# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-scores 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 1jmtA 104 1.88e+00 d.58.7.3 63180 2g5cA 281 2.46e+00 1ri7A 171 3.45e+00 a.4.5.32,d.58.4.2 97504,97505 1fcyA 236 5.18e+00 2lbd a.123.1.1 19282 1x7oA 287 5.44e+00 2ucz 165 5.73e+00 1u9aA d.20.1.1 38330 4lbd 267 5.75e+00 2lbd a.123.1.1 19289 1oneA 436 6.29e+00 4enl c.1.11.1,d.54.1.1 29200,38844 2al2A 436 6.45e+00 4enl 436 6.66e+00 4enl c.1.11.1,d.54.1.1 29202,38846 2lbd 267 6.66e+00 2lbd a.123.1.1 19287 2u1a 88 6.83e+00 2u1a d.58.7.1 39164 2ffuA 501 8.29e+00 1v60A 123 9.49e+00 1ng4A 390 9.59e+00 c.3.1.2,d.16.1.3 85666,85667 1ryiA 382 9.83e+00 1pvvA 315 1.03e+01 c.78.1.1,c.78.1.1 95190,95191 2al1A 436 1.04e+01 1w1wA 430 1.06e+01 1ooeA 236 1.12e+01 c.2.1.2 87196 1uirA 314 1.14e+01 c.66.1.17 99429 1te6A 439 1.41e+01 c.1.11.1,d.54.1.1 106797,106798 2akzA 439 1.44e+01 2ga9A 297 1.45e+01 1wi1A 126 1.48e+01 1u1hA 765 1.50e+01 c.1.22.2,c.1.22.2 107580,107581 1rgyA 360 1.53e+01 e.3.1.1 97456 1jndA 420 1.53e+01 c.1.8.5,d.26.3.1 71757,71758 2cpgA 45 1.60e+01 2cpgA a.43.1.3 17455 1vl6A 388 1.61e+01 c.2.1.7,c.58.1.3 108724,108725 2oneA 436 1.63e+01 4enl c.1.11.1,d.54.1.1 29203,38847 1gefA 123 1.63e+01 1gefA c.52.1.18 60465 1b01A 45 1.70e+01 2cpgA a.43.1.3 17458 1qdlB 195 1.74e+01 1qdlB c.23.16.1 31437 1ymqA 261 1.77e+01 1xhbA 472 1.78e+01 2c1cA 312 1.80e+01 1av6A 289 1.81e+01 3mag c.66.1.25 34218 1f52A 468 1.90e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 1wduA 245 1.93e+01 d.151.1.1 109286 1g0rA 293 1.94e+01 1g0rA c.68.1.6 34532 1vggA 161 2.00e+01 2f5gA 133 2.03e+01 1gegA 256 2.05e+01 1ybvA c.2.1.2 29888 2dbbA 151 2.06e+01 1u7lA 392 2.08e+01 1p8kZ 254 2.10e+01 d.95.2.1,d.95.2.1 94361,94362 1b7gO 340 2.23e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 2a5dA 175 2.31e+01 1xc3A 302 2.31e+01 1kblA 873 2.38e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1mylA 53 2.43e+01 1bazA a.43.1.1 17427 1v4pA 157 2.45e+01 1a1s 314 2.46e+01 1othA c.78.1.1,c.78.1.1 35258,35259 1bqk 124 2.49e+01 1bqk b.6.1.1 22889 1xewY 172 2.50e+01 1wqaA 455 2.51e+01 2bj7A 138 2.52e+01 1t0yA 122 2.58e+01 d.15.1.1 99066 1st9A 143 2.61e+01 c.47.1.10 98987 1f2tB 148 2.65e+01 1f2tB 2f9sA 151 2.66e+01 1autL 114 2.80e+01 1hcgB g.3.11.1,g.3.11.1 44244,44245 1ipiA 123 2.84e+01 c.52.1.18 66255 1sdjA 310 2.88e+01 d.21.1.2,d.21.1.2 98807,98808 1ahpA 797 2.91e+01 1a8i c.87.1.4 35544 1tdj 514 3.10e+01 1tdj c.79.1.1,d.58.18.2,d.58.18.2 35297,39356,39357 1fr1A 361 3.10e+01 1gceA e.3.1.1 42734 2cx5A 158 3.10e+01 1qo0D 196 3.14e+01 1qo0D c.23.1.3 31125 1dik 874 3.17e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1fsz 372 3.17e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1tin 69 3.17e+01 2sniI d.40.1.1 38580 1v86A 95 3.23e+01 d.15.1.1 108421 1phk 298 3.23e+01 1cdkA d.144.1.7 41635 1pzxA 289 3.24e+01 c.119.1.1 95484 1yseA 141 3.26e+01 1fvgA 199 3.33e+01 1fvaA d.58.28.1 39408 1d7kA 421 3.37e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 1ir6A 424 3.38e+01 c.107.1.2 71342 1p0iA 529 3.39e+01 c.69.1.1 93867 1vqsA 116 3.43e+01 2arhA 203 3.43e+01 1fxoA 293 3.48e+01 1g0rA c.68.1.6 34524 1m2oB 190 3.50e+01 c.37.1.8 78485 1l5wA 796 3.53e+01 c.87.1.4 73605 1dzkA 157 3.53e+01 1obpA b.60.1.1 27096 1lvwA 295 3.54e+01 c.68.1.6 84723 1i35A 95 3.57e+01 d.15.1.5 66017 1mykA 53 3.60e+01 1bazA a.43.1.1 17425 1efuB 282 3.68e+01 1efuB d.43.1.1,a.5.2.2,d.43.1.1 38677,58975,58976 1a3yA 149 3.73e+01 1obpA b.60.1.1 27110 3mag 307 3.74e+01 3mag c.66.1.25 34205 1wggA 96 3.93e+01 1c0pA 363 3.97e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1mit 69 4.02e+01 1hymA d.40.1.1 38582 2lgsA 468 4.04e+01 1lgr d.15.9.1,d.128.1.1 37838,41168 1vaoA 560 4.14e+01 1qltA d.58.32.1,d.145.1.1 39461,41724 1lgr 468 4.16e+01 1lgr d.15.9.1,d.128.1.1 37837,41167 1sc6A 404 4.20e+01 1b44D 129 4.20e+01 3chbD b.40.2.1 24960 1w2fA 276 4.34e+01 d.143.1.3 109125 1vr5A 547 4.40e+01 1v39 322 4.41e+01 3mag c.66.1.25 34206 1sg4A 260 4.52e+01 1vjeA 166 4.53e+01 d.185.1.2 100807 1innA 166 4.55e+01 1j98A d.185.1.2 62608 1wcgA 464 4.60e+01 1czfA 362 4.68e+01 1czfA b.80.1.3 28031 1ob8A 135 4.71e+01 1kqfB 294 4.75e+01 d.58.1.5,f.23.22.1 75900,75901 1v7oA 165 4.80e+01 d.67.1.2 100480 1vmeA 410 4.80e+01 c.23.5.1,d.157.1.3 108893,108894 1yoeA 322 4.83e+01 1w1kA 560 4.90e+01 d.58.32.1,d.145.1.1 109059,109060 1ftrA 296 4.97e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1q2lA 939 5.02e+01 1ursA 402 5.02e+01 c.94.1.1 99833 1e69B 322 5.02e+01 1e69B c.37.1.12 32377 1e8gA 560 5.05e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1vpt 348 5.12e+01 3mag c.66.1.25 34207 2cu1A 103 5.19e+01 1xqaA 113 5.31e+01 1t3tA 1303 5.33e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1qu9A 128 5.39e+01 1qu9A d.79.1.1 39755 1qu9C 128 5.39e+01 1qu9A d.79.1.1 39757 1fvrA 327 5.40e+01 d.144.1.7 60047 1qc5A 192 5.41e+01 1aoxA c.62.1.1 34147 1s3zA 165 5.41e+01 d.108.1.1 105250 1vp9 322 5.46e+01 3mag c.66.1.25 34210 1un8A 552 5.47e+01 c.119.1.2,a.208.1.1 103806,99661 1pt6A 213 5.59e+01 c.62.1.1 95091 1u1jA 765 5.63e+01 c.1.22.2,c.1.22.2 107590,107591 2b1xA 470 5.64e+01 1ksyA 154 5.73e+01 d.89.1.2 72948 1c3yA 108 5.78e+01 1c3yA a.39.2.1 17387 1k8kE 178 5.82e+01 a.148.1.1 68311 1eqtA 68 5.87e+01 1b3aA d.9.1.1 37412 1psdA 409 5.87e+01 1psdA c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1e9rA 437 5.88e+01 c.37.1.11 64827 1j27A 102 5.93e+01 d.58.50.1 90778 1zd9A 188 5.99e+01 1bqg 451 6.08e+01 1bqg c.1.11.2,d.54.1.1 29217,38861 1f9zA 135 6.21e+01 1qipA d.32.1.1 38484 1zjcA 418 6.24e+01 1b3aA 67 6.31e+01 1b3aA d.9.1.1 37410 2cxcA 144 6.32e+01 1vp4A 425 6.37e+01 1ja9A 274 6.40e+01 c.2.1.2 62817 1qltA 560 6.46e+01 1qltA d.58.32.1,d.145.1.1 39457,41720 1fxtA 149 6.47e+01 d.20.1.1 65055 1h6zA 913 6.49e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1m41A 380 6.50e+01 c.1.16.4 78595 1ml8A 134 6.52e+01 d.227.1.2 85013 1pot 325 6.64e+01 1pot c.94.1.1 35807 1bdtA 53 6.73e+01 1bazA a.43.1.1 17433 1def 147 6.81e+01 1bs4A d.167.1.1 42306 1lv9A 77 6.83e+01 d.9.1.1 78233 1wvfA 520 6.87e+01 1aoxA 203 6.89e+01 1aoxA c.62.1.1 34151 2fliA 220 6.97e+01 2fckA 181 7.12e+01 1f08A 148 7.21e+01 1f08A d.89.1.2 59564 1i06A 180 7.26e+01 1mup b.60.1.1 27131 1i05A 180 7.30e+01 1mup b.60.1.1 27130 1zndA 174 7.36e+01 1eg9A 449 7.37e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1fzyA 149 7.43e+01 d.20.1.1 65072 1o7nA 449 7.44e+01 b.33.1.2,d.129.3.3 81162,81163 1jv4A 162 7.46e+01 b.60.1.1 67343 1w5fA 353 7.50e+01 1mup 166 7.63e+01 1mup b.60.1.1 27133 1auiB 169 7.63e+01 1auiB a.39.1.5 17325 1lci 550 7.63e+01 1lci e.23.1.1 43349 1zsyA 357 7.66e+01 1icxA 155 7.76e+01 d.129.3.1 71191 2fn0A 437 7.97e+01 1jdfA 447 8.03e+01 c.1.11.2,d.54.1.1 62897,62898 1fa8A 135 8.07e+01 1qipA d.32.1.1 38486 1q5fA 156 8.07e+01 d.24.1.1 104536 1zpvA 91 8.20e+01 1o69A 394 8.21e+01 c.67.1.4 92560 1j5yA 187 8.29e+01 a.4.5.1,d.94.2.1 71592,71593 1eu8A 409 8.41e+01 1eu8A c.94.1.1 59502 1r5lA 262 8.42e+01 a.5.3.1,c.13.1.1 97099,97100 1kt6A 183 8.49e+01 b.60.1.1 84466 1l0gA 358 8.52e+01 e.3.1.1 73400 1ndoA 449 8.64e+01 1ndoA b.33.1.2,d.129.3.3 24444,41323 1kvlA 358 8.64e+01 e.3.1.1 73062 1fggA 261 8.65e+01 1fggA c.68.1.7 34576 1kwsA 261 8.65e+01 c.68.1.7 73083 1nrjB 218 8.69e+01 c.37.1.8 86125 1f3iA 481 8.69e+01 1b7eA 1qyaA 307 8.70e+01 d.21.1.2,d.21.1.2 104653,104654 2blsA 358 8.71e+01 1gceA e.3.1.1 42747 2eueA 279 8.73e+01 1df3A 162 8.83e+01 1mup b.60.1.1 27134 1a4iA 301 8.85e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1pi4A 358 8.95e+01 e.3.1.1 94700 1fvaA 217 8.96e+01 1fvaA d.58.28.1 39409 1fsyA 358 8.96e+01 1gceA e.3.1.1 60016 1g55A 343 8.99e+01 1g55A c.66.1.26 34247