# List of top-scoring protein chains for t2k-100-30-alpha 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 1ecfA 504 2.29e-01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1gw5B 591 2.32e-01 1rlaA 323 3.36e-01 1d3vA c.42.1.1 32561 1d3vA 323 3.97e-01 1d3vA c.42.1.1 32559 1j5sA 463 5.14e-01 1itbB 315 5.34e-01 1itbB b.1.1.4 21720 b.1.1.4 21721 b.1.1.4 21722 1ecfB 504 6.10e-01 1ecfB c.61.1.1 34054 d.153.1.1 41821 5fbpA 335 7.97e-01 1frpA e.7.1.1 42873 1pbwA 216 1.09e+00 1pbwA a.116.1.1 19103 1fpkA 335 1.11e+00 1frpA e.7.1.1 42930 2kinB 100 1.54e+00 3kinB 1l0oC 243 1.64e+00 1pmi 440 2.14e+00 1pmi b.82.1.3 28114 1f6fA 199 2.16e+00 1f6fA a.26.1.1 16839 1frpA 335 2.43e+00 1frpA e.7.1.1 42875 1qgrA 876 2.80e+00 1qgrA a.118.1.1 19119 1l5aA 436 2.94e+00 1rdzA 337 3.23e+00 1frpA e.7.1.1 42882 3minC 491 3.34e+00 1qguA c.92.2.3 35607 1jy8A 159 3.53e+00 d.79.5.1 67452 1azo 232 3.71e+00 1azo c.52.1.14 33329 1g0uI 205 4.11e+00 d.153.1.4 41891 1cqxA 403 4.31e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1dpuA 99 4.38e+00 1dpuA a.4.5.16 16150 1rypJ 204 4.45e+00 d.153.1.4 41878 1fwyA 331 4.67e+00 1fwyA b.81.1.4 28064 c.68.1.5 34522 1fbaA 361 4.71e+00 1fbaA c.1.10.1 29120 1keaA 221 5.30e+00 a.96.1.2 68491 1qe3A 489 5.77e+00 2bce c.69.1.1 34630 1kxlA 199 5.88e+00 1hv9A 456 5.93e+00 1fwyA b.81.1.4 28060 c.68.1.5 34518 1csn 298 6.09e+00 1csn d.144.1.1 41664 1hh1A 143 6.39e+00 1gefA c.52.1.18 61036 1gpl 432 6.53e+00 1gpl b.12.1.2 23645 c.69.1.19 34793 1tadA 324 6.57e+00 1cipA a.66.1.1 18194 c.37.1.8 32077 1fxjA 331 6.94e+00 1fwyA b.81.1.4 28062 c.68.1.5 34520 1kz8A 337 7.42e+00 1tag 324 7.53e+00 1cipA a.66.1.1 18197 c.37.1.8 32080 1lqtA 456 7.80e+00 1kq4A 232 7.89e+00 d.207.1.1 68791 1hxn 219 8.20e+00 1hxn b.66.1.1 27529 1eg7A 557 8.24e+00 1eg7A c.37.1.10 32241 1ubq 76 8.33e+00 1ubi d.15.1.1 37585 2minA 491 8.78e+00 1qguA c.92.2.3 35609 1ubi 76 9.09e+00 1ubi d.15.1.1 37584 1gx1A 160 9.26e+00 1pex 207 9.29e+00 1gen b.66.1.1 27540 1dnlA 199 1.01e+01 1ci0A b.45.1.1 25753 1ge9A 184 1.08e+01 1dd5A d.67.3.1 60463 1di6A 195 1.09e+01 1di6A c.57.1.1 33863 1cd1A 315 1.10e+01 1cd1A b.1.1.2 21579 d.19.1.1 38155 1qh8A 478 1.12e+01 1qguA c.92.2.3 35633 1e6yB 433 1.13e+01 1mroB a.89.1.1 18535 d.58.31.2 39453 1jytA 163 1.13e+01 b.94.1.1 67489 1a31A 538 1.14e+01 1a36A d.163.1.2 42170 e.15.1.1 43263 1ihp 438 1.18e+01 1ihp c.60.1.3 33993 1g6aA 271 1.21e+01 1btl e.3.1.1 42704 1jplA 171 1.25e+01 a.118.9.2 67027 1h6fA 193 1.30e+01 3kinB 117 1.32e+01 3kinB 1edt 271 1.33e+01 2ebn c.1.8.5 28993 1a36A 592 1.35e+01 1a36A a.2.8.1 15715 d.163.1.2 42173 e.15.1.1 43266 1gdeA 389 1.41e+01 c.67.1.1 60456 1rh4 35 1.42e+01 k.17.1.1 46445 1a76 326 1.45e+01 1a76 a.60.7.1 18091 c.53.1.2 33361 1hw1A 239 1.45e+01 1e2xA a.4.5.6 16111 a.78.1.1 18441 2pspA 106 1.47e+01 2pspA g.16.1.1 44730 g.16.1.1 44731 1is8K 84 1.47e+01 d.205.1.1 66331 1e2xA 243 1.48e+01 1e2xA a.4.5.6 16113 a.78.1.1 18443 1e1aA 314 1.50e+01 1e1aA b.68.6.1 59155 1tafA 68 1.55e+01 1tafA a.22.1.3 16481 1ois 223 1.58e+01 1a36A e.15.1.1 43267 1jf4A 147 1.63e+01 1bhb 71 1.69e+01 1c3wA j.35.1.1 46239 1hqvA 191 1.69e+01 1hqvA a.39.1.8 61160 1fg7A 356 1.69e+01 1gewA c.67.1.1 59819 1g79A 218 1.69e+01 1ci0A b.45.1.1 25752 2a3dA 73 1.72e+01 2a3dA k.9.1.1 46424 1qhuA 460 1.73e+01 1qhuA b.66.1.1 27530 b.66.1.1 27531 1jg5A 83 1.79e+01 d.205.1.1 66666 1fxxA 482 1.87e+01 1fxxA c.55.3.5 33726 1jgcA 161 1.89e+01 a.25.1.1 66673 1d3zA 76 1.89e+01 1ubi d.15.1.1 37592 1gewA 356 1.91e+01 1gewA c.67.1.1 60470 1f35A 162 1.95e+01 1f35A b.94.1.1 59628 1h1lA 481 1.95e+01 2chsA 127 1.97e+01 2chsA d.79.1.2 39764 1e4yA 214 1.98e+01 1zin c.37.1.1 31901 g.41.2.1 45181 3fruA 269 1.98e+01 1agdA b.1.1.2 20657 d.19.1.1 38150 3bct 457 2.01e+01 3bct a.118.1.1 19112 1bg2 325 2.01e+01 1bg2 c.37.1.9 32189 1dqwA 267 2.06e+01 1dqwA c.1.2.3 28551 1awcA 110 2.06e+01 1awcA a.4.5.21 16167 1pcp 106 2.10e+01 2pspA g.16.1.1 44742 g.16.1.1 44743 1k8kG 151 2.11e+01 a.118.13.1 68313 1qgjA 300 2.12e+01 1bgp a.93.1.1 18691 1g2nA 264 2.14e+01 1lbd a.123.1.1 60227 1iyjB 817 2.17e+01 1dbfA 127 2.18e+01 2chsA d.79.1.2 39761 1g7rA 594 2.22e+01 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1fgkA 310 2.24e+01 1fgkA d.144.1.2 41693 1fr0A 125 2.26e+01 2a0b a.24.10.1 59996 1gd9A 389 2.28e+01 c.67.1.1 60454 2ptd 298 2.31e+01 2plc c.1.18.2 29605 1vsgA 364 2.38e+01 1vsgA h.4.1.1 45782 1qguA 478 2.39e+01 1qguA c.92.2.3 35625 1bz4A 144 2.40e+01 1nfn a.24.1.1 16521 1g3jA 532 2.42e+01 3bct a.118.1.1 19114 1fviA 297 2.49e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 1c8nA 276 2.52e+01 1smvA b.10.1.2 23308 1b54 257 2.52e+01 1ct5A c.1.6.2 28664 1fqvD 149 2.55e+01 1fqvD a.122.1.1 19263 d.42.1.2 38667 1ct5A 256 2.57e+01 1ct5A c.1.6.2 28663 1qjbA 245 2.59e+01 1qjaA a.118.7.1 19202 1a62 130 2.83e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1ewkA 490 2.84e+01 1ewkA c.93.1.1 35712 1h96A 182 2.85e+01 2fha a.25.1.1 60811 1eh9A 558 2.86e+01 1ehaA b.1.1.5 21858 b.71.1.1 27785 c.1.8.1 28772 1aew 174 2.93e+01 2fha a.25.1.1 16676 1jy4A 35 2.95e+01 1b57A 358 3.03e+01 1dosA c.1.10.2 29177 1sesA 421 3.16e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1io7A 368 3.17e+01 1f4tA a.104.1.1 18971 1dat 174 3.24e+01 2fha a.25.1.1 16677 1f15B 218 3.24e+01 1f15B b.10.1.2 23321 1ucyE 109 3.30e+01 1ucyE 1rdr 461 3.39e+01 1rdr e.8.1.4 43116 1l3aA 228 3.46e+01 1lis 136 3.47e+01 1lis a.19.1.1 16406 1jf3A 147 3.49e+01 1afoA 40 3.49e+01 1afoA j.35.1.1 46257 1jwgA 147 3.51e+01 2lisA 136 3.54e+01 1lis a.19.1.1 16405 1kfiA 572 3.55e+01 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 1ig8A 486 3.57e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1lpe 144 3.57e+01 1nfn a.24.1.1 16524 1fo1A 271 3.61e+01 1fo1A c.10.2.3 30869 d.58.7.2 39213 1jobA 162 3.63e+01 1f35A b.94.1.1 63207 1aj8A 371 3.63e+01 1aj8A a.103.1.1 18900 2a0b 125 3.65e+01 2a0b a.24.10.1 16630 1adoA 363 3.66e+01 1fbaA c.1.10.1 29124 1cpo 299 3.67e+01 1cpo a.39.3.1 17390 a.39.3.1 17391 1lnh 857 3.81e+01 1yge a.119.1.1 19237 b.12.1.1 23637 1jc9A 269 3.86e+01 d.171.1.1 66490