# List of top-scoring protein chains for t2k-100-30-str2 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 1p5hA 428 1.75e+00 c.123.1.1 87802 1gd5A 130 2.27e+00 1gd5A d.189.1.1 60439 2hft 218 2.43e+00 1boy b.1.2.1 21951 b.1.2.1 21952 1m4jA 142 2.94e+00 d.109.1.2 78602 1o7kA 131 3.10e+00 d.189.1.1 81144 1danU 121 3.36e+00 1boy b.1.2.1 21954 1nkqA 259 3.49e+00 1bj8 109 3.60e+00 1bquA b.1.2.1 22070 1kq6A 141 4.12e+00 d.189.1.1 -9926 1szwA 379 5.27e+00 unknown_sccs -10164 1mjc 69 6.34e+00 1mjc b.40.4.5 25319 1tul 108 6.60e+00 1tul b.85.5.1 28373 1pkn 530 6.75e+00 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1ky3A 182 6.87e+00 c.37.1.8 73193 1egiA 147 7.28e+00 1eggA d.169.1.1 42331 1mjgM 729 7.61e+00 e.26.1.3 79204 1bquA 215 8.52e+00 1bquA b.1.2.1 22066 b.1.2.1 22067 1bdmB 327 9.55e+00 1bmdA c.2.1.5 30138 d.162.1.1 42105 1eggA 147 1.01e+01 1eggA d.169.1.1 42333 1csp 67 1.01e+01 1mjc b.40.4.5 25321 1bp3B 211 1.01e+01 1axiB b.1.2.1 22031 b.1.2.1 22032 1n9lA 109 1.05e+01 d.110.3.6 85468 1i1iP 681 1.10e+01 1i1iP d.92.1.5 40297 1gu3A 149 1.11e+01 b.18.1.14 76350 1shbA 104 1.13e+01 1fmk d.93.1.1 40425 1on0A 158 1.14e+01 d.108.1.1 87095 1jsdA 319 1.16e+01 b.19.1.2 63258 1boy 219 1.22e+01 1boy b.1.2.1 21955 b.1.2.1 21956 1shwA 138 1.29e+01 1shaA 104 1.31e+01 1fmk d.93.1.1 40424 1ufhA 180 1.31e+01 d.108.1.1 88485 1i7qA 519 1.37e+01 1qdlA d.161.1.1 61901 1c4oA 664 1.46e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1jkgA 140 1.46e+01 d.17.4.2 66795 1avaC 181 1.47e+01 1avaC b.42.4.1 25604 1c9oA 66 1.47e+01 1mjc b.40.4.5 25325 1f2fA 104 1.48e+01 1fmk d.93.1.1 40455 1bdmA 327 1.51e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1bmdA 327 1.51e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1jn5A 140 1.55e+01 d.17.4.2 66921 1op4A 159 1.57e+01 b.1.6.1 -2794 1je5A 206 1.64e+01 1je5A b.40.4.7 62909 1oaoC 729 1.64e+01 e.26.1.3 86746 1d2mA 665 1.71e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1c1lA 136 1.73e+01 1c1lA b.29.1.3 24219 2aop 497 1.83e+01 2aop d.58.36.1 39503 d.58.36.1 39504 d.134.1.1 41427 d.134.1.1 41428 1aop 497 1.84e+01 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1hfuA 503 1.87e+01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1egdA 396 1.90e+01 3mdeA a.29.3.1 16596 e.6.1.1 42857 1nciA 110 1.92e+01 1edhA b.1.6.1 22191 1a65A 504 2.01e+01 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1ncg 110 2.02e+01 1edhA b.1.6.1 22193 1jhfA 202 2.10e+01 a.4.5.2 63057 b.87.1.1 63058 1f15A 218 2.11e+01 1f15B b.121.4.5 23320 1rhfA 182 2.11e+01 b.1.1.1 -2335 b.1.1.4 -2684 1nykA 165 2.12e+01 b.33.1.1 86408 1hxs2 272 2.17e+01 1ogsA 497 2.24e+01 b.71.1.2 86997 c.1.8.3 86998 1gl4B 98 2.27e+01 b.1.1.4 65288 1h6yA 170 2.28e+01 b.18.1.7 70904 1o4rA 108 2.31e+01 d.93.1.1 -10624 1bkzA 135 2.33e+01 1a3k b.29.1.3 24202 1pxvA 183 2.40e+01 d.3.1.1 -8881 1c5cH 215 2.40e+01 1igtB b.1.1.1 20475 b.1.1.2 21439 1k42A 168 2.48e+01 b.18.1.14 72032 1fxoA 293 2.49e+01 1g0rA c.68.1.6 34524 1cdi 179 2.49e+01 1cdy b.1.1.1 19727 b.1.1.3 21666 1a3k 137 2.50e+01 1a3k b.29.1.3 24218 1r8oA 96 2.58e+01 1vheA 373 2.63e+01 unknown_sccs -4280 c.56.5.4 -7890 1fna 93 2.70e+01 1fnf b.1.2.1 21971 1sk7A 198 2.76e+01 1g0rA 293 2.83e+01 1g0rA c.68.1.6 34532 1qhlA 227 2.86e+01 1qhlA c.37.1.12 32382 2eifA 136 2.94e+01 1bkb b.34.5.2 24607 b.40.4.5 25339 1si7A 369 3.06e+01 unknown_sccs -10163 1pyaB 228 3.08e+01 1pyaB 1jzgA 128 3.11e+01 b.6.1.1 67855 1mfa 247 3.15e+01 1mfa b.1.1.1 19888 b.1.1.1 19889 1ha3A 405 3.23e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1lckA 175 3.23e+01 1lckA b.34.2.1 24552 d.93.1.1 40421 1a49A 530 3.26e+01 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1qfwM 108 3.30e+01 32c2A b.1.1.1 20436 1zxq 192 3.45e+01 1zxq b.1.1.3 21657 b.1.1.4 21693 32c2A 217 3.48e+01 32c2A b.1.1.1 20438 b.1.1.2 21404 1mqvA 125 3.48e+01 a.24.3.2 79415 1vhoA 346 3.51e+01 unknown_sccs -4283 c.56.5.4 -7893 1iz6A 138 3.56e+01 b.34.5.2 76976 b.40.4.5 76977 1q0uA 219 3.59e+01 c.37.1.19 -7205 1cklA 126 3.65e+01 1cklB g.18.1.1 44851 g.18.1.1 44852 1sek 378 3.71e+01 1sek e.1.1.1 42675 1e0tA 470 3.76e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1cc3A 130 3.76e+01 1nwpA b.6.1.1 23008 1qg3A 195 3.79e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 1ngzB 220 3.80e+01 b.1.1.1 80502 b.1.1.2 80503 1dpgA 485 3.88e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1dyoA 160 3.93e+01 1dyoA b.18.1.7 23771 1mfn 185 3.94e+01 1qr4B b.1.2.1 21984 b.1.2.1 21985 1my7A 114 3.97e+01 b.1.18.1 79675