# 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 1qvcA 145 4.52e-22 3ullA b.40.4.3 25284 1kawA 135 3.73e-19 3ullA b.40.4.3 25288 3ullA 132 1.57e-16 3ullA b.40.4.3 25282 1bfeA 119 8.55e-03 1pdr b.36.1.1 24775 1pdr 99 1.06e-02 1pdr b.36.1.1 24771 1be9A 119 2.11e-02 1pdr b.36.1.1 24774 1otcA 495 6.03e-02 1otcA b.40.4.3 25307 b.40.4.3 25308 b.40.4.3 25309 1a8p 258 7.05e-02 1fdr b.43.4.2 25654 c.25.1.1 31544 1ndoB 194 8.86e-02 1ndoB d.17.4.4 38121 1je5A 206 1.21e-01 1je5A b.40.4.7 62909 1jb7A 495 1.60e-01 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1eg9B 194 5.84e-01 1ndoB d.17.4.4 38120 1fdr 248 7.15e-01 1fdr b.43.4.2 25653 c.25.1.1 31543 1ewjA 126 1.05e+00 1ecsA d.32.1.2 59526 1ecsA 126 1.55e+00 1ecsA d.32.1.2 59407 1d1nA 99 1.66e+00 1d1nA b.43.3.1 25718 1ep3B 262 2.17e+00 1ep2B b.43.4.2 25664 c.25.1.3 31554 1qg0A 308 2.46e+00 1fnc b.43.4.2 25639 c.25.1.1 31529 1a78A 134 3.10e+00 1c1lA b.29.1.3 24212 1que 303 3.15e+00 1fnc b.43.4.2 25647 c.25.1.1 31537 2tnfA 156 3.60e+00 2tnfA b.22.1.1 23880 1gm5A 780 4.52e+00 a.29.4.1 65298 b.40.4.9 65299 c.37.1.13 65300 c.37.1.13 65301 1bmv2 374 5.10e+00 1bmv2 1dw9A 156 5.11e+00 1dw9A a.35.1.4 17065 d.72.1.1 39596 1dwkA 156 5.11e+00 1dw9A a.35.1.4 17075 d.72.1.1 39606 1b8aA 438 5.53e+00 1b8aA b.40.4.1 25244 d.104.1.1 40765 1fvzA 271 5.83e+00 1fvzA d.129.3.4 60050 1l9mA 692 5.93e+00 1ihjA 98 6.13e+00 1pdr b.36.1.1 62382 1ep2B 261 7.04e+00 1ep2B b.43.4.2 25666 c.25.1.3 31556 1jd0A 263 7.10e+00 2cba b.74.1.1 62888 1cjwA 166 7.14e+00 1cjwA d.108.1.1 40818 1jmcA 246 7.29e+00 1jmcA b.40.4.3 25300 b.40.4.3 25301 1cne 270 7.68e+00 1ndh b.43.4.2 25661 c.25.1.1 31551 1fnd 314 8.77e+00 1fnc b.43.4.2 25626 c.25.1.1 31516 1eu3A 210 9.10e+00 1an8 b.40.2.2 25206 d.15.6.1 37795 1fnc 314 9.13e+00 1fnc b.43.4.2 25627 c.25.1.1 31517 1cqqA 180 9.60e+00 1cqqA b.47.1.4 26422 1bmfA 510 9.91e+00 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1hcb 260 1.05e+01 2cba b.74.1.1 27814 1h8dH 260 1.06e+01 5ptp 3nn9 388 1.07e+01 2qwc b.68.1.1 27566 1deoA 233 1.07e+01 1deoA c.23.10.4 31345 2tdt 274 1.18e+01 3tdt b.81.1.2 28054 3tdt 274 1.18e+01 3tdt b.81.1.2 28053 1k7cA 233 1.19e+01 c.23.10.4 68267 1b8zA 90 1.25e+01 1huuA a.55.1.1 17902 1a12A 413 1.27e+01 1a12A b.69.5.1 27663 1hqcA 324 1.28e+01 1hqcA a.4.5.11 16127 c.37.1.13 32424 1f28A 297 1.34e+01 1bkpA d.117.1.1 59608 1jh2A 99 1.34e+01 b.35.1.1 63038 1e19A 314 1.34e+01 1b7bA c.73.1.1 34967 1a7cA 379 1.35e+01 1sek e.1.1.1 42660 1jatB 138 1.37e+01 1jatB d.20.1.1 62819 1sesA 421 1.41e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1j7xA 302 1.48e+01 c.14.1.2 66425 1jb3A 131 1.51e+01 1jc7A b.40.3.2 62833 1be1 137 1.53e+01 1be1 c.23.6.1 31237 1lj5A 379 1.59e+01 1at0 145 1.59e+01 1at0 b.86.1.1 28374 2cba 260 1.65e+01 2cba b.74.1.1 27821 1i7dA 659 1.66e+01 1d6mA e.10.1.1 61886 1b1a 137 1.69e+01 1be1 c.23.6.1 31242 1f46A 140 1.73e+01 1f46A d.129.4.1 59643 1jnyA 435 1.78e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1huuA 90 1.79e+01 1huuA a.55.1.1 17897 1krs 120 1.82e+01 1krs b.40.4.1 25256 1i7pA 274 1.83e+01 b.43.4.2 66048 c.25.1.1 66049 1b33N 67 1.84e+01 1b33N d.30.1.1 38459 1slaA 134 1.85e+01 1c1lA b.29.1.3 24196 1fa8A 135 1.88e+01 1qipA d.32.1.1 38486 8kme2 259 2.02e+01 1ucyE 1i36A 264 2.03e+01 1jc7A 131 2.13e+01 1jc7A b.40.3.2 62873 1sltA 134 2.14e+01 1c1lA b.29.1.3 24186 2qwc 388 2.16e+01 2qwc b.68.1.1 27547 1ft9A 222 2.19e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 1f8eA 388 2.22e+01 2qwc b.68.1.1 59694 5nn9 388 2.23e+01 2qwc b.68.1.1 27563 1ci3M 249 2.24e+01 1hcz b.2.6.1 22480 b.84.2.2 28266 1ndh 272 2.28e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 1ahtH 259 2.44e+01 5ptp 2hvm 273 2.51e+01 1cnv c.1.8.5 28985 1c5lH 259 2.52e+01 5ptp 1axiB 236 2.54e+01 1axiB b.1.2.1 21997 b.1.2.1 21998 1ey4A 149 2.56e+01 1snc b.40.1.1 24815 1fs7A 485 2.61e+01 1qdbA a.138.1.3 19691 1qpxA 218 2.70e+01 1qpxA b.1.11.1 22318 b.7.2.1 23200 1kcmA 270 2.73e+01 1epwA 1290 2.74e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1cliA 345 2.75e+01 1cliA d.79.4.1 39816 d.139.1.1 41459 1hh1A 143 2.81e+01 1gefA c.52.1.18 61036 1qqjA 419 2.87e+01 1qcnA b.34.8.1 59034 d.177.1.1 59035 1wpoB 256 2.90e+01 1lay b.57.1.1 27013 1php 394 2.93e+01 16pk c.86.1.1 35452 1hyoA 421 2.93e+01 1qcnA b.34.8.1 59001 d.177.1.1 59002 2prd 174 2.96e+01 2prd b.40.5.1 25435 1j8rA 196 2.97e+01 1j8rA b.2.3.3 62745 1f9zA 135 2.99e+01 1qipA d.32.1.1 38484 1ucyE 109 3.01e+01 1ucyE 1qj4A 257 3.02e+01 1qj4A c.69.1.20 34796 1bg6 359 3.04e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1e79A 510 3.07e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1d6mA 653 3.07e+01 1d6mA e.10.1.1 43248 1fljA 260 3.19e+01 2cba b.74.1.1 27954 1caj 260 3.24e+01 2cba b.74.1.1 27841 1a62 130 3.24e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1tdtA 259 3.25e+01 3tdt b.81.1.2 28055 1af6A 421 3.26e+01 2mprA f.4.3.2 43772 1hnnA 282 3.29e+01 c.66.1.15 65895 1dmuA 299 3.39e+01 1dmuA c.52.1.4 33294 1hqz1 141 3.46e+01 1qppA 218 3.47e+01 1qpxA b.1.11.1 22320 b.7.2.1 23202 1akr 147 3.61e+01 1rcf c.23.5.1 31152 3hmgA 328 3.61e+01 1hgeA b.19.1.2 23825 1d5yA 292 3.66e+01 1d5yA a.4.1.8 16055 a.4.1.8 16056 d.60.1.2 39532 1gmuA 143 3.67e+01 b.107.1.1 65335 d.58.38.1 65336 1jg8A 347 3.67e+01 1jg8A c.67.1.1 62946 1yasA 257 3.68e+01 1qj4A c.69.1.20 34801 1fl2A 310 3.70e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1qdbA 473 3.72e+01 1qdbA a.138.1.3 19688 1qqrA 138 3.72e+01 1bmlC d.15.5.1 37721 2ebn 289 3.84e+01 2ebn c.1.8.5 28990 1qcsA 211 3.90e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1ccwA 137 3.92e+01 1be1 c.23.6.1 31238 1oaa 259 3.92e+01 1oaa c.2.1.2 29829 2polA 366 3.94e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1sltB 134 3.96e+01 1c1lA b.29.1.3 24187 1al3 324 3.99e+01 1al3 c.94.1.1 35835