# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1tljA 213 1.84e-27 1eqfA 280 1.99e-01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1bjoA 360 5.99e-01 1bjnA c.67.1.4 34471 1t7pA 698 6.57e-01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1bjnA 360 1.13e+00 1bjnA c.67.1.4 34469 1v7oA 165 1.36e+00 unknown_sccs -10249 1om4A 422 1.49e+00 d.174.1.1 87067 1fdyA 297 1.76e+00 1nal3 c.1.10.1 29071 1hl2A 297 1.83e+00 c.1.10.1 83581 1f7uA 607 2.01e+00 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1nal3 297 2.33e+00 1nal3 1r1dA 247 2.90e+00 unknown_sccs -8335 1uouA 474 3.22e+00 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 1brwA 433 3.26e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1qvbA 481 3.73e+00 1qvbA c.1.8.4 28983 1nal1 297 3.77e+00 1nal3 1r7aA 504 3.91e+00 b.71.1.1 -4664 c.1.8.1 -5283 1ipiA 123 4.29e+00 c.52.1.18 66255 1k5nA 276 4.52e+00 b.1.1.2 77266 d.19.1.1 77267 2oatA 439 4.74e+00 2dkb c.67.1.4 34452 1l92 164 5.59e+00 1l92 d.2.1.3 36629 1p36A 164 5.74e+00 d.2.1.3 -8840 1lw9A 164 6.35e+00 d.2.1.3 84727 1euaA 213 6.47e+00 1fwrA c.1.10.1 29155 1bgp 309 6.48e+00 1bgp a.93.1.1 18690 2napA 723 6.69e+00 2napA b.52.2.2 26926 c.81.1.1 35334 1gefA 123 6.80e+00 1gefA c.52.1.18 60465 1l58 164 6.81e+00 1l92 d.2.1.3 36635 119l 164 7.75e+00 1l92 d.2.1.3 36622 1a53 247 7.85e+00 1a53 c.1.2.4 28564 1uwsA 489 8.54e+00 1b4uB 302 8.92e+00 1bouB c.56.6.1 33861 1fq0A 213 8.97e+00 1fwrA c.1.10.1 29161 1fwrA 213 8.99e+00 1fwrA c.1.10.1 29164 1rtm1 149 9.07e+00 1rtm1 1juk 248 9.28e+00 1a53 c.1.2.4 28567 1igs 248 9.53e+00 1a53 c.1.2.4 28565 1afb1 154 9.87e+00 1rtm1 1gudA 288 1.01e+01 c.93.1.1 83326 1bouB 302 1.03e+01 1bouB c.56.6.1 33859 1rj9A 304 1.03e+01 a.24.13.1 -631 c.37.1.10 -7129 1r3nA 462 1.03e+01 c.56.5.4 -7872 d.58.19.1 -10096 1oatA 439 1.06e+01 2dkb c.67.1.4 34461 1j09A 468 1.07e+01 a.97.1.1 77025 c.26.1.1 77026 1g59A 468 1.08e+01 a.97.1.1 60257 c.26.1.1 60258 1dro 122 1.11e+01 1btn b.55.1.1 26954 1zymA 258 1.13e+01 1zymA a.60.10.1 18110 c.8.1.2 30705 1ae1A 273 1.14e+01 1bdb c.2.1.2 29943 1agjA 242 1.17e+01 1agjA b.47.1.1 25827 1a04A 215 1.21e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1b4bA 71 1.29e+01 1b4aA d.74.2.1 39718 1khdA 345 1.33e+01 a.46.2.1 77400 c.27.1.1 77401 1pbtA 244 1.36e+01 unknown_sccs -6866 4icb 76 1.42e+01 4icb a.39.1.1 17145 1b4aA 149 1.43e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1cp2A 269 1.43e+01 1cp2A c.37.1.10 32269 1tsg 98 1.46e+01 1tsg 1pot 325 1.50e+01 1pot c.94.1.1 35807 1ebuA 358 1.53e+01 1ebuA c.2.1.3 30035 d.81.1.2 39950 1p1mA 406 1.58e+01 b.92.1.4 87696 c.1.9.9 87697 1evhA 112 1.61e+01 1evhA b.55.1.4 26997 1um0A 365 1.62e+01 1ebfA 358 1.66e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1f6kA 293 1.70e+01 1nal3 c.1.10.1 29081 1vhh 162 1.72e+01 1vhh d.65.1.2 39550 1nfiE 215 1.73e+01 1iknD d.211.1.1 19172 1l5xA 280 1.77e+01 c.106.1.1 77718 1o9wA 177 1.77e+01 b.2.3.5 86713 1vc4A 254 1.78e+01 c.1.2.4 -5172 1cr1A 296 1.82e+01 1cr1A c.37.1.11 32286 1hh1A 143 1.89e+01 1gefA c.52.1.18 61036 1bncA 449 1.93e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1buuA 168 1.93e+01 1rtm1 d.169.1.1 42366 h.1.1.1 45388 1bncB 449 1.94e+01 1bncA b.84.2.1 28237 c.30.1.1 31644 d.142.1.2 41489 1qcxA 359 2.01e+01 1qcxA b.80.1.2 28028 1jipA 403 2.06e+01 a.104.1.1 66748 1f74A 293 2.09e+01 1nal3 c.1.10.1 29079 1hv8A 367 2.11e+01 1hv8A c.37.1.19 32405 c.37.1.19 32406 1urfA 81 2.11e+01 a.2.6.1 -105 1j6pA 418 2.14e+01 b.92.1.4 77089 c.1.9.9 77090 1o1zA 234 2.15e+01 c.1.18.3 86555 1idk 359 2.16e+01 1qcxA b.80.1.2 28025 1lnsA 763 2.21e+01 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1r9wA 145 2.21e+01 d.89.1.2 -10511 1e6iA 121 2.23e+01 1b91A a.29.2.1 16969 1gln 468 2.27e+01 1gln a.97.1.1 18752 c.26.1.1 31588 1fs7A 485 2.32e+01 1qdbA a.138.1.3 19691 1r5iD 216 2.40e+01 unknown_sccs -1272 1gio 125 2.44e+01 7rsa d.5.1.1 37304 1e5eA 404 2.47e+01 1ibjA c.67.1.3 59265 1vjoA 393 2.47e+01 c.67.1.3 -8173 1d0cA 444 2.50e+01 d.174.1.1 64769 1dv1A 449 2.54e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1al0F 426 2.55e+01 2bpa1 b.121.5.1 23274 1v74A 107 2.65e+01 unknown_sccs -9319 1r9gA 216 2.68e+01 c.23.16.1 -6504 1fjgJ 105 2.71e+01 1fjfJ d.58.15.1 39330 1gxyA 226 2.72e+01 d.166.1.3 76380 1e7uA 961 2.83e+01 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1ed5A 444 2.84e+01 1nseA d.174.1.1 42530 1h6pA 203 2.86e+01 a.146.1.1 60690 3icb 75 2.87e+01 4icb a.39.1.1 17147 1fw1A 216 2.98e+01 a.45.1.1 60051 c.47.1.5 60052 1nseA 444 2.99e+01 1nseA d.174.1.1 42534 5nseA 444 3.00e+01 d.174.1.1 74644 1m6yA 301 3.11e+01 a.60.13.1 78716 c.66.1.23 78717 1ik9A 213 3.13e+01 b.59.1.1 66176 h.1.11.1 66177 1j6oA 268 3.16e+01 c.1.9.12 77088 1sz9A 144 3.23e+01 1d1vA 444 3.26e+01 1nseA d.174.1.1 59101 1mg2D 155 3.26e+01 a.3.1.1 79062 1h2xA 710 3.28e+01 b.69.7.1 76598 c.69.1.4 76599 1qq8A 214 3.31e+01 1qq8A 1n45A 233 3.32e+01 a.132.1.1 79981 2fsp 124 3.44e+01 1dz3A c.23.1.1 31119 2bpa1 426 3.44e+01 2bpa1 1gvfA 286 3.47e+01 c.1.10.2 70599 1hl6A 165 3.49e+01 d.58.7.1 83609 1gntA 553 3.51e+01 e.26.1.1 70290 1gox 370 3.53e+01 1gox c.1.4.1 28607 1rljA 139 3.58e+01 1ftrA 296 3.58e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1s4nA 348 3.62e+01 unknown_sccs -8262 1mwxA 646 3.65e+01 d.17.4.5 79610 d.175.1.1 79611 e.3.1.1 79612 1imuA 107 3.68e+01 d.204.1.1 66218 1pujA 282 3.80e+01 c.37.1.8 88294 1mwsA 646 3.87e+01 d.17.4.5 79592 d.175.1.1 79593 e.3.1.1 79594 1iknD 236 3.88e+01 1iknD d.211.1.1 19171 1dhr 241 3.97e+01 1dhr c.2.1.2 29832