# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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://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 1ejeA 192 2.47e-01 1ejeA b.45.1.2 25757 1ejbA 168 1.83e+00 1rvv1 c.16.1.1 59417 2tbd 134 2.33e+00 2tbd d.89.1.1 40241 1mkyA 439 2.84e+00 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1u0tA 307 3.78e+00 e.52.1.1 107567 1v0wA 506 4.21e+00 d.136.1.2,d.136.1.2 108220,108221 1yal 218 4.89e+00 1cs8A d.3.1.1 37025 1f0iA 504 5.40e+00 1f0iA d.136.1.2,d.136.1.2 59566,59567 1x1gA 129 6.06e+00 1wy2A 351 6.17e+00 1a6q 382 6.46e+00 1a6q a.159.1.1,d.219.1.1 75801,75802 1xfsA 178 6.60e+00 d.129.3.5 109589 1k1gA 131 6.76e+00 d.51.1.1 68015 1vjqA 79 7.17e+00 k.43.1.1 100830 1nh1A 330 7.20e+00 e.45.1.1 91871 1hrhA 136 8.24e+00 1rthA c.55.3.1 33577 2cu1A 103 8.63e+00 1ko3A 230 8.99e+00 d.157.1.1 90974 1kgsA 225 8.99e+00 a.4.6.1,c.23.1.1 68596,68597 1w78A 422 9.06e+00 1ihjA 98 9.24e+00 1pdr b.36.1.1 62382 1kq3A 376 9.60e+00 e.22.1.2 68790 1nhs 447 9.90e+00 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1zd9A 188 1.01e+01 1eudA 311 1.02e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 2cnqA 306 1.18e+01 1a48 306 1.23e+01 1a48 d.143.1.1 41590 1h7zA 194 1.24e+01 1qhvA b.21.1.1 60733 1jfvA 131 1.25e+01 c.44.1.1 66654 1obdA 306 1.26e+01 d.143.1.1 86767 1iqsA 88 1.29e+01 d.214.1.1 71278 1rxxA 421 1.29e+01 d.126.1.4 98061 1eucA 311 1.32e+01 2scuA c.2.1.8,c.23.4.1 30311,31139 1nhp 447 1.37e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1tbd 134 1.38e+01 2tbd d.89.1.1 40240 1ykfA 352 1.38e+01 1pedA b.35.1.2,c.2.1.1 24757,29773 1grvB 182 1.43e+01 c.61.1.1 76322 1ww9A 392 1.47e+01 2hmiA 558 1.48e+01 1rthA c.55.3.1,e.8.1.2 33604,43106 1pv9A 348 1.51e+01 c.55.2.1,d.127.1.1 95157,95158 1fjgP 88 1.56e+01 1emwA d.27.1.1 38444 2fg9A 178 1.59e+01 2ch8A 201 1.60e+01 1ak2 233 1.61e+01 1zin c.37.1.1,g.41.2.1 31894,45195 1aky 221 1.78e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1o22A 170 1.80e+01 d.238.1.1 86557 1mldA 314 1.80e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1wleA 501 1.86e+01 1vb5A 276 1.87e+01 1ujpA 271 1.87e+01 c.1.2.4 99462 2eu8A 216 1.89e+01 1nwwA 149 1.91e+01 d.17.4.8 86306 2bzlA 325 1.95e+01 1i0rA 169 2.01e+01 1i0rA b.45.1.2 61489 1i0sA 169 2.01e+01 1i0rA b.45.1.2 61491 3ullA 132 2.03e+01 3ullA b.40.4.3 25282 2fiqA 420 2.07e+01 1oi7A 288 2.10e+01 c.2.1.8,c.23.4.1 87049,87050 1uuyA 167 2.14e+01 c.57.1.1 108059 1nmuB 104 2.21e+01 d.79.3.1 80666 1kzhA 555 2.23e+01 c.89.1.1 73361 1joa 447 2.25e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30563,30564,40203 1td4A 115 2.25e+01 1wxcA 281 2.28e+01 1o2dA 371 2.33e+01 e.22.1.2 86591 2ag4A 164 2.41e+01 2f8lA 344 2.48e+01 1ukuA 102 2.53e+01 d.58.5.2 99533 1tyyA 339 2.56e+01 1rvv1 154 2.66e+01 1rvv1 1rvvA 154 2.66e+01 1rvv1 c.16.1.1 30927 1jeoA 180 2.69e+01 c.80.1.3 66611 1tc1A 220 2.74e+01 1tc1A c.61.1.1 34083 1ck2A 104 2.75e+01 1ck9A d.79.3.1 39809 1ck9A 104 2.80e+01 1ck9A d.79.3.1 39806 2ew8A 249 2.82e+01 1t95A 240 2.82e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1bgvA 449 2.86e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1hrdA 449 2.87e+01 1k89 c.2.1.7,c.58.1.1 30219,33867 1xt5A 135 2.87e+01 1p3jA 217 2.90e+01 c.37.1.1,g.41.2.1 94022,94023 1hgxA 183 3.02e+01 1tc1A c.61.1.1 34027 1aisB 200 3.06e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1rl6A 177 3.07e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1mjfA 281 3.08e+01 c.66.1.17 79198 2gjgA 248 3.09e+01 1k4mA 213 3.13e+01 c.26.1.3 77258 1ux2A 212 3.14e+01 b.96.1.1 100132 1d3uB 201 3.15e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 1onrA 316 3.16e+01 1onrA c.1.10.1 29169 1oaoA 674 3.18e+01 e.26.1.2 86744 1oj7A 408 3.24e+01 e.22.1.2 103971 1ehkB 168 3.27e+01 2cuaA b.6.1.2,f.17.2.1 23041,43625 2cbf 234 3.28e+01 1cbf c.90.1.1 35588 2cuaA 135 3.31e+01 2cuaA b.6.1.2 23039 1vpt 348 3.32e+01 3mag c.66.1.25 34207 1ctqA 166 3.35e+01 1ctqA c.37.1.8 31965 1i2oA 316 3.38e+01 1onrA c.1.10.1 61574 1hniA 558 3.39e+01 1rthA c.55.3.1,e.8.1.2 33586,43044 1nvmB 312 3.40e+01 c.2.1.3,d.81.1.1 86251,86252 1yreA 197 3.42e+01 1hyeA 313 3.54e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1vzyA 291 3.54e+01 1scuA 288 3.61e+01 2scuA c.2.1.8,c.23.4.1 30307,31135 1przA 252 3.62e+01 d.265.1.3 95064 1hqkA 154 3.67e+01 c.16.1.1 65902 3mag 307 3.68e+01 3mag c.66.1.25 34205 1s62A 106 3.68e+01 1y9aA 360 3.69e+01 1nbwB 117 3.69e+01 c.51.3.2 80396 1nt4A 391 3.73e+01 c.60.1.2 92102 1w0mA 226 3.75e+01 c.1.1.1 109027 1ws6A 171 3.81e+01 1k89 449 3.88e+01 1k89 c.2.1.7,c.58.1.1 30218,33866 1k1eA 180 3.88e+01 c.108.1.5 67995 1aup 449 3.89e+01 1k89 c.2.1.7,c.58.1.1 30222,33870 1p57A 114 3.97e+01 d.170.1.2 94125 1i0lA 221 4.00e+01 c.61.1.1 71096 1pu5A 164 4.01e+01 b.95.1.1 104310 1xpiA 231 4.09e+01 1vhvA 268 4.09e+01 c.90.1.1 100704 1r5jA 337 4.12e+01 c.77.1.5 97097 2ag9A 164 4.16e+01 1o6aA 96 4.25e+01 b.139.1.1 92562 2fliA 220 4.30e+01 1v39 322 4.31e+01 3mag c.66.1.25 34206 1vp9 322 4.31e+01 3mag c.66.1.25 34210 1b09A 206 4.35e+01 1sacA b.29.1.5 24247 1pedA 351 4.46e+01 1pedA b.35.1.2,c.2.1.1 24753,29769 1p8xA 344 4.49e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1v9kA 228 4.50e+01 d.265.1.3 108449 2pth 193 4.51e+01 2pth c.56.3.1 33793 1euvB 86 4.69e+01 1a5r d.15.1.1 37598 1kfwA 435 4.76e+01 c.1.8.5,d.26.3.1 77376,77377 1eetA 557 4.76e+01 1rthA c.55.3.1,e.8.1.2 33608,43078 821p 166 4.82e+01 1ctqA c.37.1.8 31969 1v7oA 165 4.83e+01 d.67.1.2 100480 1w85A 368 4.92e+01 1i9bA 217 4.92e+01 1i9bA b.96.1.1 62084 1uv6A 210 4.97e+01 b.96.1.1 100030 1oltA 457 5.02e+01 c.1.28.2 93334 1zesA 125 5.04e+01 1tp9A 162 5.08e+01 1zgzA 122 5.11e+01 1gnhA 206 5.14e+01 1sacA b.29.1.5 24252 1z47A 355 5.14e+01 1r88A 280 5.17e+01 c.69.1.3 97219 1y4jA 284 5.17e+01 2scuA 288 5.21e+01 2scuA c.2.1.8,c.23.4.1 30303,31131 1agp 166 5.22e+01 1ctqA c.37.1.8 31985 1g13A 162 5.25e+01 1g13A b.95.1.1 60194 2cxcA 144 5.30e+01 2fsjA 346 5.38e+01 1zkeA 83 5.39e+01 1ptmA 329 5.40e+01 c.77.1.3 95104 1j8dA 180 5.42e+01 c.108.1.5 66433 1wiwA 290 5.46e+01 1xppA 115 5.60e+01 1qlpA 394 5.66e+01 1ovaA e.1.1.1 42628 1kid 203 5.70e+01 1derA c.8.5.1 30771 1t61A 229 5.71e+01 d.169.1.6,d.169.1.6 106529,106530 1iqoA 88 5.75e+01 d.214.1.1 71277 1ptvA 321 5.77e+01 1pty c.45.1.2 32665 2a3nA 355 5.85e+01 1t1gA 364 5.87e+01 c.41.1.2 106246 5p21 166 5.87e+01 1ctqA c.37.1.8 31966 1vm7A 311 5.88e+01 c.72.1.1 108884 1cbf 285 5.91e+01 1cbf c.90.1.1 35587 1wcuA 153 5.92e+01 1eny 268 5.95e+01 1eny c.2.1.2 29910 2agkA 260 5.99e+01 1e9rA 437 6.02e+01 c.37.1.11 64827 2evwX 166 6.09e+01 1o4vA 183 6.11e+01 c.23.8.1 86628 1booA 323 6.16e+01 1booA c.66.1.11 34248 1ztxE 108 6.21e+01 2g0cA 76 6.24e+01 1hjdA 101 6.24e+01 b.34.2.1 65846 1v5eA 590 6.25e+01 1mat 264 6.31e+01 1c24A d.127.1.1 41152 1a7tA 232 6.42e+01 1a7tA d.157.1.1 42041 2etgA 296 6.48e+01 1i1hA 219 6.60e+01 1f2vA c.23.17.1 61530 1g7fA 298 6.70e+01 1pty c.45.1.2 60330 1eeoA 321 6.82e+01 1pty c.45.1.2 32655 1fwyA 331 6.84e+01 1fwyA b.81.1.4,c.68.1.5 28064,34522 1rkuA 206 6.86e+01 c.108.1.11 97627 1sayA 361 6.87e+01 1sayA c.2.1.4,c.23.12.2 30102,31362 1u8zA 168 6.87e+01 1tme3 236 6.90e+01 1qqp3 1v3vA 333 6.96e+01 b.35.1.2,c.2.1.1 108345,108346 1wkoA 180 7.00e+01 1aax 321 7.00e+01 1pty c.45.1.2 32657 1x05A 129 7.03e+01 1emwA 88 7.07e+01 1emwA d.27.1.1 38448 1kcw 1046 7.08e+01 1kcw b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3 23151,23152,23153,23154,23155,23156 2ga9A 297 7.46e+01 2a9gA 418 7.47e+01 1t06A 235 7.52e+01 a.118.1.17 106194 1jmmA 377 7.55e+01 b.30.6.1 71749 1ve2A 235 7.55e+01 1gr5A 547 7.60e+01 i.16.1.1 65478 1kevA 351 7.61e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 9ldtA 332 7.65e+01 3ldh c.2.1.5,d.162.1.1 30154,42121 1qvaA 223 7.67e+01 1qvaA c.37.1.19 32411 1bqnA 558 7.70e+01 1rthA c.55.3.1,e.8.1.2 33599,43064 1sc6A 404 7.71e+01 1hynP 379 7.72e+01 1hynP d.112.1.2 61408 1cp2A 269 7.74e+01 1cp2A c.37.1.10 32269 1uw6A 211 7.77e+01 b.96.1.1 100079 2g8jA 339 7.78e+01 1hhsA 664 7.81e+01 1hi0P e.8.1.6 61045 1onc 104 7.83e+01 1onc d.5.1.1 37278 1yv4A 104 7.83e+01 1pa1A 310 7.86e+01 c.45.1.2 94404 1dv0A 47 7.92e+01 1dv0A a.5.2.1 16289 1derA 547 7.94e+01 1derA 1jqlB 140 8.00e+01 c.37.1.20 63234 1em2A 229 8.03e+01 1em2A d.129.3.2 41321 1qipA 183 8.04e+01 1qipA d.32.1.1 38470 1xvwA 160 8.28e+01 2g7zA 282 8.31e+01 2fhxA 246 8.34e+01 2eveA 157 8.36e+01 1q0uA 219 8.39e+01 c.37.1.19 95512 1d5wC 126 8.52e+01 1dbwA c.23.1.1 31101 1u9yA 284 8.58e+01 4pep 326 8.61e+01 1smrA b.50.1.2 26843 2h3jA 75 8.67e+01 1qfxA 460 8.70e+01 1qfxA c.60.1.2 33994 1av6A 289 8.71e+01 3mag c.66.1.25 34218 2glfA 450 8.74e+01 1xhkA 187 8.74e+01 2bkfA 87 8.77e+01 1z8sA 146 8.83e+01 1dgsA 667 8.85e+01 1dgsA a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 1vybA 238 8.88e+01 d.151.1.1 108897 1a4eA 488 8.94e+01 1cf9A e.5.1.1 42806 1ei9A 279 8.97e+01 1ei9A c.69.1.13 34713