# List of top-scoring protein chains for t2k-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 1hfc 169 5.32e-01 1hfc d.92.1.11 40335 1s72V 71 8.45e-01 1q8bA 105 9.16e-01 unknown_sccs -9958 1jj2U 70 9.31e-01 1ffkS a.2.2.1 63106 1hi9A 274 1.24e+00 1hi9A c.99.1.1 61063 1m2dA 110 1.83e+00 c.47.1.11 78476 1ris 101 2.20e+00 1ris d.58.14.1 39314 1souA 194 2.42e+00 1ap8 213 2.52e+00 1ap8 d.86.1.1 40151 1s2xA 206 2.58e+00 1o12A 376 2.66e+00 b.92.1.5 80758 c.1.9.10 80759 1itzA 675 2.72e+00 c.36.1.6 76798 c.36.1.10 76797 c.48.1.1 76799 1m2bA 110 2.83e+00 c.47.1.11 78474 1louA 101 3.06e+00 1ris d.58.14.1 39323 1d2eA 397 3.44e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1m2aA 110 4.10e+00 c.47.1.11 78472 1nj4A 363 4.13e+00 b.105.1.1 80545 e.3.1.1 80546 1nzoA 363 4.61e+00 b.105.1.1 -2933 e.3.1.1 -11784 1qs2A 401 4.79e+00 1qs1A d.166.1.1 42268 d.166.1.1 42269 1ud0A 113 4.89e+00 unknown_sccs -450 1eonA 245 5.66e+00 1rvaA c.52.1.2 33238 1ftrA 296 5.66e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1tk9A 188 5.92e+00 1nykA 165 6.09e+00 b.33.1.1 86408 1p65A 73 6.21e+00 unknown_sccs -10331 1i5gA 144 6.45e+00 1ewxA c.47.1.10 61784 1cp3A 277 6.51e+00 1pauA c.17.1.1 30992 1kveB 77 6.83e+00 1kveB 1sx5A 244 6.99e+00 c.52.1.2 -7551 1uj2A 252 7.03e+00 c.37.1.6 -7061 1rvaA 244 7.21e+00 1rvaA c.52.1.2 33240 1ka3A 90 7.42e+00 a.150.1.1 72239 1lfaA 187 7.43e+00 1ido c.62.1.1 34122 1rlr 761 8.53e+00 1rlr a.98.1.1 18753 c.7.1.2 30679 1rkuA 206 9.12e+00 unknown_sccs -6823 1he1A 135 9.31e+00 1he1A a.24.11.1 16641 1o6jA 150 9.44e+00 c.47.1.10 81089 1kvdB 77 9.62e+00 1kveB 1bmdA 327 9.78e+00 1bmdA c.2.1.5 30139 d.162.1.1 42106 1v8dA 235 1.01e+01 1pauA 147 1.03e+01 1pauA c.17.1.1 30994 1cnt1 187 1.08e+01 1cnt3 1fmjA 351 1.08e+01 c.37.1.5 59879 1bdmB 327 1.10e+01 1bmdA c.2.1.5 30138 d.162.1.1 42105 1iq8A 582 1.11e+01 b.122.1.1 83074 c.1.20.1 71270 d.17.6.1 83075 1m5yA 408 1.11e+01 a.167.1.1 78664 d.26.1.1 78665 d.26.1.1 78666 1bdmA 327 1.12e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1uzbA 516 1.13e+01 c.82.1.1 -8552 1r8sA 164 1.15e+01 c.37.1.8 -7082 1qydA 313 1.16e+01 c.2.1.2 -5786 1kao 167 1.17e+01 1ctqA c.37.1.8 32014 1cnt3 187 1.18e+01 1cnt3 1wpoA 256 1.21e+01 1lay b.57.1.1 27012 1nmeA 146 1.24e+01 c.17.1.1 85874 1f7lA 121 1.24e+01 1f7lA d.150.1.2 59666 1qnxA 209 1.25e+01 1qnxA d.111.1.1 40914 1jsmB 176 1.26e+01 h.3.1.1 63265 1f2tB 148 1.27e+01 1f2tB 1cqmA 101 1.29e+01 1ris d.58.14.1 39321 1mjnA 179 1.31e+01 c.62.1.1 79210 1hurA 180 1.35e+01 1hurA c.37.1.8 32052 1dc1A 323 1.36e+01 1dc1A c.52.1.11 33321 1qf6A 642 1.40e+01 1qf6A c.51.1.1 33210 d.15.10.1 39551 d.67.1.1 39562 d.104.1.1 40759 1lf6A 684 1.51e+01 a.102.1.5 77918 b.30.5.5 77919 1lsuA 147 1.51e+01 c.2.1.9 74250 1sk4A 163 1.54e+01 1f7tA 122 1.54e+01 1f7lA d.150.1.2 59667 1m4rA 151 1.59e+01 a.26.1.3 84799 1htjF 210 1.59e+01 1htjF a.91.1.1 61254 1lrrA 131 1.61e+01 d.228.1.1 78165 1b24A 188 1.62e+01 1b24A d.95.2.1 40573 d.95.2.1 40574 1lldA 319 1.65e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 1o20A 427 1.67e+01 c.82.1.1 86556 1fy2A 229 1.68e+01 1fyeA c.23.16.4 31478 1fyeA 229 1.72e+01 1fyeA c.23.16.4 31477 1hd8A 363 1.73e+01 b.105.1.1 65803 e.3.1.1 65804 1f37A 110 1.74e+01 1f37A c.47.1.11 33088 1go3F 107 1.77e+01 a.60.8.2 65407 1j5uA 136 1.86e+01 d.208.1.1 71584 1w0bA 102 1.87e+01 1qs1A 462 1.91e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1q7bA 244 1.92e+01 c.2.1.2 -5826 1oe4A 247 1.95e+01 c.18.1.3 86895 1qcrC 378 1.95e+01 1be3C f.32.1.1 75931 f.21.1.2 75932 1wdgA 94 2.04e+01 1rt8A 513 2.06e+01 2rveA 244 2.06e+01 1rvaA c.52.1.2 33283 1j5pA 253 2.06e+01 c.2.1.3 83092 d.81.1.3 71577 1gp6A 356 2.07e+01 b.82.2.1 65441 1gumA 222 2.08e+01 1pgtA a.45.1.1 17683 c.47.1.5 32977 1bxsA 501 2.08e+01 1bpwA c.82.1.1 35357 1mai 131 2.11e+01 1mai b.55.1.1 26951 1sedA 117 2.12e+01 1agnA 373 2.12e+01 2ohxA b.35.1.2 24737 c.2.1.1 29753 1rqlA 267 2.19e+01 c.108.1.3 -6814 1fuiA 591 2.28e+01 1fuiA b.43.2.1 25674 c.85.1.1 35444 1qgvA 142 2.31e+01 1qgvA c.47.1.8 33056 1kz7A 353 2.35e+01 a.87.1.1 73333 b.55.1.1 73334 1jqlB 140 2.37e+01 c.37.1.20 63234 1rkpA 326 2.60e+01 a.125.1.1 -1729 1gp4A 356 2.64e+01 b.82.2.1 65439 1j2iA 166 2.69e+01 1gw5S 142 2.74e+01 d.110.4.2 70633 1qrrA 394 2.75e+01 1qrrA c.2.1.2 29824 1gulA 222 2.76e+01 1pgtA a.45.1.1 17675 c.47.1.5 32969 1i9gA 280 2.76e+01 c.66.1.13 62090 1us6A 102 2.80e+01 1a8rA 221 2.81e+01 1a8rA d.96.1.1 40587 1th8A 145 2.85e+01 2ezk 99 2.89e+01 2ezk a.4.1.2 16027 1v64A 108 2.94e+01 1s72C 246 2.95e+01 1jj2C 246 2.95e+01 1ffkC c.22.1.1 63087 1i24A 404 2.96e+01 c.2.1.2 83663 1o3yA 166 2.99e+01 c.37.1.8 86618 1r0dA 206 3.00e+01 1kmqA 184 3.01e+01 c.37.1.8 84412 1l0oA 150 3.04e+01 d.122.1.3 73403 1udmA 149 3.11e+01 1b8zA 90 3.16e+01 1huuA a.55.1.1 17902 1ac5 483 3.22e+01 1ac5 c.69.1.5 34653 1cfr 285 3.31e+01 1cfr c.52.1.7 33312 1rthA 560 3.42e+01 1rthA c.55.3.1 33576 e.8.1.2 43028 1f0cA 305 3.49e+01 1c8oA e.1.1.1 42676 1fukA 165 3.53e+01 1fukA c.37.1.19 32409 1b8pA 329 3.54e+01 1bmdA c.2.1.5 30147 d.162.1.1 42114 1db3A 372 3.65e+01 1db3A c.2.1.2 29813 1ab4 477 3.72e+01 1ab4 e.11.1.1 43251 1qjaA 245 3.75e+01 1qjaA a.118.7.1 19204 1ee8A 266 3.85e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1apyA 162 3.86e+01 1apyA d.153.1.5 42004 1gehA 444 3.92e+01 c.1.14.1 65181 d.58.9.1 65182 2ezl 99 3.94e+01 2ezk a.4.1.2 16026 1k7wA 468 3.96e+01 a.127.1.1 72130 1wpoB 256 4.00e+01 1lay b.57.1.1 27013