# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 3h3mA 126 1.93e-11 2jg0A 535 2.49e-02 a.102.1.9 148034 2jx0A 135 1.51e-01 2crbA 97 1.76e+00 a.7.16.1 130737 3hjeA 704 2.02e+00 2qk2A 242 2.06e+00 2cy8A 453 2.81e+00 2rd3A 223 3.95e+00 1jr3A 373 4.70e+00 a.80.1.1,c.37.1.20 63245,63246 2qcxA 263 4.98e+00 3ibxA 221 5.15e+00 3bc1B 59 5.77e+00 2a1dD 329 5.91e+00 3erdA 261 6.08e+00 3erdA a.123.1.1 19293 1pd3A 58 6.18e+00 a.30.3.1 94512 1t5oA 351 6.45e+00 c.124.1.5 106459 1b3uA 588 6.48e+00 1b3uA a.118.1.2 19135 3dghA 483 6.50e+00 1nu7D 282 6.51e+00 a.8.6.1,a.8.6.1 92191,92192 2ccyA 128 6.62e+00 2ccyA a.24.3.2 16544 3eb2A 300 6.74e+00 1epwA 1290 7.20e+00 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1xpcA 248 7.70e+00 a.123.1.1 115738 2gscA 128 7.75e+00 a.29.16.1 147169 2q4pA 170 7.87e+00 a.204.1.2 150041 1tyhA 248 8.09e+00 a.132.1.3 107458 1rrmA 386 8.11e+00 e.22.1.2 105081 1sqsA 242 8.34e+00 c.23.5.5 98968 1o9iA 266 8.53e+00 a.25.1.3 92671 3kj0A 158 9.10e+00 1rztA 331 9.25e+00 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1jkvA 266 9.53e+00 a.25.1.3 71719 2pqxA 245 9.78e+00 2vj4A 294 9.82e+00 2avkA 136 9.87e+00 2gf4A 100 1.03e+01 a.8.10.1 135074 2nppB 449 1.06e+01 a.118.1.20 138445 1zt2B 212 1.07e+01 a.262.1.1 125625 3lkeA 263 1.07e+01 2of3A 266 1.07e+01 1iv8A 720 1.09e+01 b.71.1.1,c.1.8.1 76842,76843 2ie4A 589 1.16e+01 a.118.1.2 137291 1ufaA 520 1.19e+01 a.8.3.3,c.6.2.4 99329,99330 2qqyA 149 1.22e+01 3cp5A 124 1.22e+01 3hr0A 263 1.29e+01 1jnrA 643 1.32e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 2uubT 106 1.32e+01 a.7.6.1 139951 3mghA 329 1.33e+01 2g7lA 243 1.40e+01 a.4.1.9,a.121.1.1 134734,134735 2bcqA 335 1.42e+01 a.60.6.1,a.60.12.1,d.218.1.2 128304,128305,128306 1n1jB 97 1.44e+01 a.22.1.3 79814 1n8vA 112 1.51e+01 a.118.21.1 85457 1b9xC 246 1.54e+01 1b9yC c.47.1.6 33053 1l2iA 261 1.55e+01 a.123.1.1 73503 1w2fA 276 1.58e+01 d.143.1.3 109125 2cb0A 333 1.58e+01 1zroA 602 1.61e+01 a.264.1.1,a.264.1.1 125551,125552 3dplC 382 1.62e+01 1b8gA 429 1.68e+01 1b8gA c.67.1.4 34499 1bs0A 384 1.69e+01 1bs0A c.67.1.4 34490 1h0aA 158 1.76e+01 a.118.9.1 76434 3hx0A 335 1.79e+01 2v6xA 85 1.84e+01 2boyA 254 1.85e+01 2f6hX 419 1.87e+01 2df8A 325 1.87e+01 2e5fA 325 1.87e+01 2gkpA 167 1.90e+01 d.351.1.1 147129 1r5eA 115 1.97e+01 a.8.8.1 111701 3ertA 261 1.97e+01 3erdA a.123.1.1 19292 2ux0A 143 1.98e+01 d.17.4.7 152231 1yakA 263 2.02e+01 a.132.1.3 122833 2fjbA 643 2.04e+01 1qjbA 245 2.06e+01 1qjaA a.118.7.1 19202 1m7yA 435 2.08e+01 c.67.1.4 78761 3cqxC 88 2.09e+01 3ltoA 323 2.10e+01 1orsC 132 2.10e+01 f.14.1.1 87353 2dobA 83 2.10e+01 2rkkA 168 2.13e+01 1ykhB 132 2.13e+01 a.252.1.1 123519 3hl2A 501 2.14e+01 2d5bA 500 2.17e+01 a.27.1.1,c.26.1.1 131268,131269 3l09A 266 2.17e+01 1a8h 500 2.18e+01 1a8h 1ug7A 128 2.19e+01 a.24.24.1 107824 3fgaB 403 2.20e+01 2oy9A 98 2.23e+01 a.276.1.1 149063 3f2bA 1041 2.24e+01 3ip4C 100 2.26e+01 1eduA 149 2.26e+01 1eduA a.118.9.1 19215 3ckdA 312 2.31e+01 1eyhA 144 2.36e+01 1eduA a.118.9.1 19214 2nl9A 157 2.46e+01 1dmgA 225 2.49e+01 1dmgA c.22.1.1 31036 2qzcA 214 2.53e+01 2p6vA 114 2.61e+01 a.277.1.1 149278 3bhqA 211 2.66e+01 3iuzA 340 2.68e+01 1ek9A 428 2.69e+01 1ek9A f.5.1.1 43809 2be3A 226 2.71e+01 d.218.1.8 128349 3cjhB 64 2.72e+01 3a03A 56 2.80e+01 2ozbB 260 2.83e+01 a.183.1.1 145742 2c1nA 258 2.84e+01 a.118.7.1 129640 3fbxA 559 2.86e+01 1fjgM 126 2.89e+01 1fjfM a.156.1.1 16293 1hkxA 147 2.90e+01 d.17.4.7 83567 2dpoA 319 2.93e+01 2e2aA 105 2.93e+01 a.7.2.1 88499 2fyfA 398 2.95e+01 2z5kA 890 2.97e+01 1x1nA 524 2.99e+01 c.1.8.1 121593 1b3bA 415 3.04e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1e2aA 105 3.09e+01 1e2aA a.7.2.1 16322 2qxfA 482 3.10e+01 c.55.3.5 151455 1ihgA 370 3.11e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 2h88C 140 3.14e+01 1mu5A 471 3.17e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 2hkjA 469 3.18e+01 a.156.1.3,d.14.1.3,d.122.1.2 136553,136554,136555 2bneA 241 3.32e+01 c.73.1.3 128824 2wm5A 435 3.34e+01 1mx0A 472 3.35e+01 a.156.1.3,d.14.1.3,d.122.1.2 79618,79619,79620 1moq 368 3.38e+01 1moq 1moqA 368 3.38e+01 c.80.1.1 35302 1ynuA 473 3.43e+01 c.67.1.4 123762 3e82A 364 3.43e+01 1cn4C 166 3.45e+01 1eerA a.26.1.2 16847 2vqeT 106 3.50e+01 a.7.6.1 153444 3lcvB 281 3.51e+01 3ehmA 532 3.51e+01 1jhgA 101 3.51e+01 1jhgA a.4.12.1 19009 3fydA 263 3.52e+01 3adoA 319 3.53e+01 3a1gB 40 3.53e+01 1jocA 125 3.54e+01 g.50.1.1,h.1.21.1 66990,66991 1fxxA 482 3.58e+01 1fxxA c.55.3.5 33726 2gs8A 317 3.66e+01 2fbwC 141 3.73e+01 1qbkB 890 3.74e+01 1qbkB a.118.1.1 19127 2vqeM 126 3.81e+01 a.156.1.1 153437 1sj8A 308 3.82e+01 a.215.1.1,a.216.1.1 105606,105607 1qgrA 876 3.90e+01 1qgrA a.118.1.1 19119 1wfdA 93 3.98e+01 a.7.14.1 114578 3jrqA 326 3.99e+01 1cii 602 4.04e+01 1cii 1ciiA 602 4.04e+01 f.1.1.1,h.4.3.1 43381,45787 2i76A 276 4.05e+01 a.100.1.10,c.2.1.6 147535,147536 2d4xA 248 4.08e+01 1fe6C 52 4.14e+01 1fe6C h.1.19.1 45664 3fgrA 202 4.15e+01 1z1bA 356 4.18e+01 d.10.1.4,d.163.1.1 124346,124347 2r9zA 463 4.18e+01 2qm1A 326 4.22e+01 1fcyA 236 4.23e+01 2lbd a.123.1.1 19282 1a0rP 245 4.26e+01 1b9yC c.47.1.6 33054 2lbd 267 4.27e+01 2lbd 3gruA 295 4.28e+01 3echC 25 4.28e+01 1ng6A 148 4.29e+01 a.182.1.1 85670 1a52A 258 4.37e+01 3erdA a.123.1.1 19296 1x1fA 149 4.39e+01 b.55.1.1 121579 1xdpA 687 4.42e+01 a.7.15.1,d.322.1.2,d.136.1.4,d.136.1.4 121896,121897,121898,121899 1sg6A 393 4.57e+01 e.22.1.1 105522 2imsA 171 4.62e+01 3kdjB 316 4.66e+01 3i6aA 222 4.67e+01 1ahxA 396 4.71e+01 1ajsA c.67.1.1 34293 1b26A 416 4.81e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 1i6lA 328 4.81e+01 c.26.1.1 66041 3favA 101 4.88e+01 1eerA 166 4.90e+01 1eerA a.26.1.2 16846 2q83A 346 4.91e+01 2f2aC 100 4.91e+01 a.137.12.1 132804 3h5dA 311 4.92e+01 1ez3A 127 4.97e+01 1dn1B a.47.2.1 17768 1w33A 181 4.97e+01 1b5tA 275 5.00e+01 1b5tA c.1.23.1 29676 2al6A 375 5.00e+01 a.11.2.1,b.55.1.5,d.15.1.4 126966,126967,126968 2cfuA 658 5.01e+01 d.106.1.3,d.157.1.13 146386,146387 2oyoA 196 5.02e+01 a.152.1.3 149068 2oxoA 103 5.03e+01 1z8uA 102 5.05e+01 a.7.11.1 124724 2gtsA 86 5.18e+01 a.25.5.1 147176 1wzuA 300 5.22e+01 c.145.1.1 121528 1fe6A 52 5.23e+01 1fe6A h.1.19.1 45662 1wixA 164 5.23e+01 a.40.3.1 114683 1zk8A 183 5.33e+01 a.4.1.9,a.121.1.1 125177,125178 2ej5A 257 5.34e+01 3h0lC 94 5.37e+01 3l1nA 194 5.37e+01 1ybkA 52 5.41e+01 3dsyL 281 5.45e+01 1qcrA 446 5.46e+01 1be3A d.185.1.1,d.185.1.1 59025,59026 3glrA 285 5.46e+01 3dtrL 281 5.47e+01 2r9iA 141 5.48e+01 2i6lA 320 5.52e+01 2zfyA 234 5.53e+01 1trrA 107 5.57e+01 1jhgA a.4.12.1 19017 3du2L 281 5.62e+01 3b98A 475 5.63e+01 3mliA 100 5.63e+01 1mwmA 320 5.65e+01 c.55.1.1,c.55.1.1 79580,79581 1pq1A 196 5.68e+01 f.1.4.1 94986 1tu7A 208 5.70e+01 a.45.1.1,c.47.1.5 112653,112654 1ariA 396 5.70e+01 1ajsA c.67.1.1 34331 3duqL 281 5.70e+01 2o7iA 592 5.72e+01 2peqA 134 5.82e+01 a.280.1.1 149443 1xkyA 301 5.92e+01 c.1.10.1 122094 2chpA 153 5.97e+01 1gseA 221 6.08e+01 1pgtA a.45.1.1,c.47.1.5 17667,32961 1arhA 396 6.12e+01 1ajsA c.67.1.1 34321 1n97A 389 6.17e+01 a.104.1.1 80335 1vlgA 176 6.25e+01 a.25.1.1 108816 2g1pA 278 6.27e+01 2zh7A 436 6.28e+01 a.160.1.3,d.218.1.7,d.58.16.2 154451,154452,154453 3a01A 93 6.28e+01 3cpxA 321 6.32e+01 1jb0A 755 6.34e+01 1jb0A f.29.1.1 62820 3m5wA 322 6.35e+01 1fjgT 106 6.35e+01 1fjfT a.7.6.1 16338 3f41A 629 6.39e+01 2jv7A 78 6.40e+01 2fkzA 155 6.42e+01 a.25.1.1 133688 2fztA 79 6.43e+01 a.46.3.1 134476 1fseA 74 6.45e+01 1fseA a.4.6.2 60000 1an4A 65 6.53e+01 1an4A a.38.1.1 17136 1i1rB 181 6.54e+01 1i1rB a.26.1.1 61548 3h02A 288 6.58e+01 1m12A 84 6.58e+01 a.64.1.1 84745 2w2dB 431 6.60e+01 1di1A 300 6.72e+01 1di1A a.128.1.4 19446 3be6A 297 6.72e+01 2ov5A 261 6.73e+01 1gesA 450 6.75e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1dkxA 219 6.77e+01 1dkzA a.8.4.1,b.130.1.1 90339,90340 2d7dB 40 6.80e+01 3fwyA 314 6.82e+01 1xl3C 92 6.83e+01 a.243.1.1 122104 3c5aA 264 6.84e+01 3lbxB 185 6.85e+01 1rzhL 281 6.89e+01 f.26.1.1 98164 3fmsA 209 6.89e+01 2a9uA 144 6.90e+01 a.118.23.1 126450 2vccA 891 6.97e+01 2gwdA 449 6.98e+01 2pfxA 191 7.03e+01 a.152.1.3 149452 3hhcA 196 7.09e+01 2k37A 59 7.10e+01 3d19A 283 7.18e+01 a.29.13.1,a.29.13.1 157176,157177 3stdA 165 7.19e+01 3stdA d.17.4.1 38073 1xg2B 153 7.26e+01 1ew6A 137 7.27e+01 1ewaA a.1.1.2 15637 1ewaA 137 7.27e+01 1ewaA a.1.1.2 15639 1r89A 437 7.32e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 2zdiC 151 7.32e+01 2qfnA 138 7.33e+01 3f0nA 414 7.36e+01 1b8iA 81 7.37e+01 2hddA a.4.1.1 16010 1iyhA 198 7.40e+01 a.45.1.1,c.47.1.5 83790,83791 1gvfA 286 7.50e+01 c.1.10.2 70599 2frvB 536 7.54e+01 1h2rL e.18.1.1 43291 1k3yA 221 7.64e+01 a.45.1.1,c.47.1.5 77245,77246 1s9aA 257 7.67e+01 b.3.6.1 105379 1tbfA 347 7.67e+01 a.211.1.2 106743 1dc1A 323 7.70e+01 1dc1A c.52.1.11 33321 3gfvA 303 7.77e+01 1pq9A 253 7.79e+01 a.123.1.1 95004 3fwkA 308 7.80e+01 1i7gA 287 7.80e+01 a.123.1.1 71121 1woqA 267 7.82e+01 c.55.1.10,c.55.1.10 109462,109463 2aehA 369 7.83e+01 a.11.2.1,b.55.1.5,d.15.1.4 126625,126626,126627 3ixfA 137 7.87e+01 1idpA 172 7.89e+01 d.17.4.1 83685 1a76 326 7.91e+01 1a76 1a76A 326 7.91e+01 a.60.7.1,c.120.1.2 18091,33361 2vzbA 170 7.94e+01 1wleA 501 7.95e+01 1uptB 60 7.97e+01 a.193.1.1 99768 1std 172 7.97e+01 3stdA 1syyA 346 7.99e+01 a.25.1.2 106126