# 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 1i3dA 146 7.60e-02 a.1.1.2 61587 1biqA 375 1.65e-01 1xikA a.25.1.2 16786 1afrA 345 1.68e-01 1afrA a.25.1.2 16805 1jk0A 419 1.88e-01 a.25.1.2 63142 1jqcA 375 3.33e-01 1xikA a.25.1.2 63229 1l7vA 326 4.10e-01 1kncA 177 4.41e-01 a.152.1.1 68703 1spgB 147 4.47e-01 1cg5B a.1.1.2 15588 1xikA 375 4.92e-01 1xikA a.25.1.2 16784 1ldjA 760 5.87e-01 1csc 433 6.13e-01 1csh a.103.1.1 18886 1gu9A 177 7.28e-01 a.152.1.1 65540 1ibrB 462 8.65e-01 1qgrA a.118.1.1 19120 1fhjB 146 8.66e-01 1abwA a.1.1.2 59838 1kwhA 492 1.03e+00 c.94.1.1 68876 1ku1A 230 1.10e+00 1iwhB 146 1.16e+00 1ewqA 765 1.83e+00 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1ribA 375 1.89e+00 1xikA a.25.1.2 16788 6cts 433 2.18e+00 1csh a.103.1.1 18891 1babB 146 2.21e+00 1abwA a.1.1.2 15414 1h3nA 878 2.22e+00 1dxtB 147 2.23e+00 1abwA a.1.1.2 15450 1kiyA 374 2.58e+00 1qbkB 890 2.64e+00 1qbkB a.118.1.1 19127 1qgrA 876 3.23e+00 1qgrA a.118.1.1 19119 1kpkA 473 3.40e+00 f.2.1.13 68776 1jfgA 374 3.65e+00 a.128.1.5 66636 1irdB 146 3.74e+00 a.1.1.2 66287 1iapA 211 3.89e+00 a.91.1.1 62119 1i50A 1733 3.93e+00 e.29.1.1 61754 1hxiA 121 3.93e+00 1hxiA a.118.8.1 61366 1foaA 348 4.43e+00 1foaA c.68.1.10 59929 1h2vC 771 4.61e+00 1amz 435 4.78e+00 1csh a.103.1.1 18884 1be3C 379 4.96e+00 1be3C f.2.1.8 43665 1a8rA 221 5.01e+00 1a8rA d.96.1.1 40587 2occA 514 5.40e+00 2occA f.2.1.3 43518 1cnsA 243 5.45e+00 1cnsA d.2.1.1 36241 1hs6A 611 5.51e+00 1hs6A a.118.1.7 61233 b.98.1.1 61234 d.92.1.13 61235 1jfaA 374 5.52e+00 a.128.1.5 66622 1foeA 377 5.54e+00 1foeA a.87.1.1 18517 b.55.1.1 26969 2baa 243 5.86e+00 1cnsA d.2.1.1 36243 1jk0B 345 6.34e+00 a.25.1.2 63143 1k8kA 418 6.56e+00 c.55.1.1 68305 c.55.1.1 68306 1h6kA 757 6.61e+00 a.118.1.2 60675 a.118.1.2 60676 a.118.1.2 60677 2ak3A 226 6.65e+00 1zin c.37.1.1 31892 g.41.2.1 45193 1gh6A 114 6.87e+00 a.2.3.1 65191 1f24A 402 6.91e+00 1rom a.104.1.1 18953 1j99A 293 7.03e+00 1clqA 903 7.35e+00 1clqA c.55.3.5 33717 e.8.1.1 43006 1e2uA 553 7.35e+00 1e1dA e.26.1.1 43362 1cmnA 402 7.49e+00 1rom a.104.1.1 18958 1gntA 553 7.50e+00 1j5sA 463 7.58e+00 1dioA 554 7.61e+00 1dioA c.1.19.3 29656 1fuoA 467 7.81e+00 1furA a.127.1.1 19411 1furA 467 7.99e+00 1furA a.127.1.1 19403 1e79A 510 8.08e+00 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1csh 435 8.33e+00 1csh a.103.1.1 18880 1dceB 331 8.79e+00 1dceB a.102.4.3 18872 1e1dA 553 9.08e+00 1e1dA e.26.1.1 43363 1eexA 554 9.67e+00 1dioA c.1.19.3 29650 1dxjA 242 9.85e+00 1cnsA d.2.1.1 36244 1ft1B 437 1.02e+01 1ft1B a.102.4.3 18867 1jfbA 404 1.03e+01 a.104.1.1 66624 1dkqA 410 1.05e+01 1dklA c.60.1.3 33998 1jb0A 755 1.06e+01 1jb0A f.2.1.12 62820 1dmgA 225 1.13e+01 1dmgA c.22.1.1 31036 1gc0A 398 1.14e+01 1h8eA 510 1.14e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1c4zA 358 1.17e+01 1c4zA d.148.1.1 41766 1dl2A 511 1.23e+01 1dl2A a.102.2.1 18844 1kfuS 184 1.25e+01 a.39.1.7 68574 1is2A 661 1.33e+01 2sqcA 631 1.35e+01 2sqcA a.102.4.2 18854 a.102.4.2 18855 8ohm 435 1.35e+01 1heiA c.37.1.14 32469 c.37.1.14 32470 1ifa 158 1.36e+01 1ifa a.26.1.3 16892 1eljA 381 1.42e+01 4mbp c.94.1.1 35791 5csmA 256 1.44e+01 5csmA a.130.1.2 19494 1fz1C 389 1.46e+01 1mtyB a.25.1.2 16746 1i4dA 224 1.51e+01 h.4.7.1 61682 1vns 609 1.62e+01 1vns a.111.1.3 19061 1f16A 192 1.63e+01 1f16A f.1.4.1 43400 1eguA 731 1.74e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.3.1 24423 1mslA 109 1.74e+01 1mslA f.2.1.11 43660 1eyvA 156 1.77e+01 1eyvA a.79.1.1 18446 1fkmA 396 1.83e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1j77A 209 1.84e+01 1j77A a.132.1.2 62674 1wer 334 1.85e+01 1wer a.116.1.2 19108 1a59 378 1.88e+01 1aj8A a.103.1.1 18902 1qkmA 255 1.89e+01 3erdA a.123.1.1 19309 1gnlA 544 1.93e+01 1aisB 200 1.94e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1bgyE 196 1.95e+01 1bgyE f.2.1.8 43683 1yer 228 1.97e+01 1yer d.122.1.1 41101 1ei5A 520 1.97e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1hqvA 191 2.02e+01 1hqvA a.39.1.8 61160 1heiA 451 2.03e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 1i50B 1224 2.03e+01 e.29.1.2 61755 1i0aA 466 2.04e+01 1auwA a.127.1.1 61479 1i4tB 224 2.12e+01 h.4.7.1 61730 1e6yA 569 2.17e+01 1mroA a.89.1.1 18529 d.58.31.2 39447 1hbnA 549 2.19e+01 1mroA a.89.1.1 60898 d.58.31.2 60899 1t7pA 698 2.24e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1dkxA 219 2.24e+01 1dkzA e.20.1.1 43315 1dnlA 199 2.26e+01 1ci0A b.45.1.1 25753 1a26 361 2.31e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1hu4A 288 2.32e+01 1hu4A c.2.1.2 61268 1kay 381 2.32e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1k7wA 468 2.32e+01 1d3gA 367 2.33e+01 1d3gA c.1.4.1 28600 1dkzA 219 2.40e+01 1dkzA e.20.1.1 43314 1hi0P 664 2.41e+01 1hi0P e.8.1.6 61051 1jcrB 437 2.43e+01 a.102.4.3 66507 1i2sA 282 2.45e+01 2pgd 482 2.49e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1hhsA 664 2.51e+01 1hi0P e.8.1.6 61045 1g5qA 181 2.54e+01 1g5qA c.34.1.1 60288 1ba1 386 2.54e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1f62A 51 2.63e+01 1f62A g.50.1.2 45360 1i74A 309 2.68e+01 1i74A c.107.1.1 61867 1g79A 218 2.68e+01 1ci0A b.45.1.1 25752 1spgA 144 2.70e+01 1abwA a.1.1.2 15409 1kplA 473 2.73e+01 f.2.1.13 68782 1ej2A 181 2.76e+01 1f9aA c.26.1.3 59414 3crxA 343 2.77e+01 4crxA a.60.9.1 18101 d.163.1.1 42161 1mroA 548 2.77e+01 1mroA a.89.1.1 18525 d.58.31.2 39443 1iqvA 218 2.80e+01 1rss a.75.1.1 62661 1ld8B 437 2.86e+01 1dqsA 393 2.94e+01 1dqsA e.22.1.1 43347 1jfpA 348 2.94e+01 f.2.1.1 66645 1kbuA 349 2.97e+01 1j9bA 141 2.97e+01 c.47.1.12 66459 4rnpA 883 2.98e+01 1cezA e.8.1.3 43113 1il6 185 3.00e+01 1alu a.26.1.1 16827 1d3uB 201 3.05e+01 1aisB a.74.1.2 18386 a.74.1.2 18387 1lnwA 147 3.08e+01 1bgeB 175 3.14e+01 1bgc a.26.1.1 16824 1lshA 1056 3.14e+01 1hka 158 3.15e+01 1hka d.58.30.1 39433 1qhtA 775 3.24e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1jusA 194 3.26e+01 a.4.1.9 67326 a.121.1.1 67327 1bzyA 217 3.26e+01 1qk3A c.61.1.1 34071 1iyjB 817 3.28e+01 2cb5A 453 3.31e+01 3gcb d.3.1.1 37035 1e6yB 433 3.32e+01 1mroB a.89.1.1 18535 d.58.31.2 39453 1iqrA 420 3.39e+01 a.99.1.1 66275 c.28.1.1 66276 1k8tA 510 3.40e+01 e.9.1.4 68316 1i4lA 224 3.41e+01 1i49A h.4.7.1 61718 1bouB 302 3.41e+01 1bouB c.56.6.1 33859 1aroP 883 3.45e+01 1cezA e.8.1.3 43112 1gcyA 527 3.47e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1b7bA 310 3.69e+01 1b7bA c.73.1.1 34963 1bupA 386 3.70e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1qhfA 240 3.73e+01 1qhfA c.60.1.1 33960 1bmfA 510 3.73e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1wetA 340 3.73e+01 1qpzA a.35.1.5 17093 c.93.1.1 35670 1g63A 181 3.78e+01 1g5qA c.34.1.1 60299 1uor 585 3.82e+01 1bj5 a.126.1.1 19396 a.126.1.1 19397 a.126.1.1 19398 1hzfA 367 3.86e+01 1qpzA 340 3.86e+01 1qpzA a.35.1.5 17097 c.93.1.1 35673 1h8eG 272 3.88e+01 1e79G c.49.2.1 60756 1ll1 590 3.90e+01 1lla a.85.1.1 18488 a.86.1.1 18499 b.1.1.5 21864 1lxkA 721 3.99e+01