# 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 1ihoA 283 1.22e-51 1ihoA c.26.1.4 62390 1cozA 129 1.74e-03 1cozA c.26.1.2 31598 1jhdA 396 3.28e-02 b.58.1.2 66712 c.26.1.5 66713 1qjcA 158 9.89e-02 1b6tA c.26.1.3 63328 1b6tA 159 1.12e-01 1b6tA c.26.1.3 31600 1dar 691 1.46e-01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1g8fA 511 1.50e-01 1g8fA b.58.1.2 60348 c.26.1.5 60349 c.37.1.15 60350 1ej2A 181 2.34e-01 1f9aA c.26.1.3 59414 1din 236 3.83e-01 1din c.69.1.9 34682 1dkuA 317 5.56e-01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1dpe 507 6.78e-01 1dpe c.94.1.1 35799 1kk1A 410 7.37e-01 1dppA 507 8.55e-01 1dpe c.94.1.1 35800 1dkrA 317 9.89e-01 1dkuA c.61.1.2 34114 c.61.1.2 34115 1fd9A 213 1.03e+00 1fd9A d.26.1.1 59771 1f9aA 168 1.07e+00 1f9aA c.26.1.3 31602 1h72C 296 1.26e+00 d.14.1.5 60712 d.58.26.1 60713 1pea 385 1.64e+00 1pea c.93.1.1 35662 1fwkA 296 1.93e+00 1fwkA d.14.1.5 37576 d.58.26.1 39398 1ff9A 450 2.00e+00 1ff9A c.2.1.3 30039 d.81.1.2 39954 2liv 344 2.42e+00 2liv c.93.1.1 35708 1iqrA 420 2.79e+00 a.99.1.1 66275 c.28.1.1 66276 1vjs 483 3.04e+00 1bli b.71.1.1 27714 c.1.8.1 28701 1ll1 590 3.44e+00 1lla a.85.1.1 18488 a.86.1.1 18499 b.1.1.5 21864 1esfA 233 4.61e+00 3seb b.40.2.2 25146 d.15.6.1 37735 1b0jA 754 4.76e+00 1amj c.8.2.1 30719 c.83.1.1 35395 1iciA 256 5.30e+00 1iciA c.31.1.5 62266 1exmA 405 5.53e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1ha3A 405 5.89e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1aipE 405 6.19e+00 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1bdmB 327 6.21e+00 1bmdA c.2.1.5 30138 d.162.1.1 42105 1i58A 189 6.23e+00 1b3qA d.122.1.3 61773 2nmbA 160 6.26e+00 2nmbA b.55.1.2 26994 1pmi 440 6.42e+00 1pmi b.82.1.3 28114 1ex2A 189 6.78e+00 1ex2A c.51.4.2 33225 1fds 327 7.33e+00 1fds c.2.1.2 29838 2cbf 234 7.68e+00 1cbf c.90.1.1 35588 3aig 202 8.03e+00 1atlA d.92.1.9 40321 1geqA 248 8.16e+00 2tysA c.1.2.4 28589 1fwcA 100 8.38e+00 1ubpA d.8.1.1 37331 2kauA 100 8.38e+00 1ubpA d.8.1.1 37335 1qgvA 142 8.45e+00 1qgvA c.47.1.8 33056 1fdyA 297 8.81e+00 1nal3 c.1.10.1 29071 2pfkA 320 9.00e+00 3pfk c.89.1.1 35577 1qoxN 449 9.11e+00 1qoxN c.1.8.4 28978 1qgxA 357 9.15e+00 1qgxA e.7.1.1 42973 1pfkA 320 9.32e+00 3pfk c.89.1.1 35575 1bdmA 327 9.86e+00 1bmdA c.2.1.5 30137 d.162.1.1 42104 1bg1A 722 1.02e+01 1bg1A a.47.1.1 17767 b.2.5.1 22461 d.93.1.1 40527 1ka1A 357 1.05e+01 e.7.1.1 68369 1brmA 367 1.09e+01 1brmA c.2.1.3 30030 d.81.1.1 39945 1fpzA 212 1.09e+01 1fpzA c.45.1.1 59976 1cbf 285 1.11e+01 1cbf c.90.1.1 35587 2ts1 419 1.12e+01 2ts1 c.26.1.1 31564 1dyqA 234 1.22e+01 3seb b.40.2.2 59140 d.15.6.1 59141 1derA 547 1.25e+01 1derA a.129.1.1 19459 c.8.5.1 30788 d.56.1.1 38907 1reqA 727 1.27e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 1fp1D 372 1.28e+01 1fpqA a.4.5.29 59939 c.66.1.12 59940 1jn5A 140 1.36e+01 d.17.4.2 66921 1bli 483 1.39e+01 1bli b.71.1.1 27715 c.1.8.1 28702 1g8jA 825 1.41e+01 1g8jA b.52.2.2 26924 c.81.1.1 35332 1d3gA 367 1.41e+01 1d3gA c.1.4.1 28600 1nal1 297 1.46e+01 1nal3 1fpqA 372 1.50e+01 1fpqA a.4.5.29 59947 c.66.1.12 59948 1nal3 297 1.51e+01 1nal3 1qnf 484 1.52e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 4ubpA 101 1.55e+01 1ubpA d.8.1.1 37352 1cec 343 1.59e+01 1ceo c.1.8.3 28809 1bmdA 327 1.60e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1b9yC 246 1.61e+01 1b9yC c.47.1.6 33052 1bi0 226 1.62e+01 1bi0 a.4.5.24 16202 a.76.1.1 18408 b.34.1.2 24453 1k0rA 366 1.69e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1amj 754 1.69e+01 1amj c.8.2.1 30725 c.83.1.1 35401 2lbp 346 1.70e+01 2liv c.93.1.1 35709 1g8kA 825 1.71e+01 1g8jA b.52.2.2 26920 c.81.1.1 35328 1h6qA 168 1.71e+01 1h6qA b.88.1.2 60692 1kshB 152 1.76e+01 1eceA 358 1.77e+01 1eceA c.1.8.3 28813 1c0dA 358 1.77e+01 1eceA c.1.8.3 28815 1augA 215 1.78e+01 1a2zA c.56.4.1 33798 1c4oA 664 1.79e+01 1d2mA c.37.1.13 32415 c.37.1.13 32416 1c96A 753 1.83e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1f5sA 211 1.83e+01 1f5sA c.108.1.4 59656 1j97A 211 1.83e+01 1f5sA c.108.1.4 62753 1aoiD 99 1.84e+01 1aoiD a.22.1.1 16452 1ubpA 101 1.84e+01 1ubpA d.8.1.1 37353 9ldtA 332 1.91e+01 3ldh c.2.1.5 30154 d.162.1.1 42121 1dhs 344 1.93e+01 1dhs c.31.1.1 31727 1jkgA 140 1.98e+01 d.17.4.2 66795 1dosA 358 2.01e+01 1dosA c.1.10.2 29175 1fbnA 230 2.07e+01 1fbnA c.66.1.3 34181 1cs0B 382 2.09e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417 1bwsA 321 2.09e+01 1bsvA c.2.1.2 29812 1lla 628 2.09e+01 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.1.5 21861 1l7mA 211 2.10e+01 1k77A 260 2.11e+01 1egaA 301 2.11e+01 1egaA c.37.1.8 32150 d.52.3.1 38836 1ceo 343 2.14e+01 1ceo c.1.8.3 28808 1jbwA 428 2.20e+01 c.59.1.2 62860 c.72.2.2 62861 1a9xB 379 2.21e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1a1s 314 2.27e+01 1othA c.78.1.1 35258 c.78.1.1 35259 1io2A 213 2.33e+01 1ekeA c.55.3.1 62612 1fo5A 85 2.33e+01 1fo5A c.47.1.1 59922 4ts1A 319 2.35e+01 2ts1 c.26.1.1 31565 1e4iA 447 2.36e+01 1e70M c.1.8.4 59225 1f75A 249 2.37e+01 1f75A c.101.1.1 59662 1c3oB 382 2.37e+01 1c3oB c.8.3.1 30744 c.23.16.1 31421 1tr1A 447 2.40e+01 1e70M c.1.8.4 28957 8acn 754 2.41e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1d3hA 367 2.41e+01 1d3gA c.1.4.1 28601 1udb 338 2.43e+01 1xel c.2.1.2 29787 2matA 264 2.44e+01 1c24A d.127.1.1 41146 1a3gA 308 2.45e+01 1daaA e.17.1.1 43286 1hg3A 225 2.50e+01 1hg3A c.1.1.1 61025 1h4rA 314 2.51e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1i1kA 309 2.52e+01 1daaA e.17.1.1 61533 1zfjA 491 2.59e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1atlA 202 2.62e+01 1atlA d.92.1.9 40322 1ysc 421 2.62e+01 1ivyA c.69.1.5 34652 1mjhB 162 2.63e+01 1mjhA c.29.1.2 31640 1cfzA 162 2.67e+01 1cfzA c.56.1.1 33754 1sur 215 2.68e+01 1sur c.26.2.2 31620 1e5kA 201 2.71e+01 1fr9A c.68.1.8 34578 1hd8A 363 2.72e+01 b.105.1.1 65803 e.3.1.1 65804 1c24A 263 2.72e+01 1c24A d.127.1.1 41148 1kjwA 295 2.79e+01 b.34.2.1 68643 c.37.1.1 68644 6acn 754 2.82e+01 1amj c.8.2.1 30721 c.83.1.1 35397 1f20A 435 2.85e+01 b.43.4.1 64932 c.25.1.4 64933 1jflA 228 2.86e+01 1qciA 262 2.88e+01 1qi7A d.165.1.1 42201 1hekA 131 2.95e+01 a.61.1.5 65818 1mjhA 162 2.98e+01 1mjhA c.29.1.2 31639 1e43A 483 3.05e+01 1bli b.71.1.1 59217 c.1.8.1 59218 1c52 131 3.07e+01 1c52 a.3.1.1 15810 1mal 421 3.08e+01 2mprA f.4.3.2 43784 1a27 289 3.09e+01 1fds c.2.1.2 29839 1hhsA 664 3.14e+01 1hi0P e.8.1.6 61045 1b3qA 379 3.16e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1lci 550 3.18e+01 1lci e.23.1.1 43349 1xel 338 3.19e+01 1xel c.2.1.2 29786 1udc 338 3.21e+01 1xel c.2.1.2 29785 1seiA 130 3.23e+01 1seiA d.140.1.1 41463 1b9mA 265 3.24e+01 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1qi9A 556 3.24e+01 1qhbA a.111.1.2 19053 1d6aB 262 3.44e+01 1qi7A d.165.1.1 42198 1dbqA 289 3.52e+01 1qpzA c.93.1.1 35666 1fcdA 401 3.55e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1g0oA 283 3.56e+01 1ybvA c.2.1.2 60181 1mat 264 3.58e+01 1c24A d.127.1.1 41152 1ybvA 283 3.59e+01 1ybvA c.2.1.2 29948 1iqvA 218 3.71e+01 1rss a.75.1.1 62661 1f74A 293 3.73e+01 1nal3 c.1.10.1 29079 1ihnA 113 3.74e+01 1ihnA c.103.1.1 62388 1dozA 309 3.82e+01 1ak1 c.92.1.1 35592 1ezfA 340 3.82e+01 1ezfA a.128.1.2 19440 2myo 118 3.87e+01 2myo a.118.2.1 19175 2udpA 338 3.94e+01 1xel c.2.1.2 29791 1ak1 310 3.94e+01 1ak1 c.92.1.1 35594