# 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 1iujA 106 9.96e-04 unknown_sccs -9953 1lq9A 112 2.68e-03 d.58.4.3 78129 1v02A 565 2.10e-01 1d9eA 284 2.41e-01 1d9eA c.1.10.4 29195 1edt 271 2.76e-01 2ebn c.1.8.5 28993 1tidB 119 3.04e-01 1qysA 106 7.08e-01 unknown_sccs -13432 1g7vA 284 7.91e-01 1d9eA c.1.10.4 60335 1o60A 292 9.44e-01 c.1.10.4 -5549 1ta3B 303 1.15e+00 1af7 274 1.23e+00 1af7 a.58.1.1 17928 c.66.1.8 34203 1tu1A 148 1.47e+00 2scuB 388 1.51e+00 2scuB c.23.4.1 31141 d.142.1.4 41562 1bc5A 269 1.52e+00 1af7 a.58.1.1 17929 c.66.1.8 34204 1ur3M 319 1.73e+00 c.1.7.1 -5248 1twdA 256 2.14e+00 1sek 378 2.18e+00 1sek e.1.1.1 42675 2cevA 299 2.78e+00 1d3vA c.42.1.1 32576 1a4iB 301 2.83e+00 1a4iA c.2.1.7 30279 c.58.1.2 33927 1a4iA 301 2.89e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1bob 320 2.90e+00 1bob d.108.1.1 40816 1diaA 306 3.20e+00 1a4iA c.2.1.7 30280 c.58.1.2 33928 1oef 24 3.28e+00 j.39.1.1 46299 1r30A 369 3.76e+00 unknown_sccs -5683 1d3hA 367 4.11e+00 1d3gA c.1.4.1 28601 1f2fA 104 4.17e+00 1fmk d.93.1.1 40455 1rfmA 344 4.25e+00 c.122.1.1 -8032 1wduA 245 4.56e+00 1shdA 107 4.73e+00 1fmk d.93.1.1 40440 1og6A 298 4.75e+00 c.1.7.1 86984 1n16A 381 5.02e+00 a.83.1.1 79781 d.128.1.2 79782 1tca 317 5.20e+00 1tca c.69.1.17 34726 1cbg 490 5.38e+00 1e70M c.1.8.4 28933 2oatA 439 5.67e+00 2dkb c.67.1.4 34452 1uehA 253 5.81e+00 c.101.1.1 -6879 1shbA 104 5.89e+00 1fmk d.93.1.1 40425 1bn6A 294 5.98e+00 1bn6A c.69.1.8 34678 1shaA 104 6.10e+00 1fmk d.93.1.1 40424 1iibA 106 6.16e+00 1iibA c.44.2.1 32648 1qb0A 211 6.17e+00 1c25 c.46.1.1 32699 1jceA 344 6.21e+00 c.55.1.1 62876 c.55.1.1 62877 1n25A 368 6.31e+00 c.37.1.20 85264 1vhsA 175 6.60e+00 d.108.1.1 -10794 1o4rA 108 6.63e+00 d.93.1.1 -10624 1atiB 505 6.83e+00 1atiA c.51.1.1 33197 d.104.1.1 40746 1jcfA 344 7.16e+00 c.55.1.1 62878 c.55.1.1 62879 1atiA 505 7.24e+00 1atiA c.51.1.1 33196 d.104.1.1 40745 1l8nA 679 7.27e+00 c.1.8.10 84564 d.92.2.2 84565 1k9dA 679 7.39e+00 c.1.8.10 77292 d.92.2.2 77293 1qh4A 380 7.45e+00 1qh4A a.83.1.1 18462 d.128.1.2 41197 1q4rA 112 7.48e+00 d.58.4.4 -9943 1lvmA 229 7.57e+00 b.47.1.3 78243 1st9A 143 7.96e+00 c.47.1.10 -7503 1d3gA 367 8.12e+00 1d3gA c.1.4.1 28600 1eg7A 557 8.17e+00 1eg7A c.37.1.10 32241 1hf8A 289 8.23e+00 1hg5A unknown_sccs -399 unknown_sccs -1628 1iv3A 152 9.46e+00 d.79.5.1 76828 1axdA 209 9.60e+00 1gnwA a.45.1.1 17730 c.47.1.5 33024 1cnt1 187 9.68e+00 1cnt3 1kczA 413 9.86e+00 c.1.11.2 68451 d.54.1.1 68452 1i8jA 323 1.02e+01 1b4kA c.1.10.3 61968 1bag 425 1.03e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1hg2A 289 1.09e+01 1hg5A unknown_sccs -401 unknown_sccs -1630 1e50B 134 1.09e+01 2jhbA b.54.1.1 59245 1v58A 241 1.09e+01 1pta 318 1.11e+01 1pscA c.1.9.3 29064 1on0A 158 1.11e+01 d.108.1.1 87095 1h1nA 305 1.14e+01 c.1.8.3 70855 1qg3A 195 1.15e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 1hg5A 289 1.16e+01 1hg5A unknown_sccs -400 unknown_sccs -1629 1s48A 609 1.21e+01 e.8.1.4 -11955 1b4eA 323 1.22e+01 1b4kA c.1.10.3 29186 1f6fA 199 1.22e+01 1f6fA a.26.1.1 16839 1bm9A 122 1.24e+01 1bm9A a.4.5.7 16116 1cnt2 187 1.28e+01 1cnt3 1jp3A 253 1.29e+01 1f75A c.101.1.1 63221 1f75A 249 1.32e+01 1f75A c.101.1.1 59662 1rpxA 230 1.34e+01 1rpxA c.1.2.2 28536 1dbtA 239 1.36e+01 1dbtA c.1.2.3 28539 1zid 268 1.40e+01 1eny c.2.1.2 29911 1k8kE 178 1.40e+01 a.148.1.1 68311 1jjoC 261 1.43e+01 1adjA 421 1.45e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 1o4vA 183 1.46e+01 c.23.8.1 86628 1dtdA 303 1.53e+01 1aye c.56.5.1 33823 1b6cB 342 1.55e+01 1b6cB d.144.1.7 41673 1ot1A 686 1.60e+01 b.1.18.2 87392 b.3.1.1 87393 b.71.1.1 87394 c.1.8.1 87395 1ekeA 230 1.60e+01 1ekeA c.55.3.1 33572 1hrkA 359 1.61e+01 1hrkA c.92.1.1 61228 1kkoA 413 1.62e+01 c.1.11.2 68675 d.54.1.1 68676 1jae 471 1.62e+01 1smd b.71.1.1 27773 c.1.8.1 28760 1eny 268 1.62e+01 1eny c.2.1.2 29910 1e44B 96 1.63e+01 1e44B b.101.1.1 59220 1auz 116 1.69e+01 1auz c.13.2.1 30883 1h9dB 134 1.70e+01 2jhbA b.54.1.1 60822 1prtA 234 1.70e+01 1bcpA d.166.1.1 42253 1h2xA 710 1.71e+01 b.69.7.1 76598 c.69.1.4 76599 1aca 86 1.71e+01 1aca a.11.1.1 16367 1h2wA 710 1.71e+01 b.69.7.1 76596 c.69.1.4 76597 1qfmA 710 1.72e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1ash 150 1.73e+01 1ash a.1.1.2 15622 1e8nA 710 1.74e+01 1qfmA b.69.7.1 27675 c.69.1.4 34643 3pbgA 468 1.76e+01 1e70M c.1.8.4 28951 1cxlA 686 1.76e+01 1cxlA b.1.18.2 21829 b.3.1.1 22498 b.71.1.1 27736 c.1.8.1 28723 1gt91 357 1.77e+01 1d2kA 392 1.79e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1pbgA 468 1.80e+01 1e70M c.1.8.4 28946 1j0wA 103 1.81e+01 b.55.1.2 -4364 1bn7A 294 1.85e+01 1bn6A c.69.1.8 34677 1ccwB 483 1.85e+01 1cb7B c.1.19.2 29646 1cb7B 483 1.86e+01 1cb7B c.1.19.2 29648 1gy8A 397 1.86e+01 c.2.1.2 83376 1l2uA 245 1.92e+01 c.1.2.3 73516 1di0A 158 1.98e+01 1di0A c.16.1.1 30957 1iy8A 267 1.98e+01 c.2.1.2 83774 1cqwA 295 1.99e+01 1b6g c.69.1.8 34679 1ufhA 180 1.99e+01 d.108.1.1 88485 1cvjA 190 1.99e+01 1cvjB d.58.7.1 39191 d.58.7.1 39192 1qrqA 325 2.02e+01 1qrqA c.1.7.1 28667 1floA 422 2.04e+01 1floA a.60.9.1 18106 d.163.1.1 42166 1igd 61 2.06e+01 2igd d.15.7.1 37822 2igd 61 2.06e+01 2igd d.15.7.1 37821 1i1wA 303 2.06e+01 c.1.8.3 76732 1pamA 686 2.07e+01 1cxlA b.1.18.2 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 1q53A 112 2.08e+01 d.58.4.4 -9944 1f4kA 122 2.09e+01 1bm9A a.4.5.7 59646 1qvbA 481 2.09e+01 1qvbA c.1.8.4 28983 1qoxN 449 2.12e+01 1qoxN c.1.8.4 28978 1k3eA 156 2.13e+01 d.198.1.1 68103 1n0uA 842 2.14e+01 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1bcfA 158 2.14e+01 1bcfA a.25.1.1 16648 1h4vB 421 2.15e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1tux 301 2.17e+01 1taxA c.1.8.3 28907 1j33A 335 2.17e+01 c.39.1.1 77069 1py5A 326 2.20e+01 1i36A 264 2.21e+01 a.100.1.8 71108 c.2.1.6 71109 1jmuB 666 2.23e+01 1n69A 81 2.27e+01 a.64.1.3 80118 1e3oC 160 2.31e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1mwqA 101 2.31e+01 unknown_sccs -9962 1uayA 242 2.32e+01 c.2.1.2 88390 1c0dA 358 2.32e+01 1eceA c.1.8.3 28815 1fjeB 175 2.34e+01 1fj7A d.58.7.1 39210 d.58.7.1 39211 1u6bA 98 2.36e+01 1ptoA 244 2.37e+01 1bcpA d.166.1.1 42257 1egzA 291 2.39e+01 7a3hA c.1.8.3 28828 1ufzA 83 2.42e+01 1mj4A 82 2.45e+01 d.120.1.1 79189 1d3cA 686 2.47e+01 1cxlA b.1.18.2 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1v4vA 376 2.53e+01 c.87.1.3 -8583 1nf2A 268 2.54e+01 c.108.1.10 -6842 1pgx 83 2.54e+01 2igd d.15.7.1 37823 1b31A 302 2.55e+01 1taxA c.1.8.3 28892 1j6rA 214 2.56e+01 d.173.1.2 71598 1e5rA 290 2.58e+01 1e5rA b.82.2.4 59276 1v84A 253 2.58e+01 1dppA 507 2.61e+01 1dpe c.94.1.1 35800 1o98A 511 2.63e+01 c.105.1.1 86684 c.76.1.3 86685 1aye 401 2.64e+01 1aye c.56.5.1 33824 d.58.3.1 39065 1bg4 302 2.65e+01 1taxA c.1.8.3 28806 1dqsA 393 2.65e+01 1dqsA e.22.1.1 43347 1ll7A 392 2.66e+01 c.1.8.5 78085 d.26.3.1 78086 1i60A 278 2.67e+01 c.1.15.4 71118 1t5bA 201 2.67e+01 1l9mA 692 2.67e+01 b.1.18.9 73732 b.1.5.1 73733 b.1.5.1 73734 d.3.1.4 73735 1eceA 358 2.68e+01 1eceA c.1.8.3 28813 1b0zA 445 2.72e+01 2pgi c.80.1.2 35309 2pgi 445 2.72e+01 2pgi c.80.1.2 35308 1ej1A 190 2.72e+01 1ejhA d.86.1.1 40144 1gqnA 252 2.76e+01 c.1.10.1 -5494 1oktA 211 2.76e+01 a.45.1.1 -942 c.47.1.5 -7467 1t1gA 364 2.78e+01 1q45A 391 2.78e+01 c.1.4.1 -5199 1fjcA 96 2.79e+01 1fjcA d.58.7.1 39212 1rllA 692 2.82e+01 1jw9B 249 2.88e+01 c.111.1.1 67377 1jbaA 204 2.89e+01 1rec a.39.1.5 17330 1c8oA 300 2.90e+01 1c8oA e.1.1.1 42677 1ordA 730 2.93e+01 1ordA c.23.1.4 31274 c.67.1.5 34503 d.125.1.1 41124 1jc4A 148 2.95e+01 1jc4A d.32.1.4 62863 1g8kA 825 2.96e+01 1g8jA b.52.2.2 26920 c.81.1.1 35328 1qfeA 252 3.02e+01 1qfeA c.1.10.1 29167 1a63 130 3.07e+01 1a62 a.140.3.1 64710 b.40.4.5 64711 2abd 86 3.08e+01 1aca a.11.1.1 16366 2jhbA 143 3.09e+01 2jhbA b.54.1.1 26950 1octC 156 3.15e+01 1au7A a.4.1.1 15991 a.35.1.1 17017 1vjjA 692 3.18e+01 b.1.18.9 -2758 b.1.5.1 -2786 b.1.5.1 -2787 d.3.1.4 -8893 8dfr 189 3.20e+01 1aoeA c.71.1.1 34895 1jmtA 104 3.30e+01 d.58.7.3 63180 1g8jA 825 3.32e+01 1g8jA b.52.2.2 26924 c.81.1.1 35332 1gokA 303 3.33e+01 c.1.8.3 65420 1oz9A 150 3.34e+01 unknown_sccs -10588 1f8xA 157 3.36e+01 1f8xA c.23.14.1 31397 1c7qA 445 3.41e+01 2pgi c.80.1.2 35307 1sqeA 109 3.41e+01 1cb0A 283 3.42e+01 1cb0A c.56.2.1 33790 1l2lA 457 3.43e+01 c.72.1.3 77656 1a3h 300 3.46e+01 7a3hA c.1.8.3 28819 7a3hA 303 3.46e+01 7a3hA c.1.8.3 28817 1fxmA 302 3.46e+01 1taxA 1k6aA 303 3.47e+01 c.1.8.3 72081 1fewA 184 3.48e+01 1fewA a.7.4.1 16334 1eqjA 511 3.52e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1g73A 162 3.53e+01 1fewA a.7.4.1 16332 1i8oA 114 3.54e+01 1ycc a.3.1.1 61979 1hh7A 114 3.58e+01 1ycc a.3.1.1 15896 1d2eA 397 3.62e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 2mnr 357 3.65e+01 2mnr c.1.11.2 29245 d.54.1.1 38889 1hyhA 309 3.65e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1gqiA 708 3.69e+01 c.1.8.10 76279 d.92.2.2 76280 1sh0A 510 3.72e+01 e.8.1.4 -11949 1sgwA 214 3.78e+01 1cgt 684 3.82e+01 1cxlA b.1.18.2 21815 b.3.1.1 22484 b.71.1.1 27722 c.1.8.1 28709 1oatA 439 3.83e+01 2dkb c.67.1.4 34461 1q8bA 105 3.84e+01 unknown_sccs -9958 1g5gB 481 3.86e+01 f.12.1.1 65157 h.3.2.1 65158 1od6A 160 3.87e+01 c.26.1.3 86836 1i12A 160 3.93e+01 1i21A d.108.1.1 61515 1kdgA 546 3.97e+01 c.3.1.2 77337 d.16.1.1 77338