# 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 1nb8A 353 2.20e-53 d.3.1.9 80385 1hleA 345 1.00e-02 1ovaA e.1.1.1 42618 1ogwA 76 5.11e-02 d.15.1.1 87001 1d1vA 444 5.41e-02 1nseA d.174.1.1 59101 1d0cA 444 5.74e-02 d.174.1.1 64769 1ubq 76 5.83e-02 1ubi d.15.1.1 37585 1ubi 76 6.01e-02 1ubi d.15.1.1 37584 1ed5A 444 6.11e-02 1nseA d.174.1.1 42530 1nseA 444 6.65e-02 1nseA d.174.1.1 42534 1d3zA 76 8.52e-02 1ubi d.15.1.1 37592 5nseA 444 1.09e-01 d.174.1.1 74644 1vcbA 118 1.78e-01 1vcbA d.15.1.1 37603 1fnnA 389 2.23e-01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1ksfX 758 2.68e-01 a.174.1.1 77522 c.37.1.20 77523 c.37.1.20 77524 1lm8B 118 3.32e-01 d.15.1.1 74033 1mdaH 368 3.52e-01 2bbkH b.69.2.1 27637 1osa 148 5.43e-01 1cll a.39.1.5 17300 1fiy 883 6.56e-01 1fiy c.1.12.3 29307 1gnc 178 7.31e-01 1bgc a.26.1.1 16821 1fo4A 1332 7.74e-01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1qb4A 883 8.15e-01 c.1.12.3 74640 1exrA 148 8.34e-01 1cll a.39.1.5 17299 1k6kA 143 8.38e-01 a.174.1.1 77274 1jqnA 883 8.71e-01 c.1.12.3 77159 1v97A 1332 8.81e-01 1hc7A 477 9.71e-01 1hc7A c.51.1.1 60938 d.68.5.1 60940 d.104.1.1 60939 1eg3A 261 1.22e+00 1eg3A a.39.1.7 17376 a.39.1.7 17377 b.72.1.1 27805 1nzjA 298 1.39e+00 c.26.1.1 -6600 1fiqC 763 1.59e+00 1fiqC d.41.1.1 38588 d.133.1.1 41418 1gvhA 396 1.66e+00 a.1.1.2 70601 b.43.4.2 70602 c.25.1.5 70603 1mi1A 414 1.71e+00 a.169.1.1 79137 b.55.1.6 79138 1b9rA 105 1.75e+00 1ayfA d.15.4.1 37683 2cas 548 1.95e+00 2cas b.121.5.2 23376 1dlc 584 2.10e+00 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1b4cA 92 2.18e+00 1b4cA a.39.1.2 17169 1lla 628 2.20e+00 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.18.3 21861 1c8gA 548 2.21e+00 2cas b.121.5.2 23380 1hkfA 122 2.26e+00 b.1.1.1 83553 1cd9C 175 2.32e+00 1bgc a.26.1.1 16816 1clqA 903 2.36e+00 1clqA c.55.3.5 33717 e.8.1.1 43006 1ih7A 903 2.37e+00 1clqA c.55.3.5 62375 e.8.1.1 62376 1as4A 341 2.56e+00 1sek e.1.1.1 42623 1gm5A 780 3.22e+00 unknown_sccs 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1dbhA 354 3.77e+00 1awe a.87.1.1 18514 b.55.1.1 26967 1ngvA 534 3.83e+00 c.111.1.2 85698 1uhgA 385 3.91e+00 e.1.1.1 88491 1a81A 254 4.78e+00 1a81A d.93.1.1 40507 d.93.1.1 40508 1r9dA 787 5.13e+00 1f83A 425 5.28e+00 1f82A d.92.1.7 40306 1ovaA 386 5.37e+00 1ovaA e.1.1.1 42619 1avsA 90 5.76e+00 1cll a.39.1.5 17226 1l5wA 796 6.09e+00 c.87.1.4 73605 1f82A 424 6.17e+00 1f82A d.92.1.7 40307 9apiA 347 6.24e+00 1ovaA e.1.1.1 42630 1ift 263 6.46e+00 1mrj d.165.1.1 42211 1o1fC 147 6.90e+00 i.15.1.1 80997 1ipiA 123 7.06e+00 c.52.1.18 66255 1hjp 203 7.21e+00 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 3nodB 423 7.58e+00 1nseA d.174.1.1 42513 1nddA 76 8.08e+00 1ubi d.15.1.1 37599 1kfuS 184 8.67e+00 a.39.1.8 68574 1gefA 123 8.67e+00 1gefA c.52.1.18 60465 1k4nA 192 8.67e+00 d.32.1.5 72059 1nr6A 473 9.45e+00 a.104.1.1 -1464 1bgeB 175 9.74e+00 1bgc a.26.1.1 16824 1onqA 283 9.86e+00 b.1.1.2 -2640 d.19.1.1 -9390 1dt6A 473 9.93e+00 1dt6A a.104.1.1 18977 1cqxA 403 9.93e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1pa7A 130 1.01e+01 a.40.1.1 -896 1uurA 473 1.02e+01 a.47.1.1 -968 b.2.5.5 -2904 d.93.1.1 -10632 1ts3A 194 1.05e+01 1aw7A b.40.2.2 25168 d.15.6.1 37757 1vh4A 435 1.07e+01 unknown_sccs -4794 1gc1H 229 1.17e+01 1gc1H b.1.1.1 20265 b.1.1.2 21265 1mrj 247 1.17e+01 1mrj d.165.1.1 42177 1delA 241 1.19e+01 1dekA c.37.1.1 31844 1szqA 483 1.23e+01 unknown_sccs -11791 1lt3A 240 1.23e+01 1lt3A d.166.1.1 42230 1jjoC 261 1.23e+01 1jrrA 382 1.23e+01 e.1.1.1 63256 1pb6A 212 1.23e+01 a.4.1.9 88017 a.121.1.1 88018 1top 162 1.26e+01 1ncx a.39.1.5 17223 1b5pA 385 1.26e+01 c.67.1.1 -8133 1gpb 842 1.27e+01 1a8i c.87.1.4 35478 1dekA 241 1.32e+01 1dekA c.37.1.1 31842 1uzxA 169 1.36e+01 d.20.1.2 -9409 1ncx 162 1.38e+01 1ncx a.39.1.5 17222 2cblA 305 1.40e+01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1s6cA 183 1.46e+01 a.39.1.5 -858 1om4A 422 1.47e+01 d.174.1.1 87067 1q1aA 289 1.48e+01 c.31.1.5 -6781 1sqgA 429 1.49e+01 1ni3A 392 1.50e+01 c.37.1.8 80531 d.15.10.2 80532 1bt0A 76 1.51e+01 1ubi d.15.1.1 37607 4dpvZ 584 1.53e+01 2cas b.121.5.2 23377 1mjhB 162 1.59e+01 1mjhA c.26.2.4 31640 1rdg 53 1.60e+01 1rb9 g.41.5.1 45221 1fpzA 212 1.64e+01 1fpzA c.45.1.1 59976 1ba1 386 1.67e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1mho 88 1.67e+01 1b4cA a.39.1.2 17171 1nddD 76 1.70e+01 1ubi d.15.1.1 37602 1s9pA 227 1.71e+01 1bgp 309 1.72e+01 1bgp a.93.1.1 18690 1uetA 437 1.75e+01 unknown_sccs -1144 unknown_sccs -9798 unknown_sccs -10058 1sva1 361 1.80e+01 1vpsA 1mijA 152 1.89e+01 a.4.1.1 79150 1cmiA 85 1.93e+01 1cmiA d.39.1.1 38551 1ki1B 352 1.96e+01 a.87.1.1 72497 b.55.1.1 72498 1p0yA 444 1.97e+01 a.166.1.1 87654 b.85.7.3 87655 1np7A 489 1.97e+01 a.99.1.1 80677 c.28.1.1 80678 1k07A 263 2.03e+01 d.157.1.1 77218 1uq5A 263 2.07e+01 d.165.1.1 -11555 1b47A 304 2.09e+01 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 1dipA 78 2.11e+01 1dipA h.1.12.1 45632 1nvhA 66 2.13e+01 1bq8A 54 2.14e+01 1rb9 g.41.5.1 45237 1bq9A 54 2.14e+01 1rb9 g.41.5.1 45238 1rzfH 235 2.15e+01 b.1.1.1 -2188 b.1.1.2 -2453 1c8kA 842 2.15e+01 1a8i c.87.1.4 35491 1p1jA 533 2.16e+01 c.2.1.3 87687 d.81.1.3 87688 1lfdA 87 2.18e+01 1lfdA d.15.1.5 37622 1el4A 195 2.18e+01 1ej3A a.39.1.5 59453 1n0xH 230 2.19e+01 b.1.1.1 -2201 b.1.1.2 -2473 5fbpA 335 2.20e+01 1frpA e.7.1.1 42873 1huuA 90 2.21e+01 1huuA a.55.1.1 17897 1jeqB 565 2.21e+01 1jeqB unknown_sccs -4432 unknown_sccs -7996 1brfA 53 2.25e+01 1rb9 g.41.5.1 45236 1hkcA 917 2.26e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1vjoA 393 2.26e+01 c.67.1.3 -8173 1cll 148 2.27e+01 1cll a.39.1.5 17263 1j8uA 325 2.28e+01 d.178.1.1 71611 1jf2A 195 2.30e+01 1ej3A a.39.1.5 62930 1mugA 168 2.31e+01 1mugA c.18.1.2 31030 1jlnA 297 2.32e+01 1pty c.45.1.2 63172 1r6fA 310 2.33e+01 unknown_sccs -11804 1mlvA 444 2.34e+01 a.166.1.1 79283 b.85.7.3 79284 1hkbA 917 2.34e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1cii 602 2.35e+01 1cii f.1.1.1 43381 h.4.3.1 45787 1qxfA 66 2.37e+01 g.41.8.4 -12822 1bjwA 382 2.42e+01 1bjwA c.67.1.1 34349 1r13A 148 2.45e+01 d.169.1.1 -11646 h.1.1.1 -12895 1fzaB 328 2.45e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1jeyB 565 2.53e+01 1jeqB unknown_sccs -4431 unknown_sccs -7995 1mtpA 323 2.54e+01 e.1.1.1 85107 1v54C 261 2.62e+01 f.25.1.1 -12239 1o13A 136 2.65e+01 c.55.5.1 80762 1n6bA 473 2.69e+01 a.104.1.1 85359 1qlpA 394 2.69e+01 1ovaA e.1.1.1 42628 1n62A 166 2.70e+01 a.56.1.1 80090 d.15.4.2 80091 1eijA 80 2.71e+01 1eijA a.5.6.1 16298 1kmiZ 214 2.75e+01 h.4.11.1 72752 1ng7A 60 2.76e+01 a.178.1.1 85671 1ngkA 128 2.83e+01 a.1.1.1 85673 1i4fA 275 2.87e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1sek 378 2.92e+01 1sek e.1.1.1 42675 1nijA 318 2.95e+01 c.37.1.10 85741 d.237.1.1 85742 1thg 544 2.95e+01 1thg c.69.1.17 34763 1r89A 437 2.96e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1lkoA 191 2.98e+01 a.25.1.1 78063 g.41.5.1 78064 1a28A 256 2.98e+01 1a28A a.123.1.1 19290 1mjhA 162 3.01e+01 1mjhA c.26.2.4 31639 1bupA 386 3.01e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1k9uA 78 3.02e+01 a.39.1.10 84348 1vasA 137 3.05e+01 2end a.18.1.1 16404 1aw7A 194 3.06e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 2dvh 79 3.07e+01 1c53 a.3.1.1 15803 1f3cA 89 3.11e+01 1cmiA d.39.1.1 38557 1qj2A 166 3.14e+01 1qj2A 1ggzA 148 3.15e+01 a.39.1.5 70176 2occC 261 3.15e+01 1ocrC f.25.1.1 43520 1iybA 208 3.20e+01 d.124.1.1 -10977 1oygA 447 3.22e+01 unknown_sccs -4549 2masA 314 3.22e+01 2masA c.70.1.1 34810 3cln 148 3.27e+01 1cll a.39.1.5 17286 1hmcB 148 3.28e+01 1hmcB a.26.1.2 16868 1alvA 173 3.32e+01 1alvA a.39.1.8 17370 1nxhA 126 3.34e+01 unknown_sccs -1239 2ng1 293 3.36e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1op3H 225 3.36e+01 b.1.1.1 87208 b.1.1.2 87209 1j55A 95 3.37e+01 a.39.1.2 77078 1bgc 174 3.37e+01 1bgc a.26.1.1 16822 1f2eA 201 3.40e+01 1a0fA a.45.1.1 17745 c.47.1.5 33039 1guaB 81 3.42e+01 1c1yB d.15.1.5 37619 1nd7A 374 3.49e+01 d.148.1.1 -11394 1dvkA 173 3.50e+01 1dvkA a.72.1.1 18319 1r8sE 203 3.56e+01 a.118.3.1 -1579 1oxjA 173 3.57e+01 a.60.1.2 87517 a.118.1.13 87518 1nrfA 262 3.58e+01 e.3.1.1 -11780 1eo1A 124 3.58e+01 1eo1A c.55.5.1 33739 1k28D 391 3.61e+01 b.106.1.1 68052 b.106.1.1 68053 1l0wA 580 3.63e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1k5nA 276 3.64e+01 b.1.1.2 77266 d.19.1.1 77267 1i7hA 111 3.65e+01 d.15.4.1 71122 1o5zA 442 3.67e+01 c.59.1.2 -7939 c.72.2.2 -8418 1e1oA 504 3.67e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 2f5bH 235 3.72e+01 b.1.1.1 88506 b.1.1.2 88507 1h5uA 842 3.73e+01 1a8i c.87.1.4 60655 1ebmA 317 3.73e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1k8uA 90 3.82e+01 a.39.1.2 72181 1hgxA 183 3.84e+01 1tc1A c.61.1.1 34027 1kay 381 3.85e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1m2dA 110 3.85e+01 c.47.1.11 78476 1ktaA 365 3.89e+01 e.17.1.1 77533 1aca 86 3.91e+01 1aca a.11.1.1 16367 1f4qA 165 3.92e+01 1alvA a.39.1.8 17360 1i37A 260 3.96e+01 1a28A a.123.1.1 61583 1sr7A 259 3.97e+01