# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 2.31e+00 1moq 368 2.39e+00 1moq c.80.1.1 35302 1qnrA 344 2.41e+00 1qnoA c.1.8.3 28834 1qnoA 344 2.99e+00 1qnoA c.1.8.3 28838 1ci9A 392 3.09e+00 e.3.1.1 64767 1ci8A 392 5.30e+00 e.3.1.1 64765 4uagA 437 5.65e+00 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 3uagA 437 5.79e+00 4uagA c.5.1.1 30652 c.59.1.1 33953 c.72.2.1 34956 1uag 437 5.95e+00 4uagA c.5.1.1 30653 c.59.1.1 33954 c.72.2.1 34957 1fvkA 189 6.21e+00 1fvkA a.44.1.1 17490 c.47.1.4 32784 1qh4A 380 7.04e+00 1qh4A a.83.1.1 18462 d.128.1.2 41197 1dsbA 189 7.90e+00 1fvkA a.44.1.1 17497 c.47.1.4 32791 1fcyA 236 8.58e+00 2lbd a.123.1.1 19282 1b3qA 379 8.98e+00 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 2lbd 267 9.05e+00 2lbd a.123.1.1 19287 1khhA 198 9.16e+00 c.66.1.16 68615 1g9uA 454 9.50e+00 c.10.2.6 65172 4lbd 267 1.02e+01 2lbd a.123.1.1 19289 1jl5A 454 1.04e+01 c.10.2.6 66830 1aep 161 1.05e+01 1aep a.63.1.1 18139 1zymA 258 1.11e+01 1zymA a.60.10.1 18110 c.8.1.2 30705 1blxA 326 1.18e+01 1hcl d.144.1.1 41596 1ihp 438 1.22e+01 1ihp c.60.1.3 33993 1qqvA 67 1.32e+01 1qqvA a.14.1.1 16379 1i5pA 633 1.52e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1vii 36 1.53e+01 1vii a.14.1.1 16378 1hu4A 288 1.56e+01 1hu4A c.2.1.2 61268 1g99A 408 1.63e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1sknP 92 1.65e+01 1sknP a.37.1.1 17127 2hdhA 293 1.72e+01 2hdhA a.100.1.3 18795 c.2.1.6 30199 1nbcA 155 1.78e+01 1nbcA b.2.2.2 22390 1nar 290 1.84e+01 1nar c.1.8.5 28988 1rypA 243 1.85e+01 1pmaA d.153.1.4 41932 1kv8A 216 1.90e+01 1hfeL 421 1.91e+01 1fehA c.96.1.1 36018 d.58.1.5 39001 1f0yA 302 1.92e+01 2hdhA a.100.1.3 18793 c.2.1.6 30197 1apa 266 2.24e+01 1qi7A d.165.1.1 42205 1jagA 241 2.27e+01 c.37.1.1 66463 1jmtA 104 2.34e+01 d.58.7.3 63180 1kskA 234 2.40e+01 1idsA 207 2.41e+01 1avmA a.2.11.1 15722 d.44.1.1 38730 1kdxA 81 2.56e+01 1kdxA a.12.1.1 16375 1iexA 605 2.57e+01 c.1.8.7 66127 c.23.11.1 66128 1ex1A 605 2.59e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 1edt 271 2.64e+01 2ebn c.1.8.5 28993 3nodB 423 2.79e+01 1nseA d.174.1.1 42513 1qgjA 300 3.08e+01 1bgp a.93.1.1 18691 1a26 361 3.12e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1efyA 350 3.23e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1dkzA 219 3.32e+01 1dkzA e.20.1.1 43314 1jg5A 83 3.33e+01 d.205.1.1 66666 3ygsP 97 3.33e+01 3ygsP a.77.1.1 18435 1hekA 131 3.36e+01 a.61.1.5 65818 1ermA 263 3.37e+01 1btl e.3.1.1 42690 1gh8A 89 3.47e+01 1gh8A d.58.12.1 39309 1isiA 265 3.48e+01 1fqgA 263 3.50e+01 1btl e.3.1.1 42699 1anxA 319 3.70e+01 1avc a.65.1.1 18161 1dc1A 323 3.72e+01 1dc1A c.52.1.11 33321 3pfk 319 3.88e+01 3pfk c.89.1.1 35581 2vsgA 358 3.94e+01 2vsgA h.4.1.1 45780 1btl 263 3.94e+01 1btl e.3.1.1 42691 1dar 691 3.98e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300