# List of top-scoring protein chains for T0404.t04-w0.5 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.soe.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 2eg2A 112 7.93e-22 1hwuA 112 1.37e-20 d.58.5.1 83633 2piiA 112 1.40e-20 d.58.5.1 39071 2gw8A 114 1.63e-20 2j9dE 119 1.23e-19 2j9cA 119 1.24e-19 3bzqA 114 3.07e-19 2ns1B 116 7.06e-19 1gnkA 112 7.34e-19 2pii d.58.5.1 39073 2v5hG 112 8.23e-19 1ul3A 112 1.21e-18 d.58.5.1 99534 1qy7A 112 1.37e-18 d.58.5.1 96575 2gnkA 112 1.43e-18 2pii d.58.5.1 39075 1vfjA 116 5.51e-17 d.58.5.1 113637 2o66A 135 1.10e-16 2cz4A 119 1.56e-08 d.58.5.1 131035 1o51A 114 7.30e-05 d.58.5.4 92480 2dclA 127 4.13e-03 3ce8A 120 4.70e-02 2okoA 385 3.71e-01 2z1vA 386 3.71e-01 1wkdA 386 4.44e-01 c.1.20.1 29664 1efzA 386 4.46e-01 1pud c.1.20.1 29659 1wkeA 386 4.49e-01 c.1.20.1 29663 1ozqA 386 4.50e-01 c.1.20.1 93854 1wkfA 386 4.50e-01 c.1.20.1 29662 1y5wA 385 4.50e-01 c.1.20.1 122654 1r5yA 386 4.50e-01 c.1.20.1 97134 1pxgA 382 4.92e-01 c.1.20.1 95287 2nqzA 385 5.03e-01 2nsoA 386 5.03e-01 2gx8A 397 6.61e-01 c.135.1.1 135825 2cw6A 298 7.47e-01 1ffxA 451 8.19e-01 1tubA i.10.1.1 46007 1sa0A 451 8.20e-01 c.32.1.1,d.79.2.1 98769,98770 1tvkA 440 8.86e-01 c.32.1.1,d.79.2.1 107362,107363 1jffA 451 8.89e-01 c.32.1.1,d.79.2.1 62932,62933 2ftpA 302 3.30e+00 1tj6A 118 4.63e+00 b.55.1.4 119286 2e3dA 302 5.33e+00 2helA 306 5.59e+00 1xodA 118 5.70e+00 b.55.1.4 122202 1to3A 304 6.21e+00 c.1.10.1 107161 1z2bA 448 7.17e+00 2pd6A 264 8.56e+00 2mm1A 153 8.99e+00 a.1.1.2 15203 1o3yA 166 9.42e+00 c.37.1.8 86618 1r8sA 164 9.92e+00 c.37.1.8 97247 1hurA 180 1.04e+01 1hurA c.37.1.8 32052 1r8qA 181 1.04e+01 c.37.1.8 97243 1z6xA 180 1.10e+01 c.37.1.8 124571 1myiA 153 1.17e+01 1a6m a.1.1.2 15175 2h57A 190 1.18e+01 1mwcA 153 1.18e+01 1a6m a.1.1.2 15157 1myhA 153 1.18e+01 1a6m a.1.1.2 15177 1t0bA 252 1.18e+01 c.23.16.6 106199 1wg1A 88 1.22e+01 d.58.7.1 114599 1jeoA 180 1.29e+01 c.80.1.3 66611 2jsxA 95 1.43e+01 2qooA 373 1.44e+01 1ch5A 154 1.47e+01 1a6m a.1.1.2 15127 1f1xA 322 1.48e+01 d.32.1.3,d.32.1.3 83208,83209 2qocA 344 1.56e+01 1wy7A 207 1.57e+01 c.66.1.32 121433 2dybA 341 1.59e+01 1cp0A 154 1.62e+01 1a6m a.1.1.2 15109 2qodA 373 1.63e+01 2qo9A 373 1.64e+01 2qoiA 373 1.64e+01 1i2sA 282 1.65e+01 e.3.1.1 71104 1w7fA 307 1.66e+01 3b3xA 265 1.66e+01 2qofA 373 1.66e+01 1co8A 154 1.68e+01 1a6m a.1.1.2 15079 1ch7A 154 1.68e+01 1a6m a.1.1.2 15083 2qolA 373 1.71e+01 1co9A 154 1.76e+01 1a6m a.1.1.2 15028 1s1iR 137 1.82e+01 i.1.1.1 105192 1i51A 148 1.87e+01 c.17.1.1 66029 2qokA 373 1.92e+01 2b6hA 192 2.03e+01 c.37.1.8 127994 1ch2A 154 2.10e+01 1a6m a.1.1.2 15064 2qobA 344 2.23e+01 1cpwA 154 2.24e+01 1a6m a.1.1.2 15136 2qo7A 373 2.28e+01 1ch3A 154 2.28e+01 1a6m a.1.1.2 15111 1mymA 154 2.40e+01 a.1.1.2 15054 1a6mA 151 2.42e+01 a.1.1.2 15018 2ggoA 401 2.45e+01 1jg1A 235 2.48e+01 c.66.1.7 66661 2ektA 153 2.53e+01 1nh9A 87 2.54e+01 d.68.6.1 91878 2jhoA 154 2.54e+01 a.1.1.2 138322 2ql9A 173 2.55e+01 1n5nA 180 2.56e+01 d.167.1.1 85336 1og6A 298 2.59e+01 c.1.7.1 86984 1a6gA 151 2.59e+01 a.1.1.2 15021 2bw9M 153 2.60e+01 a.1.1.2 129326 1do1A 154 2.62e+01 1a6m a.1.1.2 15049 2oh8A 154 2.63e+01 1lryA 167 2.65e+01 d.167.1.1 74231 1ix1A 171 2.66e+01 d.167.1.1 90712 2splA 154 2.68e+01 a.1.1.2 15047 2gnxA 344 2.69e+01 1f1uA 323 2.69e+01 d.32.1.3,d.32.1.3 83200,83201 1jw8A 154 2.72e+01 a.1.1.2 67376 1modA 154 2.72e+01 a.1.1.2 15107 2reiA 318 2.74e+01 2dtjA 178 2.74e+01 2spoA 154 2.78e+01 a.1.1.2 15053 1mtiA 154 2.78e+01 a.1.1.2 15114 1cp5A 154 2.80e+01 1a6m a.1.1.2 15123 1ch9A 154 2.82e+01 1a6m a.1.1.2 15062 2r2pA 295 2.83e+01 2qonA 373 2.85e+01 2qylA 337 2.91e+01 2gy5A 423 3.01e+01 1yigA 76 3.04e+01 a.245.1.1 123291 2ig9A 365 3.04e+01 d.32.1.3,d.32.1.3 137352,137353 2ohaA 154 3.07e+01 2hvfA 52 3.09e+01 1tb5A 381 3.18e+01 a.211.1.2 106735 1mnjA 153 3.19e+01 1a6m a.1.1.2 15179 1ocyA 198 3.20e+01 d.231.1.1 86817 1i94H 138 3.40e+01 1seiA d.140.1.1 61999 1dtiA 154 3.40e+01 1a6m a.1.1.2 15074 1rorA 378 3.43e+01 a.211.1.2 111901 1mcyA 154 3.49e+01 a.1.1.2 15076 1txqB 86 3.54e+01 a.245.1.1 119389 1f0jA 377 3.56e+01 1f0jA a.211.1.2 19346 2dgtA 92 3.62e+01 1wvpA 153 3.66e+01 a.1.1.2 121346 1dcuA 357 3.67e+01 1frpA e.7.1.1 42943 2a15A 139 3.68e+01 d.17.4.3 125973 1ur3M 319 3.68e+01 c.1.7.1 99806 1mloA 154 3.71e+01 a.1.1.2 15085 2evkA 153 3.72e+01 a.1.1.2 132433 1wu9A 80 3.73e+01 a.245.1.1 121279 1ircA 154 3.74e+01 a.1.1.2 15141 1bmlC 362 3.76e+01 1bmlC d.15.5.1,d.15.5.1,d.15.5.1 37729,37730,37731 2mggA 154 3.78e+01 a.1.1.2 15069 1dbzA 357 3.83e+01 1frpA e.7.1.1 42951 1cioA 154 3.87e+01 1a6m a.1.1.2 15029 2otnA 308 3.91e+01 2bkxA 242 4.04e+01 1j3fA 154 4.06e+01 a.1.1.2 103835 1ch1A 154 4.08e+01 1a6m a.1.1.2 15094 2ha8A 184 4.11e+01 2mgbA 154 4.24e+01 a.1.1.2 15102 1mgnA 154 4.26e+01 a.1.1.2 15097 2g0tA 350 4.28e+01 c.37.1.10 134499 1myjA 153 4.35e+01 1a6m a.1.1.2 15171 1m6mA 153 4.49e+01 1a6m a.1.1.2 15163 1xm6A 398 4.64e+01 a.211.1.2 115471 1yibA 76 4.64e+01 a.245.1.1 123278 1pdiA 278 4.68e+01 i.19.1.1 94536 2grmA 317 4.75e+01 1em8A 147 4.77e+01 c.128.1.1 90457 2axuA 317 4.78e+01 a.35.1.11,a.118.8.4 127500,127501 2awiA 317 4.83e+01 a.35.1.11,a.118.8.4 127435,127436 2bm8A 236 4.83e+01 c.66.1.50 128771 2do8A 188 5.00e+01 d.310.1.1 131597 2br4A 236 5.15e+01 c.66.1.50 128982 1m3uA 264 5.17e+01 c.1.12.8 84784 1ofjA 154 5.17e+01 a.1.1.2 15065 1emyA 153 5.18e+01 a.1.1.2 15204 1q7fA 286 5.25e+01 b.68.9.1 96036 1mllA 154 5.28e+01 a.1.1.2 15057 1cquA 56 5.43e+01 d.100.1.1 70073 1l4dB 122 5.46e+01 d.15.5.1 77684 2hbbA 51 5.50e+01 d.100.1.1 136310 2mgeA 154 5.53e+01 a.1.1.2 15056 1ofkA 154 5.55e+01 a.1.1.2 15061 2hbaA 52 5.65e+01 1hruA 188 5.70e+01 1hruA d.115.1.1 40926 1ornA 226 5.83e+01 a.96.1.1 87342 1l4zB 136 5.86e+01 d.15.5.1 77704 1c8m2 252 5.89e+01 1aym2 2e2yA 154 5.92e+01 1p59A 226 5.92e+01 a.96.1.1 87794 2rb9A 334 5.95e+01 1aym2 261 5.98e+01 1aym2 1g8pA 350 6.04e+01 1g8pA c.37.1.20 60376 2mgjA 154 6.04e+01 a.1.1.2 15119 102mA 154 6.05e+01 a.1.1.2 15073 2oh9A 154 6.08e+01 2p9tA 416 6.10e+01 2nwuA 155 6.14e+01 1mlsA 154 6.15e+01 a.1.1.2 15058 2ohbA 154 6.22e+01 2dvlA 372 6.50e+01 2gagA 965 6.66e+01 2bv3A 691 6.70e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 129237,129238,129239,129240,129241 2qwtA 196 6.71e+01 2bm0A 691 6.78e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 128748,128749,128750,128751,128752 2j7kA 691 6.78e+01 1darA 691 6.79e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 2bm1A 691 6.79e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 128753,128754,128755,128756,128757 2dt5A 211 6.80e+01 a.4.5.38,c.2.1.12 131708,131709 1xcbA 211 6.87e+01 a.4.5.38,c.2.1.12 109552,109553 1mlgA 154 6.90e+01 a.1.1.2 15104 1j5hA 122 6.95e+01 b.1.7.1 77080 1rz3A 201 6.96e+01 c.37.1.6 98132 2f24A 382 7.01e+01 1noaA 113 7.02e+01 b.1.7.1 22208 2f26A 382 7.02e+01 1so7A 382 7.02e+01 b.68.1.1 112106 2f28A 382 7.02e+01 1o5zA 442 7.03e+01 c.59.1.2,c.72.2.2 92530,92531 1mqbA 333 7.04e+01 d.144.1.7 91392 1a8qA 274 7.12e+01 c.69.1.12 34702 1obmA 154 7.13e+01 a.1.1.2 15091 1dp4A 435 7.15e+01 1dp4A c.93.1.1 35710 2akoA 251 7.16e+01 c.73.1.3 126923 1jenA 267 7.23e+01 1jenA 1mniA 153 7.37e+01 1a6m a.1.1.2 15173 1jmsA 381 7.41e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1kdhA 363 7.41e+01 a.60.6.1,a.60.12.1,d.218.1.2 72349,75882,75883 2efgA 691 7.41e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25708,32143,37548,39301 2hwb2 262 7.49e+01 1aym2 1pbtA 244 7.53e+01 c.124.1.1 94416 2csbA 519 7.63e+01 a.60.2.4,a.60.2.4,a.60.2.4,a.60.2.4,a.267.1.1 130751,130752,130753,130754,130755 1ncqB 262 7.68e+01 1mnkA 153 7.68e+01 1a6m a.1.1.2 15181 2dc1A 236 7.73e+01 2glnA 136 7.81e+01 1idrA 136 7.81e+01 1dlyA a.1.1.1 62301 2rkoA 331 7.85e+01 1tk9A 188 7.96e+01 c.80.1.3 107082 1i7bA 267 7.98e+01 1jenA