# List of top-scoring protein chains for t2k-100-30-bys 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 1iujA 106 7.43e-03 unknown_sccs -9953 1lq9A 112 1.59e-02 d.58.4.3 78129 1cbg 490 2.01e-01 1e70M c.1.8.4 28933 1edt 271 6.12e-01 2ebn c.1.8.5 28993 2scuB 388 7.44e-01 2scuB c.23.4.1 31141 d.142.1.4 41562 1bc5A 269 1.04e+00 1af7 a.58.1.1 17929 c.66.1.8 34204 1af7 274 1.13e+00 1af7 a.58.1.1 17928 c.66.1.8 34203 1f2fA 104 1.34e+00 1fmk d.93.1.1 40455 1v02A 565 1.37e+00 1d9eA 284 1.50e+00 1d9eA c.1.10.4 29195 1tu1A 148 1.72e+00 1oef 24 1.91e+00 j.39.1.1 46299 1o60A 292 2.22e+00 c.1.10.4 -5549 1shaA 104 2.52e+00 1fmk d.93.1.1 40424 1qpaA 345 2.57e+00 1arv a.93.1.1 18585 1shbA 104 2.68e+00 1fmk d.93.1.1 40425 1o4rA 108 2.71e+00 d.93.1.1 -10624 1qysA 106 2.73e+00 unknown_sccs -13432 1shdA 107 2.88e+00 1fmk d.93.1.1 40440 1pvdA 537 3.11e+00 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1ta3B 303 3.12e+00 1q77A 138 3.60e+00 c.26.2.4 -6639 1s1hM 132 3.67e+00 1icrA 217 3.87e+00 1vfrA d.90.1.1 62274 1ordA 730 4.16e+00 1ordA c.23.1.4 31274 c.67.1.5 34503 d.125.1.1 41124 1q15A 503 4.59e+00 c.26.2.1 -6625 d.153.1.1 -11400 1llp 343 4.84e+00 1arv a.93.1.1 18578 1c4kA 730 4.86e+00 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1d3vA 323 5.93e+00 1d3vA c.42.1.1 32559 1lst 239 5.98e+00 1lst c.94.1.1 35755 1g7vA 284 6.92e+00 1d9eA c.1.10.4 60335 1qg3A 195 6.97e+00 1qg3A b.1.2.1 21993 b.1.2.1 21994 1tidB 119 7.59e+00 1necA 216 7.67e+00 1vfrA d.90.1.1 40249 1j0wA 103 7.84e+00 b.55.1.2 -4364 1g60A 260 7.85e+00 c.66.1.11 70151 1a4iA 301 8.00e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1diaA 306 8.22e+00 1a4iA c.2.1.7 30280 c.58.1.2 33928 1g5gB 481 8.86e+00 f.12.1.1 65157 h.3.2.1 65158 1b5tA 275 9.47e+00 1b5tA c.1.23.1 29676 1ash 150 9.60e+00 1ash a.1.1.2 15622 1dtdA 303 9.93e+00 1aye c.56.5.1 33823 1fz1C 389 1.02e+01 1mtyB a.25.1.2 16746 1g8kA 825 1.05e+01 1g8jA b.52.2.2 26920 c.81.1.1 35328 1pgx 83 1.07e+01 2igd d.15.7.1 37823 1bix 287 1.08e+01 1bix d.151.1.1 41781 1vjtA 483 1.09e+01 c.2.1.5 -5941 d.162.1.2 -11508 1cnt3 187 1.09e+01 1cnt3 1rlaA 323 1.10e+01 1d3vA c.42.1.1 32561 2igd 61 1.10e+01 2igd d.15.7.1 37821 1igd 61 1.12e+01 2igd d.15.7.1 37822 1bob 320 1.16e+01 1bob d.108.1.1 40816 1pydA 556 1.17e+01 1zpdA c.31.1.3 31735 c.36.1.5 31773 c.36.1.9 31774 1g8jA 825 1.18e+01 1g8jA b.52.2.2 26924 c.81.1.1 35332 1k3eA 156 1.20e+01 d.198.1.1 68103 1umnA 165 1.20e+01 a.25.1.1 -656 1cnt1 187 1.24e+01 1cnt3 1lvmA 229 1.27e+01 b.47.1.3 78243 1mtyB 384 1.29e+01 1mtyB a.25.1.2 16740 1g73A 162 1.32e+01 1fewA a.7.4.1 16332 1g0cA 364 1.33e+01 7a3hA c.1.8.3 60165 1iibA 106 1.34e+01 1iibA c.44.2.1 32648 1floA 422 1.38e+01 1floA a.60.9.1 18106 d.163.1.1 42166 1wduA 245 1.39e+01 1e44B 96 1.40e+01 1e44B b.101.1.1 59220 1n69A 81 1.41e+01 a.64.1.3 80118 1fp3A 402 1.41e+01 1fp3A a.102.1.3 18842 1kdgA 546 1.47e+01 c.3.1.2 77337 d.16.1.1 77338 1a4iB 301 1.55e+01 1a4iA c.2.1.7 30279 c.58.1.2 33927 1bn7A 294 1.57e+01 1bn6A c.69.1.8 34677 1qb0A 211 1.64e+01 1c25 c.46.1.1 32699 1pamA 686 1.67e+01 1cxlA b.1.18.2 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 1bag 425 1.67e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1te2A 226 1.69e+01 1aye 401 1.72e+01 1aye c.56.5.1 33824 d.58.3.1 39065 1jp3A 253 1.75e+01 1f75A c.101.1.1 63221 1eny 268 1.79e+01 1eny c.2.1.2 29910 1m4rA 151 1.84e+01 a.26.1.3 84799 1forL 210 1.87e+01 8fabA b.1.1.1 19988 b.1.1.2 21044 1qfmA 710 1.90e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 2dubE 261 1.91e+01 1nzyA c.14.1.3 30916 1f75A 249 1.92e+01 1f75A c.101.1.1 59662 1ji2A 585 1.93e+01 b.1.18.2 71672 b.71.1.1 71673 c.1.8.1 71674 1k9dA 679 1.95e+01 c.1.8.10 77292 d.92.2.2 77293 1nox 205 1.99e+01 1nox d.90.1.1 40242 1cxlA 686 2.01e+01 1cxlA b.1.18.2 21829 b.3.1.1 22498 b.71.1.1 27736 c.1.8.1 28723 1g01A 364 2.04e+01 7a3hA c.1.8.3 60161 1js3A 486 2.16e+01 c.67.1.6 67215 1azwA 313 2.17e+01 1qtrA c.69.1.7 34658 1ifi 50 2.20e+01 1ifi h.1.4.1 45551 1ifj 50 2.20e+01 1ifi h.1.4.1 45550 1gnc 178 2.21e+01 1bgc a.26.1.1 16821 1bn6A 294 2.21e+01 1bn6A c.69.1.8 34678 1e8nA 710 2.31e+01 1qfmA b.69.7.1 27675 c.69.1.4 34643 1colA 204 2.31e+01 1a87 f.1.1.1 43378 1vhiA 142 2.38e+01 1b3tA d.58.8.1 39230 1e6qM 501 2.43e+01 1e70M c.1.8.4 28920 1f2aA 215 2.46e+01 1cs8A d.3.1.1 37040 1u02A 239 2.47e+01 1sek 378 2.50e+01 1sek e.1.1.1 42675 1mwqA 101 2.50e+01 unknown_sccs -9962 1uehA 253 2.51e+01 c.101.1.1 -6879 1ot1A 686 2.51e+01 b.1.18.2 87392 b.3.1.1 87393 b.71.1.1 87394 c.1.8.1 87395 1me3A 215 2.53e+01 d.3.1.1 79022 1me4A 215 2.54e+01 d.3.1.1 79023 1h2xA 710 2.55e+01 b.69.7.1 76598 c.69.1.4 76599 1jagA 241 2.60e+01 c.37.1.1 66463 1b37B 472 2.61e+01 1b37B c.3.1.2 30390 d.16.1.5 37954 2mprA 421 2.61e+01 2mprA f.4.3.2 43788 1l2uA 245 2.62e+01 c.1.2.3 73516 1gt91 357 2.62e+01 1iw0A 215 2.64e+01 a.132.1.1 83720 1h2wA 710 2.68e+01 b.69.7.1 76596 c.69.1.4 76597 1whtA 256 2.69e+01 1ivyA c.69.1.5 34646 1q53A 112 2.77e+01 d.58.4.4 -9944 1hb6A 86 2.78e+01 a.11.1.1 70959 1jc4A 148 2.85e+01 1jc4A d.32.1.4 62863 1umhA 184 2.93e+01 unknown_sccs -3127 1fmk 452 2.95e+01 1fmk b.34.2.1 24511 d.93.1.1 40436 d.144.1.7 41690 1jjoC 261 2.97e+01 1zid 268 3.01e+01 1eny c.2.1.2 29911 1mjfA 281 3.03e+01 c.66.1.17 79198 1jgtA 513 3.07e+01 c.26.2.1 66684 d.153.1.1 66685 1mmoB 384 3.07e+01 1mtyB a.25.1.2 16768 1e4mM 501 3.07e+01 1e70M c.1.8.4 59226 1atiA 505 3.11e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 1nxcA 478 3.11e+01 a.102.2.1 -1333 2cpb 50 3.13e+01 2cpb h.1.4.1 45568 1bcfA 158 3.15e+01 1bcfA a.25.1.1 16648 1n81A 186 3.16e+01 a.185.1.1 85388 1atiB 505 3.16e+01 1atiA c.51.1.1 33197 d.104.1.1 40746 1nfvA 179 3.18e+01 a.25.1.1 85642 1e70M 501 3.19e+01 1e70M c.1.8.4 28926 1qpbA 563 3.21e+01 1zpdA c.31.1.3 31739 c.36.1.5 31781 c.36.1.9 31782 1pqnA 127 3.25e+01 c.47.1.8 -7479 1miuA 738 3.26e+01 a.170.1.1 79153 a.171.1.1 79154 b.40.4.3 79155 b.40.4.3 79156 b.40.4.3 79157 1mwpA 96 3.32e+01 1mwpA d.170.2.1 42453 1nw1A 429 3.35e+01 d.144.1.8 86286 1b37A 472 3.38e+01 1b37B c.3.1.2 30389 d.16.1.5 37953 1cnt2 187 3.38e+01 1cnt3 1c0dA 358 3.40e+01 1eceA c.1.8.3 28815 1oyjA 231 3.43e+01 a.45.1.1 87597 c.47.1.5 87598 1ggzA 148 3.49e+01 a.39.1.5 70176 1j90A 230 3.53e+01 c.37.1.1 66448 1bcsA 263 3.54e+01 1ivyA c.69.1.5 34647 1vhsA 175 3.57e+01 d.108.1.1 -10794 1dujA 187 3.59e+01 1dujA d.135.1.1 41449 1bjx 110 3.66e+01 1bjx c.47.1.2 32774 2bjxA 110 3.66e+01 1bjx c.47.1.2 32776 1esiA 262 3.66e+01 1skf e.3.1.1 42682 1fcyA 236 3.67e+01 2lbd a.123.1.1 19282 1e5rA 290 3.68e+01 1e5rA b.82.2.4 59276 1b3tA 147 3.69e+01 1b3tA d.58.8.1 39228 1b5qA 472 3.69e+01 1b37B c.3.1.2 30404 d.16.1.5 37968 1e6yB 433 3.72e+01 1mroB a.89.1.1 18535 d.58.31.2 39453 1aim 215 3.73e+01 1cs8A d.3.1.1 37044 1q45A 391 3.74e+01 c.1.4.1 -5199 1l8nA 679 3.75e+01 c.1.8.10 84564 d.92.2.2 84565 1cqwA 295 3.75e+01 1b6g c.69.1.8 34679 1cvjA 190 3.75e+01 1cvjB d.58.7.1 39191 d.58.7.1 39192 1g7eA 122 3.76e+01 1g7eA c.47.1.7 33055 1jidA 128 3.77e+01 d.201.1.1 66735 1g1eB 89 3.77e+01 1g1eB a.59.1.1 17931 1cnv 299 3.82e+01 1cnv c.1.8.5 28989 1oe0A 230 3.86e+01 c.37.1.1 -6976 1d3cA 686 3.87e+01 1cxlA b.1.18.2 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1fnnA 389 3.92e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1q4rA 112 3.92e+01 d.58.4.4 -9943 1bvzA 585 3.96e+01 1bvzA b.1.18.2 21856 b.71.1.1 27783 c.1.8.1 28770 1q8bA 105 3.99e+01 unknown_sccs -9958