# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1nox 205 1.76e-14 1nox d.90.1.1 40242 1bkjA 240 9.29e-11 1bkjA d.90.1.1 40243 1f5vA 240 6.42e-10 1bkjA d.90.1.1 40255 1icrA 217 5.81e-09 1vfrA d.90.1.1 62274 1necA 216 9.58e-09 1vfrA d.90.1.1 40249 1vfrA 218 1.72e-07 1vfrA d.90.1.1 40247 1kblA 873 5.72e-02 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1fts 295 1.20e-01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1jcrB 437 2.10e-01 a.102.4.3 66507 1n81A 186 2.28e-01 a.185.1.1 85388 1ft1B 437 3.37e-01 1ft1B a.102.4.3 18867 1jeoA 180 3.94e-01 c.80.1.3 66611 1aocA 175 4.30e-01 1aocA g.17.1.5 44817 1dik 874 5.22e-01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1wdcC 156 5.40e-01 1wdcC a.39.1.5 17317 1d8dB 437 5.47e-01 1ft1B a.102.4.3 18866 1v7oA 165 6.70e-01 unknown_sccs -10249 1sdsA 117 8.54e-01 1ro2A 216 9.08e-01 unknown_sccs -11391 1ld8B 437 9.49e-01 a.102.4.3 73839 1ro0A 216 9.89e-01 unknown_sccs -11390 1g61A 228 1.00e+00 1g61A d.126.1.1 41126 1oi0A 124 1.01e+00 unknown_sccs -8782 1uw4B 248 1.21e+00 unknown_sccs -1560 1pxwA 128 1.74e+00 d.79.3.1 -10406 1czaN 917 2.02e+00 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1fbaA 361 2.04e+00 1fbaA c.1.10.1 29120 1nv8A 284 2.05e+00 c.66.1.30 86224 1hkcA 917 2.15e+00 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1dfmA 223 2.87e+00 1d2iA c.52.1.5 33295 1adoA 363 2.87e+00 1fbaA c.1.10.1 29124 1jj2F 119 2.88e+00 1ffkE d.79.3.1 63091 1dgkN 917 3.11e+00 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1ig8A 486 3.62e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 1m15A 357 3.70e+00 a.83.1.1 78368 d.128.1.2 78369 1bdg 451 3.70e+00 1qhaA c.55.1.3 33461 c.55.1.3 33462 2cblA 305 3.88e+00 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 2aop 497 3.91e+00 2aop d.58.36.1 39503 d.58.36.1 39504 d.134.1.1 41427 d.134.1.1 41428 1d2iA 223 3.98e+00 1d2iA c.52.1.5 33297 1o88A 353 4.91e+00 b.80.1.1 81178 1air 353 4.97e+00 1air b.80.1.1 28018 2pec 353 5.02e+00 1air b.80.1.1 28019 1fmjA 351 5.20e+00 c.37.1.5 59879 1bg0 356 5.47e+00 1qh4A a.83.1.1 18476 d.128.1.2 41211 1qr0A 228 5.49e+00 1qr0A d.150.1.1 59038 d.150.1.1 59039 1aop 497 5.53e+00 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1f5mB 180 5.78e+00 1f5mB d.110.2.1 40896 1lj2A 110 6.01e+00 h.1.13.2 73926 1d0qA 103 6.39e+00 1d0qA g.41.3.2 45208 1vrtA 560 6.42e+00 1rthA c.55.3.1 33574 e.8.1.2 43023 1qnxA 209 7.02e+00 1qnxA d.111.1.1 40914 1e7uA 961 7.31e+00 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1rztA 331 7.53e+00 a.60.6.1 -1023 a.60.12.1 -1030 d.218.1.2 -9807 1mjnA 179 7.66e+00 c.62.1.1 79210 1itwA 741 7.96e+00 c.77.1.2 76793 1uzxA 169 8.19e+00 d.20.1.2 -9409 1ignA 246 8.42e+00 1ignA a.4.1.6 16048 a.4.1.6 16049 1s4bP 674 8.44e+00 1r6uA 437 9.03e+00 c.26.1.1 -6594 1r5tA 142 9.81e+00 1b47A 304 9.98e+00 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 1i1iP 681 1.05e+01 1i1iP d.92.1.5 40297 1q77A 138 1.06e+01 c.26.2.4 -6639 1m3sA 186 1.06e+01 c.80.1.3 78573 1k30A 368 1.07e+01 c.112.1.1 68067 1hkbA 917 1.07e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1o3uA 135 1.09e+01 a.24.16.3 86615 1hssA 124 1.09e+01 1bea a.52.1.2 17819 1uc7A 125 1.15e+01 c.47.1.1 -7414 1t5yA 190 1.16e+01 1h6zA 913 1.18e+01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1qfxA 460 1.20e+01 1qfxA c.60.1.2 33994 1m7jA 484 1.22e+01 b.92.1.6 78732 b.92.1.6 78733 c.1.9.11 78734 1jraA 117 1.22e+01 a.24.15.1 67117 1rxqA 178 1.28e+01 1rk6A 496 1.30e+01 b.92.1.6 -5087 b.92.1.6 -5088 c.1.9.11 -5435 1mo7A 213 1.43e+01 d.220.1.1 85028 1eexG 173 1.50e+01 1dioG a.23.2.1 16490 1etu 394 1.50e+01 1efcA c.37.1.8 64737 1sedA 117 1.51e+01 1p4xA 250 1.52e+01 a.4.5.28 87784 a.4.5.28 87785 1d2mA 665 1.55e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1e8yA 966 1.58e+01 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1bxsA 501 1.61e+01 1bpwA c.82.1.1 35357 1qo3C 137 1.62e+01 1qo3C d.169.1.1 42350 1pfzA 380 1.65e+01 1smrA b.50.1.2 26881 1jr8A 117 1.67e+01 a.24.15.1 67115 1qf6A 642 1.71e+01 1qf6A c.51.1.1 33210 d.15.10.1 39551 d.67.1.1 39562 d.104.1.1 40759 1iawA 317 1.73e+01 c.52.1.9 62126 1kbjA 412 1.80e+01 c.1.4.1 72280 1f5mA 180 1.83e+01 1f5mB d.110.2.1 40895 1q53A 112 1.85e+01 d.58.4.4 -9944 1dkzA 219 1.86e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1pz1A 333 1.88e+01 c.1.7.1 -5255 1qo7A 394 1.91e+01 1qo7A c.69.1.11 34697 1gtxA 472 1.94e+01 1gtxA 1oktA 211 2.03e+01 a.45.1.1 -942 c.47.1.5 -7467 1oxa 403 2.08e+01 1f4tA a.104.1.1 18965 1j6oA 268 2.10e+01 c.1.9.12 77088 2ccyA 128 2.13e+01 2ccyA a.24.3.2 16544 1hl9A 449 2.16e+01 unknown_sccs -4694 unknown_sccs -5365 1uxc 65 2.21e+01 1uxc a.35.1.5 17119 1pg5A 299 2.31e+01 1nnwA 252 2.36e+01 d.159.1.5 80674 1ohvA 472 2.38e+01 c.67.1.4 -8181 1cmbA 104 2.39e+01 1cmbA unknown_sccs 17460 1s9aA 257 2.42e+01 1oksA 56 2.46e+01 unknown_sccs -426 1tljA 213 2.50e+01 1e3dB 542 2.52e+01 1h2rL e.18.1.1 59189 1fukA 165 2.54e+01 1fukA c.37.1.19 32409 1jjyA 636 2.58e+01 1jjyA 1c7nA 399 2.59e+01 1d2fA c.67.1.3 34413 1i21A 159 2.61e+01 1i21A d.108.1.1 61549 1mwsA 646 2.63e+01 d.17.4.5 79592 d.175.1.1 79593 e.3.1.1 79594 2pgd 482 2.69e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1iw2A 182 2.69e+01 b.60.1.1 71468 1e8xA 961 2.69e+01 1e8xA a.118.1.6 19148 b.7.1.1 23183 d.15.1.5 37631 d.144.1.4 41711 1kl7A 514 2.70e+01 c.79.1.1 72678 1c4oA 664 2.72e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1cmaA 104 2.76e+01 1cmbA unknown_sccs 17486 1cdzA 96 2.76e+01 1cdzA c.15.1.1 30925 1lfaA 187 2.77e+01 1ido c.62.1.1 34122 2hgsA 474 2.79e+01 2hgsA c.30.1.4 31722 d.142.1.6 75997 1mzeA 351 2.82e+01 b.82.2.6 79694 1is1A 185 2.96e+01 d.67.3.1 83704 1o0pA 104 2.97e+01 d.58.7.1 86535 1uxd 65 2.98e+01 1uxc a.35.1.5 17118 1qxoA 388 2.98e+01 unknown_sccs -11161 1iwhB 146 2.98e+01 a.1.1.2 76883 1iuqA 367 3.00e+01 c.112.1.1 -8440 1j6rA 214 3.02e+01 d.173.1.2 71598 1qrqA 325 3.04e+01 1qrqA c.1.7.1 28667 1ez1A 392 3.10e+01 1ez1A b.84.2.1 28248 c.30.1.1 31655 d.142.1.2 41500 1j7iA 264 3.10e+01 1j7iA d.144.1.6 62694 1mwxA 646 3.11e+01 d.17.4.5 79610 d.175.1.1 79611 e.3.1.1 79612 1i7gA 287 3.11e+01 a.123.1.1 71121 1ka2A 499 3.11e+01 d.92.1.5 77305 1dar 691 3.20e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1r9dA 787 3.21e+01 1dxrC 336 3.22e+01 6prcC a.138.1.2 19670 1gp4A 356 3.24e+01 b.82.2.1 65439 1l6rA 227 3.25e+01 c.108.1.10 77768 1jipA 403 3.28e+01 a.104.1.1 66748 1nfkA 325 3.28e+01 1a3qA b.1.18.1 21929 b.2.5.3 22444 1a48 306 3.33e+01 1a48 d.143.1.1 41590 1v4eA 299 3.34e+01 a.128.1.1 -1781 1omwA 689 3.39e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1dkxA 219 3.42e+01 1dkzA unknown_sccs -446 unknown_sccs -3061 1q44A 326 3.43e+01 c.37.1.5 -7037 1eteA 134 3.45e+01 1eteA a.26.1.2 16869 1gp6A 356 3.49e+01 b.82.2.1 65441 1qcwA 410 3.53e+01 1gox c.1.4.1 28622 1eupA 403 3.53e+01 1rom a.104.1.1 18967 1obdA 306 3.53e+01 d.143.1.1 86767 1rthA 560 3.54e+01 1rthA c.55.3.1 33576 e.8.1.2 43028 1ev7B 317 3.57e+01 1ev7B c.52.1.9 33316 1gzqA 300 3.61e+01 b.1.1.2 70818 d.19.1.1 70819 1f8aB 167 3.62e+01 1pinA b.72.1.1 27803 d.26.1.1 38432 1vimA 200 3.62e+01 c.80.1.3 -8532 1cmiA 85 3.65e+01 1cmiA d.39.1.1 38551 1bgeB 175 3.67e+01 1bgc a.26.1.1 16824 1s29A 92 3.67e+01 unknown_sccs -315 1i1dA 161 3.67e+01 1i21A d.108.1.1 61526 1su8A 636 3.67e+01 e.26.1.2 -12015 1oz9A 150 3.68e+01 unknown_sccs -10588 1pyfA 312 3.71e+01 c.1.7.1 -5251 2hmiA 558 3.73e+01 1rthA c.55.3.1 33604 e.8.1.2 43106 1jr1A 514 3.74e+01 c.1.5.1 63241 d.37.1.1 63242 d.37.1.1 63243 3sdhA 146 3.78e+01 3sdhA a.1.1.2 14984 1fnmA 691 3.80e+01 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303 1b8fA 509 3.81e+01 1b8fA a.127.1.2 19434 1giqA 413 3.82e+01 d.166.1.1 76224 d.166.1.1 76225 6prcC 336 3.87e+01 6prcC a.138.1.2 19671 1idrA 136 3.97e+01 1dlyA a.1.1.1 62301 1fdo 715 3.97e+01 2napA b.52.2.2 26917 c.81.1.1 35325 1ht9A 76 3.98e+01 4icb a.39.1.1 61252