# 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 1r5qA 102 1.62e-03 unknown_sccs -965 1v2zA 111 1.16e-02 1q6aA 107 1.87e-02 unknown_sccs -960 1a87 321 2.31e-01 1a87 f.1.1.1 43380 1flp 142 2.43e-01 1flp a.1.1.2 15011 1moh 142 2.43e-01 1flp a.1.1.2 15012 1dvpA 220 3.68e-01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1b0b 142 3.83e-01 2fal a.1.1.2 15010 1f5xA 208 1.18e+00 1f5xA a.87.1.1 18516 1gvhA 396 1.36e+00 a.1.1.2 70601 b.43.4.2 70602 c.25.1.5 70603 1ufaA 520 1.36e+00 unknown_sccs -421 unknown_sccs -6065 1k8eA 345 1.41e+00 1o17A 345 1.41e+00 a.46.2.1 80765 c.27.1.1 80766 1jfiB 179 1.42e+00 1jfiB a.22.1.3 62937 1hz4A 373 1.62e+00 a.118.8.2 65960 1gwiA 411 1.89e+00 a.104.1.1 76364 1p49A 562 1.90e+00 c.76.1.2 -8432 1sxjE 354 2.37e+00 1dlyA 164 2.50e+00 1dlyA a.1.1.1 14983 1kktA 511 2.72e+00 a.102.2.1 68687 1e2uA 553 2.91e+00 1e1dA e.26.1.1 43362 1gntA 553 2.91e+00 e.26.1.1 70290 1aj8A 371 3.27e+00 1aj8A a.103.1.1 18900 1s9pA 227 3.40e+00 1fo3A 460 3.62e+00 1dl2A a.102.2.1 18845 1fnnA 389 4.06e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1axn 323 4.50e+00 1avc a.65.1.1 18149 1keiA 316 5.04e+00 d.92.1.2 77349 1iqpA 327 5.32e+00 a.80.1.1 62649 c.37.1.20 62650 1kmmA 424 5.35e+00 1adjA c.51.1.1 33174 d.104.1.1 40723 1trlA 62 5.57e+00 1hyt j.78.1.1 18263 2tmnE 316 6.13e+00 1hyt d.92.1.2 59055 1hm5A 558 6.26e+00 c.80.1.2 76717 1hyt 316 6.44e+00 1hyt d.92.1.2 59005 6tmnE 316 6.44e+00 1hyt d.92.1.2 59071 8tlnE 316 6.44e+00 1hyt d.92.1.2 59075 1kpsB 171 6.56e+00 a.118.12.1 68787 1e5rA 290 7.00e+00 1e5rA b.82.2.4 59276 1hsr 344 7.53e+00 1arv a.93.1.1 18592 1aru 344 7.70e+00 1arv a.93.1.1 18589 1arv 344 7.71e+00 1arv a.93.1.1 18590 1p8cA 145 8.26e+00 unknown_sccs -1927 6cts 433 8.32e+00 1csh a.103.1.1 18891 1csc 433 8.43e+00 1csh a.103.1.1 18886 1k5hA 398 8.49e+00 a.69.3.1 68192 c.2.1.3 68193 d.81.1.3 68194 1qwlA 505 8.56e+00 e.5.1.1 -11823 1iomA 377 8.61e+00 a.103.1.1 83698 1mi1A 414 8.64e+00 a.169.1.1 79137 b.55.1.6 79138 1uzxA 169 8.95e+00 d.20.1.2 -9409 1gk4C 84 9.22e+00 h.1.20.1 70205 1dqrA 557 9.28e+00 1dqrA c.80.1.2 35305 1g73A 162 9.36e+00 1fewA a.7.4.1 16332 1vkeA 133 9.55e+00 1hbnA 549 9.88e+00 1mroA a.89.1.1 60898 d.58.31.2 60899 1mroA 548 9.88e+00 1mroA a.89.1.1 18525 d.58.31.2 39443 3bct 457 9.96e+00 3bct a.118.1.1 19112 1gk4D 84 1.00e+01 h.1.20.1 70206 1qc7A 101 1.01e+01 1qc7A a.118.14.1 18456 1lycA 343 1.02e+01 a.93.1.1 74344 1huw 166 1.02e+01 1huw a.26.1.1 16831 1sr7A 259 1.03e+01 1kyqA 274 1.08e+01 c.2.1.11 73281 e.37.1.1 73282 1fm2A 169 1.13e+01 1fm2A d.153.1.2 59877 1kw4A 89 1.14e+01 a.60.1.2 73077 1knvA 293 1.15e+01 c.52.1.7 68707 1isiA 265 1.15e+01 e.4.1.1 71394 1omwA 689 1.24e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1ltm 320 1.27e+01 1ltm d.2.1.6 36992 1lylA 504 1.27e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1kkhA 317 1.28e+01 d.14.1.5 72645 d.58.26.3 72646 1qusA 322 1.28e+01 1ltm d.2.1.6 36991 1e1dA 553 1.31e+01 1e1dA e.26.1.1 43363 1jmeA 455 1.32e+01 a.104.1.1 66885 1or0A 160 1.34e+01 d.153.1.2 -11415 1a28A 256 1.36e+01 1a28A a.123.1.1 19290 1hq3D 103 1.41e+01 1aoiB a.22.1.1 16464 1oq9A 363 1.45e+01 a.25.1.2 87257 1mijA 152 1.54e+01 a.4.1.1 79150 1pmnA 364 1.60e+01 d.144.1.7 -11297 1iawA 317 1.61e+01 c.52.1.9 62126 1a8h 500 1.63e+01 1a8h a.27.1.1 16922 c.26.1.1 31589 1ev7B 317 1.64e+01 1ev7B c.52.1.9 33316 1hvd 319 1.65e+01 1avc a.65.1.1 18154 1b4pA 217 1.67e+01 a.45.1.1 83158 c.47.1.5 83159 1j2jB 45 1.68e+01 a.7.8.1 84017 1on0A 158 1.70e+01 d.108.1.1 87095 1a4mA 349 1.70e+01 1a4mA c.1.9.1 29014 1csh 435 1.71e+01 1csh a.103.1.1 18880 1gk4A 84 1.73e+01 h.1.20.1 70203 1rh5C 53 1.73e+01 unknown_sccs -12204 1amz 435 1.74e+01 1csh a.103.1.1 18884 1qpaA 345 1.78e+01 1arv a.93.1.1 18585 1b0nB 57 1.79e+01 1b0nB a.34.1.1 17002 1hr6A 475 1.80e+01 1hr6A d.185.1.1 61164 d.185.1.1 61165 1m33A 258 1.80e+01 c.69.1.26 78514 1k04A 162 1.80e+01 a.24.14.1 67904 1iznA 286 1.81e+01 e.43.1.1 83847 1tbmA 326 1.81e+01 2mysB 166 1.84e+01 1wdcB a.39.1.5 17308 1j7lA 264 1.84e+01 d.144.1.6 62697 1hu4A 288 1.84e+01 1hu4A 1n5dA 288 1.84e+01 c.2.1.2 80030 1a8b 318 1.91e+01 1avc a.65.1.1 18171 1mun 225 1.93e+01 1mun a.96.1.2 18744 1s3jA 155 1.93e+01 a.4.5.28 -227 1fkx 349 1.93e+01 1a4mA c.1.9.1 29018 1muyA 225 1.94e+01 1mun a.96.1.2 18745 1iatA 557 1.94e+01 1dqrA c.80.1.2 62123 1vkmA 297 1.95e+01 1j7iA 264 1.95e+01 1j7iA d.144.1.6 62694 1fkqA 124 2.02e+01 3lzt d.2.1.2 36601 1ufhA 180 2.05e+01 d.108.1.1 88485 1dl2A 511 2.13e+01 1dl2A a.102.2.1 18844 1srqA 341 2.17e+01 1bolA 222 2.17e+01 1bolA d.124.1.1 41120 1bjt 793 2.20e+01 1bjt e.11.1.1 43249 1o0uA 429 2.21e+01 c.118.1.1 80743 1em9A 154 2.28e+01 1d1dA a.73.1.1 18333 1add 349 2.32e+01 1a4mA c.1.9.1 29020 1jvsA 400 2.33e+01 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 1m7vA 363 2.35e+01 d.174.1.1 78748 1hcuA 503 2.37e+01 a.102.2.1 65796 1hta 69 2.38e+01 1a7w a.22.1.2 16476 1aoiA 116 2.39e+01 1aoiA a.22.1.1 16462 1qlaC 256 2.40e+01 1qlaC f.21.2.1 43722 1jplA 171 2.40e+01 a.118.9.2 67027 2lfb 100 2.41e+01 1lfb a.4.1.1 15990 1afrA 345 2.43e+01 1afrA a.25.1.2 16805 1m6kA 251 2.44e+01 e.3.1.1 78695 1anxA 319 2.44e+01 1avc a.65.1.1 18161 2ran 316 2.46e+01 1avc a.65.1.1 18170 1a8a 318 2.47e+01 1avc a.65.1.1 18169 1qpcA 279 2.51e+01 1fgkA d.144.1.7 41685 1giqA 413 2.51e+01 d.166.1.1 76224 d.166.1.1 76225 2mhr 118 2.53e+01 2mhr a.24.4.1 16581 1fjgM 126 2.57e+01 1fjfM a.156.1.1 16293 1hlb 158 2.58e+01 1hlb a.1.1.2 15625 1i27A 73 2.61e+01 1i27A a.4.5.30 61555 1nw1A 429 2.62e+01 d.144.1.8 86286 1s35A 214 2.63e+01 a.7.1.1 -391 a.7.1.1 -392 1jf0A 195 2.64e+01 1ej3A a.39.1.5 62926 1mzgA 146 2.73e+01 d.224.1.1 79696 1kx5A 135 2.77e+01 a.22.1.1 77593 1rw2A 152 2.82e+01 unknown_sccs -1645 1qqiA 104 2.90e+01 1opc a.4.6.1 16233 6gsvA 217 2.92e+01 1b8xA a.45.1.1 17633 c.47.1.5 32925 1fyhA 258 2.94e+01 1d9cA a.26.1.3 16907 a.26.1.3 16908 1kvkA 395 3.00e+01 d.14.1.5 73060 d.58.26.3 73061 1dd5A 185 3.04e+01 1dd5A d.67.3.1 39564 1no4A 97 3.08e+01 h.1.24.1 85918 1nnwA 252 3.08e+01 d.159.1.5 80674 1ukfA 188 3.12e+01 unknown_sccs -8886 1kkjA 419 3.18e+01 c.67.1.4 72647 1kl1A 419 3.19e+01 c.67.1.4 72663 1brsD 89 3.20e+01 1ay7B c.9.1.1 30825 1ay7B 89 3.21e+01 1ay7B c.9.1.1 30836 1b2sD 90 3.24e+01 1ay7B c.9.1.1 30837 1cqxA 403 3.28e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1l4aD 87 3.37e+01 h.1.15.1 73562 1aoiF 87 3.42e+01 1aoiB a.22.1.1 16471 1f07A 321 3.46e+01 1ezwA c.1.16.3 59560 1kx5B 102 3.47e+01 a.22.1.1 77594 1fewA 184 3.57e+01 1fewA a.7.4.1 16334 1rfmA 344 3.59e+01 c.122.1.1 -8032 1dceB 331 3.60e+01 1dceB a.102.4.3 18872 1qgrA 876 3.62e+01 1qgrA a.118.1.1 19119 2occE 109 3.70e+01 2occE a.118.11.1 19224 1ursA 402 3.80e+01 c.94.1.1 -8651 3lck 271 3.85e+01 1fmk d.144.1.7 41686 1aoiB 87 3.87e+01 1aoiB a.22.1.1 16470 1bdg 451 3.94e+01 1qhaA c.55.1.3 33461 c.55.1.3 33462 1d1dA 262 3.96e+01 1d1dA a.28.3.1 16958 a.73.1.1 18335 1ifl 53 3.97e+01 1ifi h.1.4.1 45566