# List of top-scoring protein chains for t2k.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 3ic7A 126 9.24e-14 3by6A 126 3.98e-13 2wv0A 243 1.21e-12 2ek5A 129 1.00e-11 2ra5A 247 1.93e-09 d.190.1.2 151819 3bwgA 239 4.04e-08 a.4.5.6 155693 d.190.1.2 155694 1v4rA 102 1.47e-07 a.4.5.6 119835 3eetA 272 1.49e-07 3edpA 236 7.06e-07 2di3A 239 1.20e-06 3fmsA 209 2.25e-06 1e2xA 243 3.00e-06 1e2xA a.4.5.6 16113 a.78.1.1 18443 1hw1A 239 3.02e-06 1e2xA a.4.5.6 16111 a.78.1.1 18441 2hs5A 239 1.48e-05 a.4.5.6 147379 a.78.1.1 147380 3f8mA 248 2.49e-04 3c7jA 237 2.61e-04 3ihuA 222 3.90e-04 2h09A 155 7.15e-03 2v7fA 150 9.61e-03 a.4.5.84 152721 1lj9A 144 4.66e-02 a.4.5.28 78035 3bpvA 138 8.40e-02 3bpxA 148 1.06e-01 2d1hA 109 1.24e-01 a.4.5.50 131125 1q1hA 110 1.83e-01 a.4.5.41 95580 2fbhA 146 1.85e-01 a.4.5.28 133245 1vdwA 254 2.25e-01 e.7.1.1 100569 1ylfA 149 3.63e-01 a.4.5.55 123648 2ev0A 142 3.68e-01 a.4.5.24 132413 a.76.1.1 132414 1on2A 142 3.75e-01 a.4.5.24 87103 a.76.1.1 87104 1o5lA 213 4.24e-01 b.82.3.2 92506 1xs5A 241 4.82e-01 c.94.1.1 115912 2b0lA 102 4.94e-01 a.4.5.66 127641 3hrsA 214 7.27e-01 3deuA 166 8.13e-01 a.4.5.28 157600 3eyyA 145 9.28e-01 2a61A 145 1.36e+00 a.4.5.28 126187 2cfxA 144 1.42e+00 a.4.5.32 130395 d.58.4.2 130396 3e3mA 355 1.58e+00 3h3uA 224 1.67e+00 3d0sA 227 1.71e+00 3i54A 249 1.96e+00 2cg4A 152 2.25e+00 a.4.5.32 130417 d.58.4.2 130418 1ft9A 222 2.26e+00 1ft9A a.4.5.4 16107 b.82.3.1 28131 1i1gA 141 2.49e+00 a.4.5.32 65982 d.58.4.2 65983 1biaA 321 2.51e+00 a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 2zcwA 202 2.55e+00 3f3xA 144 2.99e+00 1ruoA 209 3.58e+00 2cgpA a.4.5.4 16105 b.82.3.2 28144 1j5yA 187 4.05e+00 a.4.5.1 71592 d.94.2.1 71593 2kvoA 120 4.26e+00 3f5dA 206 4.47e+00 1vi0A 206 4.64e+00 a.4.1.9 100720 a.121.1.1 100721 2oqgA 114 4.87e+00 1o3sA 200 5.53e+00 a.4.5.4 86609 b.82.3.2 86610 2g7uA 257 5.57e+00 3cjnA 162 6.00e+00 2vn2A 128 6.00e+00 1mkmA 249 6.05e+00 a.4.5.33 79242 d.110.2.2 79243 1nkvA 256 6.06e+00 c.66.1.21 80577 1cgpA 205 6.16e+00 a.4.5.4 16096 b.82.3.2 28135 1o3tA 200 6.20e+00 a.4.5.4 86611 b.82.3.2 86612 3e5xA 250 6.27e+00 2h6bA 250 6.27e+00 a.4.5.4 147228 b.82.3.2 147229 3f6vA 151 6.37e+00 3fweA 210 6.61e+00 1i6xA 209 6.67e+00 a.4.5.4 83673 b.82.3.2 83674 1i5zA 209 6.71e+00 a.4.5.4 83669 b.82.3.2 83670 1g6nA 210 6.72e+00 2cgpA a.4.5.4 16100 b.82.3.2 28139 2cgpA 210 6.72e+00 2cgpA a.4.5.4 16102 b.82.3.2 28141 1hw5A 210 6.79e+00 2cgpA a.4.5.4 16098 b.82.3.2 28137 3e6cC 250 7.11e+00 a.4.5.4 158038 b.82.3.2 158039 1zy9A 564 7.17e+00 b.30.5.11 125813 c.1.8.13 125814 2qufA 232 7.20e+00 2qlzA 232 7.24e+00 3mipA 161 7.49e+00 1g2hA 61 7.59e+00 1g2hA a.4.1.12 60224 3dacA 130 7.69e+00 1ckeA 227 8.10e+00 1ckeA c.37.1.1 31846 3kccA 260 8.26e+00 1dpuA 99 8.67e+00 1dpuA a.4.5.16 16150 1ki9A 192 8.69e+00 c.37.1.1 84404 1z1dA 103 8.81e+00 a.4.5.16 124351 2eq8C 40 8.88e+00 2kfsA 148 8.92e+00 2dyyA 126 9.11e+00 3h5tA 366 9.13e+00 3iozB 45 9.23e+00 2z5sM 140 9.50e+00 3bddA 142 9.56e+00 3h86A 192 9.83e+00 2femA 227 1.02e+01 3k69A 162 1.02e+01 1kdoA 227 1.02e+01 c.37.1.1 68478 3ez2A 398 1.05e+01 2p4wA 202 1.06e+01 a.4.5.64 139495 3e8mA 164 1.06e+01 2enoA 120 1.06e+01 1nj1A 501 1.06e+01 c.51.1.1 85755 d.68.5.1 85756 d.104.1.1 85757 3f6oA 118 1.07e+01 2z5tM 140 1.10e+01 1hh1A 143 1.13e+01 1gefA c.52.1.18 61036 1tbxA 99 1.13e+01 a.4.5.48 106748 1wsuA 124 1.19e+01 a.4.5.35 121245 a.4.5.35 121246 3jwpA 265 1.20e+01 2jikA 101 1.21e+01 3gm3A 153 1.21e+01 1zybA 232 1.22e+01 a.4.5.4 125815 b.82.3.2 125816 1kpgA 287 1.27e+01 c.66.1.18 68735 1lvaA 258 1.27e+01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 3jyvT 141 1.28e+01 2jinA 102 1.33e+01 1u2gC 203 1.33e+01 c.31.1.4 119484 2fsvC 203 1.36e+01 c.31.1.4 134041 2pbqA 178 1.45e+01 3iwzA 230 1.52e+01 1xmaA 145 1.53e+01 a.4.5.61 115477 3ctaA 230 1.53e+01 a.4.5.28 156979 b.43.5.2 156980 2gqqA 163 1.54e+01 2dkrA 93 1.54e+01 2e54A 385 1.66e+01 2ordA 397 1.68e+01 3ktbA 106 1.68e+01 2fsjA 346 1.69e+01 c.55.1.12 134025 c.55.1.12 134026 3ez7A 398 1.71e+01 2f57A 317 1.78e+01 3ldhA 330 1.84e+01 i.12.1.1 46015 3dc8A 490 1.86e+01 3h3eA 267 1.86e+01 1dxlA 470 1.89e+01 1lvl c.3.1.5 30585 c.3.1.5 30586 d.87.1.1 40214 3gw2A 108 1.89e+01 1ylkA 172 1.96e+01 2ogpA 97 1.98e+01 2w43A 201 1.99e+01 2b9cA 147 2.00e+01 h.1.5.1 128122 2j7tA 302 2.00e+01 2w11A 206 2.01e+01 2kifA 108 2.02e+01 3krbA 334 2.07e+01 2pi2A 270 2.08e+01 b.40.4.3 149493 3jthA 98 2.10e+01 1b25A 619 2.15e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 2kojA 111 2.16e+01 3jw4A 148 2.25e+01 2oz6A 207 2.25e+01 a.4.5.4 149103 b.82.3.2 149104 2wtkC 305 2.29e+01 3fdfA 195 2.34e+01 2ihtA 573 2.35e+01 c.31.1.3 147685 c.36.1.5 147686 c.36.1.9 147687 1f5tA 121 2.36e+01 1bi0 a.4.5.24 16203 a.76.1.1 18409 2komA 121 2.41e+01 1p99A 295 2.44e+01 c.94.1.1 94384 1l0oC 243 2.45e+01 a.4.13.2 73405 1ulyA 192 2.47e+01 a.4.5.58 113297 1rr7A 129 2.53e+01 a.4.1.14 105075 1ku9A 152 2.54e+01 a.4.5.36 77544 3k4hA 292 2.69e+01 2vz4A 108 2.72e+01 2helA 306 2.75e+01 1w4jA 51 2.75e+01 3bilA 348 2.77e+01 2v89A 82 2.79e+01 g.50.1.2 152778 2pgfA 371 2.81e+01 3ewcA 371 2.82e+01 2o3jA 481 2.86e+01 2i0zA 447 2.87e+01 c.3.1.8 147483 e.74.1.1 147484 2zyjA 397 2.88e+01 2z1yA 397 2.88e+01 3cbfA 397 2.88e+01 3misA 161 2.94e+01 1w4iA 62 2.94e+01 3ewdA 370 2.94e+01 2h6cA 232 2.98e+01 a.4.5.4 147232 b.82.3.2 147233 1zovA 386 3.05e+01 3k0lA 162 3.05e+01 1xd7A 145 3.06e+01 a.4.5.55 109566 1c02A 166 3.07e+01 1qspA a.24.10.2 16633 2q30A 110 3.09e+01 3ccgA 190 3.10e+01 2bw2A 140 3.11e+01 1xcvA 139 3.11e+01 a.4.5.24 121862 a.76.1.1 121863 2wj8A 391 3.13e+01 3dcgE 39 3.13e+01 3fytA 320 3.15e+01 1uhnA 189 3.17e+01 a.39.1.5 99399 3fvtA 320 3.19e+01 2zhgA 154 3.20e+01 3fyuA 320 3.20e+01 2bdqA 224 3.22e+01 1uhmA 78 3.22e+01 a.4.5.13 99398 1regX 122 3.22e+01 1regX d.58.27.1 39406 1utyA 187 3.26e+01 b.147.1.1 108036 1nciA 110 3.26e+01 1edhA b.1.6.1 22191 3k4iA 244 3.34e+01 3gahA 194 3.35e+01 3b3aA 192 3.35e+01 2bjcA 62 3.39e+01 a.35.1.5 128620 3ezfA 403 3.43e+01 2d92A 108 3.46e+01 3gaiA 194 3.46e+01 2zfdA 226 3.47e+01 a.39.1.5 154406 3ieyA 154 3.50e+01 3b9qA 302 3.62e+01 1e2yA 188 3.63e+01 1qq2A c.47.1.10 59173 1ustA 93 3.67e+01 a.4.5.13 99884 1rilA 166 3.70e+01 c.55.3.1 33571 1qspA 165 3.70e+01 1qspA a.24.10.2 16639 2r6xA 194 3.71e+01 1oxkA 166 3.71e+01 a.24.10.2 93690 3ci3A 194 3.72e+01 2r25A 167 3.72e+01 a.24.10.2 151529 1c03A 168 3.72e+01 1qspA a.24.10.2 16635 3gajA 187 3.73e+01 3ctpA 330 3.73e+01 3i4pA 162 3.81e+01 1aisB 200 3.81e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1d3uB 201 3.82e+01 1aisB a.74.1.2 18386 a.74.1.2 18387 1jhgA 101 3.89e+01 1jhgA a.4.12.1 19009 3fp3A 537 3.90e+01 1x0mA 403 3.91e+01 c.67.1.1 121550 2hgaA 125 3.94e+01 b.36.1.6 147282 3hjcA 444 3.95e+01 1b1bA 140 3.96e+01 1bi0 a.4.5.24 16215 a.76.1.1 18421