# 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 1b3jA 274 5.92e-02 1agdA b.1.1.2 20855 d.19.1.1 38319 1clqA 903 2.84e-01 1clqA c.55.3.5 33717 e.8.1.1 43006 8rucI 123 3.39e-01 1rboC d.73.1.1 39629 1rboC 123 4.18e-01 1rboC d.73.1.1 39634 1agdA 276 6.39e-01 1agdA b.1.1.2 20741 d.19.1.1 38260 1fzoA 274 8.30e-01 1agdA b.1.1.2 60155 d.19.1.1 60156 3rubS 123 8.94e-01 1rboC d.73.1.1 39616 1yasA 257 9.34e-01 1qj4A c.69.1.20 34801 1fzkA 274 1.18e+00 1agdA b.1.1.2 60149 d.19.1.1 60150 1duzA 275 1.35e+00 1agdA b.1.1.2 20670 d.19.1.1 38224 1fsz 372 1.40e+00 1fsz c.32.1.1 31750 d.79.2.1 39802 1go4A 205 1.54e+00 1qj4A 257 1.59e+00 1qj4A c.69.1.20 34796 1g7pA 274 1.60e+00 1repC 251 2.10e+00 1repC a.4.5.10 16125 a.4.5.10 16126 1gcyA 527 2.50e+00 1jdc b.71.1.1 27788 c.1.8.1 28775 1u9aA 160 2.78e+00 1u9aA d.20.1.1 38333 1dgkN 917 3.36e+00 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1czaN 917 3.40e+00 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 2ucz 165 3.64e+00 1u9aA d.20.1.1 38330 1apyB 141 3.88e+00 1apyB 1i88A 389 4.00e+00 c.95.1.2 66070 c.95.1.2 66071 1ig8A 486 4.03e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 1dqsA 393 4.84e+00 1dqsA e.22.1.1 43347 1hkcA 917 4.86e+00 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1h6zA 913 5.28e+00 1i86A 389 5.43e+00 c.95.1.2 66068 c.95.1.2 66069 1bi5A 389 6.30e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1jq3A 296 6.59e+00 c.66.1.17 67079 1p35A 299 6.66e+00 1p35A b.28.1.1 23925 1inlA 296 6.71e+00 c.66.1.17 66220 1jdc 429 6.79e+00 1jdc b.71.1.1 27789 c.1.8.1 28776 1drqA 131 7.23e+00 1drmA d.110.3.2 40910 1gjwA 637 7.70e+00 b.71.1.1 60582 c.1.8.1 60583 1gk8I 140 7.78e+00 d.73.1.1 65242 1eylA 186 7.79e+00 1wba b.42.4.1 25593 1gjuA 637 8.09e+00 b.71.1.1 60580 c.1.8.1 60581 1spuB 727 8.42e+00 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 1hkbA 917 8.97e+00 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1a2vA 655 9.44e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1i4fA 275 9.75e+00 1agdA b.1.1.2 61687 d.19.1.1 61688 1drmA 131 1.01e+01 1drmA d.110.3.2 40908 1jbbA 153 1.03e+01 1u9aA d.20.1.1 62842 1kyoA 430 1.04e+01 1f2tB 148 1.08e+01 1f2tB 1jrrA 382 1.21e+01 e.1.1.1 63256 1eo6A 117 1.25e+01 1eo6A d.15.1.3 37609 1g6oA 330 1.30e+01 1g6oA c.37.1.13 32430 1jatA 155 1.31e+01 1u9aA d.20.1.1 62818 1bouB 302 1.33e+01 1bouB c.56.6.1 33859 1hsbA 270 1.33e+01 1agdA b.1.1.2 20736 d.19.1.1 38257 1fx3B 169 1.35e+01 1fx3B d.33.1.1 38525 1g5yA 238 1.42e+01 1lbd a.123.1.1 60294 2btvA 901 1.55e+01 2btvA e.28.1.1 43376 1d06A 130 1.65e+01 1drmA d.110.3.2 40906 1etpA 190 1.68e+01 1etpA a.3.1.4 15962 a.3.1.4 15963 3seb 238 1.69e+01 3seb b.40.2.2 25184 d.15.6.1 37773 1ezvA 430 1.76e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 2ts1 419 1.87e+01 2ts1 c.26.1.1 31564 1d5mC 239 1.97e+01 3seb b.40.2.2 25185 d.15.6.1 37774 1rec 201 2.03e+01 1rec a.39.1.5 17326 1b77A 228 2.07e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 1ji8A 111 2.07e+01 d.203.1.1 66733 1idsA 207 2.13e+01 1avmA a.2.11.1 15722 d.44.1.1 38730 1yghA 164 2.14e+01 1yghA d.108.1.1 40802 1ac5 483 2.14e+01 1ac5 c.69.1.5 34653 1tiiD 99 2.32e+01 1tiiD b.40.2.1 24965 1d7kA 421 2.38e+01 7odcA b.49.2.1 26486 c.1.6.1 28648 1bmv1 198 2.44e+01 1bmv1 1f4tA 368 2.51e+01 1f4tA a.104.1.1 18973 1oacA 727 2.53e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1qf6A 642 2.58e+01 1qf6A c.51.1.1 33210 d.66.1.1 39551 d.67.1.1 39562 d.104.1.1 40759 1jv2A 957 2.67e+01 b.1.15.1 67334 b.1.15.1 67335 b.1.15.1 67336 b.69.8.1 67337 1d6zA 727 2.73e+01 1oacA b.30.2.1 24394 d.17.2.1 38015 d.17.2.1 38016 d.82.1.1 40007 1qhaA 917 2.75e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1dik 874 2.81e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1k4vA 289 2.82e+01 1g2qA 187 2.90e+01 c.61.1.1 65117 1dcjA 81 2.95e+01 1dcjA d.68.3.1 59115 1rlw 126 2.97e+01 1rlw b.7.1.1 23177 1gnuA 117 2.98e+01 d.15.1.3 65403 1rdzA 337 2.99e+01 1frpA e.7.1.1 42882 5fbpA 335 2.99e+01 1frpA e.7.1.1 42873 1gkxA 388 3.05e+01 a.29.5.1 65266 d.122.1.4 65267 1gkzA 388 3.13e+01 a.29.5.1 65268 d.122.1.4 65269 1fpkA 335 3.24e+01 1frpA e.7.1.1 42930 3fruA 269 3.27e+01 1agdA b.1.1.2 20657 d.19.1.1 38150 1g8oA 310 3.28e+01 1g8oA c.68.1.9 60375 1hr6B 443 3.36e+01 1be3A d.185.1.1 61166 d.185.1.1 61167 1pprM 312 3.38e+01 1pprM a.131.1.1 19502 a.131.1.1 19503 1gof 639 3.42e+01 1gof b.1.1.5 21807 b.18.1.1 23709 b.69.1.1 27631 2scuA 288 3.45e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1goh 639 3.47e+01 1gof b.1.1.5 21809 b.18.1.1 23711 b.69.1.1 27633 1e2o 233 3.49e+01 1eaf c.43.1.1 32631 1h6rA 236 3.56e+01 d.22.1.1 65683 1io7A 368 3.57e+01 1f4tA a.104.1.1 18971 4rhv3 236 3.59e+01 1aym3 1ef8A 261 3.59e+01 1ef8A c.14.1.3 30921 1he1A 135 3.60e+01 1he1A a.24.11.1 16641 2ahjC 206 3.67e+01 2ahjA d.149.1.1 41773 7odcA 424 3.75e+01 7odcA b.49.2.1 26488 c.1.6.1 28650 1k3iA 656 3.77e+01 b.1.1.5 68113 b.18.1.1 68114 b.69.1.1 68115 1lplA 95 3.80e+01 1knyA 253 3.86e+01 1knyA e.9.1.3 43232 1scuA 288 3.94e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1g8iA 190 3.95e+01 1rec a.39.1.5 60363 1fjgM 126 3.99e+01 1fjfM a.5.5.1 16293