# 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 1lpuA 332 8.85e-01 1qnoA 344 1.62e+00 1qnoA c.1.8.3 28838 1qnrA 344 1.64e+00 1qnoA c.1.8.3 28834 1zymA 258 2.85e+00 1zymA a.60.10.1 18110 c.8.1.2 30705 1fcyA 236 3.99e+00 2lbd a.123.1.1 19282 1ci9A 392 4.01e+00 e.3.1.1 64767 2lbd 267 4.16e+00 2lbd a.123.1.1 19287 4lbd 267 4.27e+00 2lbd a.123.1.1 19289 1qh4A 380 4.40e+00 1qh4A a.83.1.1 18462 d.128.1.2 41197 1a26 361 5.16e+00 1a26 a.41.1.1 17412 d.166.1.2 42274 1g99A 408 5.59e+00 1g99A c.55.1.2 33457 c.55.1.2 33458 1jl5A 454 5.96e+00 c.10.2.6 66830 1f0yA 302 6.08e+00 2hdhA a.100.1.3 18793 c.2.1.6 30197 1efyA 350 6.47e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 1rypA 243 6.70e+00 1pmaA d.153.1.4 41932 1ci8A 392 6.90e+00 e.3.1.1 64765 1sknP 92 6.94e+00 1sknP a.37.1.1 17127 2vsgA 358 7.11e+00 2vsgA h.4.1.1 45780 1jagA 241 7.82e+00 c.37.1.1 66463 1dc1A 323 7.88e+00 1dc1A c.52.1.11 33321 1g9uA 454 7.94e+00 c.10.2.6 65172 1dkzA 219 8.65e+00 1dkzA e.20.1.1 43314 2hdhA 293 9.02e+00 2hdhA a.100.1.3 18795 c.2.1.6 30199 1moq 368 9.94e+00 1moq c.80.1.1 35302 4uagA 437 1.01e+01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 3uagA 437 1.01e+01 4uagA c.5.1.1 30652 c.59.1.1 33953 c.72.2.1 34956 1uag 437 1.01e+01 4uagA c.5.1.1 30653 c.59.1.1 33954 c.72.2.1 34957 1kdxA 81 1.02e+01 1kdxA a.12.1.1 16375 1dkxA 219 1.11e+01 1dkzA e.20.1.1 43315 1fvkA 189 1.30e+01 1fvkA a.44.1.1 17490 c.47.1.4 32784 1hekA 131 1.31e+01 a.61.1.5 65818 1ihp 438 1.32e+01 1ihp c.60.1.3 33993 1khhA 198 1.39e+01 c.66.1.16 68615 1i37A 260 1.45e+01 1a28A a.123.1.1 61583 1qqvA 67 1.50e+01 1qqvA a.14.1.1 16379 1d6aB 262 1.51e+01 1qi7A d.165.1.1 42198 1eokA 290 1.51e+01 1eokA c.1.8.5 28991 1ffkK 186 1.69e+01 1ffkK c.55.4.1 33731 1jli 112 1.72e+01 1jli a.26.1.2 16884 1ax4A 467 1.81e+01 1ax4A c.67.1.2 34391 1hfeL 421 1.82e+01 1fehA c.96.1.1 36018 d.58.1.5 39001 3nodB 423 1.84e+01 1nseA d.174.1.1 42513 1i5pA 633 1.91e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1aep 161 1.93e+01 1aep a.63.1.1 18139 1dqsA 393 1.99e+01 1dqsA e.22.1.1 43347 1vii 36 2.09e+01 1vii a.14.1.1 16378 1dsbA 189 2.26e+01 1fvkA a.44.1.1 17497 c.47.1.4 32791 1jmtA 104 2.27e+01 d.58.7.3 63180 1jj2M 186 2.40e+01 1ffkK c.55.4.1 63098 1ddt 535 2.40e+01 1ddt b.2.1.1 22379 d.166.1.1 42241 f.1.2.1 43384 1elqA 390 2.42e+01 1elqA c.67.1.3 34436 1eluA 390 2.42e+01 1elqA c.67.1.3 34434 1blxA 326 2.50e+01 1hcl d.144.1.1 41596 1jg5A 83 2.52e+01 d.205.1.1 66666 1hu4A 288 2.54e+01 1hu4A c.2.1.2 61268 3ygsP 97 2.58e+01 3ygsP a.77.1.1 18435 1a16 440 2.62e+01 1az9 c.55.2.1 33548 d.127.1.1 41165 1ffyA 917 2.62e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 2.62e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1edt 271 2.63e+01 2ebn c.1.8.5 28993 1az9 457 2.75e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 1hnnA 282 2.80e+01 c.66.1.15 65895 1buoA 121 2.80e+01 1buoA d.42.1.1 38631 4rnpA 883 2.81e+01 1cezA e.8.1.3 43113 1jj2F 119 2.85e+01 1ffkE d.79.3.1 63091 1nar 290 2.98e+01 1nar c.1.8.5 28988 1eluB 390 2.99e+01 1elqA c.67.1.3 34435 1f0lA 535 3.00e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1mdyA 68 3.08e+01 1mdyA a.38.1.1 17132 1iexA 605 3.08e+01 c.1.8.7 66127 c.23.11.1 66128 1dmuA 299 3.14e+01 1dmuA c.52.1.4 33294 1g73A 162 3.17e+01 1fewA a.7.4.1 16332 1pdz 434 3.18e+01 4enl c.1.11.1 29215 d.54.1.1 38859 1hr6A 475 3.22e+01 1hr6A d.185.1.1 61164 d.185.1.1 61165 1idsA 207 3.23e+01 1avmA a.2.11.1 15722 d.44.1.1 38730 1fewA 184 3.33e+01 1fewA a.7.4.1 16334 1ex1A 605 3.34e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 2cae 484 3.36e+01 1cf9A e.5.1.1 42810 1ff9A 450 3.38e+01 1ff9A c.2.1.3 30039 d.81.1.2 39954 1isiA 265 3.41e+01 1qbjA 81 3.44e+01 1qbjA a.4.5.19 16155 1cx8A 639 3.48e+01 1cx8B a.48.2.1 17782 c.8.4.1 30763 c.56.5.5 33851 1dlyA 164 3.49e+01 1dlyA a.1.1.1 14983 1d5nA 205 3.65e+01 1avmA a.2.11.1 15762 d.44.1.1 38687 1eemA 241 3.69e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 1qtwA 285 3.69e+01 1qumA c.1.15.1 29392 1szt 68 3.69e+01 1aikN h.3.2.1 45725 1ca1 370 3.70e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1smtB 122 3.77e+01 1smtA a.4.5.5 16110 2abk 211 3.78e+01 2abk a.96.1.1 18743 1jpdX 324 3.81e+01 c.1.11.2 67014 d.54.1.1 67015 1kv8A 216 3.92e+01 1qovH 260 3.93e+01 6prcH b.41.1.1 25464 f.2.1.2 43457 1anxA 319 3.96e+01 1avc a.65.1.1 18161 1thg 544 3.99e+01 1thg c.69.1.17 34763