# List of top-scoring protein chains for t04-100-30-bys-scores 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 1ihgA 370 3.02e-35 2cpl a.118.8.1,b.62.1.1 62380,62381 1a58 177 3.75e-35 2cpl b.62.1.1 27495 2cpl 165 3.82e-35 2cpl b.62.1.1 27420 1awsA 164 3.98e-35 2cpl b.62.1.1 27431 1awqA 164 5.01e-35 2cpl b.62.1.1 27461 1dywA 173 7.41e-35 2cpl b.62.1.1 27505 2bitX 165 9.09e-35 1yndA 165 9.82e-35 1xo7A 166 2.22e-34 1zcxA 178 2.80e-34 1qoiA 177 4.19e-34 2cpl b.62.1.1 27490 2cfeA 162 5.33e-34 2rmcA 182 9.25e-34 2cpl b.62.1.1 27491 1vdnA 162 1.61e-33 1h0pA 182 2.40e-33 b.62.1.1 76450 2a2nA 176 3.70e-31 1zkcA 197 8.49e-31 2b71A 196 5.91e-30 2fu0A 160 6.83e-30 1xwnA 174 1.21e-29 1v9tA 166 5.54e-27 b.62.1.1 108451 1j2aA 166 8.20e-27 b.62.1.1 90779 1lopA 164 9.42e-27 2cpl b.62.1.1 27510 1zx8A 136 1.10e-01 1qwgA 251 4.49e-01 c.1.27.1 96473 2b8mA 117 7.34e-01 3sil 379 1.45e+00 3sil b.68.1.1 27542 2bf6A 449 1.54e+00 2cy7A 396 2.08e+00 1vr0A 247 2.99e+00 1o04A 500 3.40e+00 c.82.1.1 86508 1mxiA 160 3.83e+00 c.116.1.1 79646 1xhnA 184 3.87e+00 1o26A 232 4.51e+00 d.207.1.1 86566 1dz3A 130 4.94e+00 1dz3A c.23.1.1 31105 1qmpA 130 5.72e+00 1dz3A c.23.1.1 31106 1z5bA 469 6.07e+00 1dqiA 124 6.65e+00 1do6A b.1.13.1 22357 1mu5A 471 7.26e+00 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1lam 484 7.71e+00 1lam c.50.1.1,c.56.5.3 33166,33829 1uwsA 489 7.83e+00 c.1.8.4 108073 1dboA 506 9.19e+00 1dbgA b.80.1.4 28034 1gggA 226 9.66e+00 1lst c.94.1.1 35817 1vyrA 364 1.01e+01 c.1.4.1 108906 1gvoA 364 1.01e+01 c.1.4.1 76357 1k2fA 190 1.04e+01 b.8.1.2 68054 1q2wA 308 1.17e+01 b.47.1.4 88355 1wi1A 126 1.21e+01 1vqvA 306 1.22e+01 2abbA 364 1.22e+01 1oflA 481 1.23e+01 b.80.1.4 103934 2bibA 547 1.24e+01 2bkrB 77 1.26e+01 1gj7B 253 1.33e+01 1g7fA 298 1.35e+01 1pty c.45.1.2 60330 1d7yA 408 1.36e+01 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 2b4wA 315 1.36e+01 1ptvA 321 1.39e+01 1pty c.45.1.2 32665 1vypX 364 1.43e+01 c.1.4.1 108905 2a5kA 307 1.48e+01 1q1oA 98 1.49e+01 d.15.2.2 95596 1lqtA 456 1.51e+01 c.3.1.1,c.4.1.1 74198,74199 2ex4A 241 1.51e+01 1h61A 364 1.52e+01 1oyc c.1.4.1 60657 1pa1A 310 1.64e+01 c.45.1.2 94404 2b0aA 186 1.67e+01 1i6aA 219 1.70e+01 c.94.1.1 61827 2amdA 311 1.70e+01 2azpA 318 1.70e+01 1dbgA 506 1.70e+01 1dbgA b.80.1.4 28033 1svpA 161 1.74e+01 1svpA b.47.1.3 26384 1mdbA 539 1.74e+01 e.23.1.1 79008 1llnA 262 1.82e+01 d.165.1.1 84625 1m6iA 493 1.83e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1xvxA 312 1.89e+01 1nddA 76 1.91e+01 1ubi d.15.1.1 37599 1do6A 124 1.93e+01 1do6A b.1.13.1 22361 1s31A 273 1.98e+01 1u0sY 118 2.05e+01 c.23.1.1 107566 2f71A 298 2.06e+01 1ydxA 406 2.08e+01 1u5uA 374 2.10e+01 2fauA 341 2.12e+01 1tmy 120 2.12e+01 1dbwA c.23.1.1 31083 1u11A 182 2.19e+01 c.23.8.1 107576 1y7pA 223 2.24e+01 2masA 314 2.30e+01 2masA c.70.1.1 34810 1v9sA 208 2.30e+01 1ezwA 349 2.32e+01 1ezwA c.1.16.3 29558 1ojrA 274 2.34e+01 c.74.1.1 93147 1ubi 76 2.35e+01 1ubi d.15.1.1 37584 1x3lA 440 2.36e+01 1thfD 253 2.37e+01 1thfD c.1.2.1 28535 2f9nA 245 2.39e+01 1qwyA 291 2.41e+01 b.84.3.2 96509 1wriA 93 2.42e+01 1ve4A 206 2.45e+01 1icpA 376 2.49e+01 1oyc c.1.4.1 62270 2bsaA 303 2.58e+01 1pfo 500 2.60e+01 1pfo f.9.1.1 43826 1yymG 313 2.64e+01 1a70 97 2.69e+01 1awd d.15.4.1 37678 1pswA 348 2.72e+01 c.87.1.7 88287 2bh9A 489 2.84e+01 2as9A 210 2.93e+01 1ogwA 76 3.01e+01 d.15.1.1 87001 1xxqA 161 3.03e+01 2a46A 238 3.06e+01 1jtdB 273 3.07e+01 b.69.5.2 67265 2fomB 185 3.19e+01 1wvqA 167 3.23e+01 1lvwA 295 3.24e+01 c.68.1.6 84723 2bwfA 77 3.35e+01 1bt0A 76 3.42e+01 1ubi d.15.1.1 37607 1ufbA 127 3.43e+01 a.24.16.3 99331 1s8nA 205 3.48e+01 c.23.1.1 105374 1c5yB 253 3.51e+01 5ptp 1mo9A 523 3.58e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 8prn 289 3.59e+01 3prn f.4.3.1 43767 1o7iA 119 3.63e+01 b.40.4.3 86642 1dl5A 317 3.63e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1wn0A 145 3.66e+01 1uumA 372 3.76e+01 c.1.4.1 100010 1vi2A 300 3.77e+01 c.2.1.7,c.58.1.5 100726,100727 1vfjA 116 3.81e+01 1v1pA 211 3.92e+01 b.40.2.2,d.15.6.1 108268,108269 1kgsA 225 4.03e+01 a.4.6.1,c.23.1.1 68596,68597 1vjvA 415 4.04e+01 d.3.1.9 108632 1a0tP 413 4.04e+01 1a0tP f.4.3.2 43794 1e1oA 504 4.11e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1q5qA 259 4.14e+01 d.153.1.4 95904 1sbzA 197 4.17e+01 1prn 289 4.21e+01 3prn f.4.3.1 43762 1sr4B 261 4.21e+01 d.151.1.1 105949 1xmpA 170 4.22e+01 1vh7A 265 4.27e+01 c.1.2.1 100646 1wisA 124 4.30e+01 1h7sA 365 4.30e+01 d.14.1.3,d.122.1.2 65705,65706 1op4A 159 4.36e+01 b.1.6.1 93397 1zoyA 622 4.47e+01 1ltoA 245 4.52e+01 b.47.1.2 84707 1n40A 396 4.53e+01 a.104.1.1 79977 1yoeA 322 4.54e+01 1jh3A 107 4.58e+01 d.66.1.4 71661 1x9uA 116 4.60e+01 1wf3A 301 4.64e+01 1gotG 73 4.67e+01 1tbgE a.137.3.1 19629 8acn 754 4.68e+01 1amj c.8.2.1,c.83.1.1 30724,35400 1v3rA 116 4.73e+01 1ksiA 642 4.75e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1op0A 234 4.84e+01 b.47.1.2 104019 1pjcA 361 4.84e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1ekgA 127 4.90e+01 1dlxA d.82.2.1 40021 1f4pA 147 4.90e+01 5nul c.23.5.1 59651 1o4vA 183 4.92e+01 c.23.8.1 86628 2bi0A 337 4.93e+01 1t5rA 284 4.99e+01 f.6.1.1 106465 1zpvA 91 5.02e+01 1xe1A 116 5.03e+01 b.43.3.1 109571 1r0wA 286 5.07e+01 c.37.1.12 96754 1qpxA 218 5.12e+01 1qpxA b.1.11.1,b.7.2.1 22318,23200 2b7yA 182 5.12e+01 1q8fA 313 5.21e+01 c.70.1.1 96203 1rypK 198 5.22e+01 d.153.1.4 41879 1go2A 304 5.25e+01 b.43.4.2,c.25.1.1 76243,76244 2bycA 137 5.30e+01 1u1wA 298 5.35e+01 1yo8A 634 5.49e+01 2d42A 249 5.57e+01 1khbA 625 5.58e+01 c.91.1.1,c.109.1.1 68606,68607 1afwA 393 5.60e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 2tpsA 227 5.62e+01 2tpsA c.1.3.1 28591 1elvA 333 5.65e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1c96A 753 5.65e+01 1amj c.8.2.1,c.83.1.1 30727,35403 2a8jA 420 5.66e+01 1vqoD 177 5.75e+01 1xzwA 426 5.75e+01 1gd0A 122 5.79e+01 1dptA d.80.1.3 39834 2cbzA 237 5.83e+01 1l4iA 206 5.84e+01 b.1.11.1,b.7.2.1 73564,73565 1gowA 489 5.88e+01 1qvbA c.1.8.4 28981 2bdrA 175 5.94e+01 1z4xA 532 5.96e+01 1zjcA 418 5.98e+01 1lq9A 112 6.07e+01 d.58.4.3 78129 2aexA 346 6.08e+01 1qcsA 211 6.13e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1uroA 367 6.18e+01 1uroA c.1.22.1 29675 1rtfB 252 6.21e+01 5ptp 1cliA 345 6.24e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1v6sA 390 6.26e+01 c.86.1.1 100424 1awd 94 6.28e+01 1awd d.15.4.1 37673 1que 303 6.29e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1xocA 520 6.37e+01 1r3sA 367 6.45e+01 c.1.22.1 96963 1ni5A 433 6.52e+01 c.26.2.5,d.229.1.1 80533,80534 1o86A 589 6.54e+01 d.92.1.5 81177 1w34A 304 6.58e+01 1uzeA 589 6.59e+01 d.92.1.5 108174 1vclA 432 6.62e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1jmmA 377 6.66e+01 b.30.6.1 71749 1vlaA 150 6.69e+01 d.227.1.2 108735 1a8p 258 6.70e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1w96A 554 6.82e+01 3prn 289 6.87e+01 3prn f.4.3.1 43761 1cjbA 231 6.91e+01 1qk3A c.61.1.1 34079 1mp4A 292 6.91e+01 c.68.1.6 79376 1k87A 669 6.93e+01 a.176.1.1,c.1.23.2 77286,77287 1xubA 298 6.94e+01 1q0eA 152 7.06e+01 b.1.8.1 95504 1lylA 504 7.11e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1b04A 318 7.12e+01 1b04A d.142.2.2 41579 1iatA 557 7.14e+01 1dqrA c.80.1.2 62123 1ntyA 311 7.19e+01 a.87.1.1,b.55.1.1 103873,103874 1c0eA 157 7.23e+01 1dg9A c.44.1.1 32638 1fjgE 162 7.25e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1y4jA 284 7.26e+01 1g8sA 230 7.32e+01 c.66.1.3 90507 1zd9A 188 7.36e+01 1thqA 170 7.36e+01 f.4.1.2 106920 2fbwA 621 7.37e+01 1a8s 273 7.38e+01 1brt c.69.1.12 34710 1dgnA 89 7.41e+01 1dgnA a.77.1.3 18436 1v4vA 376 7.42e+01 c.87.1.3 100313 1jb9A 316 7.42e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1z4vA 532 7.53e+01 2bm5A 186 7.56e+01 1a04A 215 7.58e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1z41A 338 7.60e+01 2bvfA 459 7.60e+01 1tllA 688 7.62e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1z4rA 168 7.69e+01 1tyv 542 7.83e+01 1tyv b.80.1.6 28038 2aqjA 538 7.85e+01 2gclA 261 7.92e+01 1zoiA 276 7.93e+01 1z5hA 780 7.99e+01 1krs 120 8.09e+01 1krs b.40.4.1 25256 1n0lA 224 8.13e+01 b.1.11.1,b.7.2.1 79744,79745 1h5rA 293 8.15e+01 c.68.1.6 65623 4dpvZ 584 8.15e+01 2cas b.121.5.2 23377 2kfnA 605 8.19e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 1t6kA 278 8.31e+01 2btoA 473 8.32e+01 1b1cA 181 8.37e+01 1amoA c.23.5.2 31212 1lurA 339 8.43e+01 b.30.5.4 84717 1evxA 162 8.43e+01 1a73A d.4.1.3 37149 1k68A 140 8.47e+01 c.23.1.1 90943 1wnfA 328 8.48e+01 2b49A 287 8.52e+01 1rx0A 393 8.62e+01 a.29.3.1,e.6.1.1 98007,98008 2cunA 410 8.63e+01 1zs9A 261 8.66e+01 1fjgC 239 8.86e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 1fxoA 293 8.90e+01 1g0rA c.68.1.6 34524 1r64A 481 8.95e+01 b.18.1.20,c.41.1.1 97140,97141