# List of top-scoring protein chains for T0368.t06-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 1na0A 125 9.83e-04 k.38.1.1 85479 2fo7A 136 1.50e-03 1na3A 91 2.66e-02 k.38.1.1 85481 2dbaA 148 2.73e-02 2avpA 70 5.79e-02 2gw1A 514 9.15e-01 1qz2A 336 1.10e+00 a.118.8.1,d.26.1.1 104663,104664 1w3bA 388 1.72e+00 a.118.8.1 109149 1p5qA 336 2.29e+00 a.118.8.1,d.26.1.1 104068,104069 1elwA 118 3.21e+00 1a17 a.118.8.1 19207 1wfdA 93 3.51e+00 1cqdA 221 3.57e+00 1cs8A d.3.1.1 37027 1u7vB 236 5.39e+00 b.26.1.1 107730 1mr1A 235 5.47e+00 b.26.1.1 79418 1u7fB 239 5.51e+00 b.26.1.1 107721 1dd1A 268 5.60e+00 b.26.1.1 23908 1g88A 268 5.65e+00 1ygs b.26.1.1 23911 1ygs 234 5.72e+00 1ygs b.26.1.1 23907 1fchA 368 6.98e+00 1fchA a.118.8.1 19212 2daiA 83 7.13e+00 1pnsT 99 7.74e+00 i.1.1.1 88187 2hrpH 226 7.86e+00 1igtB b.1.1.1,b.1.1.2 20171,21195 1fjgT 106 1.06e+01 1fjfT a.7.6.1 16338 1ihgA 370 1.16e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 2bibA 547 1.34e+01 1xe5A 329 1.41e+01 1xdhA 331 1.41e+01 1kt0A 457 1.42e+01 a.118.8.1,d.26.1.1,d.26.1.1 77525,77526,77527 1lf2A 331 1.43e+01 b.50.1.2 77914 1tsx 316 1.43e+01 1bkpA d.117.1.1 41002 1i94T 105 1.48e+01 1fjfT a.7.6.1 62011 1pfzA 380 1.49e+01 1smrA b.50.1.2 26881 1xmqT 106 1.51e+01 1wao1 477 1.54e+01 2bjoA 136 1.57e+01 2cqsA 842 1.58e+01 1b78A 193 1.60e+01 1b78A c.51.4.1 33221 2bjuA 453 1.60e+01 1efuA 385 1.62e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1efcA 393 1.63e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1ob2A 393 1.63e+01 b.43.3.1,b.44.1.1,c.37.1.8 103900,103901,103902 1d8tA 393 1.63e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25686,25726,32119 1dg1G 394 1.63e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25684,25724,32117 1efm 393 1.66e+01 1efcA c.37.1.8 64732 1etu 394 1.66e+01 1efcA c.37.1.8 64737 2bt6A 108 1.76e+01 1smrA 335 1.86e+01 1smrA b.50.1.2 26878 2bugA 140 1.95e+01 1zu1A 127 2.00e+01 1l6uA 128 2.04e+01 d.15.4.1 73630 1e6eB 128 2.04e+01 1ayfA d.15.4.1 59300 1ayfA 105 2.05e+01 1ayfA d.15.4.1 37684 1cjeA 127 2.09e+01 1ayfA d.15.4.1 37686 1kt1A 457 2.10e+01 a.118.8.1,d.26.1.1,d.26.1.1 77528,77529,77530 1vffA 423 2.21e+01 1a17 166 2.22e+01 1a17 a.118.8.1 19206 2fbnA 198 2.27e+01 1i1iP 681 2.36e+01 1i1iP d.92.1.5 40297 1uhpA 107 2.43e+01 b.36.1.1 99400 1kviA 79 2.64e+01 d.58.17.1 91042 1u5wA 184 2.67e+01 2c2lA 281 2.68e+01 1ouvA 273 3.22e+01 a.118.18.1 93570 1la6B 146 3.30e+01 a.1.1.2 73783 1r59O 505 3.47e+01 2aexA 346 3.56e+01 1lrtA 376 3.64e+01 c.1.5.1 84685 1pvnA 376 3.68e+01 c.1.5.1 88312 2a79B 499 3.78e+01 3ncmA 92 3.96e+01 3ncmA b.1.1.4 21702 1f52A 468 4.01e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 2glsA 469 4.01e+01 1lgr d.15.9.1,d.128.1.1 37851,41181 1rq1A 386 4.02e+01 a.227.1.1 105047 1rp4A 389 4.06e+01 a.227.1.1 105027 1bo8A 316 4.12e+01 1bkpA d.117.1.1 40994 1qz1A 291 4.36e+01 b.1.1.4,b.1.1.4,b.1.1.4 96609,96610,96611 1me8A 503 4.43e+01 c.1.5.1 79028 1tsy 316 4.52e+01 1bkpA d.117.1.1 40990 1bpjA 316 4.56e+01 1bkpA d.117.1.1 40996 1p4sA 181 4.58e+01 c.37.1.1 94117 2avdA 219 4.70e+01 1sg0A 230 4.71e+01 1zx1A 231 4.74e+01 2bzsA 236 4.80e+01 1ve0A 134 4.80e+01 1o91A 178 4.83e+01 b.22.1.1 92656 2fhxA 246 4.89e+01 1m72A 272 4.96e+01 c.17.1.1 91208 1b2sA 110 5.02e+01 1b20A d.1.1.2 36213 1t3tA 1303 5.02e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1brjA 110 5.05e+01 1b20A d.1.1.2 36160 2cdnA 201 5.10e+01 1hjxA 362 5.11e+01 c.1.8.5,d.26.3.1 83512,83513 1njd 316 5.23e+01 1bkpA d.117.1.1 41004 2g89A 316 5.24e+01 1bneA 110 5.24e+01 1b20A d.1.1.2 36181 1bnfA 110 5.27e+01 1b20A d.1.1.2 36166 1bp0A 316 5.28e+01 1bkpA d.117.1.1 40993 1jmf 316 5.32e+01 1bkpA d.117.1.1 41007 1nje 316 5.33e+01 1bkpA d.117.1.1 41001 1tdb 315 5.33e+01 1bkpA d.117.1.1 41025 1jmh 316 5.34e+01 1bkpA d.117.1.1 41009 2g8dA 316 5.34e+01 1jmi 316 5.34e+01 1bkpA d.117.1.1 41006 2g8aA 316 5.35e+01 2g86A 316 5.37e+01 2f5mA 108 5.42e+01 1bngA 110 5.44e+01 1b20A d.1.1.2 36184 1b2zA 110 5.48e+01 1b20A d.1.1.2 36216 1brgA 108 5.49e+01 1b20A d.1.1.2 36190 1banA 110 5.51e+01 1b20A d.1.1.2 36197 1x1yA 110 5.51e+01 1owqA 361 5.53e+01 c.1.8.5,d.26.3.1 104041,104042 1bscA 110 5.55e+01 1b20A d.1.1.2 36154 1bseA 110 5.55e+01 1b20A d.1.1.2 36175 1bnsA 110 5.55e+01 1b20A d.1.1.2 36178 1tvv 316 5.58e+01 1bkpA d.117.1.1 40998 1ganA 134 5.59e+01 1c1lA b.29.1.3 24214 1b3sA 110 5.59e+01 1b20A d.1.1.2 36229 1a2pA 110 5.59e+01 1b20A d.1.1.2 36140 1rnbA 110 5.61e+01 1b20A d.1.1.2 36196 1jmg 316 5.61e+01 1bkpA d.117.1.1 41008 1vze 316 5.67e+01 1bkpA d.117.1.1 41003 1bp6A 316 5.71e+01 1bkpA d.117.1.1 41000 1sytA 361 5.75e+01 c.1.8.5,d.26.3.1 99040,99041 1b21A 110 5.75e+01 1b20A d.1.1.2 36219 1bo7A 316 5.76e+01 1bkpA d.117.1.1 40997 1bsdA 110 5.77e+01 1b20A d.1.1.2 36200 1vza 316 5.78e+01 1bkpA d.117.1.1 41017 1b20A 110 5.86e+01 1b20A d.1.1.2 36207 1ln1A 214 5.91e+01 d.129.3.2 74038 1ps6A 328 5.92e+01 c.77.1.3 95070 1ptmA 329 5.93e+01 c.77.1.3 95104 1baoA 110 6.00e+01 1b20A d.1.1.2 36187 1xupO 487 6.18e+01 1bsbA 110 6.19e+01 1b20A d.1.1.2 36157 1brkA 110 6.20e+01 1b20A d.1.1.2 36148 1a78A 134 6.21e+01 1c1lA b.29.1.3 24212 1bsaA 110 6.22e+01 1b20A d.1.1.2 36169 1tsw 316 6.23e+01 1bkpA d.117.1.1 40991 2b41A 361 6.29e+01 1qzoA 361 6.29e+01 c.1.8.5,d.26.3.1 96652,96653 2escA 361 6.35e+01 1txgA 335 6.41e+01 1o1yA 239 6.44e+01 c.23.16.1 86554 1r8kA 329 6.50e+01 c.77.1.3 97240 1fotA 318 6.58e+01 1cdkA d.144.1.7 59938 1atlA 202 6.59e+01 1atlA d.92.1.9 40322 1dthA 203 6.61e+01 1atlA d.92.1.9 40324 1u14A 172 6.67e+01 c.51.4.3 107579 2c4bA 143 6.68e+01 1g0dA 695 6.70e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 60166,60167,60168,60169 1lrzA 426 6.70e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1dluA 389 6.82e+01 1afwA c.95.1.1,c.95.1.1 35916,35917 1m1tA 392 6.84e+01 c.95.1.1,c.95.1.1 78433,78434 1ou6A 392 6.88e+01 c.95.1.1,c.95.1.1 104025,104026 1qflA 389 7.03e+01 1afwA c.95.1.1,c.95.1.1 35908,35909 1m4tA 392 7.07e+01 c.95.1.1,c.95.1.1 78617,78618 1oz6A 120 7.11e+01 a.133.1.2 93805 1m3kA 392 7.11e+01 c.95.1.1,c.95.1.1 78565,78566 1epfA 191 7.13e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1wqlA 459 7.25e+01 1brhA 110 7.27e+01 1b20A d.1.1.2 36151 1gwuA 309 7.36e+01 a.93.1.1 83351 1vf1A 229 7.42e+01 1p5zB 263 7.63e+01 c.37.1.1 87815 2a30A 248 7.66e+01 1elrA 131 7.67e+01 1a17 a.118.8.1 19209 1wy5A 317 7.68e+01 2gviA 204 7.73e+01 1ljyA 361 7.87e+01 c.1.8.5,d.26.3.1 84618,84619 1qzxA 440 7.87e+01 a.24.13.1,a.36.1.1,c.37.1.10 96711,96712,96713 1xrvA 361 8.14e+01 1x0lA 333 8.33e+01 2dpeA 361 8.36e+01 1fyeA 229 8.45e+01 1fyeA c.23.16.4 31477 1csyA 112 8.61e+01 1lckA d.93.1.1 40519