# List of top-scoring protein chains for t2k-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.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 2b0jA 358 7.38e-01 a.100.1.11,c.2.1.6 127639,127640 3dagA 358 1.02e+00 3f47A 358 1.08e+00 2pyyA 228 1.58e+00 1kpgA 287 2.81e+00 c.66.1.18 68735 1nxhA 126 3.29e+00 a.200.1.1 92300 2wolA 562 3.69e+00 2ivyA 101 4.02e+00 d.58.58.1 147817 1mxsA 225 4.77e+00 c.1.10.1 91494 2fk8A 318 4.94e+00 c.66.1.18 133648 1uaaA 673 5.56e+00 1pjr c.37.1.19,c.37.1.19 32401,32402 3grcA 140 5.99e+00 2fymA 431 8.33e+00 c.1.11.1,d.54.1.1 134379,134380 2ixnA 310 8.40e+00 a.268.1.1 137777 1d9eA 284 8.55e+00 1d9eA c.1.10.4 29195 2akzA 439 8.64e+00 c.1.11.1,d.54.1.1 126944,126945 1j0dA 341 8.67e+00 c.79.1.1 83902 2pvpA 367 8.86e+00 3bc9A 599 9.24e+00 3enbA 222 9.41e+00 c.55.3.14 158189 1pkoA 139 9.53e+00 b.1.1.1 88147 2gqpA 236 9.63e+00 d.122.1.1 135513 1fmtA 314 9.78e+00 1fmtA b.46.1.1,c.65.1.1 25758,34174 2o7iA 592 1.04e+01 1o60A 292 1.09e+01 c.1.10.4 92532 2kbiA 97 1.13e+01 1iyxA 432 1.16e+01 c.1.11.1,d.54.1.1 83815,83816 1jbaA 204 1.16e+01 1rec a.39.1.5 17330 1kl7A 514 1.18e+01 c.79.1.1 72678 1sur 215 1.19e+01 1sur 1surA 215 1.19e+01 c.26.2.2 31620 3c8tA 451 1.19e+01 2weyA 343 1.22e+01 2goyA 275 1.24e+01 1rj9A 304 1.24e+01 a.24.13.1,c.37.1.10 97553,97554 1y1xA 191 1.26e+01 a.39.1.8 116374 1j98A 157 1.27e+01 1j98A d.185.1.2 62755 2nuwA 288 1.33e+01 1mjfA 281 1.33e+01 c.66.1.17 79198 3do7A 296 1.34e+01 1l1eA 287 1.34e+01 c.66.1.18 73454 2ev0A 142 1.37e+01 a.4.5.24,a.76.1.1 132413,132414 1al3 324 1.40e+01 1al3 1al3A 324 1.40e+01 c.94.1.1 35835 2aeuA 374 1.43e+01 c.67.1.8 126646 2hd9A 145 1.49e+01 b.122.1.8 147268 3eweB 564 1.50e+01 1vkyA 347 1.52e+01 e.53.1.1 108696 1khtA 192 1.55e+01 c.37.1.1 84401 3hoaA 509 1.60e+01 1w6tA 444 1.64e+01 c.1.11.1,d.54.1.1 120670,120671 1f2dA 341 1.67e+01 1f2dA c.79.1.1 35298 3jz4A 481 1.71e+01 1wgzA 510 1.87e+01 2gokA 429 1.88e+01 b.92.1.10,c.1.9.17 147145,147146 3a9zA 432 1.88e+01 3ca8A 266 1.92e+01 3e9aA 286 1.95e+01 2puzA 419 1.98e+01 b.92.1.10,c.1.9.17 149873,149874 1gs9A 165 1.99e+01 a.24.1.1 83313 1tzjA 338 2.01e+01 c.79.1.1 112868 3i99A 357 2.04e+01 1jbeA 128 2.17e+01 3chy c.23.1.1 62845 1qhhA 167 2.18e+01 1pjr c.37.1.19 32393 3cc8A 230 2.19e+01 3h9pA 249 2.20e+01 3e3mA 355 2.23e+01 1jx2B 315 2.25e+01 c.37.1.8 67404 2nw2B 243 2.29e+01 2d4xA 248 2.30e+01 2zumA 458 2.32e+01 3ckjA 329 2.34e+01 1wmmA 145 2.38e+01 b.122.1.8 121049 1oj7A 408 2.43e+01 e.22.1.2 103971 1vr5A 547 2.44e+01 c.94.1.1 120437 2qv3A 457 2.45e+01 2v1lA 148 2.48e+01 1n2zA 245 2.50e+01 c.92.2.2 79865 2v8qA 157 2.55e+01 d.129.6.2 152781 3gjwA 350 2.62e+01 1dq3A 454 2.64e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1iugA 352 2.66e+01 c.67.1.3 90699 1no5A 114 2.75e+01 d.218.1.5 92014 3h87C 73 2.79e+01 2ovyA 362 2.84e+01 1bz4A 144 2.84e+01 1nfn a.24.1.1 16521 2q1fA 1022 2.85e+01 1b68A 191 2.85e+01 1nfn a.24.1.1 59076 2kl8A 85 2.87e+01 1ab6A 125 2.87e+01 3chy c.23.1.1 31054 1on2A 142 2.89e+01 a.4.5.24,a.76.1.1 87103,87104 1dcoA 104 2.89e+01 1dcpA d.74.1.1 39680 2h5gA 463 2.93e+01 2b25A 336 2.97e+01 c.66.1.13 127699 2i7cA 283 2.99e+01 2a11A 242 3.03e+01 3f1lA 252 3.03e+01 3ix7A 134 3.04e+01 2ccjA 205 3.17e+01 1ve3A 227 3.18e+01 c.66.1.43 120010 1iatA 557 3.20e+01 1dqrA c.80.1.2 62123 3iahA 256 3.26e+01 1s12A 94 3.29e+01 d.64.2.1 112003 2o6lA 170 3.31e+01 1s94A 180 3.44e+01 a.47.2.1 98738 1kkhA 317 3.50e+01 d.14.1.5,d.58.26.3 72645,72646 1dofA 403 3.51e+01 1c3cA a.127.1.1 19429 1fl9A 161 3.54e+01 c.37.1.18 70137 2r2qA 110 3.54e+01 2r3bA 310 3.55e+01 1ab5A 125 3.66e+01 3chy c.23.1.1 31056 3gzdA 440 3.67e+01 3h5nA 353 3.68e+01 1pl8A 356 3.75e+01 b.35.1.2,c.2.1.1 94878,94879 1rjdA 334 3.78e+01 c.66.1.37 97558 3hheA 255 3.88e+01 2dri 271 3.88e+01 2dri 2driA 271 3.88e+01 c.93.1.1 35637 2vldA 251 3.90e+01 1e6mA 128 3.91e+01 3chy c.23.1.1 31039 1efyA 350 3.96e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1ldmA 329 4.02e+01 c.2.1.5,d.162.1.1 30160,42127 3k5wA 475 4.03e+01 1dfaA 454 4.08e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28375,40575,40576 3hngA 360 4.09e+01 1cl8A 276 4.10e+01 1ckqA c.52.1.1 33230 1e4eA 343 4.16e+01 1iow c.30.1.2,d.142.1.1 59221,59222 1brt 277 4.20e+01 1brt 1brtA 277 4.20e+01 c.69.1.12 34699 1a49A 530 4.23e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1xhkA 187 4.25e+01 d.14.1.10 115299 1ckqA 276 4.25e+01 1ckqA c.52.1.1 33229 3iupA 379 4.25e+01 2kavA 129 4.28e+01 3hemA 302 4.31e+01 2ousA 331 4.31e+01 1e0tA 470 4.51e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1vr0A 247 4.52e+01 c.148.1.1 120428 1u2xA 474 4.57e+01 c.72.1.3 107622 1ypxA 375 4.60e+01 2rhqB 795 4.61e+01 3gr4A 550 4.62e+01 2ze0A 555 4.74e+01 2z3yA 662 4.75e+01 a.4.1.18,c.3.1.2,d.16.1.5 154024,154025,154026 2kl6A 114 4.76e+01 2qenA 350 4.82e+01 1uirA 314 4.90e+01 c.66.1.17 99429 1sd4A 126 4.90e+01 a.4.5.39 105428 2iyaA 424 4.90e+01 2g50A 530 4.91e+01 b.58.1.1,c.1.12.1,c.49.1.1 134618,134619,134620 1qpsA 261 4.93e+01 1ckqA c.52.1.1 33234 1qhdA 398 4.94e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 2afrA 231 4.98e+01 2ptsA 462 4.99e+01 2dyuA 334 5.00e+01 1ou0A 207 5.01e+01 c.23.17.1 93536 1vdmA 153 5.02e+01 c.61.1.1 119994 2a2fX 325 5.03e+01 3ifgA 484 5.04e+01 1nl1A 147 5.11e+01 g.14.1.1,g.32.1.1 91949,91950 3ciwA 348 5.14e+01 1jrmA 104 5.16e+01 d.206.1.1 67136 2ej5A 257 5.18e+01 2g3mA 693 5.18e+01 3dedA 113 5.29e+01 d.145.1.4 157567 1ddwA 120 5.33e+01 1evhA b.55.1.4 27001 1qhsA 178 5.34e+01 1qhsA c.37.1.3 31938 1gqeA 365 5.38e+01 e.38.1.1 70351 1br0A 120 5.40e+01 a.47.2.1 17772 2b9eA 303 5.44e+01 c.66.1.38 128124 3ei3B 383 5.50e+01 1x25A 128 5.53e+01 d.79.1.1 121619 2in3A 216 5.61e+01 1th8B 116 5.62e+01 c.13.2.1 106909 2fb7A 95 5.63e+01 b.38.1.5 133238 2i2wA 212 5.63e+01 1xx1A 285 5.70e+01 1v9mA 323 5.75e+01 f.40.1.1 100543 2igsA 219 5.90e+01 d.2.1.11 147659 2apxA 112 5.91e+01 1zchA 255 5.94e+01 d.90.1.1 124908 2wadA 680 5.98e+01 2yxdA 183 5.99e+01 1gmlA 178 6.03e+01 c.8.5.2 70273 3dydA 427 6.06e+01 1cb6A 691 6.11e+01 1cb6A c.94.1.2,c.94.1.2 35840,35841 3iixA 348 6.11e+01 2rk9A 145 6.16e+01 1f2hA 169 6.17e+01 1f3vA d.58.22.1 59612 1m1jA 491 6.19e+01 h.1.8.1 74369 1cs0A 1073 6.21e+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 18558,31487,31673,31674,41518,41519 1zu4A 320 6.23e+01 2zz9A 301 6.26e+01 2rcyA 262 6.27e+01 3crvA 551 6.38e+01 2nyvA 222 6.40e+01 2p1jA 186 6.43e+01 6ldhA 329 6.45e+01 c.2.1.5,d.162.1.1 30161,42128 3d0sA 227 6.56e+01 1pjhA 280 6.63e+01 c.14.1.3 94761 3evnA 329 6.72e+01 3g65B 282 6.78e+01 2rgxA 206 6.82e+01 2douA 376 6.84e+01 2nvaA 372 6.86e+01 3iduA 127 6.89e+01 1j78A 458 6.99e+01 a.126.1.1,a.126.1.1,a.126.1.1 66397,66398,66399 1a8uA 277 6.99e+01 1brt c.69.1.12 34703 2pefA 373 7.00e+01 1a9xA 1058 7.00e+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 1pcxA 810 7.01e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1mvwA 840 7.02e+01 i.15.1.1 79523 3e8sA 227 7.05e+01 2pa6A 427 7.08e+01 1wduA 245 7.09e+01 d.151.1.1 109286 1d1gA 168 7.09e+01 1d1gA c.71.1.1 34889 2waeA 680 7.11e+01 1t90A 486 7.14e+01 1vllA 334 7.15e+01 c.2.1.13 108834 3g8dA 444 7.17e+01 1htwA 158 7.23e+01 c.37.1.18 71083 1yt3A 375 7.23e+01 a.60.8.3,a.60.8.3,c.55.3.5 123992,123993,123994 2d3yA 219 7.25e+01 1tidB 119 7.26e+01 c.13.2.1 107000 1kthA 58 7.28e+01 g.8.1.1 68863 1nfn 191 7.29e+01 1nfn 1nvtA 287 7.35e+01 c.2.1.7,c.58.1.5 86270,86271 3b4wA 495 7.35e+01 2h3hA 313 7.41e+01 2geyA 158 7.43e+01 d.17.4.9 147114 1c3oA 1073 7.44e+01 1c3oA a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18562,31491,31681,31682,41526,41527 1dowA 205 7.46e+01 1dovA a.24.9.1 16626 3chy 128 7.48e+01 3chy 1othA 321 7.48e+01 1othA c.78.1.1,c.78.1.1 35260,35261 2yw3A 207 7.49e+01 3hnrA 220 7.54e+01 1ybvA 283 7.57e+01 1ybvA c.2.1.2 29948 2arhA 203 7.58e+01 d.108.1.9 127197 2q3sA 206 7.60e+01 c.55.3.5 139802 2b2aA 199 7.60e+01 1anxA 319 7.60e+01 1avc a.65.1.1 18161 1kxpD 458 7.61e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 3dssB 331 7.64e+01 a.102.4.3 157841 1d6bA 42 7.65e+01 1b8wA g.9.1.1 44594 1or3A 165 7.66e+01 1nfn a.24.1.1 16522 1oqvA 192 7.66e+01 d.24.1.2 87320 1sg6A 393 7.66e+01 e.22.1.1 105522 1j5yA 187 7.74e+01 a.4.5.1,d.94.2.1 71592,71593 1avhA 320 7.76e+01 1avc a.65.1.1 18159 1np8A 159 7.79e+01 a.39.1.8 92022 2ga8A 359 7.83e+01 1s0pA 176 7.90e+01 a.192.1.1 98300 1k8kC 372 7.92e+01 b.69.4.1 68308 2vh4A 381 7.95e+01 3hwpA 302 7.96e+01 1qhxA 178 7.96e+01 1qhsA c.37.1.3 31936 1qwkA 317 7.97e+01 c.1.7.1 96482 2felA 359 7.97e+01