# List of top-scoring protein chains for T0221.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 1dnyA 91 1.41e-11 1dnyA a.28.1.2 16934 1l0hA 78 4.97e-08 a.28.1.1 77642 1l0iA 78 5.41e-08 a.28.1.1 77643 1acp 77 5.95e-08 1acp a.28.1.1 16931 1hy8A 76 3.40e-07 a.28.1.1 65959 1klpA 115 4.74e-07 a.28.1.1 72721 1n8lA 89 5.55e-07 a.28.1.1 85421 1af8 86 5.64e-07 2af8 a.28.1.1 16932 1or5A 83 1.08e-05 a.28.1.1 87331 1nq4A 95 1.58e-05 1fh1A 92 7.08e-05 1fh1A i.11.1.1 46014 1f80D 80 8.00e-05 1acp a.28.1.1 59686 1dv5A 80 6.51e-03 1dv5A a.28.1.3 59139 1j3mA 129 3.77e-01 1br2A 791 4.17e-01 1lvk b.34.3.1 24558 c.37.1.9 32155 1br1A 820 4.28e-01 1lvk b.34.3.1 24564 c.37.1.9 32161 1i84S 1184 5.64e-01 1lvk i.15.1.1 61940 1qhhA 167 1.42e+00 1pjr c.37.1.19 32393 1mvwA 840 1.44e+00 i.15.1.1 79523 2mysA 843 1.45e+00 1lvk b.34.3.1 24557 c.37.1.9 32154 1qo2A 241 1.53e+00 1qo2A c.1.2.1 28533 1gpwA 253 2.40e+00 c.1.2.1 65460 1vh7A 265 2.43e+00 1ka2A 499 2.53e+00 d.92.1.5 77305 1thfD 253 2.72e+00 1thfD c.1.2.1 28535 1fmvA 761 2.93e+00 1lvk b.34.3.1 24580 c.37.1.9 32177 1mmn 762 2.97e+00 1lvk b.34.3.1 24582 c.37.1.9 32179 1mmg 762 2.98e+00 1lvk b.34.3.1 24579 c.37.1.9 32176 1vom 762 2.98e+00 1lvk b.34.3.1 24577 c.37.1.9 32174 1lvk 762 3.26e+00 1lvk b.34.3.1 24576 c.37.1.9 32173 1j5tA 242 3.57e+00 c.1.2.4 71583 1mma 762 3.57e+00 1lvk b.34.3.1 24587 c.37.1.9 32184 1d0yA 761 3.57e+00 1lvk b.34.3.1 24581 c.37.1.9 32178 1jx2A 776 3.60e+00 b.34.3.1 67402 c.37.1.9 67403 1i4nA 251 3.61e+00 c.1.2.4 71114 1g8xA 1010 3.63e+00 1lvk k.1.1.1 46378 1h0oA 390 4.38e+00 a.25.1.2 70845 1pyaB 228 4.55e+00 1pyaB 1v32A 101 5.63e+00 1amuA 563 5.91e+00 1amuA e.23.1.1 43351 1go3F 107 6.27e+00 a.60.8.2 65407 1icrA 217 6.29e+00 1vfrA d.90.1.1 62274 2apr 325 6.88e+00 2er7E b.50.1.2 26819 1rmvA 157 7.28e+00 1rmvA a.24.5.1 16589 1ireA 204 7.62e+00 d.149.1.1 76769 1culA 217 8.25e+00 1azsA d.58.29.1 39417 1azsA 220 8.30e+00 1azsA d.58.29.1 39416 1cs4A 225 8.36e+00 1azsA d.58.29.1 39418 1dfkA 830 8.52e+00 1lvk b.34.3.1 24573 c.37.1.9 32170 1dflA 831 8.53e+00 1lvk b.34.3.1 24574 c.37.1.9 32171 1kk8A 837 8.76e+00 b.34.3.1 77428 c.37.1.9 77429 1qviA 840 8.76e+00 1b7tA 835 8.76e+00 1lvk b.34.3.1 24572 c.37.1.9 32169 1kcfA 258 9.06e+00 a.140.2.1 68434 c.55.3.7 68435 1bjfA 193 9.20e+00 1rec a.39.1.5 17331 2pjrA 548 9.30e+00 1pjr c.37.1.19 32395 c.37.1.19 32396 1lssA 140 9.35e+00 c.2.1.9 74246 1jilA 420 9.98e+00 c.26.1.1 66745 1b2sD 90 1.08e+01 1ay7B c.9.1.1 30837 1mifA 115 1.11e+01 1dptA d.80.1.3 39852 1necA 216 1.12e+01 1vfrA d.90.1.1 40249 1mliA 96 1.16e+01 1gd0A 122 1.20e+01 1dptA d.80.1.3 39834 1ljtA 114 1.21e+01 d.80.1.3 78053 1cgqA 115 1.22e+01 1dptA d.80.1.3 39843 1dptA 117 1.22e+01 1dptA d.80.1.3 39862 1gifA 115 1.23e+01 1dptA d.80.1.3 39837 1kqbA 217 1.24e+01 d.90.1.1 68798 1o4vA 183 1.27e+01 c.23.8.1 86628 1j1dB 106 1.27e+01 h.1.25.1 83964 1p1gA 114 1.29e+01 1dptA d.80.1.3 39849 1d4m1 299 1.36e+01 1aym1 1ay7B 89 1.40e+01 1ay7B c.9.1.1 30836 1c3cA 429 1.42e+01 1c3cA a.127.1.1 19425 1kq3A 376 1.42e+01 e.22.1.2 68790 1c3uA 431 1.43e+01 1c3cA a.127.1.1 19427 1pjr 724 1.46e+01 1pjr c.37.1.19 32391 c.37.1.19 32392 1khvA 516 1.46e+01 e.8.1.4 68627 1kfwA 435 1.53e+01 c.1.8.5 77376 d.26.3.1 77377 1b3sD 90 1.62e+01 1ay7B c.9.1.1 30846 1lm8B 118 1.63e+01 d.15.1.1 74033 1a19A 90 1.65e+01 1ay7B c.9.1.1 30831 1nm2A 317 1.70e+01 c.19.1.1 80654 d.58.23.1 80655 1orrA 347 1.85e+01 1qmnA 401 1.94e+01 1ovaA e.1.1.1 42624 1fm0D 81 1.94e+01 1fmaD d.15.3.1 37642 1nviD 81 1.98e+01 d.15.3.1 86241 1a6zA 275 2.01e+01 1agdA b.1.1.2 20781 d.19.1.1 38280 1brsD 89 2.11e+01 1ay7B c.9.1.1 30825 1b27D 90 2.15e+01 1ay7B c.9.1.1 30840 1j0aA 325 2.15e+01 c.79.1.1 83871 3pcgM 238 2.18e+01 3pchM b.3.6.1 22742 3pcdM 238 2.20e+01 3pchM b.3.6.1 22778 1e1oA 504 2.24e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1i9cA 137 2.26e+01 c.23.6.1 71136 1uflA 116 2.26e+01 1cd3F 426 2.27e+01 2bpa1 b.121.5.1 23276 2bpa1 426 2.27e+01 2bpa1 2bqc 130 2.27e+01 3lzt d.2.1.2 36527 1yan 130 2.28e+01 3lzt d.2.1.2 36462 1gfaA 130 2.33e+01 3lzt d.2.1.2 36448 1s96A 219 2.35e+01 1ccwA 137 2.35e+01 1be1 c.23.6.1 31238 1b1a 137 2.37e+01 1be1 c.23.6.1 31242 1v5tA 90 2.57e+01 1o6vA 466 2.61e+01 b.1.18.15 81099 c.10.2.1 81100 1gezA 130 2.61e+01 3lzt d.2.1.2 60473 1c91A 265 2.62e+01 2ebn c.1.8.5 29000 1q48A 134 2.69e+01 1b2uD 90 2.80e+01 1ay7B c.9.1.1 30843 1laa 130 2.82e+01 3lzt d.2.1.2 36514 1kvp 497 2.87e+01 2bpa1 b.121.5.1 23278 1b7nA 130 2.89e+01 3lzt d.2.1.2 36468 1g2iA 166 2.90e+01 1g2iA c.23.16.2 31438 1uizA 115 2.90e+01 1rjbA 344 2.93e+01 1p1wA 263 2.94e+01 c.94.1.1 87713 2hee 130 2.99e+01 3lzt d.2.1.2 36493 1iocA 134 3.02e+01 d.2.1.2 76754 2meg 130 3.07e+01 3lzt d.2.1.2 36432 1ip1A 130 3.10e+01 d.2.1.2 66246 1gayA 130 3.13e+01 3lzt d.2.1.2 36471 2meh 130 3.13e+01 3lzt d.2.1.2 36438 1di4A 128 3.17e+01 3lzt d.2.1.2 36555 1ghtA 105 3.20e+01 2rslA c.53.1.1 60526 1i50J 70 3.22e+01 a.4.11.1 61764 1gfeA 130 3.22e+01 3lzt d.2.1.2 36481 1gf8A 130 3.24e+01 3lzt d.2.1.2 36447 2hed 130 3.26e+01 3lzt d.2.1.2 36475 1ckgA 130 3.28e+01 3lzt d.2.1.2 36574 1p27B 106 3.30e+01 1ix0A 130 3.31e+01 d.2.1.2 83762 2hec 130 3.33e+01 3lzt d.2.1.2 36424 1cruA 454 3.33e+01 1c9uA b.68.2.1 27617 1pu6A 218 3.35e+01 1cby 259 3.35e+01 1cby d.103.1.1 40705 1b7oA 130 3.39e+01 3lzt d.2.1.2 36491 1m1lA 236 3.44e+01 1oua 130 3.46e+01 3lzt d.2.1.2 36425 1p1oA 263 3.47e+01 c.94.1.1 87699 1ge0A 130 3.50e+01 3lzt d.2.1.2 36500 1r6uA 437 3.53e+01 1jkb 130 3.60e+01 3lzt d.2.1.2 36417 1r6tA 477 3.63e+01 1ckfA 130 3.63e+01 3lzt d.2.1.2 36533 1fx5A 242 3.64e+01 1led b.29.1.1 24135 1cj9A 130 3.73e+01 3lzt d.2.1.2 36443 1lmt 136 3.81e+01 3lzt d.2.1.2 36416 1gb5A 130 3.84e+01 3lzt d.2.1.2 36542 1yap 130 3.85e+01 3lzt d.2.1.2 36496 2bqe 130 3.85e+01 3lzt d.2.1.2 36466 1b7s 130 3.86e+01 3lzt d.2.1.2 36571 1lyy 130 3.86e+01 3lzt d.2.1.2 36552 1lb8A 263 3.86e+01 c.94.1.1 73800 1pvl 301 3.87e+01 1pvl f.6.1.1 43819 2bqm 130 3.87e+01 3lzt d.2.1.2 36488 1h7vA 60 3.87e+01 g.41.5.1 65713 1gfkA 130 3.88e+01 3lzt d.2.1.2 36484 1ouh 130 3.88e+01 3lzt d.2.1.2 36509 1gfrA 130 3.88e+01 3lzt d.2.1.2 36511 1lz5 134 3.90e+01 3lzt d.2.1.2 36422 1ixrC 312 3.92e+01 a.4.5.11 76930 c.37.1.20 76931 1gfjA 130 3.92e+01 3lzt d.2.1.2 36483 1ip4A 130 3.94e+01 d.2.1.2 66250 1ixsB 318 3.94e+01 a.4.5.11 76933 c.37.1.20 76934 1hqcA 324 3.97e+01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1nw1A 429 3.97e+01 d.144.1.8 86286 1lz6 138 3.98e+01 3lzt d.2.1.2 36442 1xysA 347 3.99e+01