# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-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 2pm7A 399 9.26e-01 1floA 422 1.04e+00 1floA a.60.9.1,d.163.1.1 18106,42166 2i53A 258 1.67e+00 a.74.1.1,a.74.1.1 147505,147506 1sgoA 139 3.10e+00 d.82.3.1 98857 2qmcA 377 4.14e+00 2nqoA 376 4.58e+00 d.153.1.6 138473 2idrA 177 4.79e+00 3bevA 274 5.08e+00 2e01A 457 5.16e+00 2fmyA 220 5.18e+00 1jeqB 565 5.93e+00 1jeqB b.131.1.2,c.62.1.4 90368,90369 1t6aA 126 6.53e+00 d.129.8.1 106555 2zihA 347 7.32e+00 1ft9A 222 7.81e+00 1ft9A a.4.5.4,b.82.3.1 16107,28131 1jt6A 188 7.94e+00 a.4.1.9,a.121.1.1 67247,67248 3eyxA 216 8.18e+00 3lynA 136 8.31e+00 1lis a.19.1.1 16413 3dewA 206 8.43e+00 3bqzA 194 1.01e+01 2akrA 285 1.02e+01 b.1.1.2,d.19.1.1 126931,126932 2j1dG 483 1.02e+01 1cd1A 315 1.06e+01 1cd1A b.1.1.2,d.19.1.1 21579,38155 3a4mA 260 1.09e+01 1jeyB 565 1.11e+01 1jeqB b.131.1.2,c.62.1.4 90372,90373 3gmoA 287 1.20e+01 1ois 223 1.26e+01 1a36A 2kllA 161 1.27e+01 1oisA 223 1.27e+01 e.15.1.1 43267 3br3A 194 1.32e+01 3ck6A 252 1.35e+01 3a58A 320 1.39e+01 1t33A 224 1.41e+01 a.4.1.9,a.121.1.1 106295,106296 2fikA 287 1.42e+01 b.1.1.2,d.19.1.1 133524,133525 1qvtA 194 1.45e+01 a.4.1.9,a.121.1.1 104602,104603 1ofwA 296 1.48e+01 a.138.1.1 92850 1ar61 302 1.49e+01 1pov1 3br2A 194 1.68e+01 1zk8A 183 1.68e+01 a.4.1.9,a.121.1.1 125177,125178 3exaA 322 1.69e+01 1yymG 313 1.74e+01 d.172.1.1 124232 3btiA 188 1.88e+01 a.4.1.9,a.121.1.1 155566,155567 2fxqA 264 1.90e+01 2pbeA 294 1.91e+01 a.160.1.5,d.218.1.13 149355,149356 1t7vA 278 1.92e+01 b.1.1.2,d.19.1.1 112302,112303 3kn6A 325 2.00e+01 2z5eA 122 2.05e+01 3br5A 194 2.05e+01 19hcA 292 2.08e+01 19hcA a.138.1.1 19668 3gziA 218 2.08e+01 2r6gF 514 2.09e+01 e.70.1.1,f.58.1.1 151609,151610 1ar71 302 2.22e+01 1pov1 1jlvA 209 2.26e+01 a.45.1.1,c.47.1.5 71729,71730 3bxjA 507 2.29e+01 1su8A 636 2.38e+01 e.26.1.2 98999 2au3A 407 2.42e+01 2w5yA 192 2.52e+01 2bg9E 370 2.52e+01 2hraA 209 2.53e+01 1nu7D 282 2.66e+01 a.8.6.1,a.8.6.1 92191,92192 1b7eA 420 2.66e+01 1b7eA c.55.3.4 33680 1d09B 153 2.84e+01 8atcB d.58.2.1,g.41.7.1 39015,45267 3jrlA 276 2.86e+01 1ru0A 105 2.89e+01 d.74.1.1 111937 1musA 477 3.05e+01 c.55.3.4 79494 3himA 211 3.11e+01 1rgxA 114 3.13e+01 g.77.1.1 104932 1xkpA 246 3.14e+01 a.243.1.3 122086 1hxs1 302 3.15e+01 3m9vA 439 3.25e+01 2yzsA 315 3.32e+01 1al21 302 3.34e+01 1pov1 1auvA 311 3.44e+01 1auvA c.30.1.5,d.142.1.3 31723,41558 3hwcA 515 3.51e+01 1aym1 285 3.58e+01 1aym1 1a31A 538 3.61e+01 1a36A d.163.1.2,e.15.1.1 42170,43263 1i7nA 309 3.62e+01 c.30.1.5,d.142.1.3 83681,83682 3b8mA 280 3.68e+01 d.58.60.1 154961 2wntA 330 3.72e+01 1bob 320 3.77e+01 1bob 1bobA 320 3.77e+01 d.108.1.1 40816 2rasA 212 3.83e+01 2a1dD 329 3.95e+01 2rajA 392 4.01e+01 2psoA 237 4.09e+01 d.129.3.2 149824 1xiwB 79 4.11e+01 b.1.1.4 115368 1zupA 315 4.16e+01 c.55.3.11 125681 2bsfA 176 4.18e+01 1guaB 81 4.20e+01 1c1yB d.15.1.5 37619 1mtyG 162 4.22e+01 1mtyG a.23.3.1 16498 2welA 327 4.29e+01 2kuaA 170 4.30e+01 1bccE 196 4.32e+01 1rie b.33.1.1,f.23.12.1 24431,43699 1zvdA 380 4.32e+01 1av8A 340 4.39e+01 1xikA a.25.1.2 16796 1u55A 188 4.46e+01 d.278.1.1 107677 3f7cA 200 4.47e+01 1vkcA 158 4.65e+01 d.108.1.1 113663 1cz7A 406 4.66e+01 1bg2 c.37.1.9 32194 3kyjA 144 4.66e+01 3a5iA 389 4.74e+01 1th0A 226 4.79e+01 d.3.1.7 106903 1hw5A 210 4.85e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1ej9A 563 4.98e+01 1a36A d.163.1.2,e.15.1.1 42172,43265 1c1yB 77 5.01e+01 1c1yB d.15.1.5 37618 1oqyA 368 5.07e+01 a.5.2.1,a.5.2.1,a.189.1.1,d.15.1.1 93439,93440,93441,93442 1wozA 177 5.14e+01 1pujA 282 5.17e+01 c.37.1.8 88294 1ekjA 221 5.19e+01 1ekjB c.53.2.1 33364 2guhA 214 5.29e+01 2q01A 497 5.29e+01 3htmA 172 5.34e+01 2ig3A 127 5.37e+01 2ouwA 138 5.39e+01 a.152.1.4 149029 1k4tA 592 5.43e+01 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 3kucB 81 5.45e+01 1rscI 111 5.48e+01 d.73.1.1 118620 2vrsA 211 5.48e+01 2vj4A 294 5.50e+01 3i3nA 279 5.51e+01 2cb5A 453 5.52e+01 3gcb d.3.1.1 37035 1p2xA 159 5.62e+01 a.40.1.1 104062 2qr7A 342 5.62e+01 2f07A 197 5.67e+01 1p5sA 203 5.68e+01 a.40.1.1 94147 3cngA 189 5.69e+01 1iknA 286 5.75e+01 1a3qA b.1.18.1,b.2.5.3 21936,22449 3emxA 135 5.83e+01 1w26A 432 5.90e+01 a.223.1.1,d.241.2.1,d.26.1.1 109085,109086,109087 3bg1B 442 5.90e+01 2waqC 395 5.92e+01 3if6A 266 5.98e+01 2oq0A 206 6.01e+01 b.40.16.1,b.40.16.1 148970,148971 1a35A 538 6.09e+01 1a36A d.163.1.2,e.15.1.1 42171,43264 2x49A 333 6.13e+01 2ifaA 208 6.18e+01 d.90.1.1 137329 2cgpA 210 6.20e+01 2cgpA a.4.5.4,b.82.3.2 16102,28141 2j5cA 569 6.25e+01 1w7jB 151 6.28e+01 a.39.1.5 120690 3lhcA 100 6.32e+01 3f0iA 119 6.45e+01 1cii 602 6.46e+01 1cii 1ciiA 602 6.46e+01 f.1.1.1,h.4.3.1 43381,45787 2i5hA 205 6.46e+01 e.71.1.1 147513 1g6nA 210 6.48e+01 2cgpA a.4.5.4,b.82.3.2 16100,28139 1jbjA 186 6.55e+01 b.1.1.4,b.1.1.4 66482,66483 1nfkA 325 6.57e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 2hn2A 354 6.65e+01 d.328.1.1,f.17.3.1 136619,136620 3eg7A 176 6.71e+01 3lahA 188 6.73e+01 3mixA 382 6.85e+01 2hhlA 195 6.94e+01 1vkxA 273 6.95e+01 1a3qA b.1.18.1,b.2.5.3 21941,22454 2prrA 197 6.97e+01 a.152.1.3 149803 1a36A 592 6.99e+01 1a36A a.2.8.1,d.163.1.2,e.15.1.1 15715,42173,43266 3dnhA 258 7.06e+01 3du3M 314 7.08e+01 2gruA 368 7.17e+01 3dorA 583 7.18e+01 1nqbA 256 7.20e+01 1mfa b.1.1.1,b.1.1.1 20042,20043 2lisA 136 7.21e+01 1lis a.19.1.1 16405 3ir4A 218 7.25e+01 2conA 79 7.34e+01 g.41.15.1 130680 3ijdA 315 7.36e+01 2octA 98 7.38e+01 2oyrA 258 7.40e+01 c.66.1.55 149078 3gxhA 157 7.52e+01 3hieA 171 7.58e+01 1np3A 338 7.66e+01 a.100.1.2,c.2.1.6 85946,85947 3dtsM 314 7.69e+01 2basA 431 7.70e+01 c.1.33.1,d.110.6.2 128244,128245 1onqA 283 7.72e+01 b.1.1.2,d.19.1.1 93365,93366 3a4kA 301 7.72e+01 3e5jA 403 7.75e+01 1owcA 427 7.76e+01 a.103.1.1 104039 1nrlA 316 7.76e+01 a.123.1.1 92091 2e52A 300 7.82e+01 2wpnA 317 7.84e+01 5cytR 104 7.85e+01 1ycc a.3.1.1 15878