# 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 1jrmA 104 3.97e-11 d.206.1.1 67136 1qj2B 809 4.09e-02 1qj2B d.41.1.1 38589 d.133.1.1 41419 1tn3 137 7.84e-01 1htn d.169.1.1 42423 1htn 182 9.44e-01 1htn d.169.1.1 42424 h.1.1.1 45426 1e5pA 151 1.76e+00 1bj7 b.60.1.1 59272 1jj2R 84 2.07e+00 1ffkP d.12.1.1 63103 1ew3A 159 2.30e+00 1mup b.60.1.1 27114 1dptA 117 2.89e+00 1dptA d.80.1.3 39862 2bc2A 227 3.32e+00 1a7tA d.157.1.1 42031 1hfoA 113 3.39e+00 d.80.1.3 61006 1jj2W 91 3.61e+00 1ffkU d.29.1.1 63108 1epbA 164 4.02e+00 1epaA b.60.1.1 27126 2bc2B 227 4.09e+00 1a7tA d.157.1.1 42032 1gm6A 175 4.09e+00 1epaA 164 4.12e+00 1epaA b.60.1.1 27128 1qh5A 260 4.20e+00 1qh5A d.157.1.2 42057 7at1B 154 4.21e+00 8atcB d.58.2.1 39053 g.41.7.1 45305 1e25A 282 4.30e+00 1e25A e.3.1.1 42731 1qh3A 260 4.47e+00 1qh5A d.157.1.2 42059 1ffkU 91 4.70e+00 1ffkU d.29.1.1 38458 1bhjA 292 5.37e+00 1xvaA c.66.1.5 34189 1eluB 390 5.39e+00 1elqA c.67.1.3 34435 1p35A 299 5.48e+00 1p35A b.28.1.1 23925 1aj0 282 5.97e+00 1aj2 c.1.21.1 29667 1em2A 229 6.14e+00 1em2A d.129.3.2 41321 1xvaA 292 6.34e+00 1xvaA c.66.1.5 34183 1elqA 390 6.48e+00 1elqA c.67.1.3 34436 1eluA 390 6.54e+00 1elqA c.67.1.3 34434 1aj2 282 6.62e+00 1aj2 c.1.21.1 29665 1d09B 153 7.01e+00 8atcB d.58.2.1 39015 g.41.7.1 45267 1shsA 147 7.06e+00 1shsA b.15.1.1 23675 1jy8A 159 7.28e+00 d.79.5.1 67452 1gx1A 160 8.26e+00 1fo4A 1332 8.48e+00 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1b24A 188 8.66e+00 1b24A d.95.2.1 40573 d.95.2.1 40574 1eg5A 384 8.93e+00 1ecxA c.67.1.3 34429 1kas 412 9.00e+00 1dd8A c.95.1.1 35964 c.95.1.1 35965 1j97A 211 9.23e+00 1f5sA c.108.1.4 62753 1fiqC 763 9.23e+00 1fiqC d.41.1.1 38588 d.133.1.1 41418 1jc4A 148 9.29e+00 1jc4A d.32.1.4 62863 1l7mA 211 9.49e+00 1ad1A 266 9.87e+00 1aj2 c.1.21.1 29668 1f5sA 211 9.90e+00 1f5sA c.108.1.4 59656 8atcB 154 1.05e+01 8atcB d.58.2.1 39027 g.41.7.1 45279 2hqi 72 1.06e+01 1aw0 d.58.17.1 39340 6cts 433 1.07e+01 1csh a.103.1.1 18891 1qqsA 174 1.10e+01 1nglA b.60.1.1 27143 1ecxA 384 1.11e+01 1ecxA c.67.1.3 34431 1i35A 95 1.12e+01 d.15.1.5 66017 1d3vA 323 1.15e+01 1d3vA c.42.1.1 32559 1d3yA 301 1.19e+01 1d3yA e.12.1.1 43252 2pth 193 1.22e+01 2pth c.56.3.1 33793 1f15B 218 1.23e+01 1f15B b.10.1.2 23321 1nlr 234 1.36e+01 2nlrA b.29.1.11 24345 1b3nA 412 1.37e+01 1dd8A c.95.1.1 35966 c.95.1.1 35967 1d8cA 723 1.40e+01 1d8cA c.1.13.1 29325 1seiA 130 1.40e+01 1seiA d.140.1.1 41463 1lc5A 364 1.40e+01 2nlrA 234 1.41e+01 2nlrA b.29.1.11 24344 2u1a 88 1.45e+01 2u1a d.58.7.1 39164 1bbpA 173 1.45e+01 1bbpA b.60.1.1 27147 1rlaA 323 1.54e+01 1d3vA c.42.1.1 32561 1ja1A 622 1.59e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1lkcA 364 1.62e+01 1kb5B 117 1.74e+01 1kb5B b.1.1.1 20632 1i06A 180 1.84e+01 1mup b.60.1.1 27131 1hztA 190 1.92e+01 1i9aA d.113.1.2 61459 1jv4A 162 2.01e+01 b.60.1.1 67343 1zrn 232 2.08e+01 1qq5A c.108.1.1 43323 1exqA 154 2.11e+01 1b9dA c.55.3.2 33646 1neu 124 2.18e+01 1neu b.1.1.1 19704 1f08A 148 2.20e+01 1f08A d.89.1.2 59564 1i05A 180 2.27e+01 1mup b.60.1.1 27130 1grwA 126 2.28e+01 1j6wA 175 2.34e+01 1j98A d.185.1.2 62663 1hnjA 317 2.35e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1eyyA 510 2.35e+01 1eyyA c.82.1.1 35389 1eblB 317 2.37e+01 1hn9A c.95.1.1 35975 c.95.1.1 35976 1hn9A 317 2.38e+01 1hn9A c.95.1.1 35977 c.95.1.1 35978 1ff9A 450 2.39e+01 1ff9A c.2.1.3 30039 d.81.1.2 39954 9atcB 146 2.42e+01 8atcB d.58.2.1 39057 g.41.7.1 45309 2oatA 439 2.45e+01 2dkb c.67.1.4 34452 1eulA 994 2.49e+01 1eulA f.2.1.10 43726 1dl5A 317 2.50e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1i9aA 182 2.57e+01 1i9aA d.113.1.2 62082 1lpuA 332 2.60e+01 1amoA 615 2.60e+01 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1b9dA 163 2.64e+01 1b9dA c.55.3.2 33649 1fg7A 356 2.64e+01 1gewA c.67.1.1 59819 1a48 306 2.70e+01 1a48 d.143.1.1 41590 1f83A 425 2.71e+01 1f82A d.92.1.7 40306 1gewA 356 2.74e+01 1gewA c.67.1.1 60470 1ez0A 510 2.75e+01 1eyyA c.82.1.1 35385 1hlgA 371 2.76e+01 1hlgA c.69.1.6 34656 1lmb3 92 2.78e+01 1lmb3 1eblA 317 2.80e+01 1hn9A c.95.1.1 35973 c.95.1.1 35974 1eg7A 557 2.80e+01 1eg7A c.37.1.10 32241 1hyvA 166 2.83e+01 1b9dA c.55.3.2 61424 1e5mA 416 2.86e+01 1dd8A c.95.1.1 58973 c.95.1.1 58974 1bl3A 160 2.93e+01 1b9dA c.55.3.2 33655 1f82A 424 2.98e+01 1f82A d.92.1.7 40307 1lliA 92 3.02e+01 1lmb3 a.35.1.2 17025 1ihrA 76 3.16e+01 1ihrA d.191.1.1 62392 1oatA 439 3.16e+01 2dkb c.67.1.4 34461 2nacA 393 3.20e+01 2nadA c.2.1.4 30088 c.23.12.1 31348 1f89A 291 3.22e+01 d.160.1.1 64988 1kit 757 3.26e+01 1kit b.29.1.8 24272 b.29.1.8 24273 b.68.1.1 27616 1nfa 178 3.26e+01 1a02N b.2.5.1 22442 1jssA 224 3.36e+01 1xxaA 78 3.39e+01 1xxaA d.74.2.1 39700 1dciA 275 3.39e+01 1dciA c.14.1.3 30918 1itg 166 3.43e+01 1b9dA c.55.3.2 33661 1regX 122 3.57e+01 1regX d.58.27.1 39406 1js3A 486 3.75e+01 c.67.1.6 67215 1ffkP 84 3.77e+01 1ffkP d.12.1.1 37493 1gg4A 452 3.79e+01 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1hn2A 159 3.84e+01 b.60.1.1 65890 1kuuA 202 3.89e+01 1qu9A 128 3.90e+01 1qu9A d.79.1.1 39755 1qu9C 128 3.90e+01 1qu9A d.79.1.1 39757 1gs5A 258 3.91e+01 1afi 72 3.95e+01 1aw0 d.58.17.1 39339 1a44 185 3.96e+01 1a44 b.17.1.1 23704