# List of top-scoring protein chains for t04-100-30-str2 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 1d8hA 311 2.38e-03 1d8iA d.63.1.1 39544 1ecsA 126 1.10e-02 1ecsA d.32.1.2 59407 1v8cA 168 3.23e-02 1f9zA 135 1.15e-01 1qipA d.32.1.1 38484 2polA 366 1.40e-01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1fa8A 135 1.63e-01 1qipA d.32.1.1 38486 1p8kZ 254 1.65e-01 1l7mA 211 1.76e-01 c.108.1.4 73664 1j97A 211 1.79e-01 1f5sA c.108.1.4 62753 1mmiA 366 2.18e-01 1n7oA 721 2.41e-01 a.102.3.2 80259 b.24.1.1 80260 b.30.5.2 80261 1hn2A 159 2.49e-01 b.60.1.1 65890 1gt1A 159 2.52e-01 1jksA 294 4.41e-01 d.144.1.7 71710 1eguA 731 5.09e-01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.5.2 24423 1ukuA 102 5.39e-01 1dy9A 187 5.71e-01 1jxpA b.47.1.3 26400 1p8xA 344 5.74e-01 1nd4A 264 6.09e-01 1o4uA 285 6.26e-01 c.1.17.1 86624 d.41.2.1 86625 1obpA 159 6.64e-01 1obpA b.60.1.1 27092 1uc8A 280 6.70e-01 1i06A 180 7.37e-01 1mup b.60.1.1 27131 1i05A 180 7.38e-01 1mup b.60.1.1 27130 1jv4A 162 7.43e-01 b.60.1.1 67343 1dzkA 157 8.31e-01 1obpA b.60.1.1 27096 1qy1A 174 1.06e+00 1auvA 311 1.09e+00 1auvA c.30.1.5 31723 d.142.1.3 41558 1f52A 468 1.10e+00 1lgr d.15.9.1 37839 d.128.1.1 41169 1aisA 182 1.14e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1lqpA 135 1.73e+00 d.32.1.2 78151 1nkiA 135 1.73e+00 1n0uA 842 1.73e+00 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1ksiA 642 1.79e+00 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1f1xA 322 1.87e+00 d.32.1.3 83208 d.32.1.3 83209 1ftrA 296 2.12e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1nnhA 294 2.19e+00 1mup 166 2.30e+00 1mup b.60.1.1 27133 1mgtA 174 2.76e+00 1mgtA a.4.2.1 16078 c.55.7.1 33753 1su4A 994 3.05e+00 1us5A 314 3.21e+00 1fuiA 591 3.38e+00 1fuiA b.43.2.1 25674 c.85.1.1 35444 1cjxA 357 3.62e+00 1cjxA d.32.1.3 38516 d.32.1.3 38517 1ukkA 142 3.88e+00 1jc4A 148 4.01e+00 1jc4A d.32.1.4 62863 1jg5A 83 4.06e+00 d.205.1.1 66666 1jyhA 157 4.24e+00 d.60.1.3 71956 1nrlA 316 4.52e+00 1i7nA 309 4.62e+00 c.30.1.5 83681 d.142.1.3 83682 1l6rA 227 4.82e+00 c.108.1.10 77768 1eulA 994 5.07e+00 1eulA b.82.7.1 75829 c.108.1.7 75830 d.220.1.1 75831 f.33.1.1 75832 1ctqA 166 5.17e+00 1ctqA c.37.1.8 31965 1f1uA 323 5.40e+00 d.32.1.3 83200 d.32.1.3 83201 1r9cA 139 5.98e+00 1uxzA 131 6.00e+00 1g6sA 427 6.26e+00 1eps d.68.2.2 39584 1kafA 108 6.40e+00 d.199.1.1 68372 1pj5A 830 6.95e+00 1gx3A 284 7.61e+00 d.3.1.5 70678 1hl9A 449 7.89e+00 1l3aA 228 8.00e+00 d.18.1.2 73531 1jxpA 186 8.29e+00 1jxpA b.47.1.3 26402 1vgyA 393 8.43e+00 1pcfA 66 8.45e+00 1pcfA d.18.1.1 38142 1e5pA 151 9.12e+00 1bj7 b.60.1.1 59272 1o63A 219 1.01e+01 1oa4A 222 1.02e+01 b.29.1.11 86731 1djtA 64 1.03e+01 1aho g.3.7.1 44132 1lwjA 441 1.06e+01 b.71.1.1 74303 c.1.8.1 74304 1avk 638 1.15e+01 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1vk6A 269 1.16e+01 1l1qA 186 1.17e+01 c.61.1.1 77653 1v7oA 165 1.17e+01 1f0xA 571 1.19e+01 1f0xA d.58.32.2 39483 d.145.1.1 41746 1ik9A 213 1.23e+01 b.59.1.1 66176 h.1.11.1 66177 1exqA 154 1.25e+01 1b9dA c.55.3.2 33646 1p0hA 318 1.25e+01 1f08A 148 1.26e+01 1f08A d.89.1.2 59564 1qwdA 177 1.27e+01 1fu1A 203 1.33e+01 1fu1B b.59.1.1 27076 h.1.11.1 45630 1k8kB 394 1.34e+01 c.55.1.1 68307 1qwiA 143 1.36e+01 1p9eA 331 1.39e+01 1ewqA 765 1.46e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1dbhA 354 1.47e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1k07A 263 1.48e+01 d.157.1.1 77218 1czyA 168 1.51e+01 1d0aB b.8.1.1 23220 h.1.2.1 45427 1i31A 314 1.52e+01 1bw8A b.2.7.1 22481 1rwhA 757 1.52e+01 1g5hA 454 1.53e+01 1g5hA c.51.1.1 60270 d.104.1.1 60271 1utcA 363 1.54e+01 1n9eA 787 1.60e+01 1l0wA 580 1.69e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1eljA 381 1.76e+01 4mbp c.94.1.1 35791 1kr4A 125 1.78e+01 d.58.5.2 72889 1kl9A 182 1.78e+01 b.40.4.5 72681 1dkuA 317 1.82e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1jkeA 145 1.85e+01 c.110.1.1 66791 1s1dA 331 1.88e+01 1lm6A 215 1.88e+01 d.167.1.1 84628 1ukfA 188 1.92e+01 1in4A 334 1.98e+01 1hqcA a.4.5.11 62597 c.37.1.20 62598 1bj7 156 1.99e+01 1bj7 b.60.1.1 27113 1rwzA 245 1.99e+01 1riqA 465 2.01e+01 1q8yA 373 2.03e+01 1in6A 334 2.04e+01 1hqcA a.4.5.11 62601 c.37.1.20 62602 1anf 370 2.05e+01 4mbp c.94.1.1 35776 1bl3A 160 2.07e+01 1b9dA c.55.3.2 33655 1p5dX 463 2.08e+01 1mxgA 435 2.09e+01 b.71.1.1 85193 c.1.8.1 85194 1kwgA 645 2.11e+01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1c1yB 77 2.11e+01 1c1yB d.15.1.5 37618 1kutA 230 2.11e+01 d.143.1.1 73017 1nh2C 79 2.11e+01 1uzcA 71 2.14e+01 1iq4A 179 2.18e+01 1iq4A d.77.1.1 62641 1nh1A 330 2.18e+01 1aa8A 347 2.22e+01 1an9A c.4.1.2 30619 d.16.1.3 37906 1qlaB 239 2.28e+01 1qlaB a.1.2.1 15679 d.15.4.2 37707 1omp 370 2.31e+01 4mbp c.94.1.1 35778 1iqyA 638 2.36e+01 b.30.2.1 76763 d.17.2.1 76764 d.17.2.1 76765 1ltoA 245 2.39e+01 b.47.1.2 84707 1dkqA 410 2.41e+01 1dklA c.60.1.3 33998 1oi7A 288 2.42e+01 c.2.1.8 87049 c.23.4.1 87050 1lmeA 176 2.49e+01 d.167.1.1 84629 1pda 315 2.51e+01 1pda c.94.1.1 35751 d.50.2.1 38794 1t7pA 698 2.55e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1qtoA 122 2.56e+01 1bylA d.32.1.2 38494 1han 297 2.56e+01 1han d.32.1.3 38506 d.32.1.3 38507 1g3kA 174 2.56e+01 1nedA d.153.1.4 41989 1gx5A 536 2.59e+01 e.8.1.4 70682 1k2yX 463 2.59e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1gteA 1025 2.59e+01 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1jl0A 334 2.59e+01 1jenA d.156.1.1 63155 1hyvA 166 2.63e+01 1b9dA c.55.3.2 61424 1opoA 348 2.67e+01 b.121.4.7 87240 4mbp 370 2.69e+01 4mbp c.94.1.1 35777 1jovA 270 2.70e+01 b.30.5.7 84192 1qqsA 174 2.71e+01 1nglA b.60.1.1 27143 1ec7A 446 2.73e+01 1bqg c.1.11.2 29218 d.54.1.1 38862 1jh6A 189 2.73e+01 d.61.1.1 66707 1kao 167 2.76e+01 1ctqA c.37.1.8 32014 1ytfC 79 2.77e+01 1ytfC b.56.1.1 27010 1gr0A 367 2.79e+01 c.2.1.3 70379 d.81.1.3 70380 1mml 265 2.79e+01 1mml e.8.1.2 43015 1r5jA 337 2.82e+01 1an9A 340 2.85e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1oacA 727 2.86e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1c4kA 730 2.93e+01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1atiA 505 2.95e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 1ui8A 638 2.98e+01 1uhvA 500 3.01e+01 1try 224 3.04e+01 5ptp b.47.1.2 26017 1dp3A 55 3.09e+01 1dp3A a.55.1.2 59128 1gtkA 313 3.18e+01 c.94.1.1 76346 d.50.2.1 76347 1ptf 88 3.19e+01 1ptf d.94.1.1 40549 1opd 85 3.23e+01 1ptf d.94.1.1 40560 1e54A 332 3.24e+01 1e54A f.4.3.1 59258 1jysA 242 3.26e+01 c.56.2.1 77216 1j5wA 298 3.28e+01 d.104.1.1 71589 1b4vA 504 3.28e+01 1b8sA c.3.1.2 30334 d.16.1.1 37865 1qs1A 462 3.29e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1h3qA 140 3.29e+01 d.110.4.3 76652 1jb7B 260 3.29e+01 1otcB b.40.4.3 62839 1lkdA 297 3.38e+01 d.32.1.3 78059 d.32.1.3 78060 1ktbA 405 3.41e+01 b.71.1.1 72960 c.1.8.1 72961 1e8cA 498 3.42e+01 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 1aw7A 194 3.46e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1q40B 219 3.48e+01 1e8gA 560 3.58e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1sjyA 159 3.60e+01 1ji1A 637 3.61e+01 b.1.18.2 71666 b.71.1.1 71667 c.1.8.1 71668 1ooyA 481 3.61e+01 1iazA 179 3.64e+01 1iazA b.97.1.1 62131 1j1tA 233 3.65e+01 2sicI 107 3.68e+01 3ssi d.84.1.1 40031 1lb6A 160 3.73e+01 b.8.1.1 73798 1uocA 289 3.74e+01 1k3eA 156 3.75e+01 d.198.1.1 68103 1c2pA 576 3.83e+01 1quvA e.8.1.4 43117 1vjqA 79 3.93e+01 1ng6A 148 3.95e+01 a.182.1.1 85670 1d0qA 103 3.98e+01 1d0qA g.41.3.2 45208