# List of top-scoring protein chains for t04-100-30-bys 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 1tljA 213 3.16e-27 1eqfA 280 4.31e-01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1e8gA 560 6.24e-01 1qltA d.58.32.1 39455 d.145.1.1 41718 1w1kA 560 1.22e+00 1ftrA 296 1.52e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1gpjA 404 2.03e+00 a.151.1.1 65451 c.2.1.7 65452 d.58.39.1 65453 1uouA 474 2.17e+00 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 1k47A 337 2.86e+00 d.14.1.5 72040 d.58.26.4 72041 1b65A 375 3.11e+00 1b65A d.154.1.1 42020 1knwA 425 3.11e+00 b.49.2.3 -4274 c.1.6.1 -5229 1iyeA 309 3.43e+00 e.17.1.1 83786 1pl5A 142 3.52e+00 1rtm1 149 4.47e+00 1rtm1 1f7uA 607 4.66e+00 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1a04A 215 4.78e+00 1a04A a.4.6.2 16234 c.23.1.1 31089 1vc4A 254 5.21e+00 c.1.2.4 -5172 1i1kA 309 5.48e+00 1daaA e.17.1.1 61533 1rthA 560 5.61e+00 1rthA c.55.3.1 33576 e.8.1.2 43028 1afb1 154 6.55e+00 1rtm1 1nal1 297 6.57e+00 1nal3 1brwA 433 7.00e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1hl2A 297 7.04e+00 c.1.10.1 83581 1ofuX 119 7.74e+00 c.37.1.22 86976 1t7pA 698 7.75e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 1f0xA 571 7.82e+00 1f0xA d.58.32.2 39483 d.145.1.1 41746 1gefA 123 7.94e+00 1gefA c.52.1.18 60465 1b8oA 284 8.00e+00 1b8oA c.56.2.1 33762 1hh1A 143 8.07e+00 1gefA c.52.1.18 61036 1oo0B 110 8.36e+00 d.58.7.1 87183 1v7oA 165 8.37e+00 unknown_sccs -10249 1vrtA 560 8.80e+00 1rthA c.55.3.1 33574 e.8.1.2 43023 1nyhA 166 9.43e+00 h.1.23.1 86403 1s98A 107 9.47e+00 1npyA 271 9.66e+00 c.2.1.7 85995 c.58.1.5 85996 1om4A 422 9.73e+00 d.174.1.1 87067 1qo7A 394 9.81e+00 1qo7A c.69.1.11 34697 1j5yA 187 1.04e+01 a.4.5.1 71592 d.94.2.1 71593 1p3wA 404 1.09e+01 c.67.1.3 87752 1r94A 118 1.11e+01 b.124.1.1 -4402 1k2yX 463 1.12e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1s1pA 331 1.25e+01 c.1.7.1 -5240 1p4kA 295 1.37e+01 d.153.1.5 87772 1p5dX 463 1.38e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1nb8A 353 1.39e+01 d.3.1.9 80385 2viuA 328 1.45e+01 1hgeA b.19.1.2 23797 2ctc 307 1.47e+01 1aye c.56.5.1 33802 1gudA 288 1.54e+01 c.93.1.1 83326 1izcA 339 1.65e+01 c.1.12.5 83838 1rk8A 165 1.68e+01 d.58.7.1 -10018 1k2xA 177 1.72e+01 d.153.1.5 -11450 1dp4A 435 1.76e+01 1dp4A c.93.1.1 35710 1fyhB 229 1.79e+01 1jrhI b.1.2.1 22055 b.1.2.1 22056 1bvyF 191 1.79e+01 1bvyF c.23.5.1 31207 1c1lA 136 1.82e+01 1c1lA b.29.1.3 24219 9gafA 295 1.82e+01 1apyA d.153.1.5 42008 1uwsA 489 1.96e+01 1zmeC 70 1.99e+01 1zmeC g.38.1.1 45081 h.1.3.1 45514 1qysA 106 1.99e+01 unknown_sccs -13432 1vkeA 133 2.02e+01 1odkA 235 2.03e+01 c.56.2.1 86863 1lfpA 249 2.05e+01 e.39.1.1 73885 1dseA 292 2.06e+01 1ryc a.93.1.1 59130 1j3mA 129 2.10e+01 1l1lA 739 2.16e+01 c.7.1.4 73470 1ehiA 377 2.17e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1q7sA 117 2.33e+01 unknown_sccs -7522 1vhwA 253 2.36e+01 c.56.2.1 -7765 2sak 121 2.36e+01 2sak d.15.5.1 37711 1qwdA 177 2.46e+01 b.60.1.1 -4455 1gcuA 295 2.52e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1jdrA 294 2.57e+01 1ryc a.93.1.1 62908 1ecfA 504 2.59e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1lc0A 294 2.61e+01 c.2.1.3 73823 d.81.1.4 73824 1ci9A 392 2.64e+01 e.3.1.1 64767 1kyqA 274 2.70e+01 c.2.1.11 73281 e.37.1.1 73282 1mu5A 471 2.80e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1eg5A 384 2.85e+01 1ecxA c.67.1.3 34429 1d1vA 444 2.92e+01 1nseA d.174.1.1 59101 1sgt 223 2.94e+01 5ptp b.47.1.1 25814 1fmtA 314 2.97e+01 1fmtA b.46.1.1 25758 c.65.1.1 34174 1rl6A 177 2.99e+01 1rl6A d.141.1.1 41473 d.141.1.1 41474 1gowA 489 3.00e+01 1qvbA c.1.8.4 28981 1rpjA 288 3.06e+01 2dri c.93.1.1 35656 1m4lA 307 3.08e+01 c.56.5.1 78604 1q6cA 495 3.13e+01 c.1.8.1 -5300 1jnyA 435 3.17e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 3daaA 277 3.17e+01 1daaA e.17.1.1 43272 1qqp2 218 3.24e+01 1qqp2 1qvbA 481 3.25e+01 1qvbA c.1.8.4 28983 1rlkA 117 3.26e+01 unknown_sccs -7526 1kwgA 645 3.30e+01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1g6sA 427 3.30e+01 1eps d.68.2.2 39584 1nlfA 279 3.34e+01 c.37.1.11 85850 1fjgJ 105 3.34e+01 1fjfJ d.58.15.1 39330 1gnlA 544 3.38e+01 e.26.1.1 70287 1o9wA 177 3.43e+01 b.2.3.5 86713 1e42A 258 3.61e+01 1e42A b.1.10.1 22316 d.105.1.1 40792 1ihoA 283 3.64e+01 1ihoA c.26.1.4 62390 2liv 344 3.65e+01 2liv c.93.1.1 35708 1byi 224 3.70e+01 1byi c.37.1.10 32199 1rxyA 253 3.73e+01 c.56.2.1 -7834 1d0cA 444 3.88e+01 d.174.1.1 64769 1g57A 217 3.88e+01 1g57A d.115.1.2 60253 1dkzA 219 3.91e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 2napA 723 3.96e+01 2napA b.52.2.2 26926 c.81.1.1 35334