# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1iujA 106 6.01e-04 unknown_sccs -9953 1edt 271 1.67e-03 2ebn c.1.8.5 28993 1lq9A 112 4.41e-03 d.58.4.3 78129 1qysA 106 6.54e-02 unknown_sccs -13432 1iw0A 215 1.07e-01 a.132.1.1 83720 1g0cA 364 8.48e-01 7a3hA c.1.8.3 60165 1on0A 158 1.67e+00 d.108.1.1 87095 1vjtA 483 1.78e+00 c.2.1.5 -5941 d.162.1.2 -11508 2igd 61 2.09e+00 2igd d.15.7.1 37821 1nv8A 284 2.27e+00 c.66.1.30 86224 1f8rA 498 2.33e+00 1f8rA c.3.1.2 30410 d.16.1.5 37974 1nu0A 138 3.09e+00 unknown_sccs -7658 1shdA 107 3.37e+00 1fmk d.93.1.1 40440 1jmtA 104 3.56e+00 d.58.7.3 63180 1thfD 253 3.79e+00 1thfD c.1.2.1 28535 1kqqA 139 4.21e+00 a.4.3.1 72885 1i2kA 269 4.28e+00 e.17.1.1 -11995 1f0lA 535 4.90e+00 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1cnt1 187 4.98e+00 1cnt3 1bm9A 122 5.07e+00 1bm9A a.4.5.7 16116 1o60A 292 5.33e+00 c.1.10.4 -5549 1nf1A 333 5.70e+00 1nf1A a.116.1.2 19110 1lvmA 229 6.46e+00 b.47.1.3 78243 1esiA 262 6.58e+00 1skf e.3.1.1 42682 1e44B 96 6.71e+00 1e44B b.101.1.1 59220 1et0A 269 6.95e+00 1et0A e.17.1.1 43289 1eupA 403 7.21e+00 1rom a.104.1.1 18967 1who 96 7.39e+00 1who b.7.3.1 23215 1m55A 197 7.54e+00 d.89.1.3 74469 2pviA 157 7.87e+00 3pviA c.52.1.6 33302 1reoA 486 8.03e+00 c.3.1.2 -5997 d.16.1.5 -9217 1vhsA 175 8.29e+00 d.108.1.1 -10794 1q8rA 120 8.75e+00 unknown_sccs -10422 1oshA 232 8.83e+00 a.123.1.1 -1697 1b5l 172 8.92e+00 1b5l a.26.1.3 16900 1cb0A 283 9.18e+00 1cb0A c.56.2.1 33790 1r1mA 164 9.54e+00 unknown_sccs -10431 1o4rA 108 9.72e+00 d.93.1.1 -10624 1jj2O 148 9.86e+00 1ffkM a.94.1.1 63100 1s72P 149 9.88e+00 1jipA 403 1.02e+01 a.104.1.1 66748 1q8bA 105 1.07e+01 unknown_sccs -9958 1es5A 262 1.08e+01 1skf e.3.1.1 42679 1mwqA 101 1.08e+01 unknown_sccs -9962 1dqsA 393 1.09e+01 1dqsA e.22.1.1 43347 1ckeA 227 1.14e+01 1ckeA c.37.1.1 31846 1aky 221 1.20e+01 1zin c.37.1.1 31896 g.41.2.1 45197 1im8A 244 1.21e+01 c.66.1.14 66212 1bh9B 89 1.21e+01 1bh9B a.22.1.3 16485 1tvlA 454 1.23e+01 1fxlA 167 1.24e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1colA 204 1.26e+01 1a87 f.1.1.1 43378 1shbA 104 1.26e+01 1fmk d.93.1.1 40425 1a4iA 301 1.37e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1dqnA 230 1.41e+01 1dqnA c.61.1.1 34067 1dqpA 230 1.43e+01 1dqnA c.61.1.1 34069 1ro2A 216 1.48e+01 unknown_sccs -11391 1g60A 260 1.49e+01 c.66.1.11 70151 1elkA 157 1.54e+01 1dvpA a.118.9.2 19217 1o8uA 257 1.55e+01 c.14.1.3 81194 4crxA 322 1.56e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1goiA 499 1.57e+01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1d2kA 392 1.58e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1vh7A 265 1.59e+01 c.1.2.1 -5159 1eceA 358 1.61e+01 1eceA c.1.8.3 28813 1q7zA 566 1.65e+01 c.1.21.2 -5638 c.1.26.1 -5666 1r2qA 170 1.67e+01 c.37.1.8 -7071 1atiA 505 1.68e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 1e6pA 499 1.72e+01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1k28D 391 1.77e+01 b.106.1.1 68052 b.106.1.1 68053 1nznA 126 1.79e+01 a.118.8.1 -1616 1kp6A 79 1.80e+01 1kp6A d.58.25.1 39397 1e55A 512 1.82e+01 1e70M c.1.8.4 28934 1aoy 78 1.82e+01 1aoy a.4.5.3 16087 1b5tA 275 1.85e+01 1b5tA c.1.23.1 29676 1r1dA 247 1.86e+01 unknown_sccs -8335 1ro0A 216 1.91e+01 unknown_sccs -11390 1noyA 388 1.96e+01 1clqA c.55.3.5 33713 1urnA 97 2.09e+01 1urnA d.58.7.1 39153 1tml 286 2.18e+01 1tml c.6.1.1 30656 1whtA 256 2.27e+01 1ivyA c.69.1.5 34646 2pii 112 2.29e+01 2pii d.58.5.1 39071 1gypA 358 2.35e+01 1dssG c.2.1.3 30004 d.81.1.1 39919 1szoA 257 2.37e+01 1hkkA 364 2.39e+01 c.1.8.5 -5384 d.26.3.1 -9506 1psdA 409 2.42e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1gudA 288 2.42e+01 c.93.1.1 83326 1j5yA 187 2.44e+01 a.4.5.1 71592 d.94.2.1 71593 1h49A 512 2.50e+01 c.1.8.4 83477 2mtaC 147 2.53e+01 2mtaC a.3.1.1 15908 1pyaB 228 2.57e+01 1pyaB 3pviA 157 2.59e+01 3pviA c.52.1.6 33300 1v02A 565 2.69e+01 1au1A 166 2.74e+01 1ifa a.26.1.3 16889 1gheA 177 2.76e+01 d.108.1.1 76222 1btkA 169 2.77e+01 1btkA b.55.1.1 26959 1oacA 727 2.79e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1nh9A 87 2.80e+01 d.68.6.1 -10287 1a8y 367 2.80e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1jdlA 121 2.81e+01 a.3.1.1 66557 1b5pA 385 2.83e+01 c.67.1.1 -8133 3dfr 162 2.84e+01 3dfr c.71.1.1 34880 1nm8A 616 2.87e+01 c.43.1.3 85872 c.43.1.3 85873 1cem 363 2.87e+01 1cem a.102.1.2 18826 1o98A 511 3.01e+01 c.105.1.1 86684 c.76.1.3 86685 1e5rA 290 3.17e+01 1e5rA b.82.2.4 59276 3stdA 165 3.23e+01 3stdA d.17.4.1 38073 1usmA 80 3.26e+01 d.74.1.1 -10334 1urrA 102 3.27e+01 1qw9A 502 3.35e+01 b.71.1.2 -4677 c.1.8.3 -5348 1f44A 324 3.39e+01 a.60.9.1 64982 d.163.1.1 64983 1dpe 507 3.42e+01 1dpe c.94.1.1 35799 1gvdA 52 3.42e+01 a.4.1.3 83338 1pbuA 162 3.48e+01 d.58.46.1 88030 1eqjA 511 3.49e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1cwxA 44 3.55e+01 1cwxA j.54.1.1 46338 1s0pA 176 3.57e+01 unknown_sccs -1156 1l8nA 679 3.74e+01 c.1.8.10 84564 d.92.2.2 84565 1oiaA 95 3.86e+01 d.58.7.1 87051 1vkbA 161 3.91e+01 1nhkL 144 3.98e+01 1npk d.58.6.1 39142