# List of top-scoring protein chains for t2k-100-30-n_notor2-scores 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 1pft 50 8.94e-02 1pft g.41.3.1 45206 1hvyA 288 9.85e-01 1bkpA d.117.1.1 41049 1yo8A 634 1.36e+00 1a4eA 488 1.74e+00 1cf9A e.5.1.1 42806 1yq7A 374 1.97e+00 1dgfA 497 2.05e+00 1cf9A e.5.1.1 42782 1wc2A 181 2.20e+00 2btfA 375 2.64e+00 1yagA c.55.1.1,c.55.1.1 33429,33430 2awpA 198 2.77e+00 1mc0A 368 2.88e+00 d.110.2.1,d.110.2.1 78937,78938 1a88A 275 2.96e+00 1brt c.69.1.12 34707 1kepA 348 3.11e+00 c.2.1.2 68536 1zs7A 190 3.64e+00 1hbzA 498 3.96e+00 1cf9A e.5.1.1 60937 1id1A 153 4.30e+00 1id1A c.2.1.9 62286 1k0mA 241 4.33e+00 a.45.1.1,c.47.1.5 67949,67950 1qg3A 195 4.42e+00 1qg3A b.1.2.1,b.1.2.1 21993,21994 1n4oA 276 5.27e+00 e.3.1.1 91621 2afwA 329 5.35e+00 1y9wA 140 5.71e+00 1jbuH 254 5.71e+00 5ptp b.47.1.2 62856 2sak 121 6.87e+00 2sak d.15.5.1 37711 1ogdA 131 7.20e+00 c.133.1.1 92893 1lurA 339 7.24e+00 b.30.5.4 84717 1k0wA 231 8.04e+00 c.74.1.1 77220 1wrvA 308 8.18e+00 1n62B 809 8.21e+00 d.41.1.1,d.133.1.1 80092,80093 1theA 260 8.38e+00 1theB d.3.1.1 37056 2aaoA 166 8.88e+00 1jdiA 231 9.32e+00 c.74.1.1 66551 1dghB 498 9.39e+00 1cf9A e.5.1.1 42791 1s72Z 73 9.40e+00 g.41.8.1 105345 2bcgG 453 9.41e+00 1miwA 404 9.50e+00 a.173.1.1,d.218.1.4 79162,79163 1htqA 477 9.99e+00 d.15.9.1,d.128.1.1 71035,71036 1ww8A 439 1.02e+01 1a0dA 440 1.03e+01 1a0cA c.1.15.3 29533 1ukvG 453 1.04e+01 c.3.1.3,c.3.1.3,d.16.1.6 107915,107916,107917 1hzdA 272 1.04e+01 c.14.1.3 65969 3pghA 587 1.14e+01 1cqeA a.93.1.2,g.3.11.1 18726,44269 1k0nA 241 1.14e+01 a.45.1.1,c.47.1.5 67953,67954 1xbfA 140 1.19e+01 d.273.1.1 109538 1d2tA 231 1.22e+01 1d2tA a.111.1.1 19052 1tsg 98 1.26e+01 1tsg 2cy2A 174 1.28e+01 1tz9A 367 1.30e+01 c.1.15.6 107466 1gmpA 96 1.32e+01 1rgeA d.1.1.2 36036 1vqoZ 83 1.37e+01 1rgyA 360 1.39e+01 e.3.1.1 97456 2bb6A 414 1.43e+01 1vckA 115 1.44e+01 1v4pA 157 1.44e+01 1gqoB 143 1.46e+01 c.23.13.1 76296 1to6A 371 1.56e+01 c.141.1.1 107170 1eggA 147 1.57e+01 1eggA d.169.1.1 42333 1vk6A 269 1.74e+01 d.113.1.4,d.113.1.4 100851,100852 1gweA 503 1.78e+01 e.5.1.1 70667 1gefA 123 1.78e+01 1gefA c.52.1.18 60465 1rc6A 261 1.83e+01 b.82.1.11 97287 2f8lA 344 1.95e+01 1ejhA 190 2.01e+01 1ejhA d.86.1.1 40147 1vclA 432 2.12e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1crzA 403 2.16e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1tys 265 2.19e+01 1bkpA d.117.1.1 40937 1efdN 266 2.21e+01 1efdN c.92.2.1 35597 2aheA 267 2.22e+01 1kdgA 546 2.24e+01 c.3.1.2,d.16.1.1 77337,77338 2bwrA 401 2.31e+01 1nynA 131 2.31e+01 d.235.1.1 86410 1gnf 46 2.33e+01 1gatA g.39.1.1 45107 1se8A 301 2.33e+01 b.40.4.3 105448 1j0hA 588 2.37e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1y791 680 2.39e+01 1vokA 200 2.43e+01 1ytbA d.129.1.1,d.129.1.1 41242,41243 1eu1A 780 2.48e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1ugmA 125 2.50e+01 d.15.1.3 107827 1v7oA 165 2.53e+01 d.67.1.2 100480 1lokA 291 2.55e+01 c.56.5.4 78122 1rlmA 271 2.57e+01 1tnrA 144 2.58e+01 2tnfA b.22.1.1 23867 1e1hB 174 2.61e+01 1kfd 605 2.63e+01 1xwl c.55.3.5,e.8.1.1 33694,42987 1ipcA 217 2.71e+01 d.86.1.1 71257 1s6bA 119 2.72e+01 a.133.1.2 98592 1mswD 883 2.72e+01 e.8.1.3 79427 1mxgA 435 2.74e+01 b.71.1.1,c.1.8.1 85193,85194 1iciA 256 2.80e+01 1iciA c.31.1.5 62266 1dl0A 37 2.81e+01 1dl0A g.3.6.2 44112 1zgmA 248 2.85e+01 1w8oA 601 2.87e+01 1rxwA 336 2.88e+01 a.60.7.1,c.120.1.2 98059,98060 1jr7A 311 2.90e+01 b.82.2.3 63255 1odhA 174 2.95e+01 d.239.1.1 86850 1ri6A 343 3.00e+01 b.69.11.1 97503 1fc6A 388 3.01e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1dar 691 3.07e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 2ct7A 86 3.11e+01 1uteA 313 3.13e+01 1uteA d.159.1.1 42078 1g6wA 261 3.16e+01 1hqoA a.45.1.1,c.47.1.5 17751,33045 1foaA 348 3.23e+01 1foaA c.68.1.10 59929 1dsvA 31 3.24e+01 1dsvA g.40.1.1 45174 1vloA 381 3.28e+01 b.44.2.1,d.250.1.1 108838,108839 1dxsA 80 3.30e+01 1cokA a.60.1.2 17944 1gosA 520 3.38e+01 c.3.1.2,d.16.1.5 65425,65426 1jj2Y 73 3.44e+01 1ffkW g.41.8.1 63110 1cd1A 315 3.53e+01 1cd1A b.1.1.2,d.19.1.1 21579,38155 1dx4A 586 3.55e+01 2bce c.69.1.1 34622 1jm1A 204 3.56e+01 b.33.1.1 71745 1c3hA 137 3.60e+01 b.22.1.1 90405 1g4iA 123 3.61e+01 1poa a.133.1.2 60241 1wd2A 60 3.61e+01 g.44.1.1 109232 1ffkW 73 3.62e+01 1ffkW g.41.8.1 45315 1woyA 500 3.63e+01 1axwA 265 3.68e+01 1bkpA d.117.1.1 40938 1akn 579 3.73e+01 2bce c.69.1.1 34626 2g8mA 264 3.75e+01 1epwA 1290 3.83e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1w9aA 147 3.84e+01 1ejfA 125 3.87e+01 1ejfA b.15.1.2 23683 1pv1A 299 3.92e+01 1yc5A 246 3.92e+01 1wyuA 438 3.92e+01 1ui8A 638 3.93e+01 b.30.2.1,d.17.2.1,d.17.2.1 99419,99420,99421 1cyx 205 3.97e+01 1cyx b.6.1.2 23023 1q9rB 222 4.00e+01 b.1.1.1,b.1.1.2 96307,96308 1vprA 374 4.01e+01 1qpbA 563 4.04e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 2fflA 756 4.12e+01 1e5uI 187 4.15e+01 1f00I b.1.14.1,d.169.1.3 22372,42441 1fsu 492 4.17e+01 1auk c.76.1.2 35032 1bg0 356 4.27e+01 1qh4A a.83.1.1,d.128.1.2 18476,41211 1xxoA 147 4.28e+01 1c76A 136 4.29e+01 2sak d.15.5.1 37718 1k81A 36 4.36e+01 g.59.1.1 72136 1vr0A 247 4.37e+01 1wr8A 231 4.44e+01 1hd5A 213 4.45e+01 2eng b.52.1.1 26896 1w2wB 191 4.52e+01 1ii2A 524 4.59e+01 c.91.1.1,c.109.1.1 66146,66147 1ifqA 138 4.60e+01 1ifqA d.110.4.1 62350 1smlA 269 4.61e+01 1smlA d.157.1.1 42053 1oy3D 282 4.65e+01 d.211.1.1 87554 2basA 431 4.65e+01 1xqwA 293 4.67e+01 1vioA 243 4.72e+01 d.265.1.3,d.66.1.5 100762,100763 2bllA 345 4.74e+01 2aq6A 147 4.78e+01 1q35A 320 4.86e+01 c.94.1.1 95661 1une 123 5.05e+01 1poa a.133.1.2 19583 1x1iA 752 5.06e+01 1ukgA 252 5.07e+01 b.29.1.1 99489 1xj4A 119 5.12e+01 1bet 107 5.19e+01 1bndA g.17.1.3 44801 1vk4A 298 5.28e+01 c.72.1.1 100850 1e4uA 78 5.33e+01 1e4uA g.44.1.1 59231 1mioA 534 5.49e+01 1qguA c.92.2.3 35601 1drqA 131 5.50e+01 1drmA 1j79A 347 5.55e+01 1j79A c.1.9.4 62675 4bcl 366 5.55e+01 4bcl b.75.1.1 27968 1mb3A 124 5.72e+01 c.23.1.1 78907 1qdlA 422 5.79e+01 1qdlA d.161.1.1 42088 1a67 108 5.82e+01 1cewI d.17.1.2 38000 2cfeA 162 5.92e+01 1mtzA 293 5.93e+01 c.69.1.7 79467 1ecfA 504 6.01e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1ggtB 731 6.03e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21882,22173,22174,37112 1ivwA 638 6.07e+01 b.30.2.1,d.17.2.1,d.17.2.1 71456,71457,71458 1iml 76 6.11e+01 1iml g.39.1.3,g.39.1.3 45145,45146 1nwzA 125 6.12e+01 d.110.3.1 86370 1s31A 273 6.17e+01 1i5hW 50 6.25e+01 1i5hW b.72.1.1 61785 1ur6B 52 6.28e+01 g.44.1.1 99812 1wmbA 260 6.32e+01 1d2vA 104 6.35e+01 1d2vA a.93.1.2 18697 1k8kA 418 6.41e+01 c.55.1.1,c.55.1.1 68305,68306 3pyp 125 6.43e+01 3pyp d.110.3.1 40897 1npdA 288 6.59e+01 c.2.1.7,c.58.1.5 80681,80682 1h7xD 1025 6.60e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15690,28635,30331,30616,39014 1bhe 376 6.61e+01 1bhe b.80.1.3 28030 1a0fA 201 6.64e+01 1a0fA a.45.1.1,c.47.1.5 17737,33031 1dm0A 287 6.67e+01 1dm0A d.165.1.2 42227 1qcrA 446 6.68e+01 1be3A d.185.1.1,d.185.1.1 59025,59026 1ykdA 398 6.68e+01 1qnnA 191 6.70e+01 1avmA a.2.11.1,d.44.1.1 15792,38755 1o4yA 288 6.83e+01 b.29.1.2 92473 1a36A 592 6.85e+01 1a36A a.2.8.1,d.163.1.2,e.15.1.1 15715,42173,43266 1pk6A 133 6.85e+01 b.22.1.1 94801 1ptq 50 6.93e+01 1ptq g.49.1.1 45349 2fqpA 97 6.96e+01 1ecfB 504 6.98e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 1ats 386 6.99e+01 1ba1 c.55.1.1,c.55.1.1 33423,33424 1z6uA 150 7.06e+01 1k4iA 233 7.07e+01 d.115.1.2 72056 2b7kA 200 7.10e+01 2absA 383 7.14e+01 1gppA 237 7.15e+01 b.86.1.2 76262 1llwA 1520 7.18e+01 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 1ajw 145 7.19e+01 1rhoA b.1.18.8 21905 1ba1 386 7.21e+01 1ba1 c.55.1.1,c.55.1.1 33387,33388 1b9cA 236 7.22e+01 1ema d.22.1.1 38358 2ffyA 358 7.22e+01 1trb 320 7.29e+01 1trb c.3.1.5,c.3.1.5 30529,30530 1qopB 396 7.37e+01 2tysB c.79.1.1 35270 1ynfA 458 7.40e+01 2sgpE 185 7.44e+01 1qq4A b.47.1.1 25825 1xl7A 612 7.46e+01 1txnA 328 7.46e+01 117eA 286 7.50e+01 1wgjA b.40.5.1 25401 3vub 101 7.57e+01 3vub b.34.6.1 24613 1uy4A 145 7.60e+01 b.18.1.10 108131 1ho1A 242 7.62e+01 1ho1A c.1.24.1 61097 1cojA 212 7.75e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1tvoA 368 7.75e+01 1qc9A 276 7.80e+01 1ckqA c.52.1.1 33235 1cxpA 104 7.85e+01 1d2vA a.93.1.2 18695 1n3oA 252 7.88e+01 b.29.1.1 79967 1ci9A 392 7.91e+01 e.3.1.1 64767 1dl6A 58 7.96e+01 1dl6A g.41.3.1 45207 1preB 470 7.97e+01 1preA d.169.1.2,f.8.1.1 42438,43825 1t3bA 211 8.01e+01 c.47.1.9,d.17.3.1 106341,106342 1adn 92 8.03e+01 1adn g.48.1.1 45348 1ayfB 105 8.06e+01 1ayfA d.15.4.1 37685 2bce 581 8.07e+01 2bce c.69.1.1 34625 1ot8A 239 8.07e+01 d.211.1.1 93507 1wxiA 275 8.16e+01 1rwiA 270 8.17e+01 b.68.9.1 97987 1ctl 85 8.28e+01 g.39.1.3,g.39.1.3 45133,45134 1bvzA 585 8.44e+01 1bvzA b.1.18.2,b.71.1.1,c.1.8.1 21856,27783,28770 2c26A 260 8.45e+01 1l0gA 358 8.51e+01 e.3.1.1 73400 1y8cA 246 8.55e+01 1aqjA 421 8.58e+01 2admA c.66.1.27 34242 1ao0A 459 8.66e+01 1ecfB c.61.1.1,d.153.1.1 34049,41816 1oihA 301 8.69e+01 b.82.2.5 93051 1g8kB 133 8.72e+01 1g8jB b.33.1.1 24435 1bglA 1023 8.74e+01 1bglA b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22097,22098,23734,24358,28857 1gvjA 146 8.79e+01 a.4.5.21 90525 1aoqA 567 8.95e+01 1qksA a.3.1.2,b.70.2.1 15934,27692 1xnzA 264 8.96e+01 4rxn 54 8.99e+01 1rb9 g.41.5.1 45226 2c07A 285 8.99e+01 1azzA 226 9.00e+01 5ptp b.47.1.2 26072