# List of top-scoring protein chains for t2k-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 1top 162 3.11e-03 1ncx a.39.1.5 17223 1ncx 162 3.18e-03 1ncx a.39.1.5 17222 1ggzA 148 1.47e-02 a.39.1.5 70176 1g4yR 148 1.50e-02 1cll a.39.1.5 60252 1j95A 125 2.20e-02 1bl8A f.14.1.1 62749 1iwgA 1053 2.23e-02 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1jvmA 125 2.75e-02 f.14.1.1 67351 1zac 90 2.80e-02 1ncx a.39.1.5 17236 1k4cC 124 3.03e-02 f.14.1.1 68130 1r3jC 124 3.03e-02 1oyeA 1049 3.51e-02 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 1cll 148 3.94e-02 1cll a.39.1.5 17263 3cln 148 5.75e-02 1cll a.39.1.5 17286 1avsA 90 6.75e-02 1cll a.39.1.5 17226 1bl8A 97 6.91e-02 1bl8A f.14.1.1 43652 1exrA 148 8.99e-02 1cll a.39.1.5 17299 1ehkA 562 1.23e-01 1ehkA f.24.1.1 43624 1osa 148 2.04e-01 1cll a.39.1.5 17300 1t1dA 100 2.17e-01 1t1dA d.42.1.2 38637 1jb0A 755 2.23e-01 1jb0A f.29.1.1 62820 1j7rA 86 2.27e-01 1j7rA a.39.1.5 62701 1m46A 148 2.76e-01 a.39.1.5 78599 1byyA 53 3.64e-01 j.12.1.1 46147 1wdcC 156 5.91e-01 1wdcC a.39.1.5 17317 2mysB 166 6.78e-01 1wdcB a.39.1.5 17308 1ezfA 340 8.89e-01 1ezfA a.128.1.2 19440 1ezvC 385 1.05e+00 1be3C f.32.1.1 75833 f.21.1.2 75834 1kb9C 385 1.05e+00 f.32.1.1 77315 f.21.1.2 77316 1a68 95 1.10e+00 1t1dA d.42.1.2 38639 1ho2A 20 1.15e+00 j.35.1.1 70967 1kyoC 385 1.18e+00 f.32.1.1 75904 f.21.1.2 75905 1m45A 148 1.35e+00 a.39.1.5 78598 1o1fC 147 2.08e+00 i.15.1.1 80997 1dsxA 87 2.42e+00 1t1dA d.42.1.2 38644 1bf2 750 2.58e+00 1bf2 b.1.18.2 21860 b.71.1.1 27787 c.1.8.1 28774 1qg9A 21 2.98e+00 j.35.1.1 46275 9wgaA 171 3.08e+00 9wgaA g.3.1.1 44000 g.3.1.1 44001 g.3.1.1 44002 g.3.1.1 44003 1gweA 503 3.95e+00 e.5.1.1 70667 1hbzA 498 5.51e+00 1cf9A e.5.1.1 60937 1p7gA 222 5.59e+00 2scpA 174 5.62e+00 2scpA a.39.1.5 17256 1jbaA 204 5.62e+00 1rec a.39.1.5 17330 1ggwA 140 5.86e+00 1ggwA a.39.1.5 60490 1wgtA 186 6.13e+00 9wgaA g.3.1.1 44008 g.3.1.1 44009 g.3.1.1 44010 g.3.1.1 44011 1wdcB 156 6.61e+00 1wdcB a.39.1.5 17302 1k94A 165 7.71e+00 a.39.1.8 68333 1mhyB 395 7.98e+00 1mtyB a.25.1.2 16781 6prcL 273 8.02e+00 6prcL f.26.1.1 43434 1f4qA 165 8.13e+00 1alvA a.39.1.8 17360 1dcnA 424 8.55e+00 1auwA a.127.1.1 19420 1f5aA 513 8.66e+00 1fa0B a.160.1.1 75835 d.218.1.3 75836 d.58.16.1 39337 1q9bA 43 9.06e+00 1gp0A 143 9.45e+00 b.64.1.1 70300 1kplA 473 9.71e+00 f.20.1.1 68782 1dceA 567 9.76e+00 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1orsC 132 9.84e+00 f.14.1.1 87353 1hev 43 1.03e+01 1hev g.3.1.1 44060 1e6fA 143 1.05e+01 1e6fA b.64.1.1 59304 1aijL 281 1.05e+01 6prcL f.26.1.1 43461 1sva1 361 1.09e+01 1vpsA 1fchA 368 1.16e+01 1fchA a.118.8.1 19212 1dxrL 273 1.18e+01 6prcL f.26.1.1 43431 1nn7A 105 1.22e+01 d.42.1.2 85894 1ml9A 302 1.36e+01 b.85.7.1 79282 1dcnD 436 1.38e+01 1auwA a.127.1.1 19423 1qwnA 1045 1.43e+01 3erk 364 1.45e+01 1hcl d.144.1.7 41654 1ulkA 126 1.53e+01 1otsA 465 1.55e+01 f.20.1.1 87415 1be3C 379 1.67e+01 1be3C f.32.1.1 75805 f.21.1.2 75806 1scmB 145 1.69e+01 1wdcB a.39.1.5 17304 1dhx 967 1.70e+01 1dhx b.121.2.2 58971 b.121.2.2 58972 1ctdA 36 1.73e+01 1ctdA a.39.1.5 17230 1n93X 375 1.74e+01 1fokA 568 1.80e+01 2fokA a.4.5.12 16137 a.4.5.12 16138 a.4.5.12 16139 c.52.1.12 33325 1nr6A 473 1.91e+01 1ponA 36 1.91e+01 1ponA a.39.1.5 17239 1auwA 468 1.94e+01 1auwA a.127.1.1 19416 1kfuS 184 1.96e+01 a.39.1.8 68574 1g8iA 190 1.97e+01 1rec a.39.1.5 60363 1ctaA 36 1.98e+01 1ctdA a.39.1.5 17232 1k9uA 78 1.99e+01 a.39.1.10 84348 1mwvA 714 2.00e+01 a.93.1.3 85161 a.93.1.3 85162 1phnA 162 2.06e+01 1cpcA a.1.1.3 15641 1js8A 394 2.15e+01 a.86.1.1 67219 b.112.1.1 67220 1r9cA 139 2.20e+01 1e2uA 553 2.26e+01 1e1dA e.26.1.1 43362 1e1dA 553 2.30e+01 1e1dA e.26.1.1 43363 1br1B 150 2.30e+01 1wdcC a.39.1.5 17309 1po5A 476 2.32e+01 1gntA 553 2.33e+01 e.26.1.1 70290 1ulmA 82 2.51e+01 1jk0A 419 2.51e+01 a.25.1.2 63142 1lk9A 448 2.53e+01 c.67.1.1 78057 2btvA 901 2.56e+01 2btvA e.28.1.1 43376 5pal 109 2.62e+01 1a75A a.39.1.4 17215 1jf2A 195 2.64e+01 1ej3A a.39.1.5 62930 1lufA 343 2.70e+01 d.144.1.7 78223 1dqeA 137 2.70e+01 1dqeA a.39.2.1 17388 1q0sA 259 2.80e+01 1giqA 413 2.81e+01 d.166.1.1 76224 d.166.1.1 76225 1alvA 173 2.81e+01 1alvA a.39.1.8 17370 1hcuA 503 2.81e+01 a.102.2.1 65796 1pal 108 2.85e+01 1a75A a.39.1.4 17209 1l6nA 289 2.86e+01 a.61.1.1 73624 a.73.1.1 73625 1n9dA 199 2.96e+01 a.26.1.1 85464 1hwwA 1015 2.98e+01 a.8.3.1 83067 b.30.5.6 83068 c.6.2.1 83069 1i50A 1733 3.01e+01 e.29.1.1 61754 1mtyD 512 3.07e+01 1mhyD a.25.1.2 16742 1irxA 523 3.08e+01 a.97.1.2 71378 c.26.1.1 71379 1oohA 126 3.11e+01 1htyA 1015 3.12e+01 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 1hxkA 1015 3.12e+01 a.8.3.1 83070 b.30.5.6 83071 c.6.2.1 83072 1qcrC 378 3.18e+01 1be3C f.32.1.1 75931 f.21.1.2 75932 1egdA 396 3.22e+01 3mdeA a.29.3.1 16596 e.6.1.1 42857 1fu1B 203 3.24e+01 1fu1B b.59.1.1 27077 h.1.11.1 45631 1upkA 341 3.36e+01 1frvB 536 3.37e+01 1h2rL e.18.1.1 43296 1o86A 589 3.37e+01 d.92.1.5 81177 1jfkA 134 3.54e+01 a.39.1.5 66639 1dugA 234 3.57e+01 1b8xA a.45.1.1 17718 c.47.1.5 33012 1l7mA 211 3.57e+01 c.108.1.4 73664 1fwxA 595 3.60e+01 b.6.1.4 60069 b.69.3.1 60070 1f5sA 211 3.60e+01 1f5sA c.108.1.4 59656 1j97A 211 3.60e+01 1f5sA c.108.1.4 62753 1gupA 348 3.62e+01 1guqA d.13.1.2 37534 d.13.1.2 37535 1guqA 348 3.72e+01 1guqA d.13.1.2 37522 d.13.1.2 37523 1bi0 226 3.74e+01 1bi0 a.4.5.24 16202 a.76.1.1 18408 b.34.1.2 24453 1cb8A 678 3.75e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 2dtr 226 3.79e+01 1bi0 a.4.5.24 16193 a.76.1.1 18399 b.34.1.2 24450 1m1jA 491 3.86e+01 h.1.8.1 74369 1lngA 87 3.92e+01 d.201.1.1 74045 1larA 575 3.93e+01 1larA c.45.1.2 32693 c.45.1.2 32694 1qgxA 357 3.93e+01 1qgxA e.7.1.1 42973 1ka1A 357 3.94e+01 e.7.1.1 68369 1e12A 253 3.97e+01 1c3wA f.13.1.1 43428