# List of top-scoring protein chains for T0379.t04-w0.5 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 1r62A 160 1.83e-01 d.122.1.3 104816 2fhpA 187 1.93e-01 1hz8A 82 1.61e+00 1i0uA g.3.11.1,g.3.11.1 61432,61433 1hj7A 80 1.63e+00 1emn g.3.11.1,g.3.11.1 61071,61072 1pv8A 330 1.85e+00 c.1.10.3 95155 1e51A 330 1.90e+00 1b4kA c.1.10.3 59254 1sqyA 691 2.70e+00 c.94.1.2,c.94.1.2 98973,98974 1lfg 691 2.86e+00 1cb6A c.94.1.2,c.94.1.2 35845,35846 1lcf 691 2.87e+00 1cb6A c.94.1.2,c.94.1.2 35838,35839 1fckA 692 2.87e+00 1cb6A c.94.1.2,c.94.1.2 35843,35844 1lfi 691 2.87e+00 1cb6A c.94.1.2,c.94.1.2 35850,35851 2bjjX 692 2.87e+00 1cb6A 691 2.87e+00 1cb6A c.94.1.2,c.94.1.2 35840,35841 1lfh 691 2.88e+00 1cb6A c.94.1.2,c.94.1.2 35856,35857 1n76A 690 2.88e+00 c.94.1.2,c.94.1.2 80226,80227 1b0lA 691 2.88e+00 1cb6A c.94.1.2,c.94.1.2 35847,35848 2a7oA 112 3.14e+00 1y0kA 209 4.27e+00 1uufA 369 5.18e+00 b.35.1.2,c.2.1.1 100006,100007 2gawB 144 5.59e+00 1apyB 2gacB 144 5.59e+00 1apyB 2bidA 197 5.93e+00 2bidA f.1.4.1 43398 2esrA 177 7.31e+00 1jbkA 195 7.67e+00 c.37.1.20 71631 1wjuA 100 8.37e+00 1p4kA 295 8.54e+00 d.153.1.5 87772 9gafA 295 8.90e+00 1apyA d.153.1.5 42008 9gacA 295 9.04e+00 1apyA d.153.1.5 42010 1btc 491 9.36e+00 1byb c.1.8.1 28791 1wdsA 495 9.46e+00 1wdqA 495 9.46e+00 1wdrA 495 9.49e+00 1wdpA 495 9.49e+00 1v3iA 495 9.50e+00 c.1.8.1 108304 1q6gA 495 9.51e+00 c.1.8.1 95974 1ukpA 495 9.60e+00 c.1.8.1 99505 1byb 495 9.61e+00 1byb c.1.8.1 28790 1ukoA 495 9.61e+00 c.1.8.1 99501 9gaaA 295 9.62e+00 1apyA d.153.1.5 42014 2c1vA 338 9.68e+00 1vcyA 213 9.70e+00 1q6dA 495 9.91e+00 c.1.8.1 95971 1lox 662 1.04e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1zcjA 463 1.08e+01 1yvmA 264 1.10e+01 3matA 265 1.10e+01 1c24A d.127.1.1 41149 1c24A 263 1.10e+01 1c24A d.127.1.1 41148 4matA 278 1.15e+01 1c24A d.127.1.1 41150 2gu5A 263 1.16e+01 1xnzA 264 1.16e+01 2ggcA 263 1.16e+01 2gtxA 261 1.16e+01 1oa8A 133 1.36e+01 b.145.1.1 92698 1fyrA 114 1.40e+01 1griA d.93.1.1 40469 1h7nA 340 1.42e+01 1b4kA c.1.10.3 60726 1h7oA 341 1.43e+01 c.1.10.3 60727 1h4pA 408 1.43e+01 c.1.8.3 90617 1bm2A 117 1.43e+01 1griA d.93.1.1 40467 1ylvA 342 1.43e+01 1b4kA c.1.10.3 29180 1fhs 112 1.43e+01 1griA d.93.1.1 40488 1ohlA 342 1.43e+01 c.1.10.3 87035 1bmbA 123 1.49e+01 1griA d.93.1.1 40466 1tzeE 98 1.49e+01 1griA d.93.1.1 40468 1x5fA 120 1.50e+01 1fprA 284 1.50e+01 2shpA c.45.1.2 59949 2aobA 99 1.51e+01 1sq8A 64 1.52e+01 a.35.1.2 105888 2h46E 116 1.53e+01 1jyrA 96 1.56e+01 d.93.1.1 71969 1zfpE 98 1.57e+01 1griA d.93.1.1 40465 1cj1A 96 1.65e+01 1griA d.93.1.1 40476 1qg1E 104 1.68e+01 1griA d.93.1.1 40489 1bjfA 193 1.75e+01 1rec a.39.1.5 17331 1gwz 299 1.76e+01 2shpA c.45.1.2 32685 16vpA 366 1.78e+01 16vpA d.180.1.1 42601 2chdA 142 1.89e+01 1ghu 107 1.91e+01 1griA d.93.1.1 40475 1aw5 340 1.98e+01 1b4kA c.1.10.3 29181 1kk1A 410 1.99e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1kk3A 410 2.03e+01 b.43.3.1,b.44.1.1,c.37.1.8 72640,72641,72642 1fxrA 64 2.17e+01 1fxd d.58.1.4 38993 1griA 217 2.62e+01 1griA b.34.2.1,b.34.2.1,d.93.1.1 24531,24532,40473 1v3hA 495 2.70e+01 c.1.8.1 108303 2c21A 144 2.81e+01 1jsxA 207 3.02e+01 c.66.1.20 71846 1ftpA 133 3.08e+01 1hmt b.60.1.2 27199 1j0wA 103 3.10e+01 b.55.1.2 90748 1atlA 202 3.14e+01 1atlA d.92.1.9 40322 1dthA 203 3.15e+01 1atlA d.92.1.9 40324 1ipaA 274 3.34e+01 c.116.1.1,d.79.3.3 71254,71255 1n7dA 699 3.74e+01 b.68.5.1,g.3.11.1,g.3.11.1,g.3.11.1,g.12.1.1,g.12.1.1,g.12.1.1,g.12.1.1,g.12.1.1,g.12.1.1 80236,80237,80238,80239,80240,80241,80242,80243,80244,80245 2cvzA 289 3.94e+01 1wniA 201 4.11e+01 d.92.1.9 109435 1i7qB 193 4.43e+01 1qdlB c.23.16.1 61902 2fljA 134 4.65e+01 1e8oB 106 4.77e+01 1914 d.49.1.1 38775 1pp0A 199 4.78e+01 d.103.1.1 104211 1njhA 119 4.79e+01 b.128.1.1 85787 1ro5A 201 4.93e+01 d.108.1.3 105023 2ljrA 244 4.94e+01 1ljrA a.45.1.1,c.47.1.5 17709,33003 1egaA 301 5.04e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 1bcfA 158 5.14e+01 1bcfA a.25.1.1 16648 2b81A 323 5.18e+01 2dkaA 544 5.25e+01 1zb1A 392 5.30e+01 2b0cA 206 5.55e+01 1y60A 169 5.60e+01 4thiA 362 5.60e+01 2thiA c.94.1.1 35793 1zq1A 438 5.62e+01 1vprA 374 5.74e+01 1ty0A 211 5.75e+01 b.40.2.2,d.15.6.1 107440,107441 1rhzA 436 5.79e+01 f.41.1.1 97495 1rh5A 436 5.87e+01 f.41.1.1 97464 1dsyA 139 6.04e+01 1rsy b.7.1.2 23196 1vlrA 350 6.09e+01 d.13.1.3,d.246.1.1 108860,108861 3thiA 371 6.12e+01 2thiA c.94.1.1 35792 1cts 437 6.18e+01 1csh a.103.1.1 18897 2cts 437 6.20e+01 1csh a.103.1.1 18896 1tidA 136 6.40e+01 d.122.1.3 106999 2thiA 379 6.46e+01 2thiA c.94.1.1 35794 2aucA 126 6.58e+01 1y10A 407 6.65e+01 1cdcA 99 6.75e+01 1cdcA b.1.1.1 19746 1t2aA 375 6.79e+01 c.2.1.2 99078 1a25A 149 6.81e+01 1rsy b.7.1.2 23197 1x18X 292 6.92e+01 1th8A 145 6.93e+01 d.122.1.3 106908 2acfA 182 7.00e+01 1omrA 201 7.11e+01 a.39.1.5 93349 1iku 202 7.16e+01 1rec a.39.1.5 17327 1tilA 146 7.18e+01 d.122.1.3 107004 1omvA 201 7.19e+01 a.39.1.5 93353 1la3A 202 7.23e+01 a.39.1.5 73781 1b35B 255 7.25e+01 1b35B b.121.4.1 23334 1mwqA 101 7.28e+01 d.58.4.7 91481 1iugA 352 7.34e+01 c.67.1.3 90699 1yrgA 385 7.43e+01 1yrgA c.10.1.2 30854 2ca6A 386 7.45e+01 1l0oA 150 7.51e+01 d.122.1.3 73403 1t6wA 99 7.72e+01 1a0rP 245 7.82e+01 1b9yC c.47.1.6 33054 2f1mA 277 8.03e+01 1mq0A 140 8.12e+01 c.97.1.1 91389 1f5mA 180 8.27e+01 1f5mB d.110.2.1 40895 1fhgA 154 8.76e+01 1tlk b.1.1.4 21706 1td9A 329 8.89e+01 2shpA 525 8.94e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1yx4A 132 9.00e+01