.2 96509 1d2vA 104 7.94e+01 1d2vA a.93.1.2 18697 1x1rA 178 8.09e+01 1k55A 246 8.11e+01 e.3.1.1 68156 2a1kA 233 8.28e+01 2f5yA 91 8.32e+01 2fy6A 143 8.43e+01 1h03P 125 8.56e+01 g.18.1.1,g.18.1.1 83411,83412 1oygA 447 8.59e+01 b.67.2.2 93726 1f5jA 199 8.65e+01 1axkA b.29.1.11 24342 2b7kA 200 8.66e+01 1ton 235 8.73e+01 5ptp b.47.1.2 26307 1xhcA 367 8.77e+01 1cjwA 166 8.78e+01 1cjwA d.108.1.1 40818 1u7bA 261 8.79e+01 1ja1A 622 8.81e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 2f5xA 312 8.81e+01 1b6a 478 8.83e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1j48A 110 8.94e+01 b.1.7.1 84112 1lmq 129 8.94e+01 3lzt d.2.1.2 36588