# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1qapA 296 3.74e-05 1qpoA c.1.17.1 29559 d.41.2.1 38595 1qpoA 284 5.90e-05 1qpoA c.1.17.1 29561 d.41.2.1 38597 1j8yF 297 2.30e-02 1ng1 a.24.13.1 62747 c.37.1.10 62748 1j8mF 297 2.49e-02 1ng1 a.24.13.1 62742 c.37.1.10 62743 1o4uA 285 3.67e-02 c.1.17.1 86624 d.41.2.1 86625 1reqA 727 4.98e-02 1reqA c.1.19.1 29620 c.23.6.1 31247 5reqA 727 6.35e-02 1reqA c.1.19.1 29632 c.23.6.1 31259 7reqA 727 6.35e-02 1reqA c.1.19.1 29616 c.23.6.1 31243 1qj2B 809 7.63e-02 1qj2B 2wsyB 396 8.20e-02 2tysB c.79.1.1 35288 1n62B 809 8.56e-02 d.41.1.1 80092 d.133.1.1 80093 1us7B 265 3.12e-01 unknown_sccs -1518 16pk 415 4.17e-01 16pk c.86.1.1 35454 1jepA 222 4.27e-01 d.36.1.1 66612 1eypA 222 4.56e-01 1eypA d.36.1.1 38536 1ub3A 220 4.98e-01 c.1.10.1 88395 1eyqA 222 5.09e-01 1eypA d.36.1.1 38534 1iyxA 432 5.40e-01 c.1.11.1 83815 d.54.1.1 83816 1rj9A 304 6.73e-01 a.24.13.1 -631 c.37.1.10 -7129 1pzxA 289 6.78e-01 c.119.1.1 -8623 1hvd 319 9.01e-01 1avc a.65.1.1 18154 1hv8A 367 1.06e+00 1hv8A c.37.1.19 32405 c.37.1.19 32406 1bksB 397 1.22e+00 2tysB c.79.1.1 35285 1bd2D 204 1.55e+00 1tcrA b.1.1.1 20622 b.1.1.2 21557 2tysB 397 1.56e+00 2tysB c.79.1.1 35272 1o69A 394 1.60e+00 c.67.1.4 -8209 1a53 247 1.60e+00 1a53 c.1.2.4 28564 1ku0A 388 1.62e+00 c.69.1.18 72994 1brt 277 1.84e+00 1brt c.69.1.12 34699 1k1xA 659 1.91e+00 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1k8yB 396 2.03e+00 c.79.1.1 72184 1juk 248 2.20e+00 1a53 c.1.2.4 28567 1igs 248 2.41e+00 1a53 c.1.2.4 28565 1cs1A 386 2.41e+00 1ibjA c.67.1.3 34399 1jbaA 204 2.47e+00 1rec a.39.1.5 17330 1jnrA 643 2.50e+00 a.7.3.1 66966 c.3.1.4 66967 d.168.1.1 66968 1anxA 319 2.63e+00 1avc a.65.1.1 18161 1broA 277 2.64e+00 1brt c.69.1.12 34700 1cs1C 386 2.91e+00 1ibjA c.67.1.3 34401 1ln4A 104 3.10e+00 d.68.4.1 74043 1f5nA 592 3.37e+00 1dg3A a.114.1.1 19077 c.37.1.8 32152 1v5wA 343 3.40e+00 1b74A 254 3.40e+00 1b74A c.78.2.1 35264 c.78.2.1 35265 1j7iA 264 3.68e+00 1j7iA d.144.1.6 62694 1ewkA 490 3.72e+00 1ewkA c.93.1.1 35712 1blxA 326 3.85e+00 1hcl d.144.1.7 41596 1vknA 351 4.05e+00 1f2vA 219 4.14e+00 1f2vA c.23.17.1 59627 1uzbA 516 4.21e+00 c.82.1.1 -8552 1derA 547 4.26e+00 1derA 1uanA 227 4.33e+00 unknown_sccs -8129 1nw3A 416 4.43e+00 c.66.1.31 86288 9ldtA 332 4.60e+00 3ldh c.2.1.5 30154 d.162.1.1 42121 1o7xC 377 4.75e+00 a.103.1.1 81173 1ble 163 4.79e+00 1ble c.38.1.1 32475 1jqaA 370 4.88e+00 e.22.1.2 67085 1lldA 319 4.94e+00 3ldh c.2.1.5 30177 d.162.1.1 42144 1jq5A 370 4.94e+00 e.22.1.2 67084 1je6A 275 5.00e+00 b.1.1.2 71638 d.19.1.1 71639 1a8b 318 5.23e+00 1avc a.65.1.1 18171 1e2gA 215 5.29e+00 3tmkA c.37.1.1 59165 1oyzA 280 5.38e+00 unknown_sccs -1573 1a8a 318 5.54e+00 1avc a.65.1.1 18169 1j8hD 212 5.69e+00 b.1.1.1 71606 b.1.1.2 71607 2ran 316 5.71e+00 1avc a.65.1.1 18170 1nn5A 215 5.81e+00 c.37.1.1 85892 1sxjE 354 6.19e+00 1q15A 503 6.19e+00 c.26.2.1 -6625 d.153.1.1 -11400 1p2fA 220 6.41e+00 a.4.6.1 87720 c.23.1.1 87721 1ogaD 215 6.45e+00 b.1.1.1 86990 b.1.1.2 86991 1qzzA 374 6.45e+00 a.4.5.29 -277 c.66.1.12 -8045 1g5aA 628 6.74e+00 b.71.1.1 65152 c.1.8.1 65153 1e2fA 215 6.84e+00 3tmkA c.37.1.1 59164 1nfdA 203 6.85e+00 1tcrA b.1.1.1 20612 b.1.1.2 21550 1e9cA 215 7.10e+00 c.37.1.1 64808 1cm5A 759 7.17e+00 1cm5A c.7.1.1 30671 1qs0A 407 7.19e+00 1qs0A c.36.1.11 31829 1e9eA 215 7.23e+00 c.37.1.1 64810 1ni4A 365 7.31e+00 c.36.1.7 85728 1kv8A 216 7.43e+00 c.1.2.3 73054 1q6oA 216 7.43e+00 c.1.2.3 -5162 1qs2A 401 7.86e+00 1qs1A d.166.1.1 42268 d.166.1.1 42269 1e5kA 201 8.04e+00 1fr9A c.68.1.8 34578 1n3yA 198 8.47e+00 c.62.1.1 79976 1f76A 336 8.55e+00 c.1.4.1 76160 1k0fA 277 9.64e+00 c.92.2.2 71974 1bxnA 485 1.03e+01 1burA c.1.14.1 29376 d.58.9.1 39282 2pflA 759 1.03e+01 1cm5A c.7.1.1 30675 1k3lA 221 1.03e+01 a.45.1.1 77229 c.47.1.5 77230 1k3yA 221 1.03e+01 a.45.1.1 77245 c.47.1.5 77246 3bamA 213 1.04e+01 1bam c.52.1.3 33288 1fr9A 194 1.04e+01 1fr9A c.68.1.8 34579 1elyA 449 1.08e+01 1b8jA c.76.1.1 35028 1ezwA 349 1.08e+01 1ezwA c.1.16.3 29558 1r64A 481 1.10e+01 b.18.1.20 -3151 c.41.1.1 -7297 1jb9A 316 1.12e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1mdl 359 1.17e+01 2mnr c.1.11.2 29247 d.54.1.1 38891 1ft1A 377 1.18e+01 1ft1A a.118.6.1 19186 1r4wA 226 1.19e+01 unknown_sccs -7447 1hkhA 279 1.22e+01 c.69.1.12 -8342 1esgA 213 1.22e+01 1bam c.52.1.3 33286 1gseA 221 1.23e+01 1pgtA a.45.1.1 17667 c.47.1.5 32961 1on3A 523 1.23e+01 c.14.1.4 87107 c.14.1.4 87108 1j7lA 264 1.25e+01 d.144.1.6 62697 1hyeA 313 1.27e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1pz1A 333 1.31e+01 c.1.7.1 -5255 2abk 211 1.33e+01 2abk a.96.1.1 18743 1mjnA 179 1.35e+01 c.62.1.1 79210 1g0u1 266 1.36e+01 1lfaA 187 1.36e+01 1ido c.62.1.1 34122 1elqA 390 1.36e+01 1elqA c.67.1.3 34436 1eluA 390 1.36e+01 1elqA c.67.1.3 34434 1eluB 390 1.38e+01 1elqA c.67.1.3 34435 1ck7A 631 1.42e+01 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1lp9E 194 1.43e+01 b.1.1.1 -2316 b.1.1.2 -2550 1ryp2 233 1.44e+01 1ryp2 1o7xD 377 1.45e+01 a.103.1.1 81174 1f3rB 257 1.47e+01 1f3rB b.1.1.1 20417 b.1.1.1 20416 1qjoA 80 1.48e+01 1iyu b.84.1.1 28229 1fts 295 1.50e+01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1efuB 282 1.52e+01 1efuB a.5.2.2 58975 d.43.1.1 58976 d.43.1.1 38677 1qopB 396 1.52e+01 2tysB c.79.1.1 35270 1bsjA 168 1.52e+01 1bs4A d.167.1.1 42302 1h16A 759 1.52e+01 c.7.1.1 76462 1l2iA 261 1.53e+01 a.123.1.1 73503 1qs1A 462 1.55e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1jlm 192 1.55e+01 1ido c.62.1.1 34140 1gk8A 475 1.56e+01 c.1.14.1 65234 d.58.9.1 65235 1or4A 178 1.57e+01 a.1.1.2 -91 1r3cA 366 1.58e+01 d.144.1.7 -11296 1bs4A 168 1.59e+01 1bs4A d.167.1.1 42287 1rdr 461 1.60e+01 1rdr e.8.1.4 43116 2gbp 309 1.61e+01 1gca c.93.1.1 35657 1rmvA 157 1.62e+01 1rmvA a.24.5.1 16589 1knzA 164 1.63e+01 e.34.1.1 68709 1bam 213 1.63e+01 1bam c.52.1.3 33285 1k5dC 386 1.65e+01 c.10.1.2 68170 1dg3A 592 1.66e+01 1dg3A a.114.1.1 19078 c.37.1.8 32153 1r4aA 165 1.68e+01 c.37.1.8 -7089 1ezfA 340 1.70e+01 1ezfA a.128.1.2 19440 8rucA 475 1.73e+01 1burA c.1.14.1 29339 d.58.9.1 39245 3pflA 759 1.74e+01 1cm5A c.7.1.1 30673 1f5aA 513 1.74e+01 1fa0B a.160.1.1 75835 d.218.1.3 75836 d.58.16.1 39337 1oj4A 283 1.75e+01 d.14.1.5 -9088 d.58.26.5 -10133 1dvpA 220 1.77e+01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1me8A 503 1.78e+01 c.1.5.1 79028 2ifeA 100 1.79e+01 1tig d.68.1.1 39567 1ot5A 477 1.79e+01 b.18.1.20 87409 c.41.1.1 87410 2mnr 357 1.80e+01 2mnr c.1.11.2 29245 d.54.1.1 38889 1jjyA 636 1.90e+01 1jjyA 1axn 323 1.90e+01 1avc a.65.1.1 18149 1h8lA 380 1.91e+01 b.3.2.1 65737 c.56.5.1 65738 1or7A 194 1.94e+01 a.4.13.2 87332 a.177.1.1 87333 1l1lA 739 1.95e+01 c.7.1.4 73470 1b7bA 310 1.97e+01 1b7bA c.73.1.1 34963 1gqyA 475 2.03e+01 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1sur 215 2.03e+01 1sur c.26.2.2 31620 1jksA 294 2.06e+01 d.144.1.7 71710 1su8A 636 2.06e+01 e.26.1.2 -12015 1mzhA 225 2.09e+01 c.1.10.1 79698 1ido 192 2.10e+01 1ido c.62.1.1 34139 1gzqA 300 2.11e+01 b.1.1.2 70818 d.19.1.1 70819 1uptA 171 2.13e+01 c.37.1.8 -7085 1a4yA 460 2.18e+01 1a4yA c.10.1.1 30852 2anhA 446 2.19e+01 1b8jA c.76.1.1 35004 1k8eA 345 2.20e+01 1o17A 345 2.20e+01 a.46.2.1 80765 c.27.1.1 80766 1ky3A 182 2.20e+01 c.37.1.8 73193 1jguH 217 2.24e+01 b.1.1.1 66688 b.1.1.2 66689 1fq0A 213 2.25e+01 1fwrA c.1.10.1 29161 1qcsA 211 2.26e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1ed8A 449 2.28e+01 1b8jA c.76.1.1 34988 1og6A 298 2.32e+01 c.1.7.1 86984 1jvnA 555 2.32e+01 c.1.2.1 67355 c.23.16.1 67356 1st9A 143 2.35e+01 c.47.1.10 -7503 1uirA 314 2.35e+01 c.66.1.17 -8114 1thfD 253 2.35e+01 1thfD c.1.2.1 28535 1e3jA 352 2.35e+01 1e3jA b.35.1.2 24765 c.2.1.1 29781 1icjA 168 2.37e+01 1bs4A d.167.1.1 42284 1jvpP 298 2.38e+01 d.144.1.7 67371 1mf7A 194 2.39e+01 c.62.1.1 84937 1o7xB 377 2.39e+01 a.103.1.1 81172 1ckqA 276 2.42e+01 1ckqA c.52.1.1 33229 1kkoA 413 2.46e+01 c.1.11.2 68675 d.54.1.1 68676 1kczA 413 2.46e+01 c.1.11.2 68451 d.54.1.1 68452 1ly1A 181 2.47e+01 c.37.1.1 74334 1dc1A 323 2.48e+01 1dc1A c.52.1.11 33321 2scuB 388 2.49e+01 2scuB c.23.4.1 31141 d.142.1.4 41562 1v4vA 376 2.49e+01 c.87.1.3 -8583 1o6yA 299 2.51e+01 d.144.1.7 81106 1cl8A 276 2.51e+01 1ckqA c.52.1.1 33230 1k8tA 510 2.52e+01 e.41.1.1 68316 1toaA 313 2.53e+01 1toaA c.92.2.2 35598 1izoA 417 2.55e+01 a.104.1.1 83851 1ep2B 261 2.57e+01 1ep2B b.43.4.2 25666 c.25.1.3 31556 1kxu 333 2.65e+01 1jkw a.74.1.1 18358 a.74.1.1 18359 1avc 673 2.66e+01 1avc a.65.1.1 18178 a.65.1.1 18179 1bvyF 191 2.70e+01 1bvyF c.23.5.1 31207 1ornA 226 2.75e+01 a.96.1.1 87342 1guzA 310 2.77e+01 c.2.1.5 65586 d.162.1.1 65587 1b73A 254 2.77e+01 1b74A c.78.2.1 35266 c.78.2.1 35267 1jwhA 337 2.80e+01 d.144.1.7 71913 1f4qA 165 2.83e+01 1alvA a.39.1.8 17360 1eriA 276 2.87e+01 1ckqA c.52.1.1 33231 1e12A 253 2.90e+01 1c3wA f.13.1.1 43428 1k4wA 252 2.90e+01 a.123.1.1 72068 1l2lA 457 2.92e+01 c.72.1.3 77656 1fp6A 289 2.92e+01 1cp2A c.37.1.10 32243 1jkw 323 2.93e+01 1jkw a.74.1.1 18356 a.74.1.1 18357 1d9tA 289 2.97e+01 1deaA 1jg1A 235 3.01e+01 c.66.1.7 66661 1fe0A 68 3.02e+01 1cc8A d.58.17.1 39345 1bjt 793 3.03e+01 1bjt e.11.1.1 43249 1qpsA 261 3.03e+01 1ckqA c.52.1.1 33234 1tmy 120 3.04e+01 1dbwA c.23.1.1 31083 1egzA 291 3.08e+01 7a3hA c.1.8.3 28828 1gr5A 547 3.13e+01 i.16.1.1 65478 3bamB 213 3.13e+01 1bam c.52.1.3 33289 1euaA 213 3.14e+01 1fwrA c.1.10.1 29155 1qc9A 276 3.15e+01 1ckqA c.52.1.1 33235 1bn7A 294 3.16e+01 1bn6A c.69.1.8 34677 1uetA 437 3.17e+01 unknown_sccs -1144 unknown_sccs -9798 unknown_sccs -10058 1bn6A 294 3.17e+01 1bn6A c.69.1.8 34678 1pot 325 3.19e+01 1pot c.94.1.1 35807 1cqwA 295 3.19e+01 1b6g c.69.1.8 34679 1un7A 400 3.21e+01 b.92.1.5 -5077 c.1.9.10 -5429 1jk0A 419 3.25e+01 a.25.1.2 63142 1e6fA 143 3.25e+01 1e6fA b.64.1.1 59304 1mo2A 294 3.25e+01 c.69.1.22 79331 1gh2A 107 3.28e+01 1erv c.47.1.1 60515 1h09A 338 3.31e+01 b.109.1.1 83420 c.1.8.8 83421 1cjxA 357 3.31e+01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1j9yA 385 3.33e+01 1j9yA c.1.8.3 62791 1gp0A 143 3.34e+01 b.64.1.1 70300 1fwrA 213 3.40e+01 1fwrA c.1.10.1 29164 1m2oB 190 3.43e+01 c.37.1.8 78485 1g2aA 168 3.44e+01 d.167.1.1 65109 1nq7A 244 3.47e+01 a.123.1.1 -1682 1ne7A 289 3.49e+01 unknown_sccs -6858 1hk9A 74 3.49e+01 b.38.1.2 83541 1lmhA 184 3.49e+01 d.167.1.1 74036 1g5pA 289 3.50e+01 1cp2A c.37.1.10 32253 1poxA 585 3.52e+01 1poxA c.31.1.3 31731 c.36.1.5 31793 c.36.1.9 31794 1i7qB 193 3.56e+01 1qdlB c.23.16.1 61902 1rzfH 235 3.56e+01 b.1.1.1 -2188 b.1.1.2 -2453 1g19A 350 3.57e+01 2reb c.37.1.11 32284 d.48.1.1 38770 1db1A 259 3.57e+01 1db1A a.123.1.1 19329 1nmeA 146 3.69e+01 c.17.1.1 85874 1b0pA 1231 3.69e+01 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1rlkA 117 3.71e+01 unknown_sccs -7526 1yasA 257 3.76e+01 1qj4A c.69.1.20 34801 1f4pA 147 3.86e+01 5nul c.23.5.1 59651 3pmgA 561 3.87e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1kekA 1231 3.89e+01 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1kh5A 449 3.96e+01 c.76.1.1 72475 1k32A 1045 3.98e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071