# 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 1lo7A 141 2.39e-03 1bvqA 141 2.97e-03 1bvqA d.38.1.1 38542 1c8uA 285 9.20e-03 1c8uA d.38.1.3 38547 d.38.1.3 38548 1iq0A 592 1.31e-01 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 2bpa1 426 5.20e-01 2bpa1 1hnoA 280 6.84e-01 1hnoA c.14.1.3 61095 1svb 395 7.24e-01 1svb b.1.1.5 21814 f.10.1.1 43827 1hnuA 280 7.28e-01 1hnoA c.14.1.3 61096 1bzyA 217 1.22e+00 1qk3A c.61.1.1 34071 1lylA 504 1.71e+00 1lylA b.40.4.1 25261 d.104.1.1 40717 1xypA 190 1.84e+00 1axkA b.29.1.11 24327 1f4lA 551 2.61e+00 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1qqtA 551 3.74e+00 1qqtA a.27.1.1 16923 c.26.1.1 31590 g.41.1.1 45175 1iicA 422 5.09e+00 1nmtA d.108.1.2 62422 d.108.1.2 62423 1mkaA 171 5.16e+00 1mkaA d.38.1.2 38543 1jjyA 636 5.23e+00 1jjyA e.26.1.2 63141 1gaxA 862 5.35e+00 1gaxA a.27.1.1 16928 b.51.1.1 26893 c.26.1.1 31595 1eo9B 241 5.82e+00 3pchM b.3.6.1 22826 1e32A 458 6.19e+00 1e32A b.52.2.3 59183 c.37.1.13 59184 d.31.1.1 59185 1e1oA 504 6.43e+00 1lylA b.40.4.1 25258 d.104.1.1 40714 1krs 120 6.63e+00 1krs b.40.4.1 25256 2ae2A 260 6.74e+00 1bdb c.2.1.2 29945 2pcdM 238 7.67e+00 3pchM b.3.6.1 22760 1b64 91 8.66e+00 1b64 d.58.12.1 39306 1hbyA 123 8.72e+00 7rsa d.5.1.1 60936 1ibcB 88 9.10e+00 1pauB 1fjgQ 105 9.53e+00 1fjfQ b.40.4.5 25352 2rmpA 361 9.67e+00 2rmpA b.50.1.2 26825 1a4yB 123 9.69e+00 7rsa d.5.1.1 37296 1nfiA 301 9.75e+00 1a3qA b.1.1.5 21942 b.2.5.1 22455 1bmqB 88 1.01e+01 1pauB 1qhvA 195 1.07e+01 1qhvA b.21.1.1 23842 1hdkA 141 1.09e+01 b.29.1.3 65807 1lcl 142 1.09e+01 1lcl b.29.1.3 24216 1k59A 123 1.10e+01 1dqeA 137 1.10e+01 1dqeA a.39.2.1 17388 2scuB 388 1.18e+01 2scuB c.23.4.1 31141 d.142.1.4 41562 1lla 628 1.19e+01 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.1.5 21861 3pcgM 238 1.21e+01 3pchM b.3.6.1 22742 1agdA 276 1.34e+01 1agdA b.1.1.2 20741 d.19.1.1 38260 1b87A 181 1.41e+01 1b87A d.108.1.1 40797 4sli 679 1.59e+01 2sli b.29.1.9 24275 b.68.1.1 27612 1jeyA 609 1.64e+01 1jeqA e.31.1.1 62924 3pchM 238 1.65e+01 3pchM b.3.6.1 22748 1cor 82 1.75e+01 451c a.3.1.1 15903 2sli 679 1.78e+01 2sli b.29.1.9 24274 b.68.1.1 27611 1jeqA 609 1.81e+01 1jeqA a.140.2.1 64748 e.31.1.1 64749 1gqvA 135 1.84e+01 1fzkA 274 1.87e+01 1agdA b.1.1.2 60149 d.19.1.1 60150 1mpgA 282 1.87e+01 1mpgA a.96.1.3 18747 d.129.1.2 41296 1ll1 590 1.88e+01 1lla a.85.1.1 18488 a.86.1.1 18499 b.1.1.5 21864 1hi2A 135 1.90e+01 7rsa d.5.1.1 61057 1fil 139 1.98e+01 1pne d.110.1.1 40869 1b8aA 438 2.11e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1koqA 253 2.17e+01 2cba b.74.1.1 27964 1b65A 375 2.19e+01 1b65A d.154.1.1 42020 1g2oA 268 2.19e+01 1b8oA c.56.2.1 60228 1qfhA 212 2.25e+01 1qfhA b.1.1.5 21893 b.1.1.5 21894 1hsbA 270 2.25e+01 1agdA b.1.1.2 20736 d.19.1.1 38257 1whi 122 2.28e+01 1whi b.39.1.1 24810 1lh1 153 2.30e+01 2gdm a.1.1.2 15222 2lh2 153 2.30e+01 2gdm a.1.1.2 15220 2gdm 153 2.30e+01 2gdm a.1.1.2 15212 1xnb 185 2.32e+01 1axkA b.29.1.11 24308 1bxrA 1073 2.33e+01 a.92.1.1 18570 c.24.1.1 31499 c.30.1.1 31697 c.30.1.1 31698 d.142.1.2 41542 d.142.1.2 41543 2asi 360 2.37e+01 2rmpA b.50.1.2 26824 1ecrA 309 2.40e+01 1ecrA e.2.1.1 42678 1axiB 236 2.43e+01 1axiB b.1.2.1 21997 b.1.2.1 21998 1al0F 426 2.44e+01 2bpa1 b.10.1.1 23274 1hmpA 217 2.48e+01 1qk3A c.61.1.1 34075 2pia 321 2.49e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1fzoA 274 2.55e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1f9zA 135 2.55e+01 1qipA d.32.1.1 38484 1k2fA 190 2.59e+01 b.8.1.2 68054 1gcvA 140 2.62e+01 1cg5B a.1.1.2 15410 1bsjA 168 2.63e+01 1bs4A d.167.1.1 42302 1ezvI 55 2.65e+01 1be3J f.2.1.8 59553 1i4fA 275 2.67e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1je5A 206 2.67e+01 1je5A b.40.4.7 62909 1duzA 275 2.68e+01 1agdA b.1.1.2 20670 d.19.1.1 38224 1eqkA 102 2.71e+01 1eqkA d.17.1.2 37998 1h5wA 309 2.73e+01 e.27.1.1 65635 1h6tA 291 2.82e+01 b.1.1.6 65686 c.10.2.1 65687 1ldg 316 2.84e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1ffyA 917 3.07e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 3.07e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1ab8A 220 3.23e+01 1azsA d.58.29.1 39414 1ceqA 316 3.27e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1lybA 97 3.30e+01 1smrA b.50.1.2 26857 1axkA 394 3.31e+01 1axkA b.29.1.2 24181 b.29.1.11 24315 1fa8A 135 3.35e+01 1qipA d.32.1.1 38486 1qg3A 195 3.39e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 1dmhA 311 3.44e+01 1dmhA b.3.6.1 22633 1ckaA 57 3.47e+01 1ckaA b.34.2.1 24459 1cd8 114 3.50e+01 1cd8 b.1.1.1 19714 1msk 331 3.50e+01 1msk d.173.1.1 42495 1agi 125 3.56e+01 7rsa d.5.1.1 37303 830cA 168 3.61e+01 1ck7A d.92.1.11 40400 3hhrB 203 3.82e+01 1axiB b.1.2.1 22005 b.1.2.1 22006 1pne 140 3.87e+01 1pne d.110.1.1 40866 1pcfA 66 3.90e+01 1pcfA d.18.1.1 38142 1ecfA 504 3.90e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1ihkA 174 3.96e+01 1bfg b.42.1.1 62384