# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1ncx 162 3.53e-03 1ncx a.39.1.5 17222 1top 162 3.53e-03 1ncx a.39.1.5 17223 1jvmA 125 3.58e-03 f.14.1.1 67351 1j95A 125 3.68e-03 1bl8A f.14.1.1 62749 1k4cC 124 4.31e-03 f.14.1.1 68130 1r3jC 124 4.31e-03 1bl8A 97 4.33e-03 1bl8A f.14.1.1 43652 1t1dA 100 7.37e-03 1t1dA d.42.1.2 38637 3cln 148 1.33e-02 1cll a.39.1.5 17286 1ggzA 148 1.44e-02 a.39.1.5 70176 1zac 90 2.31e-02 1ncx a.39.1.5 17236 1g4yR 148 2.81e-02 1cll a.39.1.5 60252 1a68 95 3.28e-02 1t1dA d.42.1.2 38639 1avsA 90 4.14e-02 1cll a.39.1.5 17226 1cll 148 4.16e-02 1cll a.39.1.5 17263 1dsxA 87 4.80e-02 1t1dA d.42.1.2 38644 1kb9C 385 8.94e-02 f.32.1.1 77315 f.21.1.2 77316 1ezvC 385 9.33e-02 1be3C f.32.1.1 75833 f.21.1.2 75834 1exrA 148 1.34e-01 1cll a.39.1.5 17299 1byyA 53 1.64e-01 j.12.1.1 46147 1kyoC 385 1.67e-01 f.32.1.1 75904 f.21.1.2 75905 1osa 148 2.02e-01 1cll a.39.1.5 17300 1iwgA 1053 2.22e-01 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 1j7rA 86 2.75e-01 1j7rA a.39.1.5 62701 2mysB 166 4.14e-01 1wdcB a.39.1.5 17308 1ho2A 20 4.32e-01 j.35.1.1 70967 1oyeA 1049 4.41e-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 1nn7A 105 7.51e-01 d.42.1.2 85894 1m46A 148 8.39e-01 a.39.1.5 78599 1qg9A 21 9.22e-01 j.35.1.1 46275 1lnh 857 9.24e-01 1yge a.119.1.1 19237 b.12.1.1 23637 1wdcC 156 9.92e-01 1wdcC a.39.1.5 17317 1m45A 148 1.03e+00 a.39.1.5 78598 1dceA 567 1.60e+00 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1ehkA 562 1.68e+00 1ehkA f.24.1.1 43624 1jbaA 204 2.59e+00 1rec a.39.1.5 17330 1ezfA 340 2.99e+00 1ezfA a.128.1.2 19440 1jb0A 755 3.14e+00 1jb0A f.29.1.1 62820 1orsC 132 3.25e+00 f.14.1.1 87353 1ggwA 140 3.53e+00 1ggwA a.39.1.5 60490 1aijL 281 4.02e+00 6prcL f.26.1.1 43461 1o1fC 147 4.10e+00 i.15.1.1 80997 1nr6A 473 4.33e+00 1q0sA 259 6.05e+00 1k9uA 78 6.40e+00 a.39.1.10 84348 1wdcB 156 7.31e+00 1wdcB a.39.1.5 17302 1br1B 150 7.65e+00 1wdcC a.39.1.5 17309 1dhx 967 7.68e+00 1dhx b.121.2.2 58971 b.121.2.2 58972 2scpA 174 8.17e+00 2scpA a.39.1.5 17256 1o86A 589 8.23e+00 d.92.1.5 81177 1ctdA 36 9.76e+00 1ctdA a.39.1.5 17230 1n6bA 473 1.01e+01 a.104.1.1 85359 1ctaA 36 1.02e+01 1ctdA a.39.1.5 17232 1gtxA 472 1.03e+01 1gtxA c.67.1.4 34464 1ohvA 472 1.22e+01 1ponA 36 1.27e+01 1ponA a.39.1.5 17239 1dt6A 473 1.32e+01 1dt6A a.104.1.1 18977 1f0lA 535 1.44e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1pal 108 1.45e+01 1a75A a.39.1.4 17209 1f5aA 513 1.53e+01 1fa0B a.160.1.1 75835 d.218.1.3 75836 d.58.16.1 39337 1f4qA 165 1.55e+01 1alvA a.39.1.8 17360 1omrA 201 1.64e+01 1dcnD 436 1.65e+01 1auwA a.127.1.1 19423 1ulmA 82 1.69e+01 1auwA 468 1.78e+01 1auwA a.127.1.1 19416 1f0jA 377 1.79e+01 1f0jA a.125.1.1 19346 3kvt 115 1.81e+01 1t1dA d.42.1.2 38642 1be3C 379 1.88e+01 1be3C f.32.1.1 75805 f.21.1.2 75806 1gupA 348 1.97e+01 1guqA d.13.1.2 37534 d.13.1.2 37535 1ddt 535 2.01e+01 1ddt b.2.1.1 22379 d.166.1.1 42241 f.1.2.1 43384 1n9dA 199 2.01e+01 a.26.1.1 85464 1guqA 348 2.01e+01 1guqA d.13.1.2 37522 d.13.1.2 37523 1egdA 396 2.04e+01 3mdeA a.29.3.1 16596 e.6.1.1 42857 1g8iA 190 2.09e+01 1rec a.39.1.5 60363 1wgtA 186 2.13e+01 9wgaA g.3.1.1 44008 g.3.1.1 44009 g.3.1.1 44010 g.3.1.1 44011 2pvbA 107 2.19e+01 1a75A a.39.1.4 17205 2liv 344 2.20e+01 2liv c.93.1.1 35708 1g5hA 454 2.29e+01 1g5hA c.51.1.1 60270 d.104.1.1 60271 9wgaA 171 2.34e+01 9wgaA g.3.1.1 44000 g.3.1.1 44001 g.3.1.1 44002 g.3.1.1 44003 1em2A 229 2.39e+01 1em2A d.129.3.2 41321 1dcnA 424 2.43e+01 1auwA a.127.1.1 19420 1drs 59 2.49e+01 3ebx g.7.1.2 44457 2btvA 901 2.56e+01 2btvA e.28.1.1 43376 1hev 43 2.61e+01 1hev g.3.1.1 44060 1i50A 1733 2.63e+01 e.29.1.1 61754 1qvjA 292 2.66e+01 1b6a 478 2.67e+01 1bn5 a.4.5.25 16223 d.127.1.1 41160 1upkA 341 2.74e+01 1mwvA 714 2.83e+01 a.93.1.3 85161 a.93.1.3 85162 1quvA 578 2.92e+01 1quvA e.8.1.4 43119 1cdp 109 2.94e+01 1a75A a.39.1.4 17197 1hxpA 348 3.06e+01 1guqA d.13.1.2 37530 d.13.1.2 37531 1e6fA 143 3.25e+01 1e6fA b.64.1.1 59304 1rec 201 3.27e+01 1rec a.39.1.5 17326 1phnA 162 3.38e+01 1cpcA a.1.1.3 15641 1ulkA 126 3.39e+01 1bn5 478 3.46e+01 1bn5 a.4.5.25 16224 d.127.1.1 41161 1hcuA 503 3.46e+01 a.102.2.1 65796 1q9bA 43 3.53e+01 1qs2A 401 3.64e+01 1qs1A d.166.1.1 42268 d.166.1.1 42269 1qqfA 277 3.65e+01 1c3d a.102.4.4 18875 1mmc 30 3.66e+01 g.3.1.2 44061 1oohA 126 3.68e+01 1a28A 256 3.75e+01 1a28A a.123.1.1 19290 1jpaA 312 3.80e+01 d.144.1.7 67011 1txb 73 3.86e+01 1txb g.7.1.1 44455 1usgA 346 3.87e+01 1gx5A 536 3.96e+01 e.8.1.4 70682 1c3cA 429 3.98e+01 1c3cA a.127.1.1 19425