# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 2eo0A 147 6.47e-03 1gefA 123 7.06e-03 1gefA c.52.1.18 60465 1hh1A 143 4.16e-02 1gefA c.52.1.18 61036 1ob8A 135 1.92e-01 c.52.1.18 111627 1cliA 345 2.97e-01 1cliA d.79.4.1,d.139.1.1 39816,41459 1y88A 199 4.73e-01 a.60.4.3,c.52.1.30 116560,116561 3cc6A 281 5.26e-01 1dctA 324 6.54e-01 6mhtA c.66.1.26 34244 1lvwA 295 8.12e-01 c.68.1.6 84723 2nw5A 360 1.28e+00 1l1jA 239 1.39e+00 b.47.1.1 84516 2icgA 160 1.73e+00 2i2qA 137 1.84e+00 2q3sA 206 1.90e+00 c.55.3.5 139802 1or8A 340 2.23e+00 c.66.1.6 93451 1zmdA 474 2.37e+00 1zthA 258 2.39e+00 2scuB 388 2.57e+00 2scuB c.23.4.1,d.142.1.4 31141,41562 2dtxA 264 2.75e+00 1dosA 358 2.75e+00 1dosA c.1.10.2 29175 2nu8B 388 2.81e+00 1ky9A 448 3.08e+00 b.36.1.4,b.47.1.1 73198,73199 2b25A 336 3.80e+00 c.66.1.13 127699 1vr8A 142 4.18e+00 d.312.1.1 120445 1pv9A 348 4.44e+00 c.55.2.1,d.127.1.1 95157,95158 1ka9H 200 4.74e+00 c.23.16.1 77308 2pbxA 203 5.10e+00 1dv2A 452 5.21e+00 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 3bs2A 148 5.29e+00 2pziA 681 5.66e+00 2btuA 346 5.67e+00 1hg8A 349 5.77e+00 b.80.1.3 65830 1sjiA 350 6.73e+00 1q7fA 286 8.40e+00 b.68.9.1 96036 2iu4A 336 8.62e+00 2ac1A 541 8.96e+00 2v79A 135 9.19e+00 2re7A 134 9.34e+00 2okfA 140 9.65e+00 1fp1D 372 9.75e+00 1fpqA a.4.5.29,c.66.1.12 59939,59940 1y0kA 209 9.99e+00 c.52.1.31 122485 1jmxA 494 1.02e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 2j5vA 367 1.10e+01 1z7dA 433 1.11e+01 c.67.1.4 124600 2j7uA 635 1.14e+01 1sw2A 275 1.16e+01 c.94.1.1 106064 1suuA 312 1.26e+01 b.68.10.1 99006 1dv1A 449 1.26e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 2inbA 140 1.27e+01 2abyA 146 1.31e+01 2q7eA 291 1.34e+01 1gvfA 286 1.35e+01 c.1.10.2 70599 2pb2A 420 1.40e+01 1e4eA 343 1.42e+01 1iow c.30.1.2,d.142.1.1 59221,59222 1z08A 170 1.44e+01 c.37.1.8 124303 1qb5D 99 1.50e+01 b.40.2.1 88357 2e52A 300 1.51e+01 1tiiD 99 1.55e+01 1tiiD b.40.2.1 24965 1sskA 158 1.68e+01 b.148.1.1 105986 2bb3A 221 1.74e+01 c.90.1.1 128257 1an7A 136 1.78e+01 1seiA d.140.1.1 41465 1i6uA 130 1.87e+01 d.140.1.1 61850 1skoA 143 1.87e+01 d.110.7.1 105676 1e9lA 377 1.90e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 2uubD 209 1.96e+01 d.66.1.2 139935 3bqxA 150 1.97e+01 2jc5A 259 2.02e+01 1booA 323 2.05e+01 1booA c.66.1.11 34248 2vqeD 209 2.09e+01 1cjbA 231 2.10e+01 1qk3A c.61.1.1 34079 1e1hA 287 2.15e+01 d.92.1.7 83167 1qydA 313 2.24e+01 c.2.1.2 96583 1iow 306 2.26e+01 1iow 1iowA 306 2.26e+01 c.30.1.2,d.142.1.1 31713,41481 1vf8A 377 2.27e+01 c.1.8.5,d.26.3.1 120029,120030 2q2gA 180 2.35e+01 3ladA 476 2.42e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 2v1yA 108 2.43e+01 1fpqA 372 2.43e+01 1fpqA a.4.5.29,c.66.1.12 59947,59948 1iauA 227 2.48e+01 5ptp b.47.1.2 62124 1l1qA 186 2.50e+01 c.61.1.1 77653 1ceo 343 2.51e+01 1ceo 1ceoA 343 2.51e+01 c.1.8.3 28808 1bssA 244 2.55e+01 1rvaA c.52.1.2 33256 1d7uA 433 2.60e+01 2dkb c.67.1.4 34439 2f9zC 159 2.60e+01 1eyzA 392 2.61e+01 1ez1A b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 1jq4A 98 2.69e+01 d.15.4.2 67083 1kjqA 391 2.70e+01 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1o0pA 104 2.71e+01 d.58.7.1 86535 2ywvA 244 2.75e+01 1seiA 130 2.87e+01 1seiA d.140.1.1 41463 1ez1A 392 2.87e+01 1ez1A b.84.2.1,c.30.1.1,d.142.1.2 28248,31655,41500 1vetA 124 2.87e+01 d.110.7.1 108553 2zceA 291 2.88e+01 2anuA 255 2.90e+01 c.6.3.1 127058 2bo9A 308 2.93e+01 c.56.5.1 128897 1d8cA 723 3.04e+01 1d8cA c.1.13.1 29325 2dkb 433 3.11e+01 2dkb 1lenA 181 3.16e+01 1led b.29.1.1 24032 1wfwA 74 3.17e+01 b.34.2.1 114595 1eudB 396 3.17e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1b94A 244 3.30e+01 1rvaA c.52.1.2 33250 1konA 249 3.36e+01 e.39.1.1 72823 1b96A 244 3.38e+01 1rvaA c.52.1.2 33268 1vjfA 180 3.44e+01 d.116.1.1 100809 1fjgD 209 3.47e+01 1c05A d.66.1.2 39553 1eonA 245 3.54e+01 1rvaA c.52.1.2 33238 2yydA 345 3.56e+01 2zodA 345 3.56e+01 3c8bA 432 3.57e+01 1o7fA 469 3.60e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 2oikA 154 3.82e+01 1j33A 335 3.82e+01 c.39.1.1 77069 1nz0A 118 3.85e+01 d.14.1.2 86433 2j01E 206 3.86e+01 2aexA 346 3.87e+01 1wj9A 211 3.88e+01 d.58.53.1,d.58.53.1 114694,114695 2c5uA 375 3.90e+01 2buwB 241 3.90e+01 2ganA 190 3.92e+01 d.108.1.1 134889 1whzA 70 3.92e+01 d.50.3.2 114656 1wx1A 335 3.93e+01 3d9tA 97 3.93e+01 2r4rA 365 3.96e+01 2fp4B 395 3.99e+01 c.23.4.1,d.142.1.4 133897,133898 2ostA 151 4.06e+01 2burB 241 4.07e+01 b.3.6.1 129228 2fjrA 189 4.08e+01 1wtaA 275 4.12e+01 1ysjA 404 4.17e+01 c.56.5.4,d.58.19.1 123975,123976 1zodA 433 4.18e+01 c.67.1.4 125437 1sx5A 244 4.20e+01 c.52.1.2 99023 1k2yX 463 4.26e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 2jhnA 295 4.30e+01 1p5dX 463 4.32e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1o12A 376 4.47e+01 b.92.1.5,c.1.9.10 80758,80759 1of5B 184 4.51e+01 d.17.4.2 86934 2q8zA 342 4.64e+01 1f9yA 158 4.66e+01 d.58.30.1 83249 2oodA 475 4.77e+01 1k0tA 80 4.81e+01 d.58.1.2 71976 1v74A 107 4.90e+01 d.243.1.1 100442 1b97A 244 4.92e+01 1rvaA c.52.1.2 33252 3bonA 425 4.93e+01 2ia2A 265 5.04e+01 1snzA 344 5.04e+01 b.30.5.4 98930 2idrA 177 5.15e+01 1sw5B 275 5.22e+01 c.94.1.1 106070 1pbyA 489 5.27e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1xmxA 385 5.27e+01 c.52.1.26 115568 1ispA 181 5.27e+01 c.69.1.18 76778 1i6wA 181 5.27e+01 1i6wA c.69.1.18 61859 1sw5A 275 5.30e+01 c.94.1.1 106069 1g0uG 252 5.51e+01 d.153.1.4 41952 1rypA 243 5.57e+01 1pmaA d.153.1.4 41932 2r76A 152 5.60e+01 1wy7A 207 5.61e+01 c.66.1.32 121433 1zq7A 207 5.63e+01 d.309.1.1 125501 2f62A 161 5.67e+01 c.23.14.1 133021 1gsa 316 5.82e+01 1gsa 1gsaA 316 5.82e+01 c.30.1.3,d.142.1.1 31718,41477 1hqz1 141 5.92e+01 1rvgA 305 5.99e+01 c.1.10.2 97920 2evbA 74 6.01e+01 1p7tA 731 6.01e+01 c.1.13.1 94319 2hq6A 185 6.06e+01 2fqpA 97 6.21e+01 2p14A 192 6.39e+01 1j5yA 187 6.45e+01 a.4.5.1,d.94.2.1 71592,71593 1oroA 213 6.55e+01 1opr c.61.1.1 34093 2g45A 129 6.74e+01 1zmyA 142 6.75e+01 2absA 383 6.79e+01 c.72.1.1 126534 1umqA 81 6.82e+01 a.4.1.12 99625 2je6A 277 6.82e+01 2oz8A 389 6.84e+01 2ofzA 138 6.85e+01 3cxjA 165 6.89e+01 2fa8A 105 6.90e+01 c.47.1.23 133185 1ml8A 134 6.90e+01 d.227.1.2 85013 1tz9A 367 6.98e+01 c.1.15.6 107466 2yzkA 178 7.01e+01 2ivfC 214 7.06e+01 2gzqA 200 7.17e+01 1j2lA 70 7.22e+01 g.20.1.1 90787 1j3nA 408 7.23e+01 c.95.1.1,c.95.1.1 84074,84075 1on3A 523 7.25e+01 c.14.1.4,c.14.1.4 87107,87108 2dfwA 396 7.29e+01 2d4rA 147 7.38e+01 d.129.3.6 131256 1uv7A 110 7.47e+01 d.67.4.1 100040 2jesA 503 7.61e+01 1k1fA 72 7.67e+01 a.147.1.1 68007 1y4oA 104 7.80e+01 1jb0C 80 7.82e+01 1jb0C d.58.1.2 62822 1lj5A 379 7.96e+01 e.1.1.1 73928