# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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.soe.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 2g2uB 165 1.72e-08 d.98.1.1 134541 1jtgB 165 1.79e-08 d.98.1.1 67267 2h36X 112 2.76e-02 1wdvA 152 1.72e-01 d.116.1.1 114539 1ucrA 78 1.68e+00 a.4.5.45 99188 2pbiB 354 2.27e+00 2c2aA 258 2.41e+00 a.30.2.1,d.122.1.3 129662,129663 2j3mA 572 2.41e+00 1b1gA 75 2.67e+00 1psrA a.39.1.1 17151 2cw9A 194 2.78e+00 d.17.4.13 130920 1tib 269 3.22e+00 3tgl 1tibA 269 3.22e+00 c.69.1.17 34738 2afbA 351 3.33e+00 c.72.1.1 126674 1zghA 260 4.01e+00 b.46.1.1,c.65.1.1 125028,125029 1j3wA 163 4.29e+00 d.110.7.1 90833 2c9wA 169 4.48e+00 2reiA 318 5.19e+00 2b0vA 153 6.74e+00 d.113.1.1 127650 1a99A 344 6.98e+00 1pot c.94.1.1 35812 2z0xA 158 7.86e+00 1phkA 298 7.97e+00 d.144.1.7 41635 1zh5A 195 8.30e+00 a.4.5.46,d.58.7.1 125073,125074 2yvdA 431 8.53e+00 1pn2A 280 8.97e+00 d.38.1.4,d.38.1.4 94930,94931 2fziA 206 9.56e+00 c.71.1.1 134448 2g17A 337 9.87e+00 c.2.1.3,d.81.1.1 134512,134513 2isbA 192 1.02e+01 c.8.9.1 137601 1vjnA 220 1.04e+01 d.157.1.4 100825 2glcA 342 1.11e+01 1br1B 150 1.12e+01 1wdcC a.39.1.5 17309 2i0oA 304 1.13e+01 1efpB 252 1.13e+01 1efvB c.26.2.3 31636 2awpA 198 1.17e+01 1zckA 154 1.18e+01 1h6vA 499 1.20e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 2dkfA 431 1.21e+01 1d7pM 159 1.21e+01 1cztA b.18.1.2 23718 3brbA 313 1.21e+01 2c60A 111 1.24e+01 d.15.2.2 129966 1r6jA 82 1.28e+01 b.36.1.1 97151 1rxdA 159 1.28e+01 c.45.1.1 111959 2fz0A 149 1.33e+01 1ughI 82 1.37e+01 1ugiA d.17.5.1 38133 1ta8A 332 1.37e+01 d.142.2.2 112375 2p36A 335 1.42e+01 2bc4B 211 1.44e+01 1qnaA 200 1.46e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1aoeA 192 1.47e+01 1aoeA c.71.1.1 34923 2cx5A 158 1.55e+01 2dj5A 133 1.58e+01 c.92.1.3 131536 1ecfB 504 1.62e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 1jl0A 334 1.67e+01 1jenA d.156.1.1 63155 1plq 258 1.68e+01 1plq 1plqA 258 1.68e+01 d.131.1.2,d.131.1.2 41388,41389 2gx9A 129 1.70e+01 d.299.1.1 135828 2oajA 902 1.72e+01 1ecfA 504 1.85e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 2grvA 621 1.87e+01 1vz0A 230 1.91e+01 a.4.14.1,d.268.1.1 108929,108930 1gq6A 313 1.93e+01 c.42.1.1 70341 1a49A 530 1.96e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1ys1X 320 1.98e+01 1vr6A 350 2.02e+01 c.1.10.4 120439 2z10A 194 2.02e+01 2gjsA 176 2.02e+01 c.37.1.8 135287 1j7jA 178 2.03e+01 c.61.1.1 84131 2amyA 246 2.09e+01 c.108.1.10 127026 2qg7A 458 2.12e+01 1zclA 180 2.13e+01 1cc1L 498 2.15e+01 1h2rL e.18.1.1 43301 1v5rA 97 2.17e+01 d.82.4.1 119854 2fueA 262 2.17e+01 c.108.1.10 134119 2ip2A 334 2.20e+01 1hdmB 193 2.21e+01 1hdmB b.1.1.2,d.19.1.1 21584,38158 3bw8A 217 2.31e+01 1r4aA 165 2.37e+01 c.37.1.8 96986 2oseA 234 2.37e+01 1eq3A 96 2.38e+01 1eq3A d.26.1.1 59486 2bjfA 329 2.38e+01 1jofA 365 2.42e+01 b.69.10.1 71775 1a03A 90 2.43e+01 4icb a.39.1.2 17157 1nox 205 2.44e+01 1nox 1noxA 205 2.44e+01 d.90.1.1 40242 2gu3A 136 2.44e+01 2g50A 530 2.45e+01 b.58.1.1,c.1.12.1,c.49.1.1 134618,134619,134620 1tg7A 971 2.58e+01 b.149.1.1,b.18.1.27,b.18.1.27,b.71.1.5,c.1.8.14 112418,112419,112420,112421,112422 2h8gA 267 2.58e+01 1b8aA 438 2.59e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1gt6A 269 2.69e+01 c.69.1.17 76342 1zkiA 133 2.70e+01 d.38.1.5 125199 1konA 249 2.71e+01 e.39.1.1 72823 2e1bA 216 2.71e+01 3c8cA 240 2.73e+01 2iorA 235 2.78e+01 2aexA 346 2.82e+01 1lshA 1056 2.85e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 2edmA 161 2.87e+01 2dekA 265 3.00e+01 c.90.1.1 131430 1d3uA 181 3.01e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1mvwC 147 3.04e+01 i.15.1.1 79525 2joyA 96 3.08e+01 2iskA 230 3.09e+01 1dlcA 584 3.09e+01 b.18.1.3,b.77.2.1,f.1.3.1 23719,27976,43391 1t64A 377 3.09e+01 c.42.1.2 106543 2dpfA 115 3.11e+01 1r5mA 425 3.12e+01 2p19A 149 3.28e+01 3cgxA 242 3.31e+01 1b3bA 415 3.40e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1x24A 180 3.41e+01 2yugA 155 3.49e+01 1sv6A 269 3.49e+01 d.177.1.1 106043 2a6hC 1119 3.55e+01 e.29.1.1 126264 1r69 69 3.56e+01 1r69 1r69A 69 3.56e+01 a.35.1.2 17028 2yvyA 278 3.65e+01 2rkpA 335 3.66e+01 1b85A 351 3.69e+01 1arv a.93.1.1 18581 2bcjB 340 3.72e+01 b.69.4.1 128289 2o35A 105 3.79e+01 2olsA 794 3.84e+01 2j8qA 227 3.97e+01 1xmzA 241 3.98e+01 2a50B 168 3.99e+01 2agyD 135 4.05e+01 2oizD 135 4.05e+01 1nr0A 611 4.09e+01 b.69.4.1,b.69.4.1 86078,86079 2icjA 233 4.09e+01 2f22A 144 4.10e+01 a.213.1.2 132795 2j4jA 226 4.11e+01 1o7fA 469 4.13e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1ofzA 312 4.15e+01 b.68.8.1 86978 2ivfA 976 4.25e+01 1xezA 721 4.31e+01 2i3oA 516 4.36e+01 d.153.1.6 137027 2g6yA 217 4.39e+01 2bduA 297 4.41e+01 1h65A 270 4.42e+01 c.37.1.8 65640 1c8oA 300 4.51e+01 1c8oA e.1.1.1 42677 2ib5A 233 4.52e+01 1hk9A 74 4.56e+01 b.38.1.2 83541 2nvmA 126 4.56e+01 d.326.1.1 138631 1b26A 416 4.64e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 1iwmA 186 4.67e+01 b.125.1.2 83758 1vm6A 228 4.72e+01 d.81.1.3,c.2.1.3 108877,118631 1hce 118 4.74e+01 1hce 2r78A 117 4.78e+01 1xd5A 112 4.81e+01 b.78.1.1 115155 2dpxA 174 4.82e+01 1u1sA 82 4.83e+01 b.38.1.2 119451 1xr4A 509 4.86e+01 c.124.1.2,c.124.1.2 115860,115861 3bqcA 335 4.86e+01 2oryA 346 4.86e+01 2brxA 244 4.90e+01 c.73.1.3 129028 1p7gA 222 4.95e+01 a.2.11.1,d.44.1.1 94223,94224 1kcw 1046 4.96e+01 1kcw 1kcwA 1046 4.96e+01 b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3 23151,23152,23153,23154,23155,23156 1b80A 351 4.99e+01 1arv a.93.1.1 18579 2in5A 207 5.06e+01 2q3pA 112 5.07e+01 d.58.4.4 139798 1g0oA 283 5.08e+01 1ybvA c.2.1.2 60181 1ybvA 283 5.13e+01 1ybvA c.2.1.2 29948 2p97A 201 5.14e+01 1ymiA 334 5.14e+01 2bf5A 98 5.15e+01 d.137.1.1 128405 1qksA 567 5.16e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1du6A 64 5.24e+01 1akhA a.4.1.1 16002 2id0A 644 5.35e+01 1whzA 70 5.37e+01 d.50.3.2 114656 2okgA 255 5.39e+01 2hb0A 369 5.39e+01 1bkjA 240 5.45e+01 1bkjA d.90.1.1 40243 1gotB 340 5.47e+01 1tbgA b.69.4.1 27648 1zjcA 418 5.49e+01 e.60.1.1 125147 1mx4A 168 5.49e+01 d.211.1.1 79640 1mc0A 368 5.52e+01 d.110.2.1,d.110.2.1 78937,78938 2dhoA 235 5.53e+01 1hq0A 295 5.55e+01 1hzgA d.194.1.1 61122 1j1jA 240 5.57e+01 a.118.16.1 90762 2a4vA 159 5.57e+01 c.47.1.10 126163 1zuhA 168 5.59e+01 2a2cA 478 5.61e+01 1ihbA 162 5.61e+01 1bd8 d.211.1.1 19161 1ae9A 179 5.68e+01 1ae9A d.163.1.1 42153 1zud2 66 5.68e+01 1cdwA 179 5.69e+01 1ytbA d.129.1.1,d.129.1.1 41212,41213 1hzgA 295 5.76e+01 1hzgA d.194.1.1 61436 3bxtA 257 5.78e+01 1oi7A 288 5.81e+01 c.2.1.8,c.23.4.1 87049,87050 1ui7A 638 5.84e+01 b.30.2.1,d.17.2.1,d.17.2.1 99413,99414,99415 1atnA 373 5.85e+01 1yagA c.55.1.1,c.55.1.1 33437,33438 3bhoA 208 5.91e+01 2yy3A 91 5.93e+01 1zvdA 380 5.93e+01 2gmqA 118 5.98e+01 1js8A 394 6.01e+01 a.86.1.1,b.112.1.1 67219,67220 1wjxA 122 6.02e+01 b.111.1.1 114716 1d3yA 301 6.02e+01 1d3yA e.12.1.1 43252 2j69A 695 6.06e+01 1j8yF 297 6.10e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1ywuA 149 6.13e+01 b.45.2.1 124164 3bi1A 709 6.15e+01 2ganA 190 6.15e+01 d.108.1.1 134889 1k7yA 577 6.16e+01 a.46.1.1,c.23.6.1,d.173.1.1 68272,68273,68274 2e0qA 104 6.19e+01 1hlcA 129 6.22e+01 1c1lA b.29.1.3 24208 2ootA 709 6.26e+01 a.48.2.1,c.8.4.1,c.56.5.5 139176,139177,139178 1anxA 319 6.27e+01 1avc a.65.1.1 18161 1vkiA 181 6.32e+01 d.116.1.1 108664 2or4A 709 6.34e+01 a.48.2.1,c.8.4.1,c.56.5.5 139258,139259,139260 1rcwA 231 6.36e+01 a.132.1.4 97299 1p3jA 217 6.36e+01 c.37.1.1,g.41.2.1 94022,94023 1j8mF 297 6.39e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1swvA 267 6.40e+01 c.108.1.3 112134 1o97D 320 6.40e+01 c.26.2.3,c.31.1.2 81233,81234 3bhxA 709 6.41e+01 1d0qA 103 6.43e+01 1d0qA g.41.3.2 45208 2gojA 197 6.44e+01 2i7vA 459 6.46e+01 1a6dA 545 6.58e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 1yemA 179 6.63e+01 d.63.1.2 116646 1ugiA 84 6.64e+01 1ugiA d.17.5.1 38125 2f9dA 125 6.68e+01 d.58.7.1 133159 2q7eA 291 6.75e+01 2odiA 238 6.75e+01 2pvrA 334 6.78e+01 1ef4A 55 6.80e+01 1ef4A a.4.11.1 16272 1i2mA 216 6.87e+01 1byuA c.37.1.8 61568 1t5hX 504 6.94e+01 e.23.1.1 106449 2eu8A 216 7.04e+01 2hvqA 335 7.06e+01 1rg9A 383 7.06e+01 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 1q0sA 259 7.06e+01 c.66.1.28 95509 1wuaA 375 7.14e+01 c.55.1.1,c.55.1.1 121281,121282 3cbtA 237 7.16e+01 2ox7A 155 7.16e+01 2ix2B 245 7.21e+01 3c2uA 538 7.27e+01 1iznB 277 7.30e+01 e.43.1.2 83848 1on3A 523 7.33e+01 c.14.1.4,c.14.1.4 87107,87108 2z2mA 168 7.37e+01 1udiI 83 7.37e+01 1ugiA d.17.5.1 38124 1m93B 245 7.41e+01 2va8A 715 7.46e+01 2go2A 163 7.47e+01 2ntkA 222 7.48e+01 d.153.2.1 138583 1ecsA 126 7.50e+01 1ecsA d.32.1.2 59407 2fxuA 375 7.51e+01 c.55.1.1,c.55.1.1 134340,134341 2rcyA 262 7.52e+01 1xb2B 291 7.55e+01 a.5.2.2,d.43.1.1,d.43.1.1 115057,115058,115059 2qfjA 216 7.55e+01 1qz5A 375 7.59e+01 c.55.1.1,c.55.1.1 96614,96615 1k8kA 418 7.59e+01 c.55.1.1,c.55.1.1 68305,68306 1rkqA 282 7.59e+01 c.108.1.10 97621 3sil 379 7.64e+01 3sil 3silA 379 7.64e+01 b.68.1.1 27542 1msk 331 7.70e+01 1msk 1mskA 331 7.70e+01 d.173.1.1 42495 1q5fA 156 7.71e+01 d.24.1.1 104536 1wi6A 88 7.74e+01 d.58.7.1 120974 1rwsA 77 7.74e+01 d.15.3.2 97991 2o38A 120 7.74e+01 1hzoA 271 7.75e+01 e.3.1.1 71092 2jw5A 106 7.78e+01 2be1A 339 7.90e+01 1w6gA 646 7.91e+01 b.30.2.1,d.17.2.1,d.17.2.1 120660,120661,120662 1vkmA 297 7.92e+01 c.138.1.1 108670 2ozpA 345 7.93e+01 2o0mA 345 7.95e+01 2hpvA 208 7.96e+01 2d1wA 638 7.98e+01 b.30.2.1,d.17.2.1,d.17.2.1 131145,131146,131147