# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1hfoA 113 2.26e-07 d.80.1.3 61006 1dptA 117 7.45e-06 1dptA d.80.1.3 39862 1gd0A 122 1.03e-05 1dptA d.80.1.3 39834 1mwwA 128 1.20e-04 unknown_sccs -10451 1otgA 125 3.07e-02 1otgA d.80.1.2 39831 1s0yA 76 1.98e-01 d.80.1.1 -10434 1nw1A 429 2.47e-01 d.144.1.8 86286 1fm0E 150 2.80e-01 1fmaE d.41.5.1 38629 1tc1A 220 3.39e-01 1tc1A c.61.1.1 34083 1aw7A 194 7.50e-01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1r1mA 164 1.04e+00 unknown_sccs -10431 1ihnA 113 1.14e+00 1ihnA c.103.1.1 62388 3tss 194 1.22e+00 1aw7A b.40.2.2 25160 d.15.6.1 37749 1g9mG 321 1.32e+00 1gc1G d.172.1.1 42492 1p7tA 731 1.35e+00 c.1.13.1 -5600 1uanA 227 1.40e+00 unknown_sccs -8129 1plq 258 1.46e+00 1plq d.131.1.2 41388 d.131.1.2 41389 1rz3A 201 1.48e+00 c.37.1.6 -7048 1spgB 147 1.65e+00 1cg5B a.1.1.2 15588 1rzjG 321 1.71e+00 d.172.1.1 -11666 1r2rA 248 1.82e+00 c.1.1.1 -5147 1h5wA 309 2.00e+00 e.27.1.1 65635 1wab 232 2.01e+00 1wab c.23.10.3 31341 1kkoA 413 2.07e+00 c.1.11.2 68675 d.54.1.1 68676 1kpgA 287 2.08e+00 c.66.1.18 68735 1jrrA 382 2.08e+00 e.1.1.1 63256 1t3lA 337 2.13e+00 1gyxA 76 2.17e+00 d.80.1.1 76387 1g291 372 2.27e+00 1g291 1hd7A 318 2.58e+00 1bix d.151.1.1 41780 1g6oA 330 2.77e+00 1g6oA c.37.1.11 32430 1o6dA 163 2.80e+00 c.116.1.3 -6689 1ijgA 309 2.81e+00 1fouA e.27.1.1 62493 1es9A 232 2.83e+00 1wab c.23.10.3 31340 1qpxA 218 2.84e+00 1qpxA b.1.11.1 22318 b.7.2.1 23200 1q44A 326 2.86e+00 c.37.1.5 -7037 1uw4A 91 2.89e+00 unknown_sccs -10038 1otfA 62 3.18e+00 1otfA d.80.1.1 39820 1d4xG 126 3.25e+00 1d0nA d.109.1.1 59109 1nm1G 125 3.27e+00 d.109.1.1 80653 1bjnA 360 3.29e+00 1bjnA c.67.1.4 34469 1k20A 310 3.50e+00 c.107.1.1 68027 1i37A 260 3.51e+00 1a28A a.123.1.1 61583 1jznA 135 3.54e+00 d.169.1.1 84262 1i3dA 146 3.57e+00 a.1.1.2 61587 1v8dA 235 3.72e+00 1iyhA 198 3.74e+00 a.45.1.1 83790 c.47.1.5 83791 1k2yX 463 3.77e+00 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1d8cA 723 3.80e+00 1d8cA c.1.13.1 29325 1j34B 123 3.84e+00 d.169.1.1 84049 1uumA 372 3.98e+00 c.1.4.1 -5193 1oapA 109 4.11e+00 unknown_sccs -10428 3bamA 213 4.16e+00 1bam c.52.1.3 33288 1r8hA 87 4.20e+00 d.58.8.1 -10041 1b5tA 275 4.24e+00 1b5tA c.1.23.1 29676 1m4jA 142 4.41e+00 d.109.1.2 78602 1d2eA 397 4.42e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1ofuX 119 4.49e+00 c.37.1.22 86976 1j7nA 776 4.54e+00 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1azsB 212 4.55e+00 1azsA d.58.29.1 39423 1iz5A 249 4.56e+00 d.131.1.2 83834 d.131.1.2 83835 1dmgA 225 4.59e+00 1dmgA c.22.1.1 31036 1k8kD 300 4.86e+00 d.198.2.1 68309 d.198.2.1 68310 1p5dX 463 5.46e+00 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1f2rI 100 5.50e+00 1c9fA d.15.2.1 37641 1b5fA 239 5.80e+00 1smrA b.50.1.2 26836 1id0A 152 6.23e+00 d.122.1.3 66111 1a9xA 1058 6.28e+00 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1f52A 468 6.48e+00 1lgr d.15.9.1 37839 d.128.1.1 41169 1sviA 195 6.56e+00 1em2A 229 6.70e+00 1em2A d.129.3.2 41321 1flcA 432 6.72e+00 1flcA b.19.1.3 23837 c.23.10.2 31337 1ako 268 7.12e+00 1ako d.151.1.1 41779 1ab8A 220 7.28e+00 1azsA d.58.29.1 39414 1qddA 144 7.30e+00 1qddA d.169.1.1 42324 1cg5A 141 7.36e+00 1abwA a.1.1.2 15406 1b8dA 164 7.55e+00 1cpcA a.1.1.3 15665 1eq6A 189 7.75e+00 1eq6A d.107.1.1 40796 2cb5A 453 7.76e+00 3gcb d.3.1.1 37035 1jmtA 104 8.01e+00 d.58.7.3 63180 1mj5A 302 8.07e+00 c.69.1.8 -8326 1fzyA 149 8.11e+00 d.20.1.1 65072 1un8A 552 8.16e+00 unknown_sccs -1942 c.32.1.2 -6792 d.79.2.2 -10401 1esgA 213 8.19e+00 1bam c.52.1.3 33286 1r62A 160 8.21e+00 1et9A 204 8.48e+00 1an8 b.40.2.2 25204 d.15.6.1 37793 1josA 128 8.71e+00 d.52.7.1 84191 1lshB 319 8.85e+00 f.7.1.1 74245 1kz1A 159 9.36e+00 c.16.1.1 73318 1a6o 332 9.57e+00 1a6o 1iujA 106 9.61e+00 unknown_sccs -9953 1tph1 247 9.87e+00 1amk 1f2tB 148 1.03e+01 1f2tB 1szwA 379 1.05e+01 unknown_sccs -10164 1nqzA 194 1.09e+01 d.113.1.1 86077 1mo7A 213 1.11e+01 d.220.1.1 85028 1i9gA 280 1.14e+01 c.66.1.13 62090 1kufA 203 1.14e+01 d.92.1.9 73007 1dusA 194 1.16e+01 1dusA c.66.1.4 34182 1go2A 304 1.27e+01 b.43.4.2 76243 c.25.1.1 76244 1jfuA 186 1.28e+01 c.47.1.10 62940 1k4nA 192 1.29e+01 d.32.1.5 72059 1iicA 422 1.30e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1i60A 278 1.30e+01 c.1.15.4 71118 1kugA 203 1.35e+01 d.92.1.9 73008 1ukkA 142 1.40e+01 d.227.1.1 -11206 1ojqA 212 1.42e+01 d.166.1.1 -11568 1n0lA 224 1.43e+01 b.1.11.1 79744 b.7.2.1 79745 1ogiA 303 1.45e+01 b.43.4.2 -4042 c.25.1.1 -6587 1goiA 499 1.53e+01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1ad2 228 1.54e+01 1ad2 e.24.1.1 43353 1iapA 211 1.56e+01 a.91.1.1 62119 1r13A 148 1.56e+01 d.169.1.1 -11646 h.1.1.1 -12895 1ow1A 195 1.58e+01 unknown_sccs -4422 1qlpA 394 1.59e+01 1ovaA e.1.1.1 42628 1dhn 121 1.60e+01 1dhn d.96.1.3 40663 1hgxA 183 1.64e+01 1tc1A c.61.1.1 34027 1lr0A 129 1.65e+01 d.212.1.1 74213 1jf9A 408 1.65e+01 1c0nA c.67.1.3 62931 1f3aA 222 1.66e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 2gsq 202 1.68e+01 1pd21 a.45.1.1 17715 c.47.1.5 33009 1dmhA 311 1.70e+01 1dmhA b.3.6.1 22633 1h30A 422 1.72e+01 b.29.1.4 76604 b.29.1.4 76605 1p3dA 475 1.72e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1fnoA 417 1.74e+01 c.56.5.4 75841 d.58.19.1 70145 1mo0A 275 1.77e+01 c.1.1.1 79329 1euhA 475 1.78e+01 1euhA c.82.1.1 35369 1jx6A 342 1.78e+01 c.93.1.1 67406 1j7gA 144 1.80e+01 c.110.1.1 84130 1ogoX 574 1.83e+01 unknown_sccs -3237 unknown_sccs -4783 1que 303 1.84e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1nvmB 312 1.85e+01 c.2.1.3 86251 d.81.1.1 86252 1i74A 309 1.86e+01 1i74A c.107.1.1 61867 1vdwA 254 1.86e+01 e.7.1.1 -11868 1jtaA 361 1.87e+01 b.80.1.1 71859 1nzeA 149 1.88e+01 unknown_sccs -599 1im8A 244 1.90e+01 c.66.1.14 66212 1nnlA 225 1.93e+01 c.108.1.4 85906 1rp4A 389 1.93e+01 1nw3A 416 1.94e+01 c.66.1.31 86288 1pa7A 130 1.99e+01 a.40.1.1 -896 1j7xA 302 2.00e+01 c.14.1.2 66425 1auvA 311 2.06e+01 1auvA c.30.1.5 31723 d.142.1.3 41558 1pe9A 361 2.07e+01 b.80.1.1 -4765 1ui0A 205 2.09e+01 c.18.1.2 -6328 1jilA 420 2.12e+01 c.26.1.1 66745 1uouA 474 2.14e+01 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 1rjdA 334 2.14e+01 unknown_sccs -8079 1m7bA 184 2.16e+01 c.37.1.8 74572 1mqvA 125 2.16e+01 a.24.3.2 79415 1lenA 181 2.22e+01 1led b.29.1.1 24032 1bkjA 240 2.22e+01 1bkjA d.90.1.1 40243 1izmA 184 2.24e+01 unknown_sccs -1233 1ga8A 311 2.25e+01 1ga8A c.68.1.4 34516 1cpcA 162 2.27e+01 1cpcA a.1.1.3 15643 1hzpA 335 2.28e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 1m6jA 261 2.29e+01 c.1.1.1 78693 1jboA 162 2.29e+01 a.1.1.3 84150 1jeoA 180 2.31e+01 c.80.1.3 66611 1oz9A 150 2.33e+01 unknown_sccs -10588 1o4tA 133 2.34e+01 b.82.1.9 86622 1nu0A 138 2.35e+01 unknown_sccs -7658 1d2oA 187 2.35e+01 1d2oA b.3.5.1 22625 b.3.5.1 22626 1fxoA 293 2.37e+01 1g0rA c.68.1.6 34524 1m0dA 138 2.40e+01 c.52.1.17 74354 1m2rA 327 2.47e+01 d.144.1.7 84760 1qzzA 374 2.47e+01 a.4.5.29 -277 c.66.1.12 -8045 1s2dA 167 2.47e+01 c.23.14.1 -6469 1hqkA 154 2.48e+01 c.16.1.1 65902 1jhsA 188 2.49e+01 d.107.1.1 84172 1jkeA 145 2.54e+01 c.110.1.1 66791 1qauA 112 2.57e+01 1qauA b.36.1.1 24779 1eg5A 384 2.59e+01 1ecxA c.67.1.3 34429 1ifqA 138 2.60e+01 1ifqA d.110.4.1 62350 1jetA 517 2.60e+01 1jevA c.94.1.1 35718 1cnv 299 2.63e+01 1cnv c.1.8.5 28989 1p9bA 442 2.65e+01 c.37.1.10 -7115 1r9wA 145 2.67e+01 d.89.1.2 -10511 1eluA 390 2.70e+01 1elqA c.67.1.3 34434 1k6dA 220 2.71e+01 unknown_sccs 72082 1elqA 390 2.77e+01 1elqA c.67.1.3 34436 1qhxA 178 2.81e+01 1qhsA c.37.1.3 31936 1ev0A 58 2.82e+01 1ev0A d.71.1.1 39594 1jwqA 179 2.82e+01 unknown_sccs -7897 1o5oA 221 2.84e+01 c.61.1.1 -7954 1m5wA 243 2.90e+01 c.1.24.1 84836 1phk 298 2.90e+01 1cdkA d.144.1.7 41635 1b6rA 355 2.90e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1cv2A 296 2.93e+01 1bn6A c.69.1.8 34680 1qfjA 232 2.98e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1mp4A 292 3.00e+01 c.68.1.6 79376 1fj2A 232 3.04e+01 1auoA c.69.1.14 34720 1o7tA 309 3.12e+01 c.94.1.1 86645 1htwA 158 3.20e+01 c.37.1.18 71083 1em8B 112 3.21e+01 unknown_sccs -6364 1oacA 727 3.24e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1hqz1 141 3.27e+01 1lbvA 252 3.31e+01 e.7.1.1 73813 1it2A 146 3.31e+01 a.1.1.2 66365 1f6yA 262 3.34e+01 1f6yA c.1.21.2 29673 1unnC 115 3.35e+01 unknown_sccs -10216 1g63A 181 3.35e+01 1g5qA c.34.1.1 60299 1js1X 324 3.37e+01 c.78.1.1 71834 c.78.1.1 71835 1pyoA 167 3.40e+01 c.17.1.1 -7932 1o08A 221 3.40e+01 c.108.1.6 86525 1spvA 184 3.43e+01 c.50.1.2 -7937 1lldA 319 3.46e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 1bjx 110 3.46e+01 1bjx c.47.1.2 32774 1ixkA 315 3.48e+01 unknown_sccs -8099 1fw1A 216 3.53e+01 a.45.1.1 60051 c.47.1.5 60052 1n71A 180 3.54e+01 d.108.1.1 85370 1k8kG 151 3.54e+01 a.118.13.1 68313 1oz7A 131 3.54e+01 d.169.1.1 -11622 1vpt 348 3.56e+01 3mag c.66.1.25 34207 1lyxA 248 3.57e+01 c.1.1.1 78304 1nox 205 3.58e+01 1nox d.90.1.1 40242 1g1tA 157 3.61e+01 d.169.1.1 65104 g.3.11.1 65105 1lnsA 763 3.62e+01 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1mzhA 225 3.64e+01 c.1.10.1 79698 1q0uA 219 3.68e+01 c.37.1.19 -7205 1jwiB 125 3.70e+01 d.169.1.1 67384 1s1hM 132 3.70e+01 1o4uA 285 3.72e+01 c.1.17.1 86624 d.41.2.1 86625 1jwiA 131 3.74e+01 d.169.1.1 67383 1je6A 275 3.74e+01 b.1.1.2 71638 d.19.1.1 71639 1pd21 199 3.78e+01 1pd21 1yghA 164 3.82e+01 1yghA d.108.1.1 40802 1ufaA 520 3.86e+01 unknown_sccs -421 unknown_sccs -6065 1n4kA 381 3.88e+01 unknown_sccs 79992 b.42.6.1 79993 1h97A 147 3.91e+01 1h97A a.1.1.2 60812 1atiA 505 3.93e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 1iv3A 152 3.93e+01 d.79.5.1 76828 1ohvA 472 3.99e+01 c.67.1.4 -8181