# List of top-scoring protein chains for t2k-100-30-str2 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 3.79e-01 c.67.1.1 86620 1fftC 204 3.94e-01 1fftC f.25.1.1 43629 1qkkA 155 4.19e-01 1dbwA c.23.1.1 31104 1l5zA 155 4.27e-01 c.23.1.1 77722 1peqA 714 7.74e-01 1s9pA 227 1.35e+00 1lwdA 413 1.39e+00 c.77.1.1 78265 1h3fA 432 1.64e+00 c.26.1.1 76631 d.66.1.4 76632 1eemA 241 1.85e+00 1eemA a.45.1.1 17717 c.47.1.5 33011 1i37A 260 1.90e+00 1a28A a.123.1.1 61583 1hw1A 239 1.94e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1mroA 548 2.03e+00 1mroA a.89.1.1 18525 d.58.31.2 39443 1hbnA 549 2.13e+00 1mroA a.89.1.1 60898 d.58.31.2 60899 1omrA 201 2.18e+00 1rtwA 220 2.37e+00 1paqA 189 2.43e+00 1iq3A 110 2.45e+00 1iq3A a.39.1.6 62640 1v74B 87 2.46e+00 1n45A 233 2.46e+00 a.132.1.1 79981 1ko9A 345 2.67e+00 a.96.1.3 68717 d.129.1.2 68718 1f7cA 231 2.96e+00 1f7cA a.116.1.1 19107 1m1cA 680 3.12e+00 e.42.1.1 78395 1r85A 379 3.22e+00 1iow 306 3.69e+00 1iow c.30.1.2 31713 d.142.1.1 41481 1hizA 379 3.77e+00 c.1.8.3 65841 1k8eA 345 3.91e+00 1o17A 345 3.91e+00 a.46.2.1 80765 c.27.1.1 80766 1hlvA 131 4.04e+00 a.4.1.7 65854 a.4.1.7 65855 1fonA 240 4.05e+00 5ptp b.47.1.2 26231 1lwyA 324 4.20e+00 a.96.1.3 78285 d.129.1.2 78286 1lnrI 134 4.20e+00 1w0hA 204 4.68e+00 1ebmA 317 5.00e+00 1ebmA a.96.1.3 18751 d.129.1.2 41300 1t7rA 269 5.78e+00 1ltm 320 5.87e+00 1ltm d.2.1.6 36992 1eh2 106 5.97e+00 1eh2 a.39.1.6 17339 1g8iA 190 6.12e+00 1rec a.39.1.5 60363 1pbp 321 6.37e+00 1ixh c.94.1.1 35768 1qusA 322 6.52e+00 1ltm d.2.1.6 36991 1h67A 108 6.92e+00 a.40.1.1 65643 2dln 306 6.97e+00 1iow c.30.1.2 31715 d.142.1.1 41483 7catA 506 7.00e+00 1cf9A e.5.1.1 42781 1uddA 226 7.21e+00 1rec 201 7.87e+00 1rec a.39.1.5 17326 1oshA 232 8.11e+00 1mhyG 169 8.23e+00 1mtyG a.23.3.1 16518 1m3qA 317 8.43e+00 1qgjA 300 8.45e+00 1bgp a.93.1.1 18691 1e2xA 243 8.56e+00 1e2xA a.4.5.6 16113 a.78.1.1 18443 1odoA 408 8.76e+00 1mhyB 395 9.18e+00 1mtyB a.25.1.2 16781 1klt 226 9.27e+00 5ptp b.47.1.2 26300 1fqvD 149 9.69e+00 1fqvD a.157.1.1 19263 d.42.1.1 38667 1qq8A 214 9.74e+00 1qq8A 1izcA 339 9.92e+00 c.1.12.5 83838 1ka2A 499 1.02e+01 d.92.1.5 77305 1w7bA 339 1.03e+01 1n83A 270 1.07e+01 a.123.1.1 80276 1kf6A 602 1.08e+01 a.7.3.1 72394 c.3.1.4 72395 d.168.1.1 72396 1wmuA 141 1.09e+01 1fqvJ 149 1.09e+01 1fqvD a.157.1.1 19266 d.42.1.1 38670 1ljrA 244 1.09e+01 1ljrA a.45.1.1 17707 c.47.1.5 33001 1gkgA 136 1.10e+01 g.18.1.1 70219 g.18.1.1 70220 1pieA 419 1.12e+01 1tqgA 105 1.15e+01 1bed 181 1.15e+01 1fvkA a.44.1.1 17514 c.47.1.4 32808 1or7A 194 1.16e+01 a.4.13.2 87332 a.177.1.1 87333 1a05A 358 1.17e+01 1cnzA c.77.1.1 35059 1spgA 144 1.20e+01 1abwA a.1.1.2 15409 1ihoA 283 1.21e+01 1ihoA c.26.1.4 62390 1klo 162 1.25e+01 1klo g.3.11.2 44326 g.3.11.2 44327 g.3.11.2 44328 1tu3F 79 1.26e+01 1iqqA 200 1.30e+01 d.124.1.1 66274 1syyA 346 1.31e+01 1rfzA 168 1.32e+01 1dseA 292 1.35e+01 1ryc a.93.1.1 59130 1uxtA 501 1.41e+01 1kqfA 1015 1.41e+01 b.52.2.2 72871 c.81.1.1 72872 1w53A 84 1.48e+01 2tct 207 1.50e+01 2tct a.4.1.9 16063 a.121.1.1 19240 1cm7A 363 1.50e+01 1cnzA c.77.1.1 35063 5pal 109 1.53e+01 1a75A a.39.1.4 17215 1h99A 224 1.55e+01 a.142.1.1 60814 a.142.1.1 60815 1ryc 294 1.61e+01 1ryc a.93.1.1 18601 1aisA 182 1.62e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1r5qA 102 1.63e+01 1b4aA 149 1.63e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1j4nA 271 1.65e+01 f.19.1.1 71510 2cyp 294 1.66e+01 1ryc a.93.1.1 18600 1go3F 107 1.67e+01 a.60.8.2 65407 1qcrA 446 1.68e+01 1be3A d.185.1.1 59025 d.185.1.1 59026 1ew6A 137 1.69e+01 1ewaA a.1.1.2 15637 1ewaA 137 1.69e+01 1ewaA a.1.1.2 15639 1cqxA 403 1.70e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1o0wA 252 1.74e+01 a.149.1.1 80751 d.50.1.1 80752 1pv6A 417 1.75e+01 1ds4A 292 1.75e+01 1ryc a.93.1.1 59129 1mlwA 301 1.77e+01 d.178.1.1 79289 1fs1B 141 1.79e+01 1vcbB a.157.1.1 19252 d.42.1.1 38664 1myt 146 1.82e+01 1a6m a.1.1.2 15207 3icb 75 1.82e+01 4icb a.39.1.1 17147 1f5sA 211 1.83e+01 1f5sA c.108.1.4 59656 1j97A 211 1.83e+01 1f5sA c.108.1.4 62753 1sr7A 259 1.84e+01 1e3aB 560 1.84e+01 1ajqB 1s2xA 206 1.84e+01 1jk0A 419 1.87e+01 a.25.1.2 63142 1q7eA 428 1.90e+01 1v7wA 807 1.96e+01 1pu6A 218 1.97e+01 1ekeA 230 1.97e+01 1ekeA c.55.3.1 33572 1l7mA 211 1.97e+01 c.108.1.4 73664 1dgfA 497 1.98e+01 1cf9A e.5.1.1 42782 1octC 156 1.98e+01 1au7A a.4.1.1 15991 a.35.1.1 17017 1j30A 144 2.00e+01 1mkrA 294 2.00e+01 a.93.1.1 84997 1ig5A 75 2.00e+01 4icb a.39.1.1 62363 1a28A 256 2.02e+01 1a28A a.123.1.1 19290 1ng1 294 2.03e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1qmhA 347 2.03e+01 1qmhA c.47.2.1 33082 d.68.2.1 39568 1qqfA 277 2.04e+01 1c3d a.102.4.4 18875 1dghB 498 2.07e+01 1cf9A e.5.1.1 42791 1ew6B 137 2.10e+01 1ewaA a.1.1.2 15638 1twfF 155 2.11e+01 1sqnA 261 2.11e+01 1dmwA 307 2.13e+01 4pah d.178.1.1 42580 1guxB 152 2.16e+01 1guxB a.74.1.3 18389 1qltA 560 2.16e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 1i50F 155 2.17e+01 d.78.1.2 61760 1ccg 291 2.20e+01 1ryc a.93.1.1 18627 1ixh 321 2.21e+01 1ixh c.94.1.1 35761 1fzaB 328 2.21e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1f4qA 165 2.24e+01 1alvA a.39.1.8 17360 1iuqA 367 2.27e+01 1gkfB 557 2.28e+01 1vmaA 306 2.28e+01 1jpnA 296 2.29e+01 a.24.13.1 67039 c.37.1.10 67040 1np8A 159 2.31e+01 1ls1A 295 2.31e+01 a.24.13.1 78170 c.37.1.10 78171 1alvA 173 2.32e+01 1alvA a.39.1.8 17370 1iq0A 592 2.36e+01 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 1e8gA 560 2.36e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1ht9A 76 2.39e+01 4icb a.39.1.1 61252 1a4pA 96 2.41e+01 1b4cA a.39.1.2 17176 1gk9B 557 2.42e+01 1xsm 390 2.42e+01 1xsm a.25.1.2 16804 1pt7A 437 2.44e+01 1csn 298 2.49e+01 1csn d.144.1.7 41664 1pvaA 110 2.52e+01 1a75A a.39.1.4 17207 1ajqB 557 2.52e+01 1ajqB 4pah 308 2.55e+01 4pah d.178.1.1 42576 1e96B 203 2.57e+01 1e96B a.118.8.1 19211 1om2A 95 2.58e+01 1om2A a.23.4.1 16520 1h5uA 842 2.58e+01 1a8i c.87.1.4 60655 1hv8A 367 2.59e+01 1hv8A c.37.1.19 32405 c.37.1.19 32406 1k30A 368 2.59e+01 c.112.1.1 68067 1ax4A 467 2.63e+01 1ax4A c.67.1.2 34391 1ash 150 2.63e+01 1ash a.1.1.2 15622 1jdrA 294 2.63e+01 1ryc a.93.1.1 62908 1gm9B 557 2.64e+01 1jgsA 138 2.68e+01 a.4.5.28 66683 1kfuS 184 2.69e+01 a.39.1.8 68574 1e8aA 91 2.70e+01 1b4cA a.39.1.2 17188 1hh8A 213 2.71e+01 1e96B a.118.8.1 61042 1mijA 152 2.73e+01 a.4.1.1 79150 1pah 308 2.75e+01 4pah d.178.1.1 42578 1gulA 222 2.76e+01 1pgtA a.45.1.1 17675 c.47.1.5 32969 1huw 166 2.77e+01 1huw a.26.1.1 16831 1j8uA 325 2.78e+01 d.178.1.1 71611 1be3A 446 2.80e+01 1be3A d.185.1.1 58950 d.185.1.1 58951 1v3wA 173 2.84e+01 1am7A 158 2.85e+01 1am7A d.2.1.4 36981 1w1kA 560 2.87e+01 1u08A 386 2.89e+01 1srvA 145 2.89e+01 1derA c.8.5.1 30817 1w68A 390 2.90e+01 1dgsA 667 2.97e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1h6pA 203 3.01e+01 a.146.1.1 60690 1lea 84 3.05e+01 1lea a.4.5.2 16085 1mxmA 254 3.10e+01 b.38.1.3 79647 d.58.43.1 79648 f.34.1.1 79649 1bg4 302 3.15e+01 1taxA c.1.8.3 28806 1jigA 146 3.15e+01 a.25.1.1 71685 1b31A 302 3.16e+01 1taxA c.1.8.3 28892 1ouvA 273 3.21e+01 1vaoA 560 3.23e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 1alq 266 3.34e+01 1btl e.3.1.1 42707 1pjpA 226 3.35e+01 5ptp b.47.1.2 26301 1pioA 257 3.39e+01 1btl e.3.1.1 42719 1g5yA 238 3.43e+01 1lbd a.123.1.1 60294 1e3oC 160 3.48e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1s3jA 155 3.52e+01 1j8mF 297 3.55e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 3blm 257 3.55e+01 1btl e.3.1.1 42709 1cmbA 104 3.61e+01 1cmbA a.43.1.2 17460 1k04A 162 3.62e+01 a.24.14.1 67904 1ib2A 349 3.64e+01 1ib2A a.118.1.8 62141 1is2A 661 3.64e+01 a.29.3.2 71382 a.29.3.2 71383 e.6.1.2 71384 1gm7B 557 3.65e+01 1ppjA 446 3.65e+01 1pmy 123 3.67e+01 1bqk b.6.1.1 22888 2abk 211 3.73e+01 2abk a.96.1.1 18743 1pp5A 21 3.74e+01 1yrnB 83 3.74e+01 1akhB a.4.1.1 15986 1ois 223 3.74e+01 1a36A e.15.1.1 43267 1kgsA 225 3.75e+01 a.4.6.1 68596 c.23.1.1 68597 1nstA 325 3.75e+01 1nstA c.37.1.5 31951 1wdcC 156 3.75e+01 1wdcC a.39.1.5 17317 1f5qB 252 3.77e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 3erdA 261 3.78e+01 3erdA a.123.1.1 19293 1pbwA 216 3.78e+01 1pbwA a.116.1.1 19103 1j8yF 297 3.82e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1tlqA 189 3.82e+01 1l0lA 446 3.82e+01 d.185.1.1 84482 d.185.1.1 84483 3ertA 261 3.85e+01 3erdA a.123.1.1 19292 1cmaA 104 3.85e+01 1cmbA a.43.1.2 17486 1f3aA 222 3.89e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1i5nA 146 3.92e+01 1i5nA a.24.10.3 61805 1nxcA 478 3.96e+01 1v4xA 144 3.96e+01 2ng1 293 3.96e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1oe8A 211 3.96e+01 a.45.1.1 86905 c.47.1.5 86906 1vi0A 206 3.97e+01 2occE 109 3.97e+01 2occE a.118.11.1 19224