# List of top-scoring protein chains for t04-100-30-n_notor2-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.cse.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 1g0uG 252 1.61e-01 d.153.1.4 41952 2fpqA 444 1.34e+00 1vixA 420 2.00e+00 c.56.5.4,d.58.19.1 100777,100778 1pzxA 289 2.58e+00 c.119.1.1 95484 1o70A 324 2.59e+00 b.118.1.1,b.118.1.1 81115,81116 1rypA 243 2.99e+00 1pmaA d.153.1.4 41932 1jchA 551 3.26e+00 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1ct9A 553 3.73e+00 1ct9A c.26.2.1,d.153.1.1 31616,41834 2bogX 286 3.85e+00 1wdcC 156 3.95e+00 1wdcC a.39.1.5 17317 1kxoA 184 4.15e+00 b.60.1.1 84475 1w77A 228 4.49e+00 1r1hA 696 4.99e+00 d.92.1.4 104756 1musA 477 5.46e+00 c.55.3.4 79494 2bodX 286 5.52e+00 1nf2A 268 5.59e+00 c.108.1.10 91849 1j1lA 290 5.79e+00 b.82.1.12 90766 1v8bA 479 6.19e+00 2a2kA 175 6.84e+00 1tn4 159 7.27e+00 1ncx a.39.1.5 17248 1sk7A 198 7.68e+00 a.132.1.2 105671 2b8nA 429 7.79e+00 1lldA 319 7.99e+00 3ldh c.2.1.5,d.162.1.1 30177,42144 1mvwC 147 8.08e+00 i.15.1.1 79525 1xqaA 113 8.19e+00 1exrA 148 8.43e+00 1cll a.39.1.5 17299 1hyoA 421 8.73e+00 1qcnA b.34.8.1,d.177.1.1 59001,59002 1djxB 624 9.03e+00 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 2iu5A 195 9.15e+00 1pjjA 271 9.53e+00 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1ta8A 332 9.80e+00 2cglA 489 9.97e+00 1rvkA 382 1.00e+01 c.1.11.2,d.54.1.1 97928,97929 1nrjA 158 1.02e+01 d.110.4.4 86124 1nnjA 271 1.02e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1tdzA 272 1.05e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 2btfA 375 1.06e+01 1yagA c.55.1.1,c.55.1.1 33429,33430 1r6uA 437 1.25e+01 c.26.1.1 97163 1hfuA 503 1.29e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1auoA 218 1.29e+01 1auoA c.69.1.14 34716 1ek9A 428 1.35e+01 1ek9A f.5.1.1 43809 2f2hA 773 1.45e+01 1w2fA 276 1.45e+01 d.143.1.3 109125 1phk 298 1.51e+01 1cdkA d.144.1.7 41635 2gjgA 248 1.54e+01 1hqsA 423 1.56e+01 1iso c.77.1.1 61154 1zc6A 305 1.57e+01 1u9aA 160 1.59e+01 1u9aA d.20.1.1 38333 1eejA 216 1.68e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1tml 286 1.70e+01 1tml c.6.1.1 30656 1gu7A 364 1.72e+01 b.35.1.2,c.2.1.1 83321,83322 1jnrA 643 1.72e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1bu7A 455 1.73e+01 1bu7A a.104.1.1 18937 2a74A 643 1.73e+01 1hwxA 501 1.86e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 1zy9A 564 1.88e+01 2fokA 579 1.90e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1xhcA 367 1.93e+01 1o7fA 469 1.99e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1omiA 248 2.03e+01 b.82.3.3,a.4.5.4 87079,87080 2fjbA 643 2.04e+01 1k8kA 418 2.04e+01 c.55.1.1,c.55.1.1 68305,68306 1e4mM 501 2.06e+01 1e70M c.1.8.4 59226 1jl5A 454 2.12e+01 c.10.2.6 66830 2grrA 161 2.15e+01 1j1nA 492 2.17e+01 c.94.1.1 83978 1qysA 106 2.23e+01 k.41.1.1 96603 1ejxC 567 2.25e+01 b.92.1.1,c.1.9.2 83184,83185 1r59O 505 2.35e+01 1sznA 417 2.39e+01 b.71.1.1,c.1.8.1 106162,106163 1p5dX 463 2.40e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1is1A 185 2.44e+01 d.67.3.1 83704 1oyeA 1049 2.46e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1skoA 143 2.50e+01 d.110.7.1 105676 1yw5A 177 2.52e+01 1yrvA 169 2.54e+01 1tf4A 605 2.56e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1sq5A 308 2.58e+01 c.37.1.6 105882 1wycA 392 2.60e+01 1q4gA 553 2.65e+01 a.93.1.2,g.3.11.1 95789,95790 1a0cA 438 2.67e+01 1a0cA c.1.15.3 29529 1obbA 480 2.68e+01 c.2.1.5,d.162.1.2 86760,86761 2az4A 429 2.70e+01 1yr4A 237 2.74e+01 1j8mF 297 2.76e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1o17A 345 2.82e+01 a.46.2.1,c.27.1.1 80765,80766 1ox0A 430 2.82e+01 c.95.1.1,c.95.1.1 87495,87496 1lwjA 441 2.82e+01 b.71.1.1,c.1.8.1 74303,74304 1nrfA 262 2.83e+01 e.3.1.1 92086 1ggzA 148 2.84e+01 a.39.1.5 70176 2f3yA 148 2.88e+01 1f8rA 498 2.96e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 1g8aA 227 2.98e+01 c.66.1.3 90506 1ee8A 266 3.00e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1wdkC 390 3.01e+01 c.95.1.1,c.95.1.1 109258,109259 1gr0A 367 3.01e+01 c.2.1.3,d.81.1.3 70379,70380 2bcqA 335 3.06e+01 1aisA 182 3.06e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1f3mC 297 3.11e+01 1hcl d.144.1.7 41677 1evuA 731 3.14e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1ew2A 513 3.14e+01 1b8jA c.76.1.1 59525 1whsA 255 3.15e+01 1ivyA c.69.1.5 34649 1lwdA 413 3.17e+01 c.77.1.1 78265 1xd8A 289 3.18e+01 2f91A 237 3.19e+01 1iyxA 432 3.22e+01 c.1.11.1,d.54.1.1 83815,83816 1b7yB 785 3.23e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1wpgA 994 3.28e+01 1k7hA 476 3.29e+01 c.76.1.1 72101 1zu0A 529 3.30e+01 1jj2L 194 3.32e+01 1ffkI d.12.1.2 63097 1yx1A 264 3.35e+01 2avnA 260 3.35e+01 2fbwC 141 3.36e+01 1kewA 361 3.36e+01 c.2.1.2 68544 9gafA 295 3.38e+01 1apyA d.153.1.5 42008 1u69A 163 3.41e+01 d.32.1.7 107699 1xpmA 396 3.42e+01 1qv9A 283 3.44e+01 c.127.1.1 96356 1ty0A 211 3.44e+01 b.40.2.2,d.15.6.1 107440,107441 1h9hE 223 3.44e+01 b.47.1.2 103810 1p1mA 406 3.46e+01 b.92.1.4,c.1.9.9 87696,87697 1kqfB 294 3.49e+01 d.58.1.5,f.23.22.1 75900,75901 1d8dB 437 3.50e+01 1ft1B a.102.4.3 18866 1pc3A 350 3.50e+01 c.94.1.1 104102 1wybA 392 3.53e+01 1twuA 139 3.54e+01 d.32.1.8 107413 2b99A 156 3.58e+01 1rqlA 267 3.61e+01 c.108.1.3 97750 1ztpA 251 3.66e+01 1zoyC 140 3.68e+01 1vhxA 150 3.69e+01 c.55.3.8 100712 1k2yX 463 3.70e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 2gupA 292 3.73e+01 1fsu 492 3.73e+01 1auk c.76.1.2 35032 1cghA 224 3.80e+01 1a7s b.47.1.2 26290 1z7wA 322 3.87e+01 1a8e 329 3.91e+01 1cb6A c.94.1.2 35888 1jvnA 555 3.92e+01 c.1.2.1,c.23.16.1 67355,67356 2bydA 323 3.99e+01 1dm5A 315 3.99e+01 1avc a.65.1.1 18186 1gppA 237 4.04e+01 b.86.1.2 76262 1w6tA 444 4.04e+01 2h88C 140 4.07e+01 1q1uA 144 4.16e+01 b.42.1.1 95608 1pprM 312 4.17e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1ad3A 452 4.19e+01 1ad3A c.82.1.1 35335 1e79D 482 4.20e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1fcjA 322 4.23e+01 1oasA c.79.1.1 35289 1fseA 74 4.26e+01 1fseA a.4.6.2 60000 1r8sA 164 4.30e+01 c.37.1.8 97247 1esmA 316 4.31e+01 1esmA c.37.1.6 31953 1sauA 115 4.42e+01 2sns 149 4.46e+01 1snc b.40.1.1 24860 1div 149 4.50e+01 1div d.99.1.1,d.100.1.1 40692,40693 1wiwA 290 4.61e+01 1a88A 275 4.62e+01 1brt c.69.1.12 34707 1hbq 183 4.68e+01 1aqb b.60.1.1 27078 1v54E 109 4.74e+01 a.118.11.1 100326 2amdA 311 4.76e+01 2ck3A 510 4.77e+01 1jsdB 176 4.78e+01 h.3.1.1 63259 1uiuA 502 4.80e+01 c.94.1.1 99434 1iyjB 817 4.82e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 1nd4A 264 4.94e+01 d.144.1.6 91815 1yh2A 175 4.94e+01 1esiA 262 4.95e+01 1skf e.3.1.1 42682 1v4vA 376 4.96e+01 c.87.1.3 100313 1gttA 429 5.03e+01 d.177.1.1,d.177.1.1 70529,70530 1vgmA 378 5.06e+01 1vetA 124 5.07e+01 d.110.7.1 108553 1g4yR 148 5.12e+01 1cll a.39.1.5 60252 1r5tA 142 5.14e+01 c.97.1.1 104812 1stzA 338 5.14e+01 a.4.5.51,d.110.2.3 106009,106010 1h3qA 140 5.19e+01 d.110.4.3 76652 1pzlA 237 5.23e+01 a.123.1.1 104393 2asbA 251 5.35e+01 1gd8A 118 5.35e+01 d.188.1.1 60445 1ituA 369 5.37e+01 c.1.9.7 71423 1b5qA 472 5.40e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1wp1A 474 5.43e+01 1zd9A 188 5.48e+01 1f3z 161 5.48e+01 1gpr b.84.3.1 28273 1e7uA 961 5.51e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 2ew0A 192 5.55e+01 1auk 489 5.57e+01 1auk c.76.1.2 35030 1q0sA 259 5.61e+01 c.66.1.28 95509 1innA 166 5.62e+01 1j98A d.185.1.2 62608 1yf2A 425 5.65e+01 2fjlA 150 5.67e+01 1u1wA 298 5.70e+01 2essA 248 5.74e+01 1e3aB 560 5.74e+01 1ajqB 1miwA 404 5.76e+01 a.173.1.1,d.218.1.4 79162,79163 1zk7A 467 5.79e+01 1ho1A 242 5.81e+01 1ho1A c.1.24.1 61097 1q2wA 308 5.86e+01 b.47.1.4 88355 2a5kA 307 5.93e+01 1xnpA 202 5.94e+01 1pud 386 6.00e+01 1pud c.1.20.1 29658 1zkpA 268 6.05e+01 1eexB 224 6.06e+01 1dioB c.51.3.1 33213 1rlmB 271 6.09e+01 1r85A 379 6.13e+01 c.1.8.3 104839 1yizA 429 6.17e+01 2bhuA 602 6.20e+01 1a48 306 6.20e+01 1a48 d.143.1.1 41590 1umgA 362 6.23e+01 d.280.1.1 107956 1ffyA 917 6.25e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 2gnoA 305 6.25e+01 1ryoA 327 6.32e+01 c.94.1.2 98108 1wmbA 260 6.34e+01 1ufiA 64 6.34e+01 a.30.4.1 99336 1y3nA 490 6.39e+01 2ffeA 311 6.45e+01 1vqoM 195 6.48e+01 1xffA 240 6.50e+01 d.153.1.1 109580 1ihp 438 6.51e+01 1ihp c.60.1.2 33993 2eu9A 355 6.52e+01 2btvA 901 6.52e+01 2btvA e.28.1.1 43376 1ok7A 366 6.60e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1io0A 185 6.60e+01 c.10.1.1 76753 1ji6A 589 6.65e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1tjlA 151 6.67e+01 a.2.14.1,g.39.1.13 107027,107028 1igwA 434 6.69e+01 c.1.12.7 62370 1s83A 223 6.70e+01 b.47.1.2 98718 1ls6A 295 6.71e+01 c.37.1.5 91115 1wmhA 89 6.74e+01 1gvzA 237 6.78e+01 b.47.1.2 76360 1jsdA 319 6.84e+01 b.19.1.2 63258 1jbbA 153 6.89e+01 1u9aA d.20.1.1 62842 1a99A 344 6.89e+01 1pot c.94.1.1 35812 1tvlA 454 6.94e+01 c.1.16.4 107366 1sffA 426 6.96e+01 c.67.1.4 105482 2ffsA 157 6.97e+01 1y9aA 360 7.10e+01 1wxcB 134 7.11e+01 1xl7A 612 7.14e+01 2gsfA 373 7.20e+01 1pixA 587 7.20e+01 c.14.1.4 94708 1e79A 510 7.21e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1f0kA 364 7.27e+01 1f0kA c.87.1.2 35465 1lml 478 7.29e+01 1lml d.92.1.3 40295 1go4A 205 7.37e+01 d.135.1.1 70292 1s72M 194 7.38e+01 d.12.1.2 105332 1qi9A 556 7.42e+01 1qhbA a.111.1.2 19053 1m5wA 243 7.42e+01 c.1.24.1 84836 1oc2A 348 7.44e+01 c.2.1.2 92765 1nowA 507 7.45e+01 c.1.8.6,d.92.2.1 85936,85937 1jy2O 56 7.45e+01 h.1.8.1 67441 1ceo 343 7.50e+01 1ceo c.1.8.3 28808 2cunA 410 7.51e+01 1zcjA 463 7.56e+01 1yuwA 554 7.57e+01 1zcdA 388 7.64e+01 1mqeA 207 7.74e+01 d.113.1.1 91394 1w79A 489 7.92e+01 1h0oA 390 7.92e+01 a.25.1.2 70845 1fvzA 271 7.93e+01 1fvzA 1io1A 398 7.97e+01 1io1A e.32.1.1 62611 1bu8A 452 7.98e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1dmtA 696 7.99e+01 1dmtA d.92.1.4 40296 1yhtA 367 8.00e+01 2bklA 695 8.02e+01 1ju2A 536 8.04e+01 c.3.1.2,d.16.1.1 77169,77170 1ym0A 238 8.06e+01 1z63A 500 8.07e+01 1or0B 528 8.11e+01 1kshA 186 8.13e+01 c.37.1.8 72914 1nnfA 309 8.16e+01 c.94.1.1 85903 1wljA 189 8.16e+01 1u3dA 509 8.19e+01 a.99.1.1,c.28.1.1 107638,107639 1zwwA 256 8.36e+01 1xsjA 778 8.36e+01 1h7sA 365 8.43e+01 d.14.1.3,d.122.1.2 65705,65706 1d8cA 723 8.45e+01 1d8cA c.1.13.1 29325 1k8kC 372 8.47e+01 b.69.4.1 68308 1mrg 263 8.54e+01 1mrj d.165.1.1 42183 1xjzA 233 8.56e+01 1mmiA 366 8.59e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1uliA 460 8.62e+01 b.33.1.2,d.129.3.3 107921,107922 2ar9A 278 8.62e+01 1fgxA 288 8.65e+01 1fgxA c.68.1.2 34508 1gnxA 479 8.72e+01 c.1.8.4 76241 1mctA 223 8.77e+01 5ptp b.47.1.2 25961 1lvfA 110 8.77e+01 a.47.2.1 74280 2ahqA 76 8.78e+01 1j0hA 588 8.80e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1cjaA 342 8.84e+01 1cjaA d.144.1.3 41708 1jihA 531 8.86e+01 d.240.1.1,e.8.1.7 90374,90375 1kveB 77 8.97e+01 1kveB