# 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 1dbuA 158 1.08e-26 1dbuA d.116.1.1 40930 1dbxA 158 1.20e-26 1dbuA d.116.1.1 40928 1vkiA 181 9.05e-17 1vjfA 180 7.31e-16 d.116.1.1 -10941 1izcA 339 2.53e-02 c.1.12.5 83838 2phh 394 5.42e-01 1pbe c.3.1.2 30353 d.16.1.2 37884 1cp3A 277 6.09e-01 1pauA c.17.1.1 30992 1k0iA 394 6.10e-01 c.3.1.2 67942 d.16.1.2 67943 1pyoA 167 8.47e-01 c.17.1.1 -7932 1cj3A 392 8.67e-01 1pbe c.3.1.2 30347 d.16.1.2 37878 1pbe 394 9.69e-01 1pbe c.3.1.2 30338 d.16.1.2 37869 1dleA 298 9.77e-01 1dleA b.47.1.2 26312 3grx 82 1.16e+00 1aba c.47.1.1 32769 1o4vA 183 1.39e+00 c.23.8.1 86628 1af7 274 1.43e+00 1af7 a.58.1.1 17928 c.66.1.8 34203 1nmeA 146 1.44e+00 c.17.1.1 85874 1bgj 394 1.58e+00 1pbe c.3.1.2 30352 d.16.1.2 37883 1k0dA 260 1.58e+00 a.45.1.1 67930 c.47.1.5 67931 1n97A 389 1.77e+00 a.104.1.1 80335 1j0fA 100 1.85e+00 unknown_sccs -7483 1o2dA 371 2.16e+00 e.22.1.2 86591 1gv4A 528 2.20e+00 c.3.1.5 70589 c.3.1.5 70590 d.87.1.1 70591 1qahA 136 2.29e+00 d.79.1.1 -10377 1oniA 137 2.34e+00 d.79.1.1 87144 1dc1A 323 2.40e+00 1dc1A c.52.1.11 33321 3eipA 84 2.47e+00 3eipA d.26.2.1 38434 2sas 185 2.58e+00 2sas a.39.1.5 17258 1t1vA 93 2.60e+00 1pauA 147 2.94e+00 1pauA c.17.1.1 30994 1nv8A 284 3.00e+00 c.66.1.30 86224 1d7kA 421 3.08e+00 7odcA b.49.2.3 26486 c.1.6.1 28648 1bc5A 269 3.25e+00 1af7 a.58.1.1 17929 c.66.1.8 34204 1wdnA 226 3.51e+00 1lst c.94.1.1 35816 1qq2A 199 3.58e+00 1qq2A c.47.1.10 33064 1e44A 85 3.90e+00 3eipA d.26.2.1 59219 1nrjA 158 4.02e+00 d.110.4.4 86124 1j5rA 371 4.02e+00 2fsp 124 4.74e+00 1dz3A c.23.1.1 31119 1l7mA 211 4.96e+00 c.108.1.4 73664 1o5oA 221 5.00e+00 c.61.1.1 -7954 1delA 241 5.12e+00 1dekA c.37.1.1 31844 3sxlA 184 5.31e+00 1b7fA d.58.7.1 39173 d.58.7.1 39174 1fs7A 485 5.33e+00 1qdbA a.138.1.3 19691 1aba 87 5.52e+00 1aba c.47.1.1 32760 1dekA 241 5.63e+00 1dekA c.37.1.1 31842 1cjsA 219 5.73e+00 1cjsA e.24.1.1 43354 1i2aA 219 5.79e+00 e.24.1.1 -12012 1d2mA 665 6.01e+00 1d2mA c.37.1.19 32417 c.37.1.19 32418 1ahxA 396 6.04e+00 1ajsA c.67.1.1 34293 1mzeA 351 6.18e+00 b.82.2.6 79694 1q5yA 85 6.18e+00 unknown_sccs -10081 1brlB 324 6.33e+00 1lucA c.1.16.1 29554 1gudA 288 6.42e+00 c.93.1.1 83326 1ars 396 6.43e+00 1ajsA c.67.1.1 34287 1lucB 324 6.55e+00 1lucA c.1.16.1 29548 1aw9 216 6.62e+00 1gnwA a.45.1.1 17736 c.47.1.5 33030 1qisA 396 6.82e+00 1ajsA c.67.1.1 34284 1art 396 6.94e+00 1ajsA c.67.1.1 34285 1qu9A 128 7.02e+00 1qu9A d.79.1.1 39755 1qu9C 128 7.02e+00 1qu9A d.79.1.1 39757 1bh5A 183 7.21e+00 1qipA d.32.1.1 38476 1e1xA 299 7.33e+00 1hcl d.144.1.7 59157 1f5sA 211 7.40e+00 1f5sA c.108.1.4 59656 1j97A 211 7.40e+00 1f5sA c.108.1.4 62753 1np6A 174 7.42e+00 c.37.1.10 85954 1gz8A 299 7.78e+00 d.144.1.7 83405 1qqjA 419 7.90e+00 1qcnA b.34.8.1 59034 d.177.1.1 59035 1st9A 143 8.10e+00 c.47.1.10 -7503 1e8oB 106 8.35e+00 1914 d.49.1.1 38775 1jslA 327 8.41e+00 c.88.1.1 67233 1jsrA 327 8.45e+00 c.88.1.1 67237 1sh0A 510 8.61e+00 e.8.1.4 -11949 1lufA 343 9.01e+00 d.144.1.7 78223 1regX 122 9.12e+00 1regX d.58.27.1 39406 1q7hA 153 9.21e+00 b.122.1.1 -5124 unknown_sccs -9313 1qmvA 197 9.43e+00 1qq2A c.47.1.10 33066 1p57B 255 9.53e+00 b.47.1.2 -4248 1b7fA 168 9.71e+00 1b7fA d.58.7.1 39169 d.58.7.1 39170 1fxlA 167 9.75e+00 1b7fA d.58.7.1 39183 d.58.7.1 39184 1gggB 226 9.77e+00 1lst c.94.1.1 35818 1m2bA 110 9.80e+00 c.47.1.11 78474 1f89A 291 9.95e+00 d.160.1.1 64988 1t3uA 104 1.03e+01 unknown_sccs -9325 1a8rA 221 1.03e+01 1a8rA d.96.1.1 40587 1dv2A 452 1.04e+01 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1jvpP 298 1.07e+01 d.144.1.7 67371 1of5B 184 1.08e+01 d.17.4.2 86934 1c4oA 664 1.08e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1hcl 298 1.09e+01 1hcl d.144.1.7 41593 1qipA 183 1.10e+01 1qipA d.32.1.1 38470 1nnlA 225 1.11e+01 c.108.1.4 85906 1auk 489 1.12e+01 1auk c.76.1.2 35030 1914 232 1.12e+01 1914 d.49.1.1 83028 d.49.1.1 83029 1uthA 315 1.12e+01 7odcA 424 1.13e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1ih7A 903 1.13e+01 1clqA c.55.3.5 62375 e.8.1.1 62376 1ljrA 244 1.14e+01 1ljrA a.45.1.1 17707 c.47.1.5 33001 1j08A 226 1.16e+01 c.47.1.2 83855 c.47.1.2 83856 1g6wA 261 1.22e+01 1hqoA a.45.1.1 17751 c.47.1.5 33045 1gq2A 555 1.28e+01 c.2.1.7 70308 c.58.1.3 70309 1dkuA 317 1.32e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1tljA 213 1.33e+01 1a8y 367 1.37e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1kt9A 138 1.39e+01 d.113.1.1 72959 1b3qA 379 1.39e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1spa 396 1.42e+01 1ajsA c.67.1.1 34291 1rpuA 172 1.44e+01 unknown_sccs -10738 1h2kA 349 1.45e+01 b.82.2.6 76572 1booA 323 1.50e+01 1booA c.66.1.11 34248 1dhy 292 1.50e+01 1han d.32.1.3 38504 d.32.1.3 38505 1l2lA 457 1.51e+01 c.72.1.3 77656 1jc4A 148 1.53e+01 1jc4A d.32.1.4 62863 1bak 119 1.63e+01 1bak b.55.1.1 26973 1srrA 124 1.64e+01 1dz3A c.23.1.1 31110 1o7jA 327 1.73e+01 c.88.1.1 81140 1cfb 205 1.74e+01 1cfb b.1.2.1 21991 b.1.2.1 21992 1m2aA 110 1.76e+01 c.47.1.11 78472 1bif 469 1.76e+01 1bif c.37.1.7 31961 c.60.1.4 34003 1dkrA 317 1.79e+01 1dkuA c.61.1.2 34114 c.61.1.2 34115 1rktA 205 1.84e+01 a.4.1.9 -210 a.121.1.1 -1663 1to6A 371 1.85e+01 1rpjA 288 1.85e+01 2dri c.93.1.1 35656 1jykA 254 1.87e+01 c.68.1.13 67458 1b72B 87 1.89e+01 1akhA a.4.1.1 16001 1pytA 94 1.92e+01 1pytA d.58.3.1 39064 1ibsA 317 1.93e+01 c.61.1.2 66107 c.61.1.2 66108 1i5pA 633 1.93e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1ckv 141 1.97e+01 1ckv d.137.1.1 41452 1vkfA 188 1.99e+01 1k0sA 151 2.07e+01 b.40.7.1 67969 1i58A 189 2.08e+01 1b3qA d.122.1.3 61773 1kqwA 134 2.09e+01 b.60.1.2 72887 1kw3B 292 2.14e+01 d.32.1.3 77549 d.32.1.3 77550 1gdgA 293 2.17e+01 1eikA 77 2.19e+01 1eikA d.78.1.1 39751 1ng4A 390 2.21e+01 c.3.1.2 85666 d.16.1.3 85667 1j3wA 163 2.21e+01 unknown_sccs -10870 4pgaA 337 2.26e+01 4pgaA c.88.1.1 35565 1g33A 73 2.29e+01 a.39.1.4 65121 1ako 268 2.33e+01 1ako d.151.1.1 41779 1ixh 321 2.35e+01 1ixh c.94.1.1 35761 1pufB 73 2.42e+01 a.4.1.1 -192 1hqoA 258 2.43e+01 1hqoA a.45.1.1 17749 c.47.1.5 33043 1omwA 689 2.49e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1oacA 727 2.51e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1d6zA 727 2.53e+01 1oacA b.30.2.1 24394 d.17.2.1 38015 d.17.2.1 38016 d.82.1.1 40007 1vicA 262 2.54e+01 c.68.1.13 -8252 2bifA 469 2.59e+01 1bif c.37.1.7 31963 c.60.1.4 34009 1axdA 209 2.71e+01 1gnwA a.45.1.1 17730 c.47.1.5 33024 3bifA 468 2.72e+01 1bif c.37.1.7 31962 c.60.1.4 34008 1qfoC 119 2.81e+01 1qfoA b.1.1.1 19710 1dq3A 454 2.81e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1qczA 169 2.84e+01 1qczA c.23.8.1 31276 1q44A 326 2.84e+01 c.37.1.5 -7037 1cbn 46 2.84e+01 1cbn g.13.1.1 44619 1ccm 46 2.84e+01 1cbn g.13.1.1 44623 1ejgA 46 2.84e+01 1cbn g.13.1.1 44618 1fw9A 164 2.85e+01 1fw9A d.190.1.1 60059 1du6A 64 2.87e+01 1akhA a.4.1.1 16002 5pal 109 2.89e+01 1a75A a.39.1.4 17215 1h2vZ 156 2.91e+01 d.58.7.1 76595 1vjrA 271 2.94e+01 unknown_sccs -6853 1spuB 727 2.94e+01 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 1n9eA 787 2.95e+01 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1pymA 295 2.95e+01 1pymA c.1.12.7 29308 1cv2A 296 2.96e+01 1bn6A c.69.1.8 34680 1h75A 81 2.96e+01 1h75A c.47.1.1 60716 1iz7A 295 2.97e+01 c.69.1.8 76982 1jqzA 146 3.00e+01 b.42.1.1 67109 1jg8A 347 3.06e+01 1jg8A c.67.1.1 62946 1m6sA 347 3.07e+01 c.67.1.1 78701 1uhgA 385 3.12e+01 e.1.1.1 88491 1vjgA 218 3.13e+01 unknown_sccs -6447 1vgyA 393 3.15e+01 c.56.5.4 -7882 d.58.19.1 -10106 1p63A 144 3.18e+01 b.42.1.1 -4002 2aop 497 3.22e+01 2aop d.58.36.1 39503 d.58.36.1 39504 d.134.1.1 41427 d.134.1.1 41428 1lkcA 364 3.23e+01 c.67.1.1 73978 1ncx 162 3.25e+01 1ncx a.39.1.5 17222 1top 162 3.25e+01 1ncx a.39.1.5 17223 1k6zA 141 3.32e+01 d.198.1.1 68247 1id1A 153 3.33e+01 1id1A c.2.1.9 62286 1ovaA 386 3.33e+01 1ovaA e.1.1.1 42619 1h6kZ 98 3.37e+01 d.58.7.1 60686 1kngA 156 3.38e+01 c.47.1.10 72777 1ijgA 309 3.40e+01 1fouA e.27.1.1 62493 1kkhA 317 3.47e+01 d.14.1.5 72645 d.58.26.3 72646 1l1qA 186 3.51e+01 c.61.1.1 77653 1nstA 325 3.55e+01 1nstA c.37.1.5 31951 1crn 46 3.57e+01 1cbn g.13.1.1 44622 1aop 497 3.59e+01 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1jqeA 292 3.64e+01 c.66.1.19 71789 1clqA 903 3.64e+01 1clqA c.55.3.5 33717 e.8.1.1 43006 1psqA 163 3.68e+01 c.47.1.10 88283 1qfoA 119 3.69e+01 1qfoA b.1.1.1 19708 1sfe 180 3.73e+01 1sfe a.4.2.1 16073 c.55.7.1 33748 1v2yA 105 3.76e+01 d.15.1.1 -9148 1vi2A 300 3.76e+01 c.2.1.7 -5960 c.58.1.5 -6366 1onrA 316 3.79e+01 1onrA c.1.10.1 29169 1m3uA 264 3.79e+01 c.1.12.8 84784 1a2vA 655 3.83e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1qd9A 124 3.85e+01 1qu9A d.79.1.1 39758 1mk4A 157 3.87e+01 d.108.1.1 84979 1rf6A 427 3.88e+01 d.68.2.2 -10314 1o58A 303 3.89e+01 c.79.1.1 -8503 1qbjA 81 3.90e+01 1qbjA a.4.5.19 16155 1j6nA 303 3.91e+01 1dugA 234 3.93e+01 1b8xA a.45.1.1 17718 c.47.1.5 33012 1sxl 97 3.96e+01 1b7fA d.58.7.1 39180 1m6iA 493 3.99e+01 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535