# List of top-scoring protein chains for t2k.100-30-dssp-ebghstl 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 2hkjA 469 1.79e-07 a.156.1.3 136553 d.14.1.3 136554 d.122.1.2 136555 1mx0A 472 2.09e-07 a.156.1.3 79618 d.14.1.3 79619 d.122.1.2 79620 1mu5A 471 7.67e-07 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1tdzA 272 7.04e-06 a.156.1.2 106787 b.113.1.1 106788 g.39.1.8 106789 1pjjA 271 7.30e-06 a.156.1.2 104164 b.113.1.1 104165 g.39.1.8 104166 1r2zA 274 2.58e-05 a.156.1.2 96892 b.113.1.1 96893 g.39.1.8 96894 1l1zA 274 4.44e-05 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1ee8A 266 4.55e-05 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1k82A 268 6.19e-05 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 1k3xA 262 1.95e-03 a.156.1.2 77242 b.113.1.1 77243 g.39.1.8 77244 1s1hM 132 2.19e-02 i.1.1.1 105165 1fjgM 126 2.70e-02 1fjfM a.156.1.1 16293 2vqeM 126 4.01e-02 2qalM 117 5.87e-02 2r6fA 972 1.01e-01 1tdhA 364 1.53e-01 a.156.1.2 106772 b.113.1.1 106773 g.39.1.8 106774 1h8aC 128 2.18e-01 a.4.1.3 65731 a.4.1.3 65732 2og1A 286 2.78e-01 2pujA 286 2.82e-01 2puhA 286 3.47e-01 2rhwA 283 3.52e-01 2ol2A 395 6.41e-01 2hi0A 240 1.05e+00 3b9fI 395 1.59e+00 1p3qQ 54 1.61e+00 a.5.2.4 87748 1bqbA 301 1.97e+00 1hyt d.92.1.2 58962 2pibA 216 2.00e+00 1umdA 367 2.07e+00 c.36.1.11 99599 3cswA 285 2.13e+00 2p6xA 309 2.43e+00 2p62A 241 2.56e+00 1zi0A 307 2.64e+00 2q4kA 251 2.72e+00 d.86.1.2 139864 2blfB 81 2.89e+00 1sgwA 214 3.24e+00 c.37.1.12 105541 1uteA 313 3.31e+00 1uteA d.159.1.1 42078 2vdxA 373 3.39e+00 2gs8A 317 3.44e+00 1g291 372 3.67e+00 1g291 1yxaA 398 3.74e+00 1twfB 1224 4.20e+00 e.29.1.1 112726 1ztpA 251 4.31e+00 d.86.1.2 125649 1wfyA 104 4.41e+00 d.15.1.5 114597 1b43A 340 4.48e+00 1a76 a.60.7.1 18092 c.120.1.2 33362 2qr7A 342 4.66e+00 1te5A 257 4.85e+00 d.153.1.1 106795 2v8pA 271 5.06e+00 1ej5A 107 5.16e+00 1ej5A a.68.1.1 18268 1rykA 69 5.17e+00 a.60.11.1 98105 1llnA 262 5.18e+00 d.165.1.1 84625 1xw2A 405 5.41e+00 a.102.1.2 122389 1qyrA 252 5.48e+00 c.66.1.24 104657 1h12A 405 5.55e+00 a.102.1.2 83447 2vrqA 496 5.56e+00 2qjoA 341 5.62e+00 1lpjA 133 6.19e+00 b.60.1.2 78123 1xwtA 405 6.29e+00 a.102.1.2 122410 1wrmA 165 6.33e+00 2esbA 188 6.72e+00 1l7vC 249 6.82e+00 c.37.1.12 73674 2imgA 151 7.00e+00 1f6fA 199 7.22e+00 1f6fA a.26.1.1 16839 2e2rA 244 7.27e+00 2gpuA 230 7.68e+00 a.123.1.1 135493 1d2sA 170 7.70e+00 1d2sA b.29.1.4 24221 2z2uA 311 7.71e+00 1ojqA 212 7.98e+00 d.166.1.1 93146 1hxpA 348 8.38e+00 1guqA d.13.1.2 37530 d.13.1.2 37531 1y1xA 191 8.49e+00 a.39.1.8 116374 2hf0A 316 8.50e+00 1wkbA 810 8.94e+00 1sfxA 109 9.30e+00 a.4.5.50 105505 1njrA 284 9.78e+00 c.50.1.2 103858 1s9pA 227 9.92e+00 a.123.1.1 105384 2bcgG 453 1.02e+01 c.3.1.3 128282 c.3.1.3 128283 d.16.1.6 128284 2hoeA 380 1.03e+01 a.4.5.63 136639 c.55.1.10 136640 c.55.1.10 136641 1cc5 83 1.06e+01 1cc5 1cc5A 83 1.06e+01 a.3.1.1 15901 2qi9C 249 1.07e+01 1zymA 258 1.09e+01 1zymA a.60.10.1 18110 c.8.1.2 30705 1c4oA 664 1.10e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1qtqA 553 1.10e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 1u0kA 288 1.10e+01 d.21.1.2 107547 d.21.1.2 107548 1gtrA 553 1.11e+01 1gtrA b.53.1.2 26939 c.26.1.1 31578 1yhvA 297 1.11e+01 1mn3A 54 1.15e+01 a.5.2.4 85024 1mkrA 294 1.17e+01 a.93.1.1 84997 1qlpA 394 1.17e+01 1ovaA e.1.1.1 42628 1qz9A 416 1.18e+01 c.67.1.3 96621 2qdyA 207 1.20e+01 2cz1A 206 1.22e+01 d.149.1.1 131033 1qc7A 101 1.23e+01 1qc7A a.118.14.1 18456 1mqkH 127 1.25e+01 b.1.1.1 85053 2fp4B 395 1.26e+01 c.23.4.1 133897 d.142.1.4 133898 1fcdC 174 1.27e+01 1fcdC a.3.1.4 15966 a.3.1.4 15967 1v63A 101 1.28e+01 a.21.1.1 108391 1d3bB 91 1.29e+01 1d3bB b.38.1.1 24804 1gvnA 90 1.30e+01 a.8.2.1 76353 1wiwA 290 1.31e+01 c.80.1.1 114681 2furA 209 1.31e+01 b.45.1.1 134185 1o97D 320 1.32e+01 c.26.2.3 81233 c.31.1.2 81234 2a19B 284 1.32e+01 2jv2A 83 1.33e+01 1vddA 228 1.35e+01 e.49.1.1 108519 1reqA 727 1.36e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 5reqA 727 1.37e+01 1reqA c.1.19.1 29632 c.23.6.1 31259 2ejaA 338 1.37e+01 1eudB 396 1.37e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1cfr 285 1.40e+01 1cfr 1cfrA 285 1.40e+01 c.52.1.7 33312 1cf7B 95 1.45e+01 1cf7B a.4.5.17 16152 2qt3A 403 1.45e+01 1hmt 132 1.46e+01 1hmt 1hmtA 132 1.46e+01 b.60.1.2 27169 1nm1G 125 1.46e+01 d.109.1.1 80653 1fvkA 189 1.46e+01 1fvkA c.47.1.13 90351 2ajrA 331 1.47e+01 c.72.1.1 126892 1jjrA 151 1.48e+01 a.140.2.1 66772 2r14A 377 1.48e+01 2r31A 239 1.48e+01 2b9hA 353 1.49e+01 1jb7A 495 1.49e+01 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 2o3bB 136 1.49e+01 d.221.1.1 138902 2jejA 358 1.50e+01 d.240.1.1 138284 e.8.1.7 138285 1otcA 495 1.50e+01 1otcA b.40.4.3 25307 b.40.4.3 25308 b.40.4.3 25309 1ac1A 189 1.52e+01 1fvkA c.47.1.13 90326 2fnjA 226 1.57e+01 b.29.1.22 133818 2qxlA 658 1.58e+01 1d4xG 126 1.59e+01 1d0nA d.109.1.1 59109 1sazA 381 1.60e+01 c.55.1.2 118925 c.55.1.2 118926 3bqsA 93 1.65e+01 2nykA 285 1.68e+01 1acvA 189 1.69e+01 1fvkA c.47.1.13 90328 3bbdA 205 1.69e+01 2gwmA 200 1.70e+01 1uf5A 303 1.70e+01 d.160.1.2 107808 2eb0A 307 1.71e+01 1p0iA 529 1.72e+01 c.69.1.1 93867 2nnnA 140 1.73e+01 1t44G 147 1.74e+01 d.109.1.1 106395 1u3aA 189 1.75e+01 c.47.1.13 119504 1y8qA 346 1.76e+01 2ts1 419 1.79e+01 2ts1 2gqbA 130 1.80e+01 1xqwA 293 1.81e+01 1ebmA 317 1.81e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1o08A 221 1.85e+01 c.108.1.6 86525 2q2bA 179 1.86e+01 1dcuA 357 1.86e+01 1frpA e.7.1.1 42943 2osxA 481 1.88e+01 1guqA 348 1.89e+01 1guqA d.13.1.2 37522 d.13.1.2 37523 2achA 360 1.94e+01 1c8oA e.1.1.1 42626 2eutA 294 1.97e+01 a.93.1.1 132407 2j3wB 188 1.98e+01 2ohyA 539 1.99e+01 1y2qA 143 2.00e+01 2fa5A 162 2.02e+01 1t3bA 211 2.04e+01 c.47.1.9 106341 d.17.3.1 106342 1fmcA 255 2.06e+01 1cydA c.2.1.2 29856 1fieA 731 2.06e+01 1f13A b.1.18.9 21879 b.1.5.1 22167 b.1.5.1 22168 d.3.1.4 37109 2ahjA 206 2.06e+01 2ahjA d.149.1.1 41772 1oaoA 674 2.07e+01 e.26.1.2 86744 1wmwA 330 2.07e+01 1jdrA 294 2.08e+01 1ryc a.93.1.1 62908 1iurA 88 2.08e+01 a.2.3.1 90704 1erzA 303 2.10e+01 1erzA d.160.1.2 59498 1z53A 294 2.11e+01 a.93.1.1 124449 2rgxA 206 2.12e+01 1qhtA 775 2.14e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 2v8qA 157 2.15e+01 2j1dG 483 2.15e+01 1j57A 143 2.15e+01 d.221.1.1 77079 2hcmA 164 2.18e+01 2fvgA 340 2.19e+01 b.49.3.1 134201 c.56.5.4 134202 2vktA 289 2.27e+01 2hl0A 143 2.28e+01 2z20A 432 2.30e+01 3b55A 451 2.33e+01 1fm2B 520 2.37e+01 1fm2B 2yyyA 343 2.39e+01 2bgxA 261 2.39e+01 a.20.1.1 128504 d.118.1.1 128505 1sz7A 200 2.40e+01 1jx4A 352 2.41e+01 d.240.1.1 90378 e.8.1.7 90379 2uubD 209 2.44e+01 d.66.1.2 139935 1zo0A 126 2.44e+01 d.108.1.7 125416 1ldg 316 2.46e+01 1ceqA 1mp1A 111 2.49e+01 a.188.1.1 91382 1g6hA 257 2.52e+01 1gajA c.37.1.12 60318 2v27A 275 2.56e+01 1nnwA 252 2.62e+01 d.159.1.5 80674 2jqoA 108 2.63e+01 2q4zA 312 2.65e+01 1zd1A 284 2.68e+01 1pwxA 254 2.73e+01 c.2.1.2 95262 1xuvA 178 2.74e+01 d.129.3.5 116069 2imfA 203 2.75e+01 1ex0A 731 2.78e+01 b.1.18.9 90465 b.1.5.1 90466 b.1.5.1 90467 d.3.1.4 90468 1as4A 341 2.79e+01 1sek e.1.1.1 42623 1zmtA 254 2.80e+01 c.2.1.2 125363 1zmoA 244 2.81e+01 2qjxA 127 2.83e+01 1ht9A 76 2.83e+01 4icb a.39.1.1 61252 2nutA 769 2.84e+01 3d33A 108 2.84e+01 1fjgD 209 2.86e+01 1c05A d.66.1.2 39553 1uheA 97 2.86e+01 1vqrA 297 2.87e+01 a.211.1.3 114015 1gsoA 431 2.90e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 2ge3A 170 2.91e+01 d.108.1.1 135044 1mtzA 293 2.91e+01 c.69.1.7 79467 1vljA 407 2.92e+01 e.22.1.2 108832 1lwyA 324 2.94e+01 a.96.1.3 78285 d.129.1.2 78286 2pidA 356 2.95e+01 1y7oA 218 2.96e+01 c.14.1.1 122701 2jrbA 88 2.96e+01 1j8yF 297 2.97e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1uuqA 440 3.01e+01 c.1.8.3 100015 2obpA 96 3.04e+01 1g0cA 364 3.09e+01 7a3hA c.1.8.3 60165 1qd9A 124 3.13e+01 1qu9A d.79.1.1 39758 1fi4A 416 3.19e+01 1fi4A d.14.1.5 59847 d.58.26.2 59848 3ctzA 623 3.27e+01 2gy9D 204 3.28e+01 1kfuS 184 3.29e+01 a.39.1.8 68574 1kw4A 89 3.29e+01 a.60.1.2 73077 2yrxA 451 3.29e+01 2hs8A 402 3.30e+01 2agyD 135 3.32e+01 2oizD 135 3.32e+01 1jhnA 424 3.32e+01 b.29.1.12 70060 b.104.1.1 66722 1zs9A 261 3.33e+01 c.108.1.22 125600 2duyA 75 3.33e+01 2a97A 439 3.34e+01 2jn6A 97 3.35e+01 1ois 223 3.36e+01 1a36A 1oisA 223 3.36e+01 e.15.1.1 43267 1vk2A 204 3.37e+01 c.18.1.2 100845 2yr5A 721 3.38e+01 1j8mF 297 3.39e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1tgoA 773 3.41e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 2dt4A 143 3.41e+01 1mpyA 307 3.42e+01 1mpyA d.32.1.3 38508 d.32.1.3 38509 1dseA 292 3.42e+01 1ryc a.93.1.1 59130 2of7A 260 3.47e+01 1fpzA 212 3.47e+01 1fpzA c.45.1.1 59976 1f4qA 165 3.48e+01 1alvA a.39.1.8 17360 3cx5F 146 3.49e+01 2hjqA 111 3.49e+01 1bvzA 585 3.49e+01 1bvzA b.1.18.2 21856 b.71.1.1 27783 c.1.8.1 28770 1gehA 444 3.51e+01 c.1.14.1 65181 d.58.9.1 65182 1a03A 90 3.51e+01 4icb a.39.1.2 17157 3ctvA 110 3.51e+01 1zkeA 83 3.52e+01 a.30.6.1 125186 2rkhA 180 3.53e+01 2j5vA 367 3.54e+01 2p3yA 491 3.55e+01 2jabA 136 3.59e+01 2q73A 100 3.61e+01 2astA 159 3.62e+01 1awcB 153 3.62e+01 1bd8 d.211.1.1 19156 2v75A 104 3.63e+01 1qmqA 414 3.63e+01 1phd a.104.1.1 18907 1ryc 294 3.63e+01 1ryc 1gk1B 522 3.63e+01 2epbA 68 3.68e+01 2pt7A 330 3.71e+01 1m3qA 317 3.71e+01 a.96.1.3 91184 d.129.1.2 91185 1x6iA 91 3.71e+01 1hqvA 191 3.72e+01 1hqvA a.39.1.8 61160 1ju5A 109 3.74e+01 d.93.1.1 77173 2aqwA 332 3.75e+01 c.1.2.3 127184 1t64A 377 3.77e+01 c.42.1.2 106543 1evuA 731 3.78e+01 1f13A b.1.18.9 21883 b.1.5.1 22175 b.1.5.1 22176 d.3.1.4 37113 2hhjA 267 3.79e+01 c.60.1.1 136497 2aaxA 275 3.81e+01 1xg8A 111 3.82e+01 c.47.1.17 115283 1ey4A 149 3.85e+01 1snc b.40.1.1 24815 1b8gA 429 3.89e+01 1b8gA c.67.1.4 34499 1or0B 528 3.92e+01 2pgwA 384 3.92e+01 1snlA 103 3.93e+01 a.39.1.7 105820 1qzpA 68 3.98e+01 a.14.1.1 96654 2qe8A 343 3.98e+01 2qhoB 53 3.99e+01 1gky 187 4.00e+01 1gky