# List of top-scoring protein chains for t04-100-30-str2-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 1mqeA 207 2.11e-01 d.113.1.1 91394 1sx5A 244 3.96e-01 c.52.1.2 99023 1qwtA 255 3.99e-01 b.26.1.3 96501 1lk9A 448 4.37e-01 c.67.1.1 78057 1yvvA 336 5.38e-01 1sgt 223 6.45e-01 5ptp b.47.1.1 25814 1mv3A 213 6.54e-01 b.34.2.1 91468 1os8A 223 7.49e-01 b.47.1.1 93481 2aegA 268 8.58e-01 1rvaA 244 9.32e-01 1rvaA c.52.1.2 33240 1eonA 245 9.73e-01 1rvaA c.52.1.2 33238 1vd3A 217 9.73e-01 1twyA 290 1.11e+00 1u2fA 90 1.51e+00 1u2fA d.58.7.1 39168 1vheA 373 1.96e+00 b.49.3.1,c.56.5.4 100669,100670 1oa4A 222 2.03e+00 b.29.1.11 86731 1kk1A 410 2.08e+00 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1kcfA 258 2.17e+00 a.140.2.1,c.55.3.7 68434,68435 2bbhA 269 2.17e+00 1n08A 163 2.25e+00 b.43.5.1 79730 1ng2A 193 2.46e+00 b.34.2.1,b.34.2.1 85660,85661 2ahmE 203 2.48e+00 1wlpB 138 2.55e+00 1wyxA 69 2.56e+00 1bb9 115 2.60e+00 1bb9 b.34.2.1 24554 1cskA 71 2.84e+00 1ckaA b.34.2.1 24513 1se8A 301 2.89e+00 b.40.4.3 105448 1pc3A 350 3.28e+00 c.94.1.1 104102 1ov3A 138 3.42e+00 b.34.2.1,b.34.2.1 87451,87452 1gttA 429 3.55e+00 d.177.1.1,d.177.1.1 70529,70530 1sjyA 159 3.83e+00 d.113.1.1 98900 1jmuB 666 3.95e+00 1k8kC 372 4.28e+00 b.69.4.1 68308 1a65A 504 4.28e+00 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 1a73A 163 4.31e+00 1a73A d.4.1.3 37145 2b0mA 393 4.34e+00 1evxA 162 4.78e+00 1a73A d.4.1.3 37149 1i7oA 429 5.21e+00 1i7oA d.177.1.1,d.177.1.1 61893,61894 1j2gA 319 6.34e+00 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 1hfuA 503 6.79e+00 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1sqjA 789 6.90e+00 b.69.13.1,b.69.13.1 105918,105919 1dixA 208 7.12e+00 1bk7A d.124.1.1 41122 1w0nA 131 7.26e+00 1eajA 126 7.35e+00 1f5wA b.1.1.1 59401 1u24A 337 7.68e+00 1d3gA 367 8.26e+00 1d3gA c.1.4.1 28600 1pfzA 380 8.31e+00 1smrA b.50.1.2 26881 1md6A 154 8.63e+00 b.42.1.2 91242 1cjaA 342 8.83e+00 1cjaA d.144.1.3 41708 1iybA 208 9.10e+00 d.124.1.1 90720 1klfB 279 9.45e+00 b.2.3.2,b.2.3.2 72684,72685 1uumA 372 9.48e+00 c.1.4.1 100010 1uwsA 489 9.52e+00 c.1.8.4 108073 1tr7A 164 9.63e+00 1pm4A 119 1.00e+01 b.135.1.1 94891 1qexA 288 1.00e+01 1qexA b.32.1.1 24425 1x3eA 165 1.01e+01 1bwzA 274 1.02e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 2c43A 323 1.02e+01 1k8kA 418 1.04e+01 c.55.1.1,c.55.1.1 68305,68306 3ullA 132 1.04e+01 3ullA b.40.4.3 25282 1ikpA 613 1.07e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1eaf 243 1.10e+01 1eaf c.43.1.1 32617 1egiA 147 1.10e+01 1eggA d.169.1.1 42331 1s0uA 408 1.13e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1bw0A 416 1.15e+01 1bw0A c.67.1.1 34385 2cqeA 98 1.18e+01 1hn3A 40 1.19e+01 j.91.1.1 65892 1xmkA 79 1.21e+01 1jhnA 424 1.25e+01 b.104.1.1,b.29.1.12 66722,70060 1qunB 279 1.29e+01 b.2.3.2,b.2.3.2 22411,22412 1gqzA 274 1.30e+01 d.21.1.1,d.21.1.1 83311,83312 2cx1A 187 1.33e+01 1fthA 122 1.37e+01 d.150.1.2 60028 1zs7A 190 1.39e+01 2bu3A 254 1.40e+01 2d3jA 157 1.44e+01 1nscA 390 1.46e+01 2qwc b.68.1.1 27591 1vjvA 415 1.47e+01 d.3.1.9 108632 2cb5A 453 1.47e+01 3gcb d.3.1.1 37035 1y71A 130 1.49e+01 1vzoA 355 1.52e+01 d.144.1.7 108971 1vjyA 303 1.52e+01 d.144.1.7 108633 2gkeA 274 1.56e+01 1gcb 454 1.63e+01 3gcb d.3.1.1 37034 1kutA 230 1.64e+01 d.143.1.1 73017 1u3wA 374 1.64e+01 2bydA 323 1.68e+01 1f0lA 535 1.73e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1guiA 155 1.82e+01 b.18.1.14 76351 2awfA 172 1.88e+01 1w0dA 337 1.99e+01 1nx8A 273 2.02e+01 b.82.2.8 86374 3gcb 470 2.03e+01 3gcb d.3.1.1 37032 1py5A 326 2.08e+01 d.144.1.7 104389 1i50H 146 2.10e+01 b.40.4.8 61761 1o94A 729 2.12e+01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1s9aA 257 2.30e+01 b.3.6.1 105379 1wb9A 800 2.31e+01 1yo8A 634 2.37e+01 1q25A 432 2.50e+01 b.64.1.1,b.64.1.1,b.64.1.1 104493,104494,104495 1paz 123 2.51e+01 1bqk b.6.1.1 22878 2a6hA 315 2.56e+01 1uwfA 158 2.58e+01 1pht 85 2.61e+01 1ckaA b.34.2.1 24483 2bv5A 282 2.64e+01 1f42A 306 2.66e+01 1f42A b.1.1.4,b.1.2.1,b.1.2.1 59636,59637,59638 1v97A 1332 2.76e+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 1fo4A 1332 2.77e+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 1wtaA 275 2.82e+01 2booA 247 2.86e+01 1e0nA 27 2.88e+01 b.72.1.1 27807 2dp5A 332 2.94e+01 1r4pA 297 2.98e+01 d.165.1.2 97025 1dleA 298 3.03e+01 1dleA b.47.1.2 26312 1g3p 217 3.07e+01 1g3p b.37.1.1,b.37.1.1 24788,24789 1yf2A 425 3.13e+01 1l6pA 125 3.24e+01 b.1.17.1 73626 1usuA 260 3.47e+01 d.14.1.8 99885 1lvwA 295 3.47e+01 c.68.1.6 84723 1oyiA 82 3.52e+01 a.4.5.19 93729 1y12A 165 3.62e+01 2agmA 167 3.67e+01 1j2aA 166 3.81e+01 b.62.1.1 90779 1rhfA 182 3.95e+01 b.1.1.1,b.1.1.4 97469,97470 1a6jA 163 3.97e+01 1a6jA d.112.1.1 40915 1yqzA 438 3.99e+01 1zpuA 534 4.07e+01 1kn6A 90 4.11e+01 d.58.3.3 72770 1jjzA 29 4.12e+01 g.3.3.1 71699 1elvA 333 4.19e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1ok8A 394 4.24e+01 b.1.18.4,f.10.1.1 93236,93237 1r4xA 275 4.34e+01 b.1.10.3,d.105.1.2 97054,97055 1c7sA 858 4.42e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1jvwA 167 4.56e+01 d.26.1.1 71907 1ztxE 108 4.61e+01 1pot 325 4.62e+01 1pot c.94.1.1 35807 1fi8A 228 4.63e+01 5ptp b.47.1.2 26374 2por 301 4.66e+01 2por f.4.3.1 43759 1rxwA 336 4.66e+01 a.60.7.1,c.120.1.2 98059,98060 2g1lA 104 4.71e+01 3dfr 162 4.89e+01 3dfr c.71.1.1 34880 1mfgA 95 4.91e+01 b.36.1.1 79043 2sak 121 5.10e+01 2sak d.15.5.1 37711 2nlrA 234 5.11e+01 2nlrA b.29.1.11 24344 1fiwA 290 5.13e+01 5ptp 1w6vA 141 5.13e+01 16pk 415 5.15e+01 16pk c.86.1.1 35454 2exnA 136 5.15e+01 1ohfA 644 5.32e+01 b.121.4.8 93014 1b8kA 119 5.34e+01 1bndA g.17.1.3 44795 1odmA 331 5.34e+01 b.82.2.1 86875 1lmq 129 5.47e+01 3lzt d.2.1.2 36588 1t9fA 187 5.59e+01 b.42.6.1 106710 1ruwA 69 5.65e+01 1gowA 489 5.67e+01 1qvbA c.1.8.4 28981 1lo6A 223 5.67e+01 b.47.1.2 74143 1sig 339 5.69e+01 1sig a.177.1.1 19068 1bk0 331 5.71e+01 1bk0 b.82.2.1 28118 1va0A 239 5.79e+01 2g3aA 152 5.86e+01 2bjuA 453 5.90e+01 1v9tA 166 6.12e+01 b.62.1.1 108451 1wdkC 390 6.12e+01 c.95.1.1,c.95.1.1 109258,109259 1ireB 228 6.24e+01 b.34.4.4 76770 1sqeA 109 6.30e+01 d.58.4.5 105908 1k2eA 156 6.33e+01 d.113.1.1 72010 1nwbA 124 6.38e+01 b.124.1.1 86296 1zdrA 164 6.44e+01 1twfH 146 6.51e+01 2dlbA 80 6.61e+01 1r4kA 169 6.61e+01 b.34.14.1 96997 1zy7A 403 6.77e+01 2b4wA 315 6.78e+01 1r6vA 671 6.89e+01 1jeyA 609 6.94e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 2f6hX 419 6.95e+01 2pvbA 107 7.05e+01 1a75A a.39.1.4 17205 2bjfA 329 7.08e+01 1e3aB 560 7.10e+01 1ajqB 1qqcA 773 7.12e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1gk9B 557 7.19e+01 1u6zA 513 7.21e+01 1kid 203 7.29e+01 1derA c.8.5.1 30771 2fy6A 143 7.33e+01 1ugpB 226 7.34e+01 b.34.4.4 107832 1tueA 212 7.60e+01 c.37.1.20 107323 1avpA 204 7.63e+01 1avpA d.3.1.7 37132 2camA 127 7.65e+01 1swuA b.61.1.1 27407 1qynA 153 7.69e+01 d.33.1.1 96597 1xovA 326 7.72e+01 1yoaA 159 7.76e+01 1faoA 126 7.78e+01 1faoA b.55.1.1 26974 1y55X 126 7.81e+01 2aq5A 402 7.84e+01 1w9sA 142 7.84e+01 1u5dA 108 7.86e+01 2c36A 285 7.93e+01 1lktA 104 8.04e+01 1lktA b.90.1.1 28398 1iohA 21 8.08e+01 1fsgA 233 8.12e+01 1qk3A c.61.1.1 34029 1vqb 87 8.28e+01 1gvp b.40.4.7 25370 1gvp 87 8.29e+01 1gvp b.40.4.7 25369 2bmeA 186 8.30e+01 1w7lA 422 8.37e+01 c.67.1.1 109226 1xgkA 352 8.39e+01 1k6xA 352 8.48e+01 c.2.1.2 68238 1xdnA 277 8.54e+01 2crbA 97 8.75e+01 1i50I 122 8.82e+01 g.41.3.1,g.41.3.1 61762,61763 1u34A 119 8.83e+01 g.76.1.1 107634 1kit 757 8.90e+01 1kit b.29.1.8,b.29.1.8,b.68.1.1 24272,24273,27616 1sglA 209 8.94e+01 d.124.1.1 105536 1mtyD 512 8.95e+01 1mhyD a.25.1.2 16742 1m1hA 248 8.98e+01 b.114.1.1,d.58.42.1 78415,78416 1vhzA 198 8.99e+01 d.113.1.1 100718