# List of top-scoring protein chains for t04-w0.5-1-alpha-0.1-scores 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://compbio.soe.ucsc.edu/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. # #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 SCOP_domain SCOP_suid 5S 5N 12S 12S 10N 3h3lA 241 3.30e-26 3hbkA 245 6.16e-24 3immA 201 7.67e-19 2hykA 245 3.87e-13 1dypA 271 1.64e-12 b.29.1.2 24185 2vy0A 264 2.83e-12 2ayhA 214 2.84e-12 b.29.1.2 24172 1gbgA 214 3.46e-12 b.29.1.2 24171 3juuA 280 8.63e-12 2ayh 214 1.70e-11 1upsA 420 3.45e-11 b.29.1.2,b.42.2.3 113394,113395 2uwaA 274 3.52e-11 1gbg 214 9.31e-11 2w39A 298 1.41e-10 2cl2A 298 3.32e-10 1cpnA 208 4.33e-10 b.29.1.2 24175 3dgtA 280 5.54e-10 1o4yA 288 6.54e-10 b.29.1.2 92473 1umzA 278 7.57e-10 b.29.1.2 99639 3ilfA 268 2.32e-09 1mveA 243 7.70e-08 b.29.1.2 85140 3hr9A 241 9.63e-08 1ajkA 214 4.78e-06 b.29.1.2 24176 1ajoA 214 2.79e-05 b.29.1.2 24179 3hmyA 450 0.01428 2wjsA 608 0.02253 3b3qE 197 0.02607 b.29.1.4 154813 2durA 253 0.03139 1oq1A 223 0.04044 b.29.1.17 93408 2zzjA 238 0.04488 1pz7A 204 0.05936 b.29.1.4 95405 1c4rA 182 0.05942 b.29.1.4 24229 2vu9A 444 0.05992 2vxrA 482 0.06301 2r16A 182 0.06698 3bodA 178 0.07102 1a8dA 452 0.09468 b.29.1.6,b.42.4.2 24262,25607 1qu0A 191 0.1015 b.29.1.4 24225 1sacA 204 0.2909 b.29.1.5 24237 2h0bA 184 0.3305 2a6vA 226 0.3392 b.29.1.13 126312 1uaiA 224 0.3399 b.29.1.18 107761 1shsA 147 0.4246 b.15.1.1 23675 1f5fA 205 0.4360 b.29.1.4 24222 2a6zA 222 0.4617 b.29.1.13 126319 2uurA 245 0.5355 2erfA 209 0.5408 b.29.1.4 132287 3flpA 217 0.7164 1a8d 452 0.7750 1gmeA 151 0.8803 b.15.1.1 65305 1d2sA 170 0.9658 b.29.1.4 24221 2v73A 191 1.073 2w08A 204 1.256 1lnsA 763 2.442 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1y2tA 142 2.756 b.97.1.2 116407 2ofcA 142 3.145 1gv9A 260 3.683 b.29.1.13 70596 1mzyA 333 3.710 b.6.1.3,b.6.1.3 103848,103849 1n1tA 641 4.108 b.29.1.15,b.68.1.1 79821,79822 2cwsA 237 4.218 2jd4A 383 4.315 1yq2A 1024 4.502 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 123843,123844,123845,123846,123847 1h30A 422 5.281 b.29.1.4,b.29.1.4 76604,76605 1uypA 432 5.313 b.29.1.19,b.67.2.3 100176,100177 1xsjA 778 5.453 b.150.1.1,b.30.5.11,b.71.1.4,c.1.8.13 115951,115952,115953,115954 1gwmA 153 10.57 b.18.1.19 83348 2imjA 166 11.29 d.17.4.23 147725 1x89A 178 12.20 b.60.1.1 121799 1wcuA 153 12.87 1yifA 533 13.07 b.29.1.23,b.67.2.1 123283,123284 1dykA 394 13.92 b.29.1.4,b.29.1.4 24223,24224 2uxtA 451 14.02 3gneA 252 14.70 1j1lA 290 14.73 b.82.1.12 90766 1ms9A 648 15.91 b.29.1.15,b.68.1.1 85088,85089 3gdcA 288 16.15 3emwA 217 16.32 3dszA 186 16.34 2an1A 292 16.91 1orvA 728 17.90 b.70.3.1,c.69.1.24 87354,87355 1guiA 155 20.80 b.18.1.14 76351 2wnxA 170 21.98 1x99A 145 21.99 b.97.1.2 114978 1ln1A 214 22.50 d.129.3.2 74038 3hikA 237 23.08 2jk9A 212 23.64 2jbwA 386 25.23 c.69.1.41 147962 3cmpA 198 25.59 1i4uA 181 28.61 b.60.1.1 61732 2bolA 314 28.93 1uxxX 133 29.58 b.18.1.10 100169 2v3fA 505 29.86 b.71.1.2,c.1.8.3 152453,152454 1kbvA 327 30.53 b.6.1.3,b.6.1.3 68395,68396 1lcl 142 31.52 3kf3A 509 33.48 2wewA 172 33.91 2nn8A 138 38.09 b.29.1.3 138392 3hx6A 570 38.55 3dtqA 186 38.77 3jrqB 186 39.01 1c1lA 136 39.65 b.29.1.3 24219 3dorA 583 40.34 3gyrA 612 42.05 1ravA 127 42.62 b.61.1.1 27409 1g0dA 695 42.91 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 60166,60167,60168,60169 3b9cA 144 42.94 1rwrA 301 45.01 b.80.1.11 97990 1bec 238 47.11 3ikwA 374 49.20 2w68A 195 49.99 2vw2A 697 50.69 2camA 127 52.34 b.61.1.1 27407 1w2tA 432 52.69 b.29.1.19,b.67.2.3 120607,120608 1hp1A 516 53.13 d.114.1.1,d.159.1.2 70976,70977 1jhnA 424 53.38 b.104.1.1,b.29.1.12 66722,70060 1hdkA 141 53.41 b.29.1.3 65807 2vzsA 1032 53.47 b.1.4.1,b.1.4.1,b.1.4.1,b.18.1.5,c.1.8.3 153727,153728,153729,153730,153731 2q1fA 1022 54.05 1tf4A 605 54.14 a.102.1.2,b.2.2.2 18827,22393 2wkkA 150 54.82 2p17A 277 56.70 2e8iA 392 58.47 3iesA 551 58.84 1w6nA 134 59.80 b.29.1.3 114275 2r0hA 164 63.81 1fgyA 127 66.78 b.55.1.1 26976 1pb7A 292 68.27 c.94.1.1 88025 1h09A 338 69.27 b.109.1.1,c.1.8.8 83420,83421 3cebA 194 70.68 2d1wA 638 70.76 b.30.2.1,d.17.2.1,d.17.2.1 131145,131146,131147 1is3A 135 71.24 b.29.1.3 76773 1bhgA 613 71.62 b.1.4.1,b.18.1.5,c.1.8.3 22161,23766,28889 2v05A 311 72.46 2d73A 738 73.86 2d6mA 159 74.45 2kd2A 94 75.20 3id1A 95 75.87 1v04A 355 78.22 b.68.6.2 100240 3hrpA 409 79.30 1avgI 142 79.94 b.60.1.3 27229 1ypqA 135 80.35 d.169.1.1 123833 2oqeA 660 83.93 b.30.2.1,d.17.2.1,d.17.2.1 139222,139223,139224 1zdsA 336 87.30 b.6.1.3,b.6.1.3 124952,124953 1y3tA 337 88.17 b.82.1.5 122600 2wnwA 447 89.16 1a78A 134 89.64 b.29.1.3 24212