# List of top-scoring protein chains for t2k-100-30-dssp_ehl2 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 1rboC 123 1.47e-01 1rboC d.73.1.1 39634 8rucI 123 1.47e-01 1rboC d.73.1.1 39629 1clqA 903 1.71e-01 1clqA c.55.3.5 33717 e.8.1.1 43006 3rubS 123 2.70e-01 1rboC d.73.1.1 39616 1b3jA 274 3.00e-01 1agdA b.1.1.2 20855 d.19.1.1 38319 1agdA 276 4.00e-01 1agdA b.1.1.2 20741 d.19.1.1 38260 1gcyA 527 7.88e-01 1jdc b.71.1.1 27788 c.1.8.1 28775 1bouB 302 1.25e+00 1bouB c.56.6.1 33859 1yasA 257 1.80e+00 1qj4A c.69.1.20 34801 1qj4A 257 1.85e+00 1qj4A c.69.1.20 34796 1a2vA 655 1.88e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1jdc 429 2.09e+00 1jdc b.71.1.1 27789 c.1.8.1 28776 1fsz 372 2.48e+00 1fsz c.32.1.1 31750 d.79.2.1 39802 2ucz 165 2.79e+00 1u9aA d.20.1.1 38330 2btvA 901 2.88e+00 2btvA e.28.1.1 43376 1ig8A 486 3.09e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 1u9aA 160 3.33e+00 1u9aA d.20.1.1 38333 1p35A 299 3.52e+00 1p35A b.28.1.1 23925 1fzkA 274 3.59e+00 1agdA b.1.1.2 60149 d.19.1.1 60150 1gjwA 637 4.25e+00 b.71.1.1 60582 c.1.8.1 60583 1gjuA 637 4.51e+00 b.71.1.1 60580 c.1.8.1 60581 1fzoA 274 5.14e+00 1agdA b.1.1.2 60155 d.19.1.1 60156 1g7pA 274 5.60e+00 1hfc 169 6.44e+00 1hfc d.92.1.11 40335 1i4fA 275 6.91e+00 1agdA b.1.1.2 61687 d.19.1.1 61688 1d5mC 239 6.94e+00 3seb b.40.2.2 25185 d.15.6.1 37774 1duzA 275 7.20e+00 1agdA b.1.1.2 20670 d.19.1.1 38224 1kanA 253 7.21e+00 1knyA e.9.1.3 43234 1e3mA 800 7.64e+00 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 1jq3A 296 8.10e+00 c.66.1.17 67079 1e2o 233 9.17e+00 1eaf c.43.1.1 32631 1boy 219 9.64e+00 1boy b.1.2.1 21955 b.1.2.1 21956 1fm0E 150 9.78e+00 1fmaE d.41.5.1 38629 5fbpA 335 9.94e+00 1frpA e.7.1.1 42873 1b77A 228 1.00e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 1fmaE 150 1.01e+01 1fmaE d.41.5.1 38630 1frpA 335 1.04e+01 1frpA e.7.1.1 42875 1tiiD 99 1.12e+01 1tiiD b.40.2.1 24965 1dcjA 81 1.17e+01 1dcjA d.68.3.1 59115 1bupA 386 1.22e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1fpkA 335 1.23e+01 1frpA e.7.1.1 42930 1inlA 296 1.23e+01 c.66.1.17 66220 1repC 251 1.28e+01 1repC a.4.5.10 16125 a.4.5.10 16126 1eylA 186 1.29e+01 1wba b.42.4.1 25593 2bidA 197 1.31e+01 2bidA f.1.4.1 43398 2scuA 288 1.36e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1apyB 141 1.36e+01 1apyB 1czaN 917 1.47e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1jbbA 153 1.53e+01 1u9aA d.20.1.1 62842 1g8iA 190 1.58e+01 1rec a.39.1.5 60363 1kay 381 1.63e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1ef8A 261 1.72e+01 1ef8A c.14.1.3 30921 1dgkN 917 1.76e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1rypA 243 1.76e+01 1pmaA d.153.1.4 41932 1d06A 130 1.77e+01 1drmA d.110.3.2 40906 1ba1 386 1.80e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1hkbA 917 1.81e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1qcsA 211 1.83e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 2hft 218 1.84e+01 1boy b.1.2.1 21951 b.1.2.1 21952 1dqsA 393 1.85e+01 1dqsA e.22.1.1 43347 1jatA 155 1.93e+01 1u9aA d.20.1.1 62818 3seb 238 1.96e+01 3seb b.40.2.2 25184 d.15.6.1 37773 2ts1 419 1.99e+01 2ts1 c.26.1.1 31564 1dkxA 219 2.04e+01 1dkzA e.20.1.1 43315 1f2tB 148 2.06e+01 1f2tB 1lplA 95 2.12e+01 1rdzA 337 2.15e+01 1frpA e.7.1.1 42882 1ew0A 130 2.15e+01 1drmA d.110.3.2 40905 1rec 201 2.17e+01 1rec a.39.1.5 17326 1qsmA 152 2.28e+01 1qsmA d.108.1.1 40808 1fx3B 169 2.37e+01 1fx3B d.33.1.1 38525 1yghA 164 2.43e+01 1yghA d.108.1.1 40802 1drmA 131 2.59e+01 1drmA d.110.3.2 40908 1jvnA 555 2.66e+01 c.1.2.1 67355 c.23.16.1 67356 1kyoA 430 2.69e+01 1g5yA 238 2.71e+01 1lbd a.123.1.1 60294 1lbd 282 2.77e+01 1lbd a.123.1.1 19279 1hkcA 917 2.90e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1d2kA 392 2.94e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1dkzA 219 2.96e+01 1dkzA e.20.1.1 43314 1scuA 288 2.98e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1idsA 207 3.01e+01 1avmA a.2.11.1 15722 d.44.1.1 38730 1mwpA 96 3.17e+01 1mwpA d.170.2.1 42453 1io7A 368 3.18e+01 1f4tA a.104.1.1 18971 1rlw 126 3.22e+01 1rlw b.7.1.1 23177 1he1A 135 3.25e+01 1he1A a.24.11.1 16641 1bn8A 420 3.28e+01 1pcl b.80.1.1 28022 1fwcA 100 3.42e+01 1ubpA d.8.1.1 37331 2kauA 100 3.42e+01 1ubpA d.8.1.1 37335 1qmuA 380 3.44e+01 1qmuA b.3.2.1 22534 c.56.5.1 33827 1gk8I 140 3.47e+01 d.73.1.1 65242 1cf1A 404 3.48e+01 1cf1A b.1.1.5 21907 b.1.1.5 21908 1cqxA 403 3.53e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1irxA 523 3.54e+01 1eo6A 117 3.61e+01 1eo6A d.15.1.3 37609 1azu 128 3.68e+01 1nwpA b.6.1.1 23007 2dpmA 284 3.70e+01 2dpmA c.66.1.10 34246 1go4A 205 3.87e+01 1b37B 472 3.98e+01 1b37B c.3.1.2 30390 d.16.1.5 37954