# 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 2al2A 436 1.36e+00 4enl 436 1.37e+00 4enl c.1.11.1,d.54.1.1 29202,38846 1oneA 436 1.41e+00 4enl c.1.11.1,d.54.1.1 29200,38844 2u1a 88 2.03e+00 2u1a d.58.7.1 39164 2al1A 436 2.48e+00 2ucz 165 2.49e+00 1u9aA d.20.1.1 38330 1te6A 439 2.57e+00 c.1.11.1,d.54.1.1 106797,106798 2gj8A 172 2.80e+00 1jmtA 104 3.04e+00 d.58.7.3 63180 2akzA 439 3.15e+00 1v60A 123 3.18e+00 2oneA 436 3.40e+00 4enl c.1.11.1,d.54.1.1 29203,38847 1vggA 161 3.72e+00 1fcyA 236 3.83e+00 2lbd a.123.1.1 19282 4lbd 267 4.21e+00 2lbd a.123.1.1 19289 2f5gA 133 4.44e+00 1uirA 314 4.46e+00 c.66.1.17 99429 1ri7A 171 4.53e+00 a.4.5.32,d.58.4.2 97504,97505 2lbd 267 4.73e+00 2lbd a.123.1.1 19287 2g5cA 281 5.27e+00 1pvvA 315 5.86e+00 c.78.1.1,c.78.1.1 95190,95191 1ooeA 236 7.09e+00 c.2.1.2 87196 2ga9A 297 7.57e+00 2ffuA 501 7.91e+00 1xc3A 302 8.01e+00 1wi1A 126 8.35e+00 1a6dA 545 9.89e+00 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 1jndA 420 9.99e+00 c.1.8.5,d.26.3.1 71757,71758 1av6A 289 1.09e+01 3mag c.66.1.25 34218 1qo0D 196 1.12e+01 1qo0D c.23.1.3 31125 1x7oA 287 1.16e+01 1wggA 96 1.16e+01 1mylA 53 1.17e+01 1bazA a.43.1.1 17427 1ymqA 261 1.22e+01 1w1wA 430 1.24e+01 1lvwA 295 1.26e+01 c.68.1.6 84723 1f2tB 148 1.29e+01 1f2tB 1gegA 256 1.34e+01 1ybvA c.2.1.2 29888 1st9A 143 1.37e+01 c.47.1.10 98987 2f9sA 151 1.40e+01 1u7lA 392 1.48e+01 1gefA 123 1.52e+01 1gefA c.52.1.18 60465 2cpgA 45 1.53e+01 2cpgA a.43.1.3 17455 1i35A 95 1.59e+01 d.15.1.5 66017 1b01A 45 1.61e+01 2cpgA a.43.1.3 17458 2c1cA 312 1.63e+01 1qdlB 195 1.63e+01 1qdlB c.23.16.1 31437 1xhbA 472 1.65e+01 1vmeA 410 1.67e+01 c.23.5.1,d.157.1.3 108893,108894 1wduA 245 1.69e+01 d.151.1.1 109286 1a3yA 149 1.71e+01 1obpA b.60.1.1 27110 1vp4A 425 1.71e+01 1b44D 129 1.73e+01 3chbD b.40.2.1 24960 1a1s 314 1.80e+01 1othA c.78.1.1,c.78.1.1 35258,35259 1qu9A 128 1.88e+01 1qu9A d.79.1.1 39755 1qu9C 128 1.88e+01 1qu9A d.79.1.1 39757 1rgyA 360 1.89e+01 e.3.1.1 97456 1d7kA 421 1.89e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 1tin 69 1.90e+01 2sniI d.40.1.1 38580 1p8kZ 254 1.95e+01 d.95.2.1,d.95.2.1 94361,94362 1pzxA 289 1.96e+01 c.119.1.1 95484 1e9rA 437 1.96e+01 c.37.1.11 64827 1efuB 282 1.99e+01 1efuB d.43.1.1,a.5.2.2,d.43.1.1 38677,58975,58976 2bj7A 138 2.04e+01 2arhA 203 2.05e+01 1dzkA 157 2.12e+01 1obpA b.60.1.1 27096 1xqaA 113 2.13e+01 1ahpA 797 2.15e+01 1a8i c.87.1.4 35544 3mag 307 2.16e+01 3mag c.66.1.25 34205 1yseA 141 2.17e+01 1wqaA 455 2.18e+01 1v39 322 2.18e+01 3mag c.66.1.25 34206 1mykA 53 2.18e+01 1bazA a.43.1.1 17425 1innA 166 2.20e+01 1j98A d.185.1.2 62608 1vjeA 166 2.20e+01 d.185.1.2 100807 1s3zA 165 2.30e+01 d.108.1.1 105250 1m2oB 190 2.32e+01 c.37.1.8 78485 1fvgA 199 2.33e+01 1fvaA d.58.28.1 39408 1eg9A 449 2.35e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1b7gO 340 2.39e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1vl6A 388 2.40e+01 c.2.1.7,c.58.1.3 108724,108725 1f9zA 135 2.40e+01 1qipA d.32.1.1 38484 2fliA 220 2.40e+01 1o7nA 449 2.41e+01 b.33.1.2,d.129.3.3 81162,81163 1l5wA 796 2.49e+01 c.87.1.4 73605 1f52A 468 2.51e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 1bqk 124 2.54e+01 1bqk b.6.1.1 22889 1pot 325 2.63e+01 1pot c.94.1.1 35807 1ng4A 390 2.66e+01 c.3.1.2,d.16.1.3 85666,85667 1ndoA 449 2.66e+01 1ndoA b.33.1.2,d.129.3.3 24444,41323 1cl2A 395 2.69e+01 1cl2A c.67.1.3 34397 1o69A 394 2.69e+01 c.67.1.4 92560 1ryiA 382 2.71e+01 1wstA 417 2.72e+01 1ipiA 123 2.73e+01 c.52.1.18 66255 1m41A 380 2.78e+01 c.1.16.4 78595 2cu1A 103 2.79e+01 1t0yA 122 2.82e+01 d.15.1.1 99066 1g0rA 293 2.85e+01 1g0rA c.68.1.6 34532 1lci 550 2.87e+01 1lci e.23.1.1 43349 1sc6A 404 2.87e+01 1vpt 348 2.89e+01 3mag c.66.1.25 34207 7odcA 424 2.90e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1q2lA 939 2.91e+01 1vp9 322 2.96e+01 3mag c.66.1.25 34210 1lkcA 364 3.06e+01 c.67.1.1 73978 1mit 69 3.12e+01 1hymA d.40.1.1 38582 1i06A 180 3.13e+01 1mup b.60.1.1 27131 1i05A 180 3.16e+01 1mup b.60.1.1 27130 1zndA 174 3.18e+01 1q9uA 130 3.20e+01 d.129.7.1 96314 1jv4A 162 3.24e+01 b.60.1.1 67343 1bdtA 53 3.29e+01 1bazA a.43.1.1 17433 1u1hA 765 3.34e+01 c.1.22.2,c.1.22.2 107580,107581 1fa8A 135 3.38e+01 1qipA d.32.1.1 38486 1yj7A 171 3.43e+01 1fvrA 327 3.46e+01 d.144.1.7 60047 2cxcA 144 3.55e+01 1wn5A 130 3.63e+01 1asyA 490 3.69e+01 1b8aA b.40.4.1,d.104.1.1 25242,40763 1wvfA 520 3.71e+01 1tdj 514 3.73e+01 1tdj c.79.1.1,d.58.18.2,d.58.18.2 35297,39356,39357 1nrjB 218 3.74e+01 c.37.1.8 86125 1mup 166 3.78e+01 1mup b.60.1.1 27133 1ksyA 154 3.83e+01 d.89.1.2 72948 1k47A 337 3.93e+01 d.14.1.5,d.58.26.4 72040,72041 1qy1A 174 3.95e+01 b.60.1.1 96568 1p0iA 529 3.95e+01 c.69.1.1 93867 1mp9A 198 3.97e+01 d.129.1.1,d.129.1.1 91385,91386 2fckA 181 4.00e+01 1g55A 343 4.03e+01 1g55A c.66.1.26 34247 1f2rI 100 4.04e+01 1c9fA d.15.2.1 37641 1xbsA 149 4.11e+01 1ursA 402 4.12e+01 c.94.1.1 99833 1pdz 434 4.23e+01 4enl c.1.11.1,d.54.1.1 29215,38859 1autL 114 4.28e+01 1hcgB g.3.11.1,g.3.11.1 44244,44245 1zpvA 91 4.32e+01 1un8A 552 4.32e+01 c.119.1.2,a.208.1.1 103806,99661 1f08A 148 4.35e+01 1f08A d.89.1.2 59564 1aoxA 203 4.35e+01 1aoxA c.62.1.1 34151 1de5A 426 4.38e+01 1de5A c.1.15.2 29402 1fr1A 361 4.40e+01 1gceA e.3.1.1 42734 1t3tA 1303 4.48e+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 1e5eA 404 4.50e+01 1ibjA c.67.1.3 59265 2dbbA 151 4.54e+01 1d8wA 426 4.59e+01 1de5A c.1.15.2 29394 1r5lA 262 4.61e+01 a.5.3.1,c.13.1.1 97099,97100 1gm6A 175 4.66e+01 b.60.1.1 70272 2a5dA 175 4.69e+01 1ir6A 424 4.83e+01 c.107.1.2 71342 1fxoA 293 4.83e+01 1g0rA c.68.1.6 34524 1v86A 95 4.91e+01 d.15.1.1 108421 1f3iA 481 4.92e+01 1b7eA 1h6zA 913 4.92e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1b7eA 420 5.02e+01 1b7eA c.55.3.4 33680 1v4pA 157 5.03e+01 1auiB 169 5.12e+01 1auiB a.39.1.5 17325 1jj2R 84 5.16e+01 1ffkP d.12.1.1 63103 1s72S 85 5.16e+01 d.12.1.1 105338 1j27A 102 5.17e+01 d.58.50.1 90778 1fsz 372 5.19e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1psdA 409 5.19e+01 1psdA c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1c0pA 363 5.27e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1rpl 251 5.31e+01 1bpyA a.60.12.1,d.218.1.2 75933,75934 1lngA 87 5.34e+01 d.201.1.1 74045 1bazA 53 5.37e+01 1bazA a.43.1.1 17421 1qc5A 192 5.45e+01 1aoxA c.62.1.1 34147 2glfA 450 5.46e+01 1icxA 155 5.47e+01 d.129.3.1 71191 1nqkA 381 5.51e+01 c.1.16.4 92050 2cx5A 158 5.55e+01 1vqsA 116 5.63e+01 1w8iA 156 5.64e+01 2gakA 391 5.64e+01 1vaoA 560 5.64e+01 1qltA d.58.32.1,d.145.1.1 39461,41724 1lxdA 100 5.65e+01 1lfdA d.15.1.5 37624 1pt6A 213 5.68e+01 c.62.1.1 95091 1fxlA 167 5.76e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1df3A 162 5.80e+01 1mup b.60.1.1 27134 1cl1A 395 5.85e+01 1cl2A c.67.1.3 34395 1k2fA 190 5.89e+01 b.8.1.2 68054 1sqc 631 5.91e+01 2sqcA a.102.4.2,a.102.4.2 18858,18859 2fn0A 437 5.95e+01 1b25A 619 5.96e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 2eueA 279 6.02e+01 1zcoA 262 6.06e+01 1kblA 873 6.11e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1lbu 213 6.22e+01 1lbu a.20.1.1,d.65.1.1 16416,39549 1b8bA 605 6.28e+01 1b8bA 1twfK 120 6.30e+01 1de6A 426 6.32e+01 1de5A c.1.15.2 29398 1eqtA 68 6.33e+01 1b3aA d.9.1.1 37412 1ayzA 169 6.36e+01 1u9aA d.20.1.1 38326 2a6mA 155 6.42e+01 1slqA 278 6.42e+01 f.47.1.1 105719 1vheA 373 6.46e+01 b.49.3.1,c.56.5.4 100669,100670 1parA 53 6.53e+01 1bazA a.43.1.1 17437 2lgsA 468 6.54e+01 1lgr d.15.9.1,d.128.1.1 37838,41168 1bqg 451 6.55e+01 1bqg c.1.11.2,d.54.1.1 29217,38861 2e2c 156 6.55e+01 1u9aA d.20.1.1 38336 1muhA 481 6.62e+01 c.55.3.4 79485 1sg4A 260 6.67e+01 1aszB 490 6.73e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1ve0A 134 6.74e+01 1lgr 468 6.78e+01 1lgr d.15.9.1,d.128.1.1 37837,41167 1b3aA 67 6.78e+01 1b3aA d.9.1.1 37410 1fvaA 217 6.80e+01 1fvaA d.58.28.1 39409 2av4A 162 6.86e+01 2fa8A 105 6.88e+01 1phk 298 6.90e+01 1cdkA d.144.1.7 41635 2fukA 220 7.01e+01 1c3yA 108 7.07e+01 1c3yA a.39.2.1 17387 1w1kA 560 7.12e+01 d.58.32.1,d.145.1.1 109059,109060 1musA 477 7.13e+01 c.55.3.4 79494 2b4aA 138 7.17e+01 1xewY 172 7.19e+01 1lc5A 364 7.25e+01 c.67.1.1 73827 2a5jA 191 7.30e+01 1w8sA 263 7.30e+01 1e69B 322 7.31e+01 1e69B c.37.1.12 32377 2fmr 65 7.36e+01 2fmr d.51.1.1 38808 1fxtA 149 7.45e+01 d.20.1.1 65055 1e8gA 560 7.45e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1ob8A 135 7.48e+01 1wgzA 510 7.52e+01 1id1A 153 7.54e+01 1id1A c.2.1.9 62286 1ysrA 150 7.56e+01 1tit 98 7.58e+01 1tit b.1.1.4 21716 1ml8A 134 7.60e+01 d.227.1.2 85013 1jdfA 447 7.62e+01 c.1.11.2,d.54.1.1 62897,62898 1fzyA 149 7.65e+01 d.20.1.1 65072 1d9uA 154 7.73e+01 1am7A d.2.1.4 59111 1q5fA 156 7.73e+01 d.24.1.1 104536 1pieA 419 7.74e+01 d.14.1.5,d.58.26.7 94706,94707 1j5yA 187 7.92e+01 a.4.5.1,d.94.2.1 71592,71593 1h6hA 143 7.93e+01 d.189.1.1 65681 1dik 874 8.01e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1k8rB 110 8.04e+01 d.15.1.5 72180 1a9nB 96 8.06e+01 1urnA d.58.7.1 39165 1w77A 228 8.07e+01 1czfA 362 8.07e+01 1czfA b.80.1.3 28031 1qltA 560 8.11e+01 1qltA d.58.32.1,d.145.1.1 39457,41720 2cxxA 190 8.15e+01 1yc5A 246 8.17e+01 1wj9A 211 8.20e+01 2c60A 111 8.22e+01 1fo8A 343 8.23e+01 1foaA c.68.1.10 59927 1akw 147 8.27e+01 5nul c.23.5.1 31153 1foaA 348 8.28e+01 1foaA c.68.1.10 59929 1v10A 521 8.28e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1yb0A 159 8.28e+01 1qqfA 277 8.34e+01 1c3d a.102.4.4 18875 1bpyA 335 8.43e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 2bfwA 200 8.46e+01 1m65A 245 8.48e+01 c.6.3.1 84847 1inlA 296 8.49e+01 c.66.1.17 66220 1jq3A 296 8.59e+01 c.66.1.17 67079 1xniA 118 8.67e+01 1ws6A 171 8.71e+01 1v9jA 113 8.77e+01 d.52.6.1 100542 1kqfB 294 8.78e+01 d.58.1.5,f.23.22.1 75900,75901 1z0jA 170 8.80e+01 1k8hA 133 8.80e+01 b.111.1.1 72176 1wvqA 167 8.97e+01 1u8sA 192 9.00e+01 d.58.18.5,d.58.18.5 107737,107738