# 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 1qmvA 197 4.24e-32 1qq2A c.47.1.10 33066 1qq2A 199 9.29e-30 1qq2A c.47.1.10 33064 1prxB 224 1.12e-29 1prxA c.47.1.10 33077 1prxA 224 1.36e-29 1prxA c.47.1.10 33076 1n8jA 186 1.50e-24 c.47.1.10 85401 1hd2A 161 1.48e-18 c.47.1.10 60962 1psqA 163 8.23e-17 c.47.1.10 88283 1st9A 143 3.62e-15 c.47.1.10 -7503 1qxhA 167 1.56e-13 c.47.1.10 -7496 1q98A 165 2.10e-12 c.47.1.10 -7499 1jfuA 186 8.62e-10 c.47.1.10 62940 1kngA 156 5.74e-09 c.47.1.10 72777 1lu4A 136 6.59e-09 c.47.1.10 -7509 1qk8A 146 2.47e-04 1ewxA c.47.1.10 33061 1ewxA 146 2.51e-04 1ewxA c.47.1.10 33062 1o6jA 150 9.88e-04 c.47.1.10 81089 1f9mA 112 9.87e-03 1erv c.47.1.1 32736 1faaA 124 1.14e-02 1erv c.47.1.1 32738 1o8xA 146 1.22e-02 c.47.1.10 86681 1i5gA 144 1.81e-02 1ewxA c.47.1.10 61784 1nw2A 105 2.05e-02 c.47.1.1 -7380 2trxA 108 3.49e-02 1thx c.47.1.1 32719 1es9A 232 1.17e-01 1wab c.23.10.3 31340 1wab 232 1.22e-01 1wab c.23.10.3 31341 1kebA 108 1.30e-01 c.47.1.1 77341 1f5sA 211 1.47e-01 1f5sA c.108.1.4 59656 1j97A 211 1.47e-01 1f5sA c.108.1.4 62753 1mek 120 1.61e-01 1erv c.47.1.2 32775 1l7mA 211 1.83e-01 c.108.1.4 73664 1thx 115 3.98e-01 1thx c.47.1.1 32732 1uz5A 402 4.28e-01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1gp1A 198 4.58e-01 1gp1A c.47.1.10 33059 1fb6A 105 4.59e-01 1thx c.47.1.1 32739 1a6dA 545 6.79e-01 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1a8y 367 8.90e-01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1erv 105 1.00e+00 1erv c.47.1.1 32743 1gca 309 1.03e+00 1gca c.93.1.1 35659 1o63A 219 1.12e+00 c.94.1.1 -8691 1d7kA 421 1.42e+00 7odcA b.49.2.3 26486 c.1.6.1 28648 1j6oA 268 1.46e+00 c.1.9.12 77088 1l6rA 227 1.52e+00 c.108.1.10 77768 1ak5 503 1.53e+00 1ak5 c.1.5.1 28639 1gt91 357 1.97e+00 1qhtA 775 1.99e+00 1tgoA c.55.3.5 33722 e.8.1.1 43011 1bjx 110 2.06e+00 1bjx c.47.1.2 32774 2bjxA 110 2.06e+00 1bjx c.47.1.2 32776 1gsoA 431 2.14e+00 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1a8q 274 2.53e+00 1brt c.69.1.12 34702 1zrn 232 2.60e+00 1qq5A c.108.1.1 43323 1senA 164 2.97e+00 1bupA 386 3.32e+00 1ba1 c.55.1.1 33377 c.55.1.1 33378 1tmy 120 3.45e+00 1dbwA c.23.1.1 31083 1fl0A 171 3.45e+00 1eujA b.40.4.4 25315 1pzxA 289 3.56e+00 c.119.1.1 -8623 1tgoA 773 3.68e+00 1tgoA c.55.3.5 33721 e.8.1.1 43010 1ba1 386 3.71e+00 1ba1 c.55.1.1 33387 c.55.1.1 33388 1k0eA 453 3.71e+00 d.161.1.1 67938 2gbp 309 3.75e+00 1gca c.93.1.1 35657 1kay 381 3.93e+00 1ba1 c.55.1.1 33385 c.55.1.1 33386 1bh5A 183 4.15e+00 1qipA d.32.1.1 38476 1k0gA 453 4.16e+00 d.161.1.1 67940 1eujA 166 4.27e+00 1eujA b.40.4.4 25316 2mbr 340 4.35e+00 2mbr d.145.1.2 41749 d.146.1.1 41762 1i1qB 192 4.39e+00 1qdlB c.23.16.1 61544 1hgxA 183 4.45e+00 1tc1A c.61.1.1 34027 1uxy 340 4.89e+00 2mbr d.145.1.2 41748 d.146.1.1 41761 1p4oA 322 5.00e+00 d.144.1.7 87775 1atg 231 5.08e+00 1atg c.94.1.1 35834 1kwhA 492 5.16e+00 c.94.1.1 68876 1me8A 503 5.44e+00 c.1.5.1 79028 1qgvA 142 5.54e+00 1qgvA c.47.1.8 33056 1ktbA 405 5.55e+00 b.71.1.1 72960 c.1.8.1 72961 1r26A 125 5.84e+00 c.47.1.1 -7389 1nijA 318 5.84e+00 c.37.1.10 85741 d.237.1.1 85742 1o1zA 234 5.91e+00 c.1.18.3 86555 1uc7A 125 5.97e+00 c.47.1.1 -7414 1qipA 183 5.97e+00 1qipA d.32.1.1 38470 1id1A 153 6.07e+00 1id1A c.2.1.9 62286 1f76A 336 6.10e+00 c.1.4.1 76160 1jqhA 308 6.11e+00 d.144.1.7 71793 1vjrA 271 6.12e+00 unknown_sccs -6853 1dkzA 219 6.31e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1m0wA 491 6.35e+00 c.30.1.4 78363 d.142.1.6 78364 1k1eA 180 6.38e+00 c.108.1.5 67995 1aerA 205 6.52e+00 1aerA d.166.1.1 42249 1ibsA 317 6.52e+00 c.61.1.2 66107 c.61.1.2 66108 1qydA 313 6.60e+00 c.2.1.2 -5786 1dkxA 219 6.72e+00 1dkzA unknown_sccs -446 unknown_sccs -3061 2ae2A 260 6.86e+00 1bdb c.2.1.2 29945 1v7oA 165 7.03e+00 unknown_sccs -10249 1kezA 300 7.19e+00 c.69.1.22 68546 1mkiA 330 7.39e+00 e.3.1.2 84994 1jflA 228 7.56e+00 c.78.2.1 71656 c.78.2.1 71657 1iwgA 1053 7.68e+00 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1dkuA 317 7.87e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1lk5A 229 8.22e+00 unknown_sccs 73960 d.58.40.1 73961 1geqA 248 8.30e+00 2tysA c.1.2.4 28589 1gqyA 475 8.40e+00 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1dkrA 317 8.50e+00 1dkuA c.61.1.2 34114 c.61.1.2 34115 1lqaA 346 8.74e+00 c.1.7.1 84674 1j1nA 492 8.86e+00 c.94.1.1 83978 1k9dA 679 9.31e+00 c.1.8.10 77292 d.92.2.2 77293 1rhcA 330 9.41e+00 c.1.16.3 -5606 1j5sA 463 9.45e+00 c.1.9.8 71580 1f0xA 571 9.50e+00 1f0xA d.58.32.2 39483 d.145.1.1 41746 1vgvA 384 9.66e+00 c.87.1.3 -8575 1h7mA 102 9.84e+00 d.79.3.1 83485 1f6dA 376 9.87e+00 1f6dA c.87.1.3 35467 1cxvA 164 9.94e+00 1ck7A d.92.1.11 40404 1j8dA 180 9.99e+00 c.108.1.5 66433 830cA 168 9.99e+00 1ck7A d.92.1.11 40400 1i50B 1224 1.03e+01 e.29.1.1 61755 1oe8A 211 1.04e+01 a.45.1.1 86905 c.47.1.5 86906 1qycA 308 1.06e+01 c.2.1.2 -5782 1ae1A 273 1.08e+01 1bdb c.2.1.2 29943 1eh9A 558 1.08e+01 1ehaA b.1.18.2 21858 b.71.1.1 27785 c.1.8.1 28772 1h75A 81 1.09e+01 1h75A c.47.1.1 60716 1bmtA 246 1.10e+01 1bmtA a.46.1.1 17757 c.23.6.1 31235 1vjnA 220 1.11e+01 unknown_sccs -11458 1nvmA 345 1.13e+01 a.5.7.1 86249 c.1.10.5 86250 1tof 112 1.13e+01 1erv c.47.1.1 32733 1g01A 364 1.13e+01 7a3hA c.1.8.3 60161 1g0oA 283 1.17e+01 1ybvA c.2.1.2 60181 1p3dA 475 1.27e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1g0cA 364 1.27e+01 7a3hA c.1.8.3 60165 1ttzA 87 1.28e+01 1ybvA 283 1.32e+01 1ybvA c.2.1.2 29948 1vdwA 254 1.32e+01 e.7.1.1 -11868 1qksA 567 1.34e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1mswD 883 1.34e+01 e.8.1.3 79427 1aoqA 567 1.36e+01 1qksA a.3.1.2 15934 b.70.2.1 27692 1q53A 112 1.38e+01 d.58.4.4 -9944 1ohtA 215 1.38e+01 d.118.1.1 87036 1udsA 255 1.43e+01 d.14.1.4 -9055 d.101.1.1 -10745 1rpxA 230 1.45e+01 1rpxA c.1.2.2 28536 1i3kA 348 1.56e+01 1xel c.2.1.2 61595 1i7qB 193 1.61e+01 1qdlB c.23.16.1 61902 1fcdA 401 1.63e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1ek6A 348 1.65e+01 1xel c.2.1.2 29800 1jroB 777 1.66e+01 d.41.1.1 67141 d.133.1.1 67142 1j1uA 306 1.69e+01 c.26.1.1 83980 1g6q2 328 1.69e+01 1g6q2 1b74A 254 1.72e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1fgqA 839 1.75e+01 1yge a.119.1.1 59826 b.12.1.1 59827 1w0bA 102 1.75e+01 1jw3A 140 1.77e+01 d.208.1.1 67373 1lvwA 295 1.82e+01 c.68.1.6 84723 1un8A 552 1.84e+01 unknown_sccs -1942 c.32.1.2 -6792 d.79.2.2 -10401 1mo2A 294 1.85e+01 c.69.1.22 79331 1l8qA 324 1.86e+01 a.4.12.2 77809 c.37.1.20 77810 1j6qA 136 1.86e+01 b.40.9.1 77091 1vjzA 341 1.89e+01 c.1.8.3 -5318 1h65A 270 1.92e+01 c.37.1.8 65640 1fxoA 293 1.97e+01 1g0rA c.68.1.6 34524 1yge 839 1.98e+01 1yge a.119.1.1 19234 b.12.1.1 23634 1f8nA 839 1.99e+01 1yge a.119.1.1 59703 b.12.1.1 59704 1ccwA 137 2.05e+01 1be1 c.23.6.1 31238 1oy1A 228 2.08e+01 c.23.16.2 87548 1pud 386 2.08e+01 1pud c.1.20.1 29658 1rovA 857 2.11e+01 a.119.1.1 -1656 b.12.1.1 -3034 1lssA 140 2.12e+01 c.2.1.9 74246 2dhqA 146 2.16e+01 2dhqA c.23.13.1 31382 1h05A 146 2.17e+01 c.23.13.1 76433 1nb9A 147 2.20e+01 b.43.5.1 85515 1k4gA 386 2.23e+01 c.1.20.1 72054 1f75A 249 2.26e+01 1f75A c.101.1.1 59662 1mg2D 155 2.34e+01 a.3.1.1 79062 1mxmA 254 2.37e+01 b.38.1.3 79647 d.58.43.1 79648 f.34.1.1 79649 1akeA 214 2.38e+01 1zin c.37.1.1 31905 g.41.2.1 45185 1pot 325 2.38e+01 1pot c.94.1.1 35807 1ktaA 365 2.41e+01 e.17.1.1 77533 1ck7A 631 2.42e+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 1dmaA 214 2.44e+01 1aerA d.166.1.1 42251 1sk4A 163 2.44e+01 1h1lA 481 2.45e+01 c.92.2.3 70851 1l8nA 679 2.45e+01 c.1.8.10 84564 d.92.2.2 84565 1nnlA 225 2.45e+01 c.108.1.4 85906 7odcA 424 2.46e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 2afpA 129 2.48e+01 2afpA d.169.1.1 42349 2reb 352 2.50e+01 2reb c.37.1.11 32282 d.48.1.1 38767 1hkhA 279 2.50e+01 c.69.1.12 -8342 1bfd 528 2.50e+01 1bfd c.31.1.3 31745 c.36.1.5 31801 c.36.1.9 31802 1ekfA 365 2.52e+01 1ekfA e.17.1.1 59445 1kt8A 365 2.55e+01 e.17.1.1 77531 1h38B 883 2.61e+01 e.8.1.3 76626 1mil 104 2.63e+01 1d4tA d.93.1.1 40496 1jvwA 167 2.65e+01 d.26.1.1 71907 1gz6A 319 2.67e+01 c.2.1.2 76410 1h38D 883 2.68e+01 e.8.1.3 76628 1fw1A 216 2.70e+01 a.45.1.1 60051 c.47.1.5 60052 1k7yA 577 2.71e+01 a.46.1.1 68272 c.23.6.1 68273 d.173.1.1 68274 1lnh 857 2.72e+01 1yge a.119.1.1 19237 b.12.1.1 23637 1nrwA 288 2.73e+01 c.108.1.10 86128 1bcsB 160 2.74e+01 1whtB 1su4A 994 2.75e+01 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1mhyD 521 2.76e+01 1mhyD a.25.1.2 16780 1h38C 883 2.79e+01 e.8.1.3 76627 1whtB 153 2.79e+01 1whtB 1qh8A 478 2.83e+01 1qguA c.92.2.3 35633 1whsB 153 2.83e+01 1whtB 1ecfB 504 2.84e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1qguA 478 2.85e+01 1qguA c.92.2.3 35625 1hyhA 309 2.87e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1f3eA 386 2.87e+01 1pud c.1.20.1 29661 1brlB 324 2.90e+01 1lucA c.1.16.1 29554 1oyeA 1049 2.91e+01 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1uj6A 227 2.97e+01 1nozA 388 2.99e+01 1clqA c.55.3.5 33715 1lswA 131 2.99e+01 d.110.3.2 78181 1mu5A 471 3.01e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1onxA 390 3.05e+01 b.92.1.7 87176 c.1.9.13 87177 1gtmA 419 3.12e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1edg 380 3.16e+01 1edg c.1.8.3 28807 2rn2 155 3.16e+01 2rn2 c.55.3.1 33551 1b5qA 472 3.16e+01 1b37B c.3.1.2 30404 d.16.1.5 37968 1dekA 241 3.17e+01 1dekA c.37.1.1 31842 1jztA 246 3.21e+01 c.104.1.1 63319 1b37A 472 3.23e+01 1b37B c.3.1.2 30389 d.16.1.5 37953 1b37B 472 3.24e+01 1b37B c.3.1.2 30390 d.16.1.5 37954 1drmA 131 3.27e+01 1drmA d.110.3.2 40908 1ehaA 558 3.30e+01 1ehaA b.1.18.2 21859 b.71.1.1 27786 c.1.8.1 28773 1mp9A 198 3.32e+01 a.74.1.2 -1127 a.74.1.2 -1128 2minB 522 3.36e+01 1qguB c.92.2.3 35610 2tpsA 227 3.36e+01 2tpsA c.1.3.1 28591 1uuqA 440 3.38e+01 c.1.8.3 -5321 4fiv 113 3.38e+01 1fmb b.50.1.1 26762 1uiqA 351 3.42e+01 1v7cA 351 3.42e+01 c.79.1.1 -8512 1eejA 216 3.44e+01 1eejA c.47.1.9 33057 d.17.3.1 38071 1fgs 428 3.44e+01 1fgs c.59.1.2 33959 c.72.2.2 34962 1ojjA 402 3.49e+01 b.29.1.10 -3473 1a9xB 379 3.56e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1jjeA 222 3.59e+01 1a7tA d.157.1.1 63117 1q4rA 112 3.60e+01 d.58.4.4 -9943 3minB 522 3.63e+01 1qguB c.92.2.3 35606 1pn0A 665 3.65e+01 c.3.1.2 -5992 c.47.1.10 -7513 d.16.1.2 -9210 1a8l 226 3.66e+01 1a8l c.47.1.2 32777 c.47.1.2 32778 1k28D 391 3.66e+01 b.106.1.1 68052 b.106.1.1 68053 1lnqA 336 3.69e+01 c.2.1.9 74049 f.14.1.1 74050 1dymA 402 3.70e+01 1celA b.29.1.10 24304 1erzA 303 3.70e+01 1erzA d.160.1.2 59498 1cs0B 382 3.75e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417 1dp4A 435 3.75e+01 1dp4A c.93.1.1 35710 1us0A 316 3.78e+01 c.1.7.1 -5233 1a8s 273 3.79e+01 1brt c.69.1.12 34710 1m1nB 522 3.79e+01 c.92.2.3 78418 1l3iA 192 3.79e+01 c.66.1.22 77676 1ads 315 3.80e+01 1frb c.1.7.1 28671 1uf5A 303 3.82e+01 1rch 155 3.82e+01 2rn2 c.55.3.1 33570 1eucB 396 3.84e+01 2scuB c.23.4.1 31149 d.142.1.4 41570 1e6iA 121 3.84e+01 1b91A a.29.2.1 16969 1d4xG 126 3.89e+01 1d0nA d.109.1.1 59109 1nm1G 125 3.90e+01 d.109.1.1 80653 1v04A 355 3.90e+01 unknown_sccs -4592 1bpr 191 3.92e+01 1dkzA unknown_sccs 43319 1f21A 155 3.92e+01 2rn2 c.55.3.1 33550 2tscA 264 3.95e+01 1bkpA d.117.1.1 40952 1vhqA 232 3.96e+01 c.23.16.2 -6514 1gypA 358 3.99e+01 1dssG c.2.1.3 30004 d.81.1.1 39919