# List of top-scoring protein chains for t2k-100-30-str 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 1dr8B 344 3.22e-02 1cnzA c.77.1.1 35052 1ipd 345 4.34e-02 1cnzA c.77.1.1 35038 1idm 343 4.34e-02 1cnzA c.77.1.1 35035 1eq6A 189 4.38e-01 1eq6A d.107.1.1 40796 1i7xB 151 4.94e-01 1i7xB j.71.1.1 61914 1jr7A 311 7.25e-01 b.82.2.3 63255 2masA 314 8.93e-01 2masA c.70.1.1 34810 1ap8 213 1.08e+00 1ap8 d.86.1.1 40151 1ej6A 1289 1.56e+00 i.7.1.1 45967 1f60A 458 1.72e+00 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1heiA 451 1.92e+00 1heiA c.37.1.14 32463 c.37.1.14 32464 1p32A 209 2.21e+00 1p32A d.25.1.1 38379 1ejhA 190 2.27e+00 1ejhA d.86.1.1 40147 1fd2 106 2.28e+00 1a6l d.58.1.2 38962 1a6l 106 2.41e+00 1a6l d.58.1.2 38966 1fdd 106 2.56e+00 1a6l d.58.1.2 38960 1ly1A 181 2.63e+00 7fd1A 106 2.76e+00 1a6l d.58.1.2 38953 1p32C 209 3.53e+00 1p32A d.25.1.1 38381 1dixA 208 3.93e+00 1bk7A d.124.1.1 41122 1l8bA 190 3.93e+00 1fpqA 372 4.23e+00 1fpqA a.4.5.29 59947 c.66.1.12 59948 1fp1D 372 4.30e+00 1fpqA a.4.5.29 59939 c.66.1.12 59940 1eu8A 409 5.48e+00 1eu8A c.94.1.1 59502 3xis 387 5.63e+00 4xis c.1.15.3 29423 1ia9A 280 5.74e+00 1ia9A d.144.1.5 62113 1jmrA 249 5.86e+00 2xis 387 5.88e+00 4xis c.1.15.3 29427 1cm7A 363 5.94e+00 1cnzA c.77.1.1 35063 1gw9A 388 6.06e+00 1fh9A 312 6.33e+00 1taxA c.1.8.3 28913 4xis 387 6.55e+00 4xis c.1.15.3 29421 1kmdA 117 6.62e+00 1cnzA 363 6.76e+00 1cnzA c.77.1.1 35061 1cc8A 73 7.13e+00 1cc8A d.58.17.1 39343 1fhdA 312 7.39e+00 1taxA c.1.8.3 28915 1jl2A 156 7.97e+00 c.55.3.1 66822 1ew2A 513 8.51e+00 1b8jA c.76.1.1 59525 1if1A 113 8.61e+00 2irfG a.4.5.23 16183 1bolA 222 8.79e+00 1bolA d.124.1.1 41120 1cokA 68 8.96e+00 1cokA a.60.1.2 17945 1f21A 155 9.24e+00 2rn2 c.55.3.1 33550 3thiA 371 9.40e+00 2thiA c.94.1.1 35792 1b7yB 785 9.50e+00 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 2thiA 379 9.56e+00 2thiA c.94.1.1 35794 1fx3A 169 9.57e+00 1fx3B d.33.1.1 38524 2mysB 166 1.10e+01 1wdcB a.39.1.5 17308 1gtrA 553 1.12e+01 1gtrA b.53.1.2 26939 c.26.1.1 31578 1d1dA 262 1.14e+01 1d1dA a.28.3.1 16958 a.73.1.1 18335 1dioA 554 1.16e+01 1dioA c.1.19.3 29656 8ohm 435 1.17e+01 1heiA c.37.1.14 32469 c.37.1.14 32470 1eexA 554 1.20e+01 1dioA c.1.19.3 29650 1bk7A 190 1.21e+01 1bk7A d.124.1.1 41121 3cla 213 1.23e+01 3cla c.43.1.1 32610 1fyeA 229 1.23e+01 1fyeA c.23.16.4 31477 1isiA 265 1.23e+01 1eiyB 785 1.27e+01 1pysB a.6.1.1 16305 a.6.1.1 16306 b.40.4.4 25314 d.58.13.1 39313 d.104.1.1 40782 d.138.1.1 41458 1a05A 358 1.31e+01 1cnzA c.77.1.1 35059 1jkoC 52 1.37e+01 a.4.1.2 66809 2rn2 155 1.38e+01 2rn2 c.55.3.1 33551 1j77A 209 1.39e+01 1j77A a.132.1.2 62674 1lk5A 229 1.44e+01 1hcrA 52 1.51e+01 1hcrA a.4.1.2 16020 1unkA 87 1.52e+01 1cei a.28.2.1 16935 1pysB 785 1.56e+01 1pysB a.6.1.1 16299 a.6.1.1 16300 b.40.4.4 25311 d.58.13.1 39310 d.104.1.1 40779 d.138.1.1 41455 1jyhA 157 1.62e+01 2aat 396 1.73e+01 1ajsA c.67.1.1 34348 1jmtA 104 1.73e+01 d.58.7.3 63180 1cqqA 180 1.77e+01 1cqqA b.47.1.4 26422 1qtqA 553 1.86e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 2ahjC 206 1.88e+01 2ahjA d.149.1.1 41773 1fwxA 595 1.88e+01 b.6.1.4 60069 b.69.3.1 60070 2occF 98 1.92e+01 2occF g.41.5.3 45256 1fxkA 107 1.95e+01 1fxkA a.2.5.1 15703 1ew4A 106 1.95e+01 1ew4A d.82.2.1 40023 1bvzA 585 2.01e+01 1bvzA b.1.1.5 21856 b.71.1.1 27783 c.1.8.1 28770 1jn5A 140 2.02e+01 d.17.4.2 66921 1ecrA 309 2.07e+01 1ecrA e.2.1.1 42678 1fxkC 133 2.07e+01 1fxkC a.2.5.1 15702 1gd0A 122 2.10e+01 1dptA d.80.1.3 39834 1hymA 45 2.13e+01 1hymA d.40.1.1 38581 1jb0X 35 2.14e+01 f.2.1.12 62831 1f20A 435 2.18e+01 b.43.4.1 64932 c.25.1.4 64933 1l5aA 436 2.19e+01 1vsrA 136 2.27e+01 1vsrA c.52.1.15 33332 1l5jA 865 2.29e+01 1iooA 196 2.31e+01 1larA 575 2.34e+01 1larA c.45.1.2 32693 c.45.1.2 32694 1bh0 29 2.38e+01 j.6.1.1 46102 1bob 320 2.38e+01 1bob d.108.1.1 40816 1cw0A 155 2.40e+01 1vsrA c.52.1.15 33333 1irxA 523 2.51e+01 1gcpA 70 2.54e+01 1gcpA b.34.2.1 60430 1i0hA 205 2.55e+01 1avmA a.2.11.1 15760 d.44.1.1 38685 1jl1A 155 2.59e+01 c.55.3.1 66821 1iab 200 2.61e+01 1iae d.92.1.8 40312 1ast 200 2.63e+01 1iae d.92.1.8 40310 1iae 200 2.63e+01 1iae d.92.1.8 40311 1tin 69 2.65e+01 2sniI d.40.1.1 38580 1i5nA 146 2.72e+01 1i5nA a.24.10.3 61805 1a8q 274 2.78e+01 1brt c.69.1.12 34702 1h70A 255 2.81e+01 1h70A d.126.1.3 60711 1fx3B 169 2.81e+01 1fx3B d.33.1.1 38525 1fpkA 335 2.87e+01 1frpA e.7.1.1 42930 1a8o 70 2.90e+01 1a8o a.28.3.1 16953 7ceiB 206 2.90e+01 1bxiB d.4.1.1 37134 1jkgA 140 2.94e+01 d.17.4.2 66795 1jx2B 315 2.94e+01 c.37.1.8 67404 1c0dA 358 2.98e+01 1eceA c.1.8.3 28815 1pkp 150 3.07e+01 1pkp d.14.1.1 37551 d.50.1.2 38787 1eceA 358 3.09e+01 1eceA c.1.8.3 28813 1vokA 200 3.09e+01 1ytbA d.129.1.1 41242 d.129.1.1 41243 1gcqC 70 3.10e+01 1gcpA b.34.2.1 60436 1bjnA 360 3.12e+01 1bjnA c.67.1.4 34469 1qtrA 317 3.12e+01 1qtrA c.69.1.7 34660 1bjoA 360 3.12e+01 1bjnA c.67.1.4 34471 1cei 94 3.15e+01 1cei a.28.2.1 16939 1k4jA 230 3.29e+01 2gbp 309 3.30e+01 1gca c.93.1.1 35657 1hllA 32 3.35e+01 1fjnA 39 3.41e+01 1fjnA g.3.7.3 44171 1aho 64 3.47e+01 1aho g.3.7.1 44127 1ab4 477 3.50e+01 1ab4 e.11.1.1 43251 1iloA 77 3.51e+01 c.47.1.1 66205 1khbA 625 3.61e+01 c.91.1.1 68606 c.109.1.1 68607 2ahjA 206 3.61e+01 2ahjA d.149.1.1 41772 1r2aA 46 3.62e+01 1r2aA a.31.1.1 16995 1fjcA 96 3.64e+01 1fjcA d.58.7.1 39212 1tif 78 3.65e+01 1tif d.15.8.1 37836 1qnaA 200 3.66e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1i4fA 275 3.67e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1exmA 405 3.71e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1czaN 917 3.78e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1cd9C 175 3.80e+01 1bgc a.26.1.1 16816 1jeiA 53 3.83e+01 1jeiA a.140.1.1 62918 1g6q2 328 3.87e+01 1g6q2 1dgkN 917 3.88e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1ocrD 147 3.91e+01 1ocrD f.2.1.3 43541 1chd 203 3.94e+01 1chd c.40.1.1 32478 1efuB 282 3.95e+01 1efuB a.5.2.2 58975 d.43.1.1 58976 d.43.1.1 38677 1fqtA 112 3.98e+01 1fqtA b.33.1.1 24441 1duzA 275 3.98e+01 1agdA b.1.1.2 20670 d.19.1.1 38224