# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-scores 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 1tv8A 340 1.76e+00 c.1.28.3 107352 1t9xA 1049 3.83e+00 1httA 423 4.10e+00 1adjA c.51.1.1,d.104.1.1 33178,40727 1np7A 489 6.74e+00 a.99.1.1,c.28.1.1 80677,80678 1iwgA 1053 6.90e+00 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 76874,76875,76876,76877,76878,76879,76880,76881 2bjvA 265 6.93e+00 1mmvB 419 7.37e+00 d.174.1.1 91318 1om4A 422 7.70e+00 d.174.1.1 87067 1t9mA 214 8.05e+00 1q7rA 219 8.15e+00 c.23.16.1 96054 1pfkA 320 8.89e+00 3pfk c.89.1.1 35575 1kmmA 424 9.55e+00 1adjA c.51.1.1,d.104.1.1 33174,40723 2b06A 155 9.68e+00 2pfkA 320 9.77e+00 3pfk c.89.1.1 35577 1dv1A 449 1.31e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1m7vA 363 1.40e+01 d.174.1.1 78748 1itwA 741 1.41e+01 c.77.1.2 76793 1oyeA 1049 1.43e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1j27A 102 1.47e+01 d.58.50.1 90778 4pfk 319 1.49e+01 3pfk c.89.1.1 35582 1dv2A 452 1.66e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1kvdB 77 1.70e+01 1kveB 1kveB 77 1.70e+01 1kveB 3pfk 319 1.78e+01 3pfk c.89.1.1 35581 1necA 216 2.10e+01 1vfrA d.90.1.1 40249 6pfkA 319 2.44e+01 3pfk c.89.1.1 35583 1ykiA 217 2.46e+01 1gzgA 337 2.61e+01 c.1.10.3 70805 1kmnD 424 2.61e+01 1adjA c.51.1.1,d.104.1.1 33185,40734 1icrA 217 2.63e+01 1vfrA d.90.1.1 62274 1ma3A 253 2.76e+01 c.31.1.5 78883 1b4kA 337 2.89e+01 1b4kA c.1.10.3 29184 1ex1A 605 2.96e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 1uurA 473 3.05e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 2aelA 374 3.12e+01 1iexA 605 3.14e+01 c.1.8.7,c.23.11.1 66127,66128 1x38A 602 3.17e+01 2dorA 311 3.18e+01 2dorA c.1.4.1 28593 1ih7A 903 3.27e+01 1clqA c.55.3.5,e.8.1.1 62375,62376 2a6hD 1524 3.32e+01 1w2yA 229 3.34e+01 a.204.1.1 109140 1olmA 403 3.35e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1n9lA 109 3.56e+01 d.110.3.6 85468 2bvyA 475 3.69e+01 1d6jA 211 3.70e+01 1d6jA c.37.1.4 31940 1jr3D 343 3.83e+01 a.80.1.1,c.37.1.20 63251,63252 1dorA 311 3.93e+01 2dorA c.1.4.1 28595 1jubA 311 4.03e+01 c.1.4.1 90908 1w5nA 337 4.15e+01 1ahc 246 4.30e+01 1mrj d.165.1.1 42184 1mrg 263 4.32e+01 1mrj d.165.1.1 42183 1tn4 159 4.42e+01 1ncx a.39.1.5 17248 1uwfA 158 4.62e+01 1ncx 162 4.67e+01 1ncx a.39.1.5 17222 1top 162 4.67e+01 1ncx a.39.1.5 17223 1tr7A 164 4.68e+01 1zxxA 319 4.89e+01 1fqvD 149 4.91e+01 1fqvD a.157.1.1,d.42.1.1 19263,38667 1amuA 563 4.96e+01 1amuA e.23.1.1 43351 1a2xA 159 5.07e+01 1ncx a.39.1.5 17251 1o6uA 403 5.32e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1jfaA 374 5.44e+01 a.128.1.5 66622 104lA 166 5.59e+01 1l92 d.2.1.3 36969 1qciA 262 5.67e+01 1qi7A d.165.1.1 42201 1iow 306 5.76e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1elpA 173 5.98e+01 1amm b.11.1.1,b.11.1.1 23596,23597 1ofdA 1520 6.16e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1mli 96 6.35e+01 1mli d.58.4.1 39070 1sflA 238 6.39e+01 1yfm 488 6.69e+01 1furA a.127.1.1 19413 1iab 200 6.72e+01 1iae d.92.1.8 40312 1r13A 148 6.72e+01 d.169.1.1,h.1.1.1 96782,96783 1ast 200 6.73e+01 1iae d.92.1.8 40310 1iae 200 6.73e+01 1iae d.92.1.8 40311 1cz1A 394 6.77e+01 1cz1A c.1.8.3 28839 1cdp 109 6.83e+01 1a75A a.39.1.4 17197 1h4aX 173 6.84e+01 b.11.1.1,b.11.1.1 83479,83480 1a0eA 443 6.98e+01 1a0cA c.1.15.3 29537 1khtA 192 7.01e+01 c.37.1.1 84401 2dln 306 7.01e+01 1iow c.30.1.2,d.142.1.1 31715,41483 1jmsA 381 7.07e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1kiuB 279 7.07e+01 b.2.3.2,b.2.3.2 72525,72526 1gpmA 525 7.16e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1fuqA 472 7.18e+01 1furA a.127.1.1 19405 2f6rA 281 7.24e+01 1ld4A 264 7.27e+01 i.6.1.1 77886 1klfB 279 7.36e+01 b.2.3.2,b.2.3.2 72684,72685 1qkrA 188 7.37e+01 1qkrA a.24.9.1 16628 1b9aA 108 7.41e+01 1a75A a.39.1.4 17204 1kzhA 555 7.47e+01 c.89.1.1 73361 4cpv 109 7.51e+01 1a75A a.39.1.4 17198 1fqvJ 149 7.55e+01 1fqvD a.157.1.1,d.42.1.1 19266,38670 1qunB 279 7.58e+01 b.2.3.2,b.2.3.2 22411,22412 1furA 467 7.65e+01 1furA a.127.1.1 19403 1oz9A 150 7.70e+01 d.92.1.15 93808 1d6aB 262 7.79e+01 1qi7A d.165.1.1 42198 1iawA 317 7.90e+01 c.52.1.9 62126 1jfgA 374 7.94e+01 a.128.1.5 66636 1zy9A 564 8.02e+01 1l8nA 679 8.15e+01 c.1.8.10,d.92.2.2 84564,84565 1aky 221 8.20e+01 1zin c.37.1.1,g.41.2.1 31896,45197 8dfr 189 8.20e+01 1aoeA c.71.1.1 34895 1li5A 461 8.32e+01 a.27.1.1,c.26.1.1 73912,73913 1a32 88 8.34e+01 1a32 a.16.1.2 16384 1f6fB 210 8.36e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 1yspA 181 8.45e+01 1uz5A 402 8.50e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1vk8A 106 8.54e+01 d.58.48.1 108636 1tfjA 219 8.61e+01 1swxA 209 8.62e+01 a.224.1.1 106075 2ddfA 257 8.71e+01 1ev7A 317 8.80e+01 1ev7B c.52.1.9 33315 1aa0 113 8.92e+01 1aa0 h.1.17.1 45659 1xhcA 367 8.95e+01 1bncA 449 8.96e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28236,31643,41488