# 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 1lo7A 141 9.69e-09 1bvqA 141 1.78e-08 1bvqA d.38.1.1 38542 1c8uA 285 3.24e-05 1c8uA d.38.1.3 38547 d.38.1.3 38548 1hnuA 280 7.11e-02 1hnoA c.14.1.3 61096 1hnoA 280 7.97e-02 1hnoA c.14.1.3 61095 2bpa1 426 4.36e-01 2bpa1 1lylA 504 4.67e-01 1lylA b.40.4.1 25261 d.104.1.1 40717 1xypA 190 6.25e-01 1axkA b.29.1.11 24327 1dqeA 137 1.17e+00 1dqeA a.39.2.1 17388 1sltA 134 1.48e+00 1c1lA b.29.1.3 24186 1qg3A 195 1.64e+00 1qg3A b.1.2.1 21993 b.1.2.1 21994 1cskA 71 1.72e+00 1ckaA b.34.2.1 24513 1koqA 253 1.90e+00 2cba b.74.1.1 27964 1jjyA 636 2.12e+00 1jjyA e.26.1.2 63141 1tf4A 605 2.27e+00 1tf4A a.102.1.2 18827 b.2.2.2 22393 1mkaA 171 2.35e+00 1mkaA d.38.1.2 38543 1c1lA 136 2.41e+00 1c1lA b.29.1.3 24219 1bsjA 168 2.78e+00 1bs4A d.167.1.1 42302 1i0rA 169 2.94e+00 1i0rA b.45.1.2 61489 1i0sA 169 2.94e+00 1i0rA b.45.1.2 61491 1aw8B 91 3.08e+00 1aw8B 1mdc 133 3.51e+00 1hmt b.60.1.2 27198 1b65A 375 3.80e+00 1b65A d.154.1.1 42020 1aw8E 91 3.98e+00 1aw8B 1lla 628 3.98e+00 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.1.5 21861 1hdkA 141 3.99e+00 b.29.1.3 65807 1lcl 142 4.01e+00 1lcl b.29.1.3 24216 1f4lA 551 4.02e+00 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1jeqA 609 4.53e+00 1jeqA a.140.2.1 64748 e.31.1.1 64749 1e1oA 504 4.60e+00 1lylA b.40.4.1 25258 d.104.1.1 40714 1whi 122 4.69e+00 1whi b.39.1.1 24810 1jeyA 609 4.77e+00 1jeqA e.31.1.1 62924 1qqtA 551 5.48e+00 1qqtA a.27.1.1 16923 c.26.1.1 31590 g.41.1.1 45175 1iq0A 592 5.49e+00 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 1vcaA 202 5.67e+00 1vcaA b.1.1.3 21649 b.1.1.4 21685 1c0aA 585 6.54e+00 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1f8yA 157 6.59e+00 1f8xA c.23.14.1 31395 1pyaB 228 7.10e+00 1pyaB 1f8xA 157 7.28e+00 1f8xA c.23.14.1 31397 1d5mB 192 8.13e+00 1iakB b.1.1.2 21618 d.19.1.1 38192 1pcfA 66 8.13e+00 1pcfA d.18.1.1 38142 1e32A 458 8.39e+00 1e32A b.52.2.3 59183 c.37.1.13 59184 d.31.1.1 59185 2sli 679 8.62e+00 2sli b.29.1.9 24274 b.68.1.1 27611 4sli 679 8.63e+00 2sli b.29.1.9 24275 b.68.1.1 27612 1sltB 134 8.96e+00 1c1lA b.29.1.3 24187 1ckaA 57 9.06e+00 1ckaA b.34.2.1 24459 1fjgQ 105 9.11e+00 1fjfQ b.40.4.5 25352 1gefA 123 9.31e+00 1gefA c.52.1.18 60465 1fx3A 169 9.64e+00 1fx3B d.33.1.1 38524 1jr7A 311 9.68e+00 b.82.2.3 63255 1l0wA 580 9.92e+00 1cewI 108 1.05e+01 1cewI d.17.1.2 37999 2ae2A 260 1.06e+01 1bdb c.2.1.2 29945 1ezvI 55 1.13e+01 1be3J f.2.1.8 59553 1ll1 590 1.13e+01 1lla a.85.1.1 18488 a.86.1.1 18499 b.1.1.5 21864 1fsu 492 1.16e+01 1auk c.76.1.2 35032 1cor 82 1.17e+01 451c a.3.1.1 15903 1ex2A 189 1.20e+01 1ex2A c.51.4.2 33225 1slaA 134 1.23e+01 1c1lA b.29.1.3 24196 1dciA 275 1.25e+01 1dciA c.14.1.3 30918 1eqkA 102 1.25e+01 1eqkA d.17.1.2 37998 1i31A 314 1.26e+01 1bw8A b.2.7.1 22481 1ibcB 88 1.36e+01 1pauB 1qtsA 247 1.39e+01 1qtsA b.1.10.1 22313 d.105.1.1 40789 1bmqB 88 1.43e+01 1pauB 1hms 132 1.48e+01 1hmt b.60.1.2 27168 1hmt 132 1.49e+01 1hmt b.60.1.2 27169 1cb0A 283 1.54e+01 1cb0A c.56.2.1 33790 1a78A 134 1.62e+01 1c1lA b.29.1.3 24212 1kopA 223 1.63e+01 2cba b.74.1.1 27966 1kyfA 247 1.65e+01 1e54A 332 1.65e+01 1e54A f.4.3.1 59258 1gmmA 133 1.71e+01 b.18.1.10 65314 3hhrB 203 1.72e+01 1axiB b.1.2.1 22005 b.1.2.1 22006 1b9zA 516 1.76e+01 1b9zA b.3.1.1 22528 c.1.8.2 28798 1hmpA 217 1.77e+01 1qk3A c.61.1.1 34075 1qupA 222 1.78e+01 1qupA b.1.8.1 22301 d.58.17.1 39352 2bb8 71 1.89e+01 2bb8 d.10.1.1 37480 1b9kA 238 1.98e+01 1qtsA b.1.10.1 22315 d.105.1.1 40791 1f28A 297 1.98e+01 1bkpA d.117.1.1 59608 1f46A 140 2.01e+01 1f46A d.129.4.1 59643 2pia 321 2.03e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1bxxA 285 2.07e+01 1bw8A b.2.7.1 22483 1ab8A 220 2.11e+01 1azsA d.58.29.1 39414 1bw8A 321 2.13e+01 1bw8A b.2.7.1 22482 830cA 168 2.15e+01 1ck7A d.92.1.11 40400 1kk1A 410 2.17e+01 1hufA 140 2.18e+01 1hufA d.195.1.1 61272 1ifc 132 2.26e+01 b.60.1.2 27173 1je5A 206 2.41e+01 1je5A b.40.4.7 62909 2stv 195 2.55e+01 2stv b.10.1.2 23287 1bzyA 217 2.57e+01 1qk3A c.61.1.1 34071 1xgsA 295 2.62e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1b8aA 438 2.62e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1hqsA 423 2.62e+01 1iso c.77.1.1 61154 1qq8A 214 2.63e+01 1qq8A a.132.1.1 19508 1f0xA 571 2.65e+01 1f0xA d.58.32.2 39483 d.145.1.1 41746 1bb8 71 2.67e+01 2bb8 d.10.1.1 37478 1ndh 272 2.73e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 1qhvA 195 2.83e+01 1qhvA b.21.1.1 23842 1gcvA 140 2.85e+01 1cg5B a.1.1.2 15410 1ckiA 317 2.88e+01 1csn d.144.1.1 41660 1bxrA 1073 2.95e+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 1b35A 260 3.05e+01 1b35A b.10.1.3 23333 2gdm 153 3.06e+01 2gdm a.1.1.2 15212 3dfr 162 3.11e+01 3dfr c.71.1.1 34880 1lh1 153 3.12e+01 2gdm a.1.1.2 15222 2lh2 153 3.12e+01 2gdm a.1.1.2 15220 1g7tA 594 3.18e+01 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1np4A 184 3.25e+01 1np1A b.60.1.1 27166 1qm3A 112 3.35e+01 1b10A d.6.1.1 37313 1pkn 530 3.39e+01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1cxvA 164 3.41e+01 1ck7A d.92.1.11 40404 1al0F 426 3.41e+01 2bpa1 b.10.1.1 23274 1egnA 434 3.41e+01 1celA b.29.1.10 59411 6cel 434 3.45e+01 1celA b.29.1.10 24279 1bs4A 168 3.46e+01 1bs4A d.167.1.1 42287 1bx4A 345 3.64e+01 1bx4A c.72.1.1 34935 1g7rA 594 3.64e+01 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1celA 434 3.73e+01 1celA b.29.1.10 24280 1g5hA 454 3.75e+01 1g5hA c.51.1.1 60270 d.104.1.1 60271 1cr5A 189 3.76e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1dgwY 93 3.77e+01 1caxB 1dgrW 93 3.82e+01 1caxB 1jn5B 250 3.86e+01 d.17.4.2 66922 1bgeB 175 3.87e+01 1bgc a.26.1.1 16824 1l1nA 183 3.92e+01 1ecfB 504 3.93e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1ndoA 449 3.95e+01 1ndoA b.33.1.2 24444 d.129.3.3 41323 1eg9A 449 3.97e+01 1ndoA b.33.1.2 24443 d.129.3.3 41322