# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1gefA 123 1.95e-04 1gefA c.52.1.18 60465 2eo0A 147 5.24e-03 1ob8A 135 1.72e-01 c.52.1.18 111627 1y88A 199 2.40e-01 a.60.4.3,c.52.1.30 116560,116561 1hh1A 143 3.63e-01 1gefA c.52.1.18 61036 1q7fA 286 4.73e-01 b.68.9.1 96036 1y0kA 209 5.44e-01 c.52.1.31 122485 2es9A 115 5.76e-01 a.247.1.1 132318 2aexA 346 9.37e-01 3crvA 551 1.09e+00 2cz9A 350 1.19e+00 2dejA 350 1.67e+00 2jc5A 259 2.01e+00 1u6mA 199 2.37e+00 d.108.1.1 113069 2nu8B 388 2.73e+00 2pbxA 203 2.80e+00 1cjbA 231 2.98e+00 1qk3A c.61.1.1 34079 2inbA 140 3.32e+00 2i2qA 137 3.53e+00 1suuA 312 3.97e+00 b.68.10.1 99006 2po1B 277 3.98e+00 2je6A 277 4.74e+00 2fjrA 189 5.02e+00 1nw1A 429 5.59e+00 d.144.1.8 86286 2scuB 388 6.74e+00 2scuB c.23.4.1,d.142.1.4 31141,41562 2okfA 140 6.81e+00 1e1hA 287 7.17e+00 d.92.1.7 83167 1dctA 324 7.58e+00 6mhtA c.66.1.26 34244 1fepA 724 7.65e+00 1fepA f.4.3.3 43808 2vsnA 568 7.85e+00 2a8mA 420 8.13e+00 1qydA 313 8.73e+00 c.2.1.2 96583 2rfqA 394 8.81e+00 1zq7A 207 9.54e+00 d.309.1.1 125501 1xfkA 336 1.00e+01 c.42.1.1 115264 1b8oA 284 1.04e+01 1b8oA c.56.2.1 33762 2ii2A 310 1.14e+01 1kjqA 391 1.15e+01 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1o12A 376 1.17e+01 b.92.1.5,c.1.9.10 80758,80759 1ez1A 392 1.19e+01 1ez1A b.84.2.1,c.30.1.1,d.142.1.2 28248,31655,41500 2a8jA 420 1.52e+01 1vcvA 226 1.54e+01 c.1.10.1 119988 1pv9A 348 1.56e+01 c.55.2.1,d.127.1.1 95157,95158 2nzxA 371 1.56e+01 2c6uA 122 1.59e+01 3b59A 310 1.60e+01 2bwrA 401 1.62e+01 1l1jA 239 1.62e+01 b.47.1.1 84516 2graA 277 1.64e+01 2vhlA 396 1.67e+01 2yr1A 257 1.74e+01 1k2xB 143 1.76e+01 1dw0A 112 1.79e+01 1dw0A a.3.1.1 15911 1a7cA 379 1.83e+01 1sek e.1.1.1 42660 1wj5A 120 1.87e+01 a.4.5.59 114692 3bs2A 148 1.88e+01 2hs3A 603 1.95e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 136712,136713,136714,136715 2oodA 475 2.03e+01 2imqX 282 2.11e+01 2d5cA 263 2.14e+01 1914 232 2.14e+01 1914 2iciA 227 2.16e+01 2iruA 303 2.19e+01 1zb9A 143 2.22e+01 3caiA 406 2.26e+01 1im4A 221 2.29e+01 e.8.1.7 62581 1bq9A 54 2.31e+01 1rb9 g.41.5.1 45238 1sskA 158 2.33e+01 b.148.1.1 105986 1bq8A 54 2.35e+01 1rb9 g.41.5.1 45237 1pot 325 2.40e+01 1pot 1potA 325 2.40e+01 c.94.1.1 35807 1odmA 331 2.40e+01 b.82.2.1 86875 3c8bA 432 2.46e+01 1yd0A 96 2.47e+01 1brfA 53 2.47e+01 1rb9 g.41.5.1 45236 1onwA 390 2.53e+01 b.92.1.7,c.1.9.13 87172,87173 2gvhA 288 2.55e+01 d.38.1.1,d.38.1.1 135776,135777 1yk4A 52 2.58e+01 2v79A 135 2.58e+01 2ossA 127 2.62e+01 1cliA 345 2.65e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 2ppqA 322 2.66e+01 1eyzA 392 2.66e+01 1ez1A b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 1vk3A 615 2.67e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1si6X 282 2.77e+01 d.151.1.2 118968 1fvuB 125 2.83e+01 1ixxB d.169.1.1 42346 2a8lA 420 2.91e+01 2pjdA 343 2.91e+01 1phm 310 3.05e+01 1phm 1hg8A 349 3.05e+01 b.80.1.3 65830 2g9hD 218 3.15e+01 1j7xA 302 3.19e+01 c.14.1.2 66425 3bonA 425 3.20e+01 1pmd 675 3.27e+01 1pmd 2yxbA 161 3.29e+01 2yx8A 93 3.37e+01 1ceoA 343 3.40e+01 c.1.8.3 28808 1ceo 343 3.41e+01 1ceo 1dosA 358 3.41e+01 1dosA c.1.10.2 29175 2j01E 206 3.43e+01 1ogoX 574 3.51e+01 b.133.1.1,b.80.1.10 92925,92926 2izzA 322 3.54e+01 2hpsA 186 3.62e+01 2oz8A 389 3.63e+01 1ybqB 390 3.68e+01 1xjdA 345 3.68e+01 d.144.1.7 115388 2fp4B 395 3.70e+01 c.23.4.1,d.142.1.4 133897,133898 2j44A 217 3.74e+01 1hurA 180 3.74e+01 1hurA c.37.1.8 32052 1a9cA 221 3.75e+01 1a8rA d.96.1.1 40602 2fneA 117 3.75e+01 b.36.1.1 133813 1onxA 390 3.78e+01 b.92.1.7,c.1.9.13 87176,87177 3c2bA 221 3.81e+01 2onsA 314 3.81e+01 1an7A 136 3.81e+01 1seiA d.140.1.1 41465 3br8A 91 3.86e+01 2ganA 190 3.88e+01 d.108.1.1 134889 3cc6A 281 3.89e+01 1sfsA 240 3.92e+01 c.1.8.8 98846 1kshA 186 3.93e+01 c.37.1.8 72914 1sw5B 275 3.97e+01 c.94.1.1 106070 2f9zC 159 4.00e+01 1e8oA 85 4.01e+01 1914 d.49.1.1 38773 1qzzA 374 4.02e+01 a.4.5.29,c.66.1.12 96719,96720 2pz0A 252 4.12e+01 1jg8A 347 4.17e+01 1jg8A c.67.1.1 62946 1c9qA 117 4.17e+01 1c9qA g.52.1.1 45377 2hqhA 93 4.18e+01 1m6sA 347 4.24e+01 c.67.1.1 78701 1vf8A 377 4.25e+01 c.1.8.5,d.26.3.1 120029,120030 2nw5A 360 4.35e+01 2pzhA 135 4.42e+01 1sdwA 314 4.42e+01 b.121.1.2,b.121.1.2 98810,98811 1sw5A 275 4.42e+01 c.94.1.1 106069 1hqcA 324 4.52e+01 1hqcA a.4.5.11,c.37.1.20 16127,32424 487dH 224 4.55e+01 1ad2 i.1.1.2 45835 2ggcA 263 4.74e+01 d.127.1.1 135127 3bq5A 766 4.75e+01 2pvxA 54 4.75e+01 2uubD 209 4.78e+01 d.66.1.2 139935 2o8sA 323 4.78e+01 1qrjB 199 4.79e+01 1qrjB a.28.3.1 16952 2jaeA 489 4.87e+01 2f42A 179 4.93e+01 1ad2A 228 4.95e+01 e.24.1.1 43353 2z2uA 311 5.05e+01 2fl4A 149 5.06e+01 d.108.1.1 133706 1ng5A 215 5.06e+01 b.100.1.1 91867 1k2yX 463 5.10e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1c93A 265 5.10e+01 2ebn c.1.8.5 28998 2egxA 269 5.24e+01 1gvfA 286 5.36e+01 c.1.10.2 70599 1ujpA 271 5.36e+01 c.1.2.4 99462 1a9xA 1058 5.37e+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 18550,31479,31657,31658,41502,41503 1h54A 754 5.42e+01 a.102.1.4,b.30.5.3 60634,60635 1ybtA 184 5.43e+01 1ao7B 100 5.49e+01 1agdB b.1.1.2 20697 2hehA 387 5.56e+01 1qg8A 255 5.58e+01 1qg8A c.68.1.1 34505 2vqeD 209 5.59e+01 2hstA 143 5.67e+01 2dfuA 264 5.67e+01 1edtA 271 5.68e+01 c.1.8.5 28993 2o4tA 100 5.78e+01 1db2A 377 5.81e+01 1sek e.1.1.1 42672 2nttA 217 5.83e+01 3c8tA 451 5.93e+01 1q7bA 244 5.98e+01 c.2.1.2 96026 2f57A 317 6.11e+01 1yrrA 382 6.13e+01 b.92.1.5,c.1.9.10 123935,123936 1sjiA 350 6.17e+01 1xnzA 264 6.18e+01 d.127.1.1 115673 1p5dX 463 6.21e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2afbA 351 6.24e+01 c.72.1.1 126674 1y2qA 143 6.32e+01 2j0iA 303 6.37e+01 1necA 216 6.42e+01 1vfrA d.90.1.1 40249 1xg0C 177 6.45e+01 a.1.1.3 115275 3cvoA 202 6.45e+01 1tedA 393 6.46e+01 c.95.1.2 106807 2i1nA 102 6.49e+01 1c4kA 730 6.51e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31273,34502,41123 1ysjA 404 6.54e+01 c.56.5.4,d.58.19.1 123975,123976 2bsyA 278 6.60e+01 b.85.4.1,b.85.4.1 129129,129130 2e6iA 64 6.61e+01 1c24A 263 6.62e+01 1c24A d.127.1.1 41148 2i45A 107 6.76e+01 2i3oA 516 6.79e+01 d.153.1.6 137027 3c5tA 122 6.86e+01 1e4eA 343 6.87e+01 1iow c.30.1.2,d.142.1.1 59221,59222 1qmeA 702 6.89e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 2e8yA 718 6.93e+01 1jj2R 84 6.93e+01 1ffkP d.12.1.1 63103 1qwjA 229 6.99e+01 c.68.1.13 96478 2hl0A 143 6.99e+01 1ispA 181 7.02e+01 c.69.1.18 76778 2jr7A 89 7.11e+01 2p5vA 162 7.14e+01 1jaeA 471 7.15e+01 b.71.1.1,c.1.8.1 27773,28760 1qgwC 177 7.15e+01 1qgwC a.1.1.3 15673 2zceA 291 7.16e+01 6rxnA 45 7.17e+01 g.41.5.1 45222 2q4wA 524 7.21e+01 2ns5A 85 7.24e+01 1xmxA 385 7.26e+01 c.52.1.26 115568 1es9A 232 7.26e+01 1wab c.23.10.3 31340 1a0i 348 7.30e+01 1a0i 1a0iA 348 7.30e+01 b.40.4.6,d.142.2.1 25363,41577 1v1pA 211 7.36e+01 b.40.2.2,d.15.6.1 108268,108269 1us5A 314 7.37e+01 c.94.1.1 99856 2g17A 337 7.39e+01 c.2.1.3,d.81.1.1 134512,134513 1e9lA 377 7.40e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1gaxA 862 7.43e+01 1gaxA b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 1nrjB 218 7.46e+01 c.37.1.8 86125 2r8cA 426 7.48e+01 1a8oA 70 7.49e+01 a.28.3.1 16953 2q66A 525 7.52e+01 1u8sA 192 7.53e+01 d.58.18.5,d.58.18.5 107737,107738 1vjuA 309 7.68e+01 d.248.1.1 100835 1on3A 523 7.68e+01 c.14.1.4,c.14.1.4 87107,87108 2g4rA 160 7.70e+01 1j6oA 268 7.74e+01 c.1.9.12 77088 1x12A 208 7.80e+01 2jmzA 186 7.91e+01 1vqoS 85 7.92e+01 d.12.1.1 120380 1itwA 741 7.93e+01 c.77.1.2 76793 1seiA 130 7.94e+01 1seiA d.140.1.1 41463