# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1ihgA 370 5.05e-01 2cpl a.118.8.1 62380 b.62.1.1 62381 1t7pA 698 1.02e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 1uhnA 189 1.90e+00 a.39.1.5 -853 1l8nA 679 2.29e+00 c.1.8.10 84564 d.92.2.2 84565 1alu 186 2.31e+00 1alu a.26.1.1 16826 1eg5A 384 2.91e+00 1ecxA c.67.1.3 34429 1in4A 334 4.03e+00 1hqcA a.4.5.11 62597 c.37.1.20 62598 1qv1A 195 4.04e+00 a.39.1.5 -830 1kxlA 199 4.18e+00 b.40.4.3 73155 1i1rB 181 4.99e+00 1i1rB a.26.1.1 61548 1dxrL 273 5.23e+00 6prcL f.26.1.1 43431 1h5wA 309 5.32e+00 e.27.1.1 65635 1flcB 175 5.73e+00 1flcB h.3.1.1 45716 1qqqA 264 5.99e+00 1bkpA d.117.1.1 40931 1smd 496 6.51e+00 1smd b.71.1.1 27768 c.1.8.1 28755 1h0hA 977 6.75e+00 b.52.2.2 76435 c.81.1.1 76436 1evfA 264 8.49e+00 1bkpA d.117.1.1 40932 1v02A 565 9.12e+00 1in6A 334 9.48e+00 1hqcA a.4.5.11 62601 c.37.1.20 62602 1ua4A 455 9.59e+00 c.72.1.3 -8416 2myr 501 1.03e+01 1qtrA 317 1.13e+01 1qtrA c.69.1.7 34660 1ijgA 309 1.20e+01 1fouA e.27.1.1 62493 1lngA 87 1.29e+01 d.201.1.1 74045 1cjaA 342 1.29e+01 1cjaA d.144.1.3 41708 1jf2A 195 1.34e+01 1ej3A a.39.1.5 62930 1miwA 404 1.37e+01 a.173.1.1 79162 d.218.1.4 79163 1e4mM 501 1.42e+01 1e70M c.1.8.4 59226 1el4A 195 1.43e+01 1ej3A a.39.1.5 59453 1ufbA 127 1.53e+01 a.24.16.3 -635 1hx0A 496 1.53e+01 b.71.1.1 61346 c.1.8.1 61347 1pq1A 196 1.56e+01 f.1.4.1 -12055 1cg5A 141 1.57e+01 1abwA a.1.1.2 15406 1mhqA 148 1.57e+01 a.118.9.2 84973 1cm5A 759 1.63e+01 1cm5A c.7.1.1 30671 1dvpA 220 1.68e+01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1h16A 759 1.70e+01 c.7.1.1 76462 1ju2A 536 1.73e+01 c.3.1.2 77169 d.16.1.1 77170 1c4xA 285 1.75e+01 1c4xA c.69.1.10 34684 1f7uA 607 1.79e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1mg7A 417 1.85e+01 d.14.1.6 84954 d.58.26.6 84955 1byb 495 1.92e+01 1byb c.1.8.1 28790 1kkhA 317 2.01e+01 d.14.1.5 72645 d.58.26.3 72646 1czaN 917 2.04e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1f3aA 222 2.05e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1jwgA 147 2.16e+01 a.118.9.2 71911 1ujkA 147 2.16e+01 a.118.9.2 -1623 1r9lA 309 2.27e+01 c.94.1.1 -8700 1gcyA 527 2.28e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1fjgB 256 2.35e+01 1fjfB c.23.15.1 31400 1ux5A 411 2.38e+01 unknown_sccs -1768 1q4mA 221 2.46e+01 unknown_sccs -1910 1ca1 370 2.56e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1v3hA 495 2.59e+01 1pieA 419 2.62e+01 d.14.1.5 -9075 unknown_sccs -10120 1qntA 176 2.63e+01 1sfe a.4.2.1 16074 c.55.7.1 33749 1k47A 337 2.65e+01 d.14.1.5 72040 d.58.26.4 72041 1kyhA 276 2.66e+01 c.72.1.4 73222 1mwwA 128 2.66e+01 unknown_sccs -10451 1q6cA 495 2.71e+01 c.1.8.1 -5300 1ngkA 128 2.80e+01 a.1.1.1 85673 1eh6A 207 2.81e+01 1sfe a.4.2.1 16076 c.55.7.1 33751 1q7lA 198 2.88e+01 c.56.5.4 -7886 1qcwA 410 2.89e+01 1gox c.1.4.1 28622 1oxjA 173 2.92e+01 a.60.1.2 87517 a.118.1.13 87518 1oyeA 1049 2.94e+01 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1pyfA 312 3.03e+01 c.1.7.1 -5251 1nogA 177 3.04e+01 a.25.2.2 85923 1a6o 332 3.06e+01 1a6o 1rwyA 109 3.11e+01 a.39.1.4 -825 1v93A 296 3.15e+01 c.1.23.1 -5654 1jdc 429 3.22e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1mr3F 181 3.23e+01 c.37.1.8 79422 1qwlA 505 3.25e+01 e.5.1.1 -11823 2gdm 153 3.35e+01 2gdm a.1.1.2 15212 1ub9A 100 3.38e+01 a.4.5.28 -231 1fiy 883 3.40e+01 1fiy c.1.12.3 29307 1oj6A 151 3.51e+01 a.1.1.2 -85 1h3gA 601 3.62e+01 b.1.18.2 -2725 b.71.1.1 -4653 c.1.8.1 -5277 1oniA 137 3.64e+01 d.79.1.1 87144 1d8dA 377 3.74e+01 1ft1A a.118.6.1 19185 1r3cA 366 3.86e+01 d.144.1.7 -11296 1rktA 205 3.89e+01 a.4.1.9 -210 a.121.1.1 -1663 1ik9A 213 3.98e+01 b.59.1.1 66176 h.1.11.1 66177