# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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.soe.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 1mi8A 158 2.71e-01 b.86.1.2 91279 2re9A 181 6.26e-01 2rdeA 251 6.91e-01 1c28A 135 8.70e-01 1c28A b.22.1.1 23857 1vi3A 170 1.88e+00 b.17.1.2 100730 1rl2A 137 1.97e+00 1rl2A b.34.5.3,b.40.4.5 24610,25342 1j5wA 298 2.05e+00 d.104.1.1 71589 1avbA 226 2.08e+00 1led b.29.1.1 24158 1prn 289 2.23e+00 3prn 1c3hA 137 2.74e+00 b.22.1.1 90405 1fjjA 159 2.75e+00 1fjjA b.17.1.2 59852 2ojhA 297 2.80e+00 3prn 289 2.81e+00 3prn 3prnA 289 2.81e+00 f.4.3.1 43761 1ylnA 252 2.98e+00 b.45.2.1,b.45.2.2 123657,123658 2b5iC 199 3.36e+00 b.1.2.1,b.1.2.1 127898,127899 2qpwA 149 3.54e+00 1isiA 265 3.54e+00 c.23.14.3 71394 1o91A 178 3.66e+00 b.22.1.1 92656 2imlA 199 3.95e+00 3b9tA 484 4.69e+00 1djxA 624 4.98e+00 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 2qg5A 294 5.16e+00 1rlw 126 6.11e+00 1rlw 1rlwA 126 6.11e+00 b.7.1.1 23177 1i8dA 213 6.14e+00 b.43.4.3,b.43.4.3 61953,61954 1t9fA 187 6.18e+00 b.42.6.1 106710 1bkb 136 7.00e+00 1bkb 1bkbA 136 7.00e+00 b.34.5.2,b.40.4.5 24609,25341 2yrvA 117 8.08e+00 1r6vA 671 8.11e+00 c.41.1.1 111710 1zunB 434 8.79e+00 b.43.3.1,b.44.1.1,c.37.1.8 125677,125678,125679 2jmzA 186 8.89e+00 1rc6A 261 8.89e+00 b.82.1.11 97287 1fviA 297 8.93e+00 1fviA b.40.4.6,d.142.2.1 25364,41578 1mkaA 171 9.14e+00 1mkaA d.38.1.2 38543 2f1wA 158 9.39e+00 1bb9 115 1.01e+01 1bb9 1bb9A 115 1.01e+01 b.34.2.1 24554 3bfqG 132 1.06e+01 2pbeA 294 1.08e+01 1u2hA 99 1.09e+01 1sqjA 789 1.10e+01 b.69.13.1,b.69.13.1 105918,105919 1rovA 857 1.11e+01 a.119.1.1,b.12.1.1 97674,97675 1yt5A 258 1.19e+01 2bonA 332 1.21e+01 1mv3A 213 1.22e+01 b.34.2.1 91468 3pcgM 238 1.22e+01 3pchM b.3.6.1 22742 2c61A 469 1.24e+01 1oi1A 221 1.30e+01 b.34.9.3,b.34.9.3 87037,87038 2g50A 530 1.30e+01 b.58.1.1,c.1.12.1,c.49.1.1 134618,134619,134620 1f8fA 371 1.31e+01 b.35.1.2,c.2.1.1 83246,83247 2r6vA 191 1.32e+01 2qqrA 118 1.36e+01 2hqxA 246 1.37e+01 b.34.9.1 136675 1djxB 624 1.37e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1gwyA 175 1.37e+01 b.97.1.1 83356 1p42A 270 1.43e+01 d.14.1.7,d.14.1.7 87754,87755 1e0tA 470 1.49e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1wyxA 69 1.52e+01 1n27A 96 1.57e+01 b.34.9.2 91549 2qxlA 658 1.57e+01 1s0uA 408 1.61e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1tbuA 118 1.66e+01 d.38.1.3 119223 2bkdN 134 1.71e+01 2o8qA 134 1.72e+01 1pjxA 314 1.77e+01 b.68.6.1 104167 1ybyA 215 1.77e+01 2go3A 267 1.79e+01 d.14.1.7,d.14.1.7 135422,135423 1bu8A 452 1.85e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 2gfaA 119 1.88e+01 b.34.9.1,b.34.9.1 135089,135090 1ggxA 223 1.89e+01 1ggxA d.22.1.1 38367 2yv8A 164 1.91e+01 2eifA 136 1.92e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1wzoA 246 1.97e+01 1ktjA 129 2.00e+01 b.1.18.7 72974 1nkoA 132 2.09e+01 b.1.1.1 85829 1e1aA 314 2.09e+01 1e1aA b.68.6.1 59155 1zgoA 223 2.10e+01 1wfyA 104 2.14e+01 d.15.1.5 114597 1pj5A 830 2.18e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 2a46A 238 2.22e+01 2qz7A 194 2.26e+01 1ee6A 197 2.26e+01 1ee6A b.80.1.1 28024 2ebsA 789 2.28e+01 1smoA 119 2.29e+01 b.1.1.1 105764 2qkhA 135 2.29e+01 2r58A 265 2.31e+01 1p97A 114 2.35e+01 d.110.3.7 94382 2e4mC 146 2.36e+01 1uf2A 1019 2.36e+01 e.28.1.2 99289 2oseA 234 2.40e+01 1gzcA 239 2.41e+01 b.29.1.1 70803 1n67A 359 2.46e+01 b.2.3.4,b.2.3.4 85354,85355 1p9yA 121 2.49e+01 d.241.2.1 94402 2ii1A 301 2.49e+01 1khcA 147 2.52e+01 b.34.9.2 68608 1nkgA 508 2.52e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 2bivA 243 2.52e+01 b.34.9.3,b.34.9.3 128592,128593 1foeA 377 2.56e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 1cd8 114 2.57e+01 1cd8 2c2hA 192 2.61e+01 c.37.1.8 129668 2rmcA 182 2.65e+01 2cpl b.62.1.1 27491 1f5fA 205 2.69e+01 1d2sA b.29.1.4 24222 2rerA 173 2.69e+01 1vqwA 457 2.69e+01 c.3.1.5,c.3.1.5 114028,114029 1d2sA 170 2.70e+01 1d2sA b.29.1.4 24221 2oz4A 265 2.75e+01 1zglM 209 2.81e+01 1l1nA 183 2.96e+01 b.47.1.4 73476 2cw8A 537 3.02e+01 1b9vA 390 3.05e+01 2qwc b.68.1.1 27603 1z8gA 372 3.06e+01 b.47.1.2,d.170.1.2 124697,124698 1iznB 277 3.11e+01 e.43.1.2 83848 1yqzA 438 3.25e+01 1qwdA 177 3.32e+01 b.60.1.1 96471 1mh1 186 3.32e+01 1eesA 1mh1A 186 3.32e+01 c.37.1.8 32002 1v97A 1332 3.37e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1rkiA 102 3.39e+01 d.308.1.2 118776 1yge 839 3.40e+01 1yge 1ygeA 839 3.40e+01 a.119.1.1,b.12.1.1 19234,23634 2nvgA 141 3.41e+01 2hnfA 133 3.42e+01 3by3A 301 3.49e+01 1vqoA 240 3.54e+01 b.34.5.3,b.40.4.5 120361,120362 1ux6A 350 3.55e+01 b.29.1.16,g.75.1.1 100145,100146 1jz8A 1023 3.58e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1k4nA 192 3.58e+01 d.32.1.5 72059 2bpa2 175 3.59e+01 2bpa2 1j3bA 529 3.64e+01 c.91.1.1,c.109.1.1 77071,77072 2qfeA 148 3.66e+01 1gnyA 153 3.75e+01 b.18.1.11 65404 1dp0A 1023 3.75e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22073,22074,23722,24346,28845 2bzlA 325 3.77e+01 2pa8D 265 3.82e+01 2qjvA 270 3.90e+01 1ikoP 178 3.90e+01 b.6.1.5 71243 2vadA 223 3.96e+01 1m2rA 327 4.02e+01 d.144.1.7 84760 2gs5A 198 4.02e+01 d.310.1.1 135577 2oiwA 136 4.10e+01 2a5dA 175 4.14e+01 c.37.1.8 126172 1lvwA 295 4.15e+01 c.68.1.6 84723 1eguA 731 4.18e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1mhnA 59 4.21e+01 b.34.9.1 84964 1hq0A 295 4.22e+01 1hzgA d.194.1.1 61122 1xsqA 168 4.25e+01 b.82.1.14 115999 1roaA 122 4.30e+01 d.17.1.2 105024 3bzcA 785 4.31e+01 2iwrA 178 4.35e+01 1mlcB 218 4.35e+01 1igtB b.1.1.1,b.1.1.2 20053,21095 1o7sA 127 4.41e+01 b.1.1.1 86644 2hp4A 114 4.48e+01 1abrB 267 4.51e+01 1abrB b.42.2.1,b.42.2.1 25563,25564 1ughI 82 4.53e+01 1ugiA d.17.5.1 38133 1on0A 158 4.68e+01 d.108.1.1 87095 2vsmB 140 4.76e+01 1shyB 551 4.76e+01 b.69.12.1,g.16.2.1 105565,105566 2bmjA 178 4.79e+01 c.37.1.8 128797 1ncwH 222 4.79e+01 b.1.1.1,b.1.1.2 85555,85556 3ck2A 176 4.87e+01 3b9jC 763 4.95e+01 1gmiA 136 4.96e+01 b.7.1.1 65309 1n62C 288 4.98e+01 d.87.2.1,d.145.1.3 80094,80095 3b77A 193 5.00e+01 2acoA 173 5.02e+01 2hx0A 154 5.02e+01 d.290.1.3 136830 1cbfA 285 5.16e+01 c.90.1.1 35587 2f5kA 102 5.17e+01 b.34.13.3 132995 2hbwA 235 5.21e+01 2r3aA 300 5.33e+01 1zxiC 288 5.34e+01 d.87.2.1,d.145.1.3 125776,125777 1a49A 530 5.36e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1tvjA 166 5.48e+01 2uvfA 608 5.48e+01 2gv8A 447 5.49e+01 c.3.1.5,c.3.1.5 135759,135760 3fivA 116 5.64e+01 1fmb b.50.1.1 26768 1h2iA 209 5.71e+01 d.50.1.3 76550 2g6yA 217 5.72e+01 1yoxA 250 5.73e+01 b.82.5.2 123789 1i8aA 189 5.86e+01 1i82A b.1.9.2 61951 1kcqA 104 5.86e+01 d.109.1.1 68449 3c8cA 240 5.88e+01 2nnuA 205 5.96e+01 b.91.1.1 138401 1o75A 415 5.99e+01 b.1.20.1,b.1.20.1,b.120.1.1 81117,81118,81119 2i5hA 205 6.00e+01 2vokA 188 6.07e+01 1l3aA 228 6.11e+01 d.18.1.2 73531 1jyhA 157 6.12e+01 d.60.1.3 71956 2p0kA 212 6.14e+01 1w0pA 781 6.16e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 2z35A 112 6.19e+01 1a0nB 69 6.27e+01 1bbzA b.34.2.1 24469 2p6wA 213 6.37e+01 2o0tA 467 6.39e+01 1wlgA 299 6.43e+01 b.152.1.1 114726 2q7aA 152 6.49e+01 2ch4A 320 6.53e+01 b.40.7.1,d.122.1.3 130447,130448 2hdaA 64 6.61e+01 1of5A 221 6.71e+01 d.17.4.2 86933 1wk2A 121 6.72e+01 b.122.1.5 114720 2c9jA 223 6.77e+01 2volB 180 6.85e+01 1cr5A 189 6.87e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1fiqB 350 6.87e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 1gt1A 159 6.92e+01 b.60.1.1 90515 1xwvA 129 6.94e+01 b.1.18.7 116134 2ckkA 127 6.98e+01 3cddA 361 6.99e+01 1aszB 490 7.02e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1oh4A 179 7.02e+01 b.18.1.18 92978 2nwfA 141 7.05e+01 1xsrA 168 7.09e+01 b.82.1.14 116001 1pmhX 185 7.18e+01 b.18.1.18 104193 2ptfA 233 7.21e+01 2iv2X 715 7.31e+01 b.52.2.2,c.81.1.1 137714,137715 2hc8A 113 7.31e+01 1ju3A 583 7.46e+01 b.18.1.13,c.69.1.21 67300,67301 1svy 114 7.49e+01 1svy 1svyA 114 7.49e+01 d.109.1.1 40831 1n7oA 721 7.51e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1ujcA 161 7.53e+01 1eovA 487 7.58e+01 1b8aA b.40.4.1,d.104.1.1 25239,40760 2i2lA 142 7.59e+01 1knbA 196 7.61e+01 b.21.1.1 23841 2exxA 306 7.62e+01 1r8nA 185 7.66e+01 b.42.4.1 104851 1wcdJ 441 7.71e+01 b.121.4.9 120887 2p8gA 162 7.80e+01 1shfA 59 7.85e+01 1bbzA b.34.2.1 24462 1pfzA 380 7.87e+01 1smrA b.50.1.2 26881 2qmjA 870 7.92e+01