# List of top-scoring protein chains for t04-w0.5-1-CB_burial_14_7-0.3-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 5.53e-26 3hbkA 245 3.92e-24 3immA 201 2.10e-19 2hykA 245 2.76e-13 2ayhA 214 6.39e-12 b.29.1.2 24172 2vy0A 264 1.46e-11 1gbgA 214 2.07e-11 b.29.1.2 24171 1dypA 271 3.43e-11 b.29.1.2 24185 3juuA 280 4.24e-11 2ayh 214 5.33e-11 1gbg 214 3.77e-10 2uwaA 274 8.36e-10 3dgtA 280 9.87e-10 1cpnA 208 1.70e-09 b.29.1.2 24175 1o4yA 288 1.76e-09 b.29.1.2 92473 1upsA 420 1.86e-09 b.29.1.2,b.42.2.3 113394,113395 2w39A 298 3.68e-09 3ilfA 268 9.25e-09 1umzA 278 1.86e-08 b.29.1.2 99639 2cl2A 298 2.01e-08 1mveA 243 3.48e-07 b.29.1.2 85140 3hr9A 241 8.39e-07 1ajkA 214 6.15e-06 b.29.1.2 24176 1ajoA 214 8.20e-06 b.29.1.2 24179 1oq1A 223 0.01024 b.29.1.17 93408 1c4rA 182 0.02858 b.29.1.4 24229 2wjsA 608 0.05753 2r16A 182 0.05863 2zzjA 238 0.05909 2a6vA 226 0.07111 b.29.1.13 126312 3b3qE 197 0.07818 b.29.1.4 154813 3bodA 178 0.07998 1qu0A 191 0.08336 b.29.1.4 24225 2h0bA 184 0.1209 2durA 253 0.1774 1d2sA 170 0.1807 b.29.1.4 24221 2a6zA 222 0.1912 b.29.1.13 126319 1pz7A 204 0.2182 b.29.1.4 95405 1f5fA 205 0.3056 b.29.1.4 24222 1sacA 204 0.3655 b.29.1.5 24237 2w08A 204 0.9882 2erfA 209 1.063 b.29.1.4 132287 2uurA 245 1.262 1h30A 422 1.530 b.29.1.4,b.29.1.4 76604,76605 3flpA 217 2.041 2vxrA 482 2.348 1shsA 147 2.730 b.15.1.1 23675 2vu9A 444 2.908 2v73A 191 3.042 2cwsA 237 4.876 1a8dA 452 5.130 b.29.1.6,b.42.4.2 24262,25607 1uaiA 224 5.311 b.29.1.18 107761 1gwmA 153 5.769 b.18.1.19 83348 1wcuA 153 8.276 2jk9A 212 8.500 1is3A 135 9.748 b.29.1.3 76773 1ihgA 370 11.49 a.118.8.1,b.62.1.1 62380,62381 1lcl 142 12.90 1dykA 394 13.17 b.29.1.4,b.29.1.4 24223,24224 3hmyA 450 13.56 1a78A 134 13.65 b.29.1.3 24212 1nxuA 333 15.00 c.122.1.1 86389 2nn8A 138 17.61 b.29.1.3 138392 3jrqB 186 18.42 1w6nA 134 18.68 b.29.1.3 114275 1fgjA 546 18.72 a.138.1.3 19679 1gv9A 260 19.71 b.29.1.13 70596 1y2tA 142 20.22 b.97.1.2 116407 3gneA 252 21.97 2jd4A 383 22.45 3emwA 217 22.55 3kdjA 202 22.61 2zhnA 148 24.48 1guiA 155 25.84 b.18.1.14 76351 1gzwA 134 26.47 b.29.1.3 90535 1hdkA 141 27.03 b.29.1.3 65807 1x89A 178 27.18 b.60.1.1 121799 2wkkA 150 28.91 1c1lA 136 30.59 b.29.1.3 24219 2yv8A 164 32.26 2ealA 148 34.32 3dszA 186 37.42 1k9vF 201 37.87 c.23.16.1 68365 2d6mA 159 39.63 1xwnA 174 41.70 b.62.1.1 122404 2w68A 195 42.58 3b9cA 144 44.42 1qwdA 177 46.94 b.60.1.1 96471 2v24A 208 47.19 3cmpA 198 48.94 3c5xA 402 50.94 2r0hA 164 52.55 2acoA 173 55.14 3k90A 193 55.15 2ofcA 142 55.44 1erzA 303 56.22 d.160.1.2 59498 1gmeA 151 56.24 b.15.1.1 65305 1p1jA 533 57.74 c.2.1.3,d.81.1.3 87687,87688 1ln1A 214 58.38 d.129.3.2 74038 2fnjA 226 58.78 b.29.1.22 133818 1g43A 160 59.64 b.2.2.2 22392 1xsjA 778 59.97 b.150.1.1,b.30.5.11,b.71.1.4,c.1.8.13 115951,115952,115953,115954 1lyqA 104 61.79 b.1.18.17 78302 2o6fA 189 62.15 2zglA 167 63.25 1kjlA 146 63.52 b.29.1.3 118689 2fp8A 322 64.76 1sltA 134 66.32 b.29.1.3 24186 2x25B 169 66.79 2wlwA 165 68.92 2rmcA 182 72.17 b.62.1.1 27491 3i0pA 365 76.71 1jb9A 316 76.76 b.43.4.2,c.25.1.1 62840,62841 1o91A 178 78.26 b.22.1.1 92656 3kdhA 190 79.35 2x2aA 165 79.57 1uxxX 133 82.63 b.18.1.10 100169 3i3wA 443 83.40 1kbvA 327 84.71 b.6.1.3,b.6.1.3 68395,68396 1z02A 446 86.30 1wtjA 343 86.39 3hlzA 269 88.76 3bzhA 194 88.90