# 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 1v6fA 151 6.71e-23 1f7sA 139 1.25e-22 1cof d.109.1.2 40857 1cfyA 143 6.69e-21 1cof d.109.1.2 40858 1cnuA 137 9.70e-21 1cof d.109.1.2 40862 1cof 143 2.87e-20 1cof d.109.1.2 40860 1ak7 174 2.69e-18 1cof d.109.1.2 40864 1m4jA 142 2.97e-18 d.109.1.2 78602 1hqz1 141 1.17e-09 1hqz9 141 1.83e-09 1udmA 149 4.87e-08 1mai 131 7.81e-02 1mai b.55.1.1 26951 1p1cA 199 1.62e-01 c.66.1.16 87669 1svy 114 1.79e-01 1svy d.109.1.1 40831 1gtmA 419 1.80e-01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1khhA 198 2.09e-01 c.66.1.16 68615 1ufoA 238 2.42e-01 unknown_sccs -8303 1svr 114 5.87e-01 1svy d.109.1.1 40833 1svq 114 6.78e-01 1svy d.109.1.1 40832 1j7lA 264 9.01e-01 d.144.1.6 62697 1qcxA 359 1.54e+00 1qcxA b.80.1.2 28028 1o6sB 105 1.78e+00 b.1.6.1 81096 1jn5A 140 1.83e+00 d.17.4.2 66921 1j7iA 264 2.36e+00 1j7iA d.144.1.6 62694 1qtrA 317 2.50e+00 1qtrA c.69.1.7 34660 1akeA 214 2.55e+00 1zin c.37.1.1 31905 g.41.2.1 45185 1j9yA 385 2.84e+00 1j9yA c.1.8.3 62791 1hv9A 456 3.64e+00 1fwyA b.81.1.4 28060 c.68.1.5 34518 1jb0D 138 3.89e+00 1jb0D d.187.1.1 62823 1jkgA 140 4.12e+00 d.17.4.2 66795 1h2vZ 156 4.23e+00 d.58.7.1 76595 1cp3A 277 4.50e+00 1pauA c.17.1.1 30992 1n1mA 728 4.83e+00 b.70.3.1 79815 c.69.1.24 79816 1edhA 226 4.96e+00 1edhA b.1.6.1 22198 b.1.6.1 22199 1suh 146 5.05e+00 1edhA b.1.6.1 22206 1odzA 386 5.07e+00 c.1.8.3 86889 1g5vA 88 5.45e+00 1g5vA b.34.9.1 60292 1dssG 333 5.46e+00 1dssG c.2.1.3 30022 d.81.1.1 39937 1crwG 333 5.52e+00 1dssG c.2.1.3 30026 d.81.1.1 39941 1fwyA 331 5.53e+00 1fwyA b.81.1.4 28064 c.68.1.5 34522 1ex2A 189 5.83e+00 1ex2A c.51.4.2 33225 2nmbA 160 6.13e+00 2nmbA b.55.1.2 26994 1fxjA 331 6.25e+00 1fwyA b.81.1.4 28062 c.68.1.5 34520 1azwA 313 7.80e+00 1qtrA c.69.1.7 34658 1m7bA 184 8.35e+00 c.37.1.8 74572 1ddmA 135 8.85e+00 2nmbA b.55.1.2 26993 1qqp2 218 8.90e+00 1qqp2 3uagA 437 9.50e+00 4uagA c.5.1.1 30652 c.59.1.1 33953 c.72.2.1 34956 4uagA 437 9.69e+00 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1nmeA 146 9.73e+00 c.17.1.1 85874 1uag 437 9.82e+00 4uagA c.5.1.1 30653 c.59.1.1 33954 c.72.2.1 34957 2vil 126 1.08e+01 2vil d.109.1.1 40830 2vik 126 1.11e+01 2vil d.109.1.1 40829 1pauA 147 1.12e+01 1pauA c.17.1.1 30994 1a88A 275 1.13e+01 1brt c.69.1.12 34707 1gw1A 376 1.15e+01 c.1.8.3 76361 1hjrA 158 1.16e+01 1hjrA c.55.3.6 33727 1rro 108 1.17e+01 1a75A a.39.1.4 17195 1afwA 393 1.18e+01 1afwA c.95.1.1 35900 c.95.1.1 35901 1fe0A 68 1.35e+01 1cc8A d.58.17.1 39345 1elt 236 1.44e+01 5ptp b.47.1.2 26281 1qy5A 269 1.45e+01 d.122.1.1 -10958 1d4bA 122 1.48e+01 1d4bA d.15.2.1 37638 1ecfA 504 1.51e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1mhnA 59 1.52e+01 b.34.9.1 84964 1pvgA 418 1.53e+01 d.14.1.3 -9032 d.122.1.2 -10965 1pxtB 390 1.54e+01 1afwA c.95.1.1 35906 c.95.1.1 35907 3cla 213 1.57e+01 3cla c.43.1.1 32610 1uzxA 169 1.60e+01 d.20.1.2 -9409 1idk 359 1.61e+01 1qcxA b.80.1.2 28025 1qo3C 137 1.68e+01 1qo3C d.169.1.1 42350 1c5kA 439 1.68e+01 1crzA b.68.4.1 27630 c.51.2.1 33212 1p8xA 344 1.69e+01 d.109.1.1 -10813 d.109.1.1 -10814 d.109.1.1 -10815 1crzA 403 1.69e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1ixmA 192 1.71e+01 1ixmA d.123.1.1 41114 2dnjA 260 1.76e+01 3dni d.151.1.1 41790 1poiB 260 1.83e+01 1poiB unknown_sccs 34155 1j6uA 469 1.85e+01 c.5.1.1 77094 c.59.1.1 77095 c.72.2.1 77096 1qk8A 146 1.88e+01 1ewxA c.47.1.10 33061 1p3dA 475 1.91e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1ecfB 504 1.95e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1e4yA 214 1.97e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1aw0 72 1.99e+01 1aw0 d.58.17.1 39342 1ho1A 242 2.00e+01 1ho1A c.1.24.1 61097 1kl9A 182 2.14e+01 b.40.4.5 72681 1gqyA 475 2.15e+01 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1mml 265 2.19e+01 1mml e.8.1.2 43015 1fp2A 352 2.23e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1vjrA 271 2.25e+01 unknown_sccs -6853 2olbA 517 2.41e+01 1jevA c.94.1.1 35721 1vkdA 338 2.46e+01 1a99A 344 2.48e+01 1pot c.94.1.1 35812 1b9mA 265 2.48e+01 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1nb9A 147 2.50e+01 b.43.5.1 85515 1el5A 389 2.51e+01 1b3mA c.3.1.2 30369 d.16.1.3 37937 1op4A 159 2.78e+01 b.1.6.1 -2794 1j8bA 112 2.90e+01 d.222.1.1 77101 1kekA 1231 2.92e+01 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1m5wA 243 2.92e+01 c.1.24.1 84836 5croA 66 2.96e+01 1orc a.35.1.2 17044 1fjgS 93 3.04e+01 1qkfA d.28.1.1 38451 1qfjA 232 3.05e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1b00A 127 3.07e+01 3chy c.23.1.1 31122 1r6dA 337 3.11e+01 c.2.1.2 -5757 1ptvA 321 3.15e+01 1pty c.45.1.2 32665 1l9fA 389 3.17e+01 c.3.1.2 73716 d.16.1.3 73717 1lgpA 116 3.17e+01 b.26.1.2 73890 1gkuB 1054 3.27e+01 c.37.1.16 65257 c.37.1.16 65258 e.10.1.1 65259 2hnp 321 3.34e+01 1pty c.45.1.2 32678 1q8bA 105 3.48e+01 unknown_sccs -9958 1pa1A 310 3.48e+01 c.45.1.2 -7332 1pty 321 3.48e+01 1pty c.45.1.2 32656 1eeoA 321 3.49e+01 1pty c.45.1.2 32655 1g7fA 298 3.53e+01 1pty c.45.1.2 60330 1b0pA 1231 3.56e+01 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1h2xA 710 3.68e+01 b.69.7.1 76598 c.69.1.4 76599 1orvA 728 3.71e+01 b.70.3.1 87354 c.69.1.24 87355 1l0oA 150 3.71e+01 d.122.1.3 73403 1guaB 81 3.77e+01 1c1yB d.15.1.5 37619 1mmiA 366 3.78e+01 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1mu5A 471 3.82e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1n7kA 234 3.87e+01 c.1.10.1 85374 1at3A 247 3.87e+01 1at3A b.57.1.1 27021 1f8yA 157 3.98e+01 1f8xA c.23.14.1 31395