# 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.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 1o4sA 389 2.93e-01 c.67.1.1 86620 1lwdA 413 7.14e-01 c.77.1.1 78265 1paqA 189 7.69e-01 1v74B 87 7.73e-01 1eemA 241 7.98e-01 1eemA a.45.1.1 17717 c.47.1.5 33011 1qusA 322 9.10e-01 1ltm d.2.1.6 36991 1l5zA 155 9.55e-01 c.23.1.1 77722 1w0hA 204 1.00e-00 1qkkA 155 1.05e+00 1dbwA c.23.1.1 31104 1peqA 714 1.07e+00 1klt 226 1.14e+00 5ptp b.47.1.2 26300 1ltm 320 1.18e+00 1ltm d.2.1.6 36992 1j30A 144 1.50e+00 1ko9A 345 1.59e+00 a.96.1.3 68717 d.129.1.2 68718 1lwyA 324 1.61e+00 a.96.1.3 78285 d.129.1.2 78286 1n83A 270 1.69e+00 a.123.1.1 80276 1ebmA 317 1.74e+00 1ebmA a.96.1.3 18751 d.129.1.2 41300 1hw1A 239 1.85e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1mhyB 395 2.03e+00 1mtyB a.25.1.2 16781 1fftC 204 2.06e+00 1fftC f.25.1.1 43629 1kfuS 184 2.19e+00 a.39.1.8 68574 1rtwA 220 2.26e+00 1n45A 233 2.32e+00 a.132.1.1 79981 1pv6A 417 3.08e+00 1k8eA 345 3.13e+00 1o17A 345 3.13e+00 a.46.2.1 80765 c.27.1.1 80766 1kgsA 225 3.18e+00 a.4.6.1 68596 c.23.1.1 68597 1izcA 339 3.31e+00 c.1.12.5 83838 1kf6A 602 3.37e+00 a.7.3.1 72394 c.3.1.4 72395 d.168.1.1 72396 1fonA 240 4.17e+00 5ptp b.47.1.2 26231 1oshA 232 4.23e+00 1syyA 346 4.39e+00 1tqgA 105 4.43e+00 1ku1A 230 4.54e+00 a.118.3.1 72996 1rtxA 123 4.58e+00 1omrA 201 4.63e+00 1oe8A 211 4.69e+00 a.45.1.1 86905 c.47.1.5 86906 1e2xA 243 4.88e+00 1e2xA a.4.5.6 16113 a.78.1.1 18443 1i37A 260 5.03e+00 1a28A a.123.1.1 61583 1pu6A 218 5.16e+00 1a05A 358 5.36e+00 1cnzA c.77.1.1 35059 1xsm 390 5.45e+00 1xsm a.25.1.2 16804 1m3qA 317 5.50e+00 1h3fA 432 5.67e+00 c.26.1.1 76631 d.66.1.4 76632 1qqfA 277 5.76e+00 1c3d a.102.4.4 18875 1twfF 155 5.78e+00 1s9pA 227 5.83e+00 1i50F 155 5.90e+00 d.78.1.2 61760 1rfzA 168 6.05e+00 1iow 306 6.31e+00 1iow c.30.1.2 31713 d.142.1.1 41481 1hlvA 131 6.39e+00 a.4.1.7 65854 a.4.1.7 65855 1bed 181 6.43e+00 1fvkA a.44.1.1 17514 c.47.1.4 32808 1mhyG 169 6.84e+00 1mtyG a.23.3.1 16518 1mijA 152 6.92e+00 a.4.1.1 79150 1pjpA 226 7.01e+00 5ptp b.47.1.2 26301 1qgjA 300 7.41e+00 1bgp a.93.1.1 18691 1colA 204 7.44e+00 1a87 f.1.1.1 43378 1e96B 203 7.66e+00 1e96B a.118.8.1 19211 1w7bA 339 7.79e+00 1f4qA 165 7.81e+00 1alvA a.39.1.8 17360 1f5qB 252 7.87e+00 1f5qB a.74.1.1 18362 a.74.1.1 18363 1ljrA 244 8.10e+00 1ljrA a.45.1.1 17707 c.47.1.5 33001 1cm7A 363 8.32e+00 1cnzA c.77.1.1 35063 1dw0A 112 8.60e+00 1dw0A a.3.1.1 15911 1iv8A 720 8.86e+00 b.71.1.1 76842 c.1.8.1 76843 1t7rA 269 8.90e+00 1hh8A 213 8.95e+00 1e96B a.118.8.1 61042 1htjF 210 9.40e+00 1htjF a.91.1.1 61254 1w68A 390 9.45e+00 1ois 223 9.69e+00 1a36A e.15.1.1 43267 1om2A 95 9.86e+00 1om2A a.23.4.1 16520 1lnrI 134 1.01e+01 1j8uA 325 1.01e+01 d.178.1.1 71611 2lhb 149 1.01e+01 2fal a.1.1.2 15597 1myt 146 1.01e+01 1a6m a.1.1.2 15207 1ouvA 273 1.02e+01 1guxB 152 1.04e+01 1guxB a.74.1.3 18389 1kxpD 458 1.04e+01 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 2dln 306 1.05e+01 1iow c.30.1.2 31715 d.142.1.1 41483 1r5qA 102 1.07e+01 1k94A 165 1.08e+01 a.39.1.8 68333 4ubpA 101 1.10e+01 1ubpA d.8.1.1 37352 1s2xA 206 1.11e+01 1ka2A 499 1.13e+01 d.92.1.5 77305 1qcrA 446 1.13e+01 1be3A d.185.1.1 59025 d.185.1.1 59026 1tfe 145 1.15e+01 1tfe d.43.1.1 38680 1mlwA 301 1.17e+01 d.178.1.1 79289 1csn 298 1.21e+01 1csn d.144.1.7 41664 1ash 150 1.25e+01 1ash a.1.1.2 15622 1t3wA 148 1.28e+01 1enfA 212 1.31e+01 3seb b.40.2.2 25198 d.15.6.1 37787 1hizA 379 1.32e+01 c.1.8.3 65841 1ebuA 358 1.35e+01 1ebuA c.2.1.3 30035 d.81.1.2 39950 1tu3F 79 1.37e+01 1uujA 88 1.38e+01 1ng1 294 1.38e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1g8iA 190 1.40e+01 1rec a.39.1.5 60363 1vg0A 650 1.44e+01 1jpnA 296 1.44e+01 a.24.13.1 67039 c.37.1.10 67040 1m1cA 680 1.46e+01 e.42.1.1 78395 1ls1A 295 1.46e+01 a.24.13.1 78170 c.37.1.10 78171 1ubpA 101 1.48e+01 1ubpA d.8.1.1 37353 1fz1C 389 1.49e+01 1mtyB a.25.1.2 16746 1or7A 194 1.51e+01 a.4.13.2 87332 a.177.1.1 87333 1wmuA 141 1.53e+01 1ihoA 283 1.54e+01 1ihoA c.26.1.4 62390 1itwA 741 1.55e+01 c.77.1.2 76793 1a4pA 96 1.57e+01 1b4cA a.39.1.2 17176 1pah 308 1.57e+01 4pah d.178.1.1 42578 1iq3A 110 1.58e+01 1iq3A a.39.1.6 62640 1qu7A 227 1.60e+01 1qu7A h.4.5.1 45789 1ew6A 137 1.65e+01 1ewaA a.1.1.2 15637 1ewaA 137 1.65e+01 1ewaA a.1.1.2 15639 1dmwA 307 1.66e+01 4pah d.178.1.1 42580 1rp3B 88 1.66e+01 1r85A 379 1.68e+01 2ng1 293 1.71e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1ew6B 137 1.72e+01 1ewaA a.1.1.2 15638 1seiA 130 1.73e+01 1seiA d.140.1.1 41463 1huw 166 1.77e+01 1huw a.26.1.1 16831 1cipA 353 1.77e+01 1cipA a.66.1.1 18210 c.37.1.8 32093 3sdhA 146 1.79e+01 3sdhA a.1.1.2 14984 1vp4A 425 1.80e+01 1o0wA 252 1.82e+01 a.149.1.1 80751 d.50.1.1 80752 1tdpA 111 1.83e+01 1x9mA 698 1.83e+01 1otkA 249 1.84e+01 2tct 207 1.87e+01 2tct a.4.1.9 16063 a.121.1.1 19240 1o0sA 605 1.88e+01 c.2.1.7 86540 c.58.1.3 86541 1j4nA 271 1.90e+01 f.19.1.1 71510 4pah 308 1.91e+01 4pah d.178.1.1 42576 1h99A 224 1.92e+01 a.142.1.1 60814 a.142.1.1 60815 1jk0A 419 1.95e+01 a.25.1.2 63142 1am7A 158 2.04e+01 1am7A d.2.1.4 36981 1mtyB 384 2.04e+01 1mtyB a.25.1.2 16740 1b89A 449 2.05e+01 1b89A a.118.1.3 19138 1wkqA 164 2.13e+01 1v7wA 807 2.14e+01 1dseA 292 2.15e+01 1ryc a.93.1.1 59130 1eh2 106 2.16e+01 1eh2 a.39.1.6 17339 1aoa 275 2.17e+01 1aoa a.40.1.1 17396 a.40.1.1 17397 1odoA 408 2.18e+01 1gqeA 365 2.21e+01 e.38.1.1 70351 1cnzA 363 2.22e+01 1cnzA c.77.1.1 35061 1p57B 255 2.25e+01 1qo7A 394 2.29e+01 1qo7A c.69.1.11 34697 1uxtA 501 2.31e+01 1yrnB 83 2.33e+01 1akhB a.4.1.1 15986 1k04A 162 2.33e+01 a.24.14.1 67904 1f5sA 211 2.36e+01 1f5sA c.108.1.4 59656 1j97A 211 2.38e+01 1f5sA c.108.1.4 62753 1iuqA 367 2.40e+01 1t07A 94 2.43e+01 1dgsA 667 2.46e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1jgsA 138 2.49e+01 a.4.5.28 66683 1ewcA 214 2.51e+01 3seb b.40.2.2 25199 d.15.6.1 37788 1p5sA 203 2.52e+01 1qq8A 214 2.53e+01 1qq8A 1ryc 294 2.53e+01 1ryc a.93.1.1 18601 1p2xA 159 2.57e+01 1ax4A 467 2.57e+01 1ax4A c.67.1.2 34391 2cyp 294 2.59e+01 1ryc a.93.1.1 18600 1fqvD 149 2.63e+01 1fqvD a.157.1.1 19263 d.42.1.1 38667 1spgB 147 2.64e+01 1cg5B a.1.1.2 15588 1l2iA 261 2.65e+01 a.123.1.1 73503 1ds4A 292 2.70e+01 1ryc a.93.1.1 59129 1uddA 226 2.73e+01 1pc6A 146 2.74e+01 1mmoB 384 2.76e+01 1mtyB a.25.1.2 16768 1l7mA 211 2.76e+01 c.108.1.4 73664 1dboA 506 2.77e+01 1dbgA b.80.1.4 28034 1no7A 604 2.78e+01 1go3F 107 2.78e+01 a.60.8.2 65407 1rec 201 2.83e+01 1rec a.39.1.5 17326 1eza 259 2.84e+01 1zymA a.60.10.1 18113 c.8.1.2 30708 3icb 75 2.86e+01 4icb a.39.1.1 17147 1alvA 173 2.87e+01 1alvA a.39.1.8 17370 1ppjA 446 2.87e+01 1exeA 99 2.88e+01 1huuA a.55.1.1 17906 1h0oA 390 2.90e+01 a.25.1.2 70845 2mysB 166 2.92e+01 1wdcB a.39.1.5 17308 1qb2A 109 2.92e+01 1qb2A a.36.1.1 17125 1qk3A 233 2.99e+01 1qk3A c.61.1.1 34031 1ckiA 317 3.00e+01 1csn d.144.1.7 41660 1lshA 1056 3.01e+01 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1be3A 446 3.02e+01 1be3A d.185.1.1 58950 d.185.1.1 58951 1flp 142 3.02e+01 1flp a.1.1.2 15011 1moh 142 3.02e+01 1flp a.1.1.2 15012 1akhB 83 3.03e+01 1akhB a.4.1.1 15985 1sfcA 96 3.05e+01 1sfcA h.1.15.1 45643 1t0hA 132 3.05e+01 1hmcB 148 3.06e+01 1hmcB a.26.1.2 16868 1ccg 291 3.08e+01 1ryc a.93.1.1 18627 1j78A 458 3.12e+01 a.126.1.1 66397 a.126.1.1 66398 a.126.1.1 66399 1ddf 127 3.12e+01 1ddf a.77.1.2 18423 1fkmA 396 3.12e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1tiyA 164 3.14e+01 1jilA 420 3.14e+01 c.26.1.1 66745 1cqxA 403 3.20e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1fqvJ 149 3.21e+01 1fqvD a.157.1.1 19266 d.42.1.1 38670 2occE 109 3.21e+01 2occE a.118.11.1 19224 1nn6A 228 3.25e+01 b.47.1.2 85893 1s3jA 155 3.28e+01 1mgtA 174 3.32e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1ht9A 76 3.32e+01 4icb a.39.1.1 61252 1lea 84 3.36e+01 1lea a.4.5.2 16085 1pvaA 110 3.37e+01 1a75A a.39.1.4 17207 1k30A 368 3.38e+01 c.112.1.1 68067 1sek 378 3.39e+01 1sek e.1.1.1 42675 1n3lA 372 3.40e+01 c.26.1.1 79966 1je8A 82 3.40e+01 a.4.6.2 77108 1l0lA 446 3.41e+01 d.185.1.1 84482 d.185.1.1 84483 1h4lD 147 3.42e+01 a.74.1.1 70873 1ft1A 377 3.43e+01 1ft1A a.118.6.1 19186 1qoyA 318 3.44e+01 1qoyA h.4.4.1 45788 1hmpA 217 3.47e+01 1qk3A c.61.1.1 34075 1f7cA 231 3.48e+01 1f7cA a.116.1.1 19107 1dn1A 594 3.50e+01 1dn1A e.25.1.1 43357 1dik 874 3.51e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1wer 334 3.52e+01 1wer a.116.1.2 19108 1ii7A 333 3.55e+01 1ii7A d.159.1.4 62415 1a6dA 545 3.58e+01 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1zymA 258 3.63e+01 1zymA a.60.10.1 18110 c.8.1.2 30705 1sqnA 261 3.66e+01 2btvA 901 3.71e+01 2btvA e.28.1.1 43376 1i2oA 316 3.72e+01 1onrA c.1.10.1 61574 1w53A 84 3.74e+01 1onrA 316 3.75e+01 1onrA c.1.10.1 29169 1g5yA 238 3.81e+01 1lbd a.123.1.1 60294 1hmcA 148 3.83e+01 1hmcB a.26.1.2 16867 1e3aB 560 3.88e+01 1ajqB 1dbgA 506 3.89e+01 1dbgA b.80.1.4 28033 1mfqC 129 3.89e+01 a.36.1.1 79046 1bbhA 131 3.92e+01 1bbhA a.24.3.2 16546 1go8P 462 3.93e+01 b.79.1.1 76247 d.92.1.6 76248 1b4aA 149 3.99e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721