# 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 2gvkA 317 1.66e-43 2cb2A 318 6.41e-01 1iq4A 179 1.21e+00 1iq4A d.77.1.1 62641 1omzA 293 1.32e+00 c.68.1.15 87093 1b8yA 167 2.25e+00 1hfc d.92.1.11 40377 1vddA 228 2.28e+00 e.49.1.1 108519 1hy7A 173 2.39e+00 d.92.1.11 65957 2chnA 716 3.08e+00 2gnpA 266 3.19e+00 1t0tV 248 3.21e+00 d.58.4.10 106229 1r8gA 372 3.43e+00 d.128.1.3 104845 1kezA 300 3.53e+00 c.69.1.22 68546 1udvA 89 3.58e+00 d.68.6.1 99224 1sc6A 404 3.77e+00 1nriA 306 3.87e+00 c.80.1.3 86123 1xnaA 183 3.99e+00 1xnaA b.18.1.8 23773 1fj2A 232 4.35e+00 1auoA c.69.1.14 34720 1umsA 174 4.36e+00 1hfc d.92.1.11 40368 1e2kA 331 4.64e+00 1qhiA c.37.1.1 31854 2bl9A 238 4.94e+00 1psdA 409 5.19e+00 1psdA c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1gx4A 289 5.30e+00 c.68.1.9 83362 1o7qA 289 5.59e+00 c.68.1.9 92626 1k4vA 289 5.69e+00 c.68.1.9 72066 1wu7A 434 5.73e+00 1m0wA 491 6.91e+00 c.30.1.4,d.142.1.6 78363,78364 1ohtA 215 7.05e+00 d.118.1.1 87036 2blcA 238 7.23e+00 1nnhA 294 7.96e+00 d.104.1.1 92005 1v2dA 381 8.18e+00 c.67.1.1 108281 2ftrA 108 8.37e+00 1ipaA 274 9.13e+00 c.116.1.1,d.79.3.3 71254,71255 1zdzA 302 9.23e+00 1atiB 505 9.67e+00 1atiA c.51.1.1,d.104.1.1 33197,40746 1moq 368 9.75e+00 1moq c.80.1.1 35302 1g8oA 310 9.95e+00 1g8oA c.68.1.9 60375 1gggB 226 1.01e+01 1lst c.94.1.1 35818 1vimA 200 1.09e+01 c.80.1.3 100758 1j2rA 199 1.12e+01 c.33.1.3 90788 1ri7A 171 1.12e+01 a.4.5.32,d.58.4.2 97504,97505 1i1gA 141 1.12e+01 a.4.5.32,d.58.4.2 65982,65983 1z7gA 217 1.12e+01 1rlr 761 1.15e+01 1rlr a.98.1.1,c.7.1.2 18753,30679 2bkyX 89 1.16e+01 1cxvA 164 1.16e+01 1ck7A d.92.1.11 40404 1hfs 160 1.20e+01 1hfc d.92.1.11 40370 1jeoA 180 1.23e+01 c.80.1.3 66611 2ki5A 366 1.28e+01 1qhiA c.37.1.1 31862 1v4sA 455 1.32e+01 c.55.1.3,c.55.1.3 100309,100310 1j27A 102 1.37e+01 d.58.50.1 90778 3rubS 123 1.39e+01 1rboC d.73.1.1 39616 1qhiA 366 1.40e+01 1qhiA c.37.1.1 31860 1aurA 218 1.41e+01 1auoA c.69.1.14 34718 2cg4A 152 1.46e+01 1ycdA 243 1.48e+01 1kimA 366 1.53e+01 1qhiA c.37.1.1 31864 2dri 271 1.53e+01 2dri c.93.1.1 35637 1nh9A 87 1.55e+01 d.68.6.1 91878 1vggA 161 1.58e+01 1sqiA 393 1.60e+01 d.32.1.3,d.32.1.3 105914,105915 3mddA 385 1.61e+01 3mdeA a.29.3.1,e.6.1.1 16592,42853 1w85A 368 1.61e+01 1x7oA 287 1.64e+01 1auoA 218 1.65e+01 1auoA c.69.1.14 34716 1dlfL 113 1.65e+01 8fabA b.1.1.1 20382 1j5uA 136 1.70e+01 d.208.1.1 71584 1jq3A 296 1.72e+01 c.66.1.17 67079 1l1sA 113 1.75e+01 c.114.1.1 73484 1atiA 505 1.76e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 2c2aA 258 1.77e+01 1i1qA 520 1.80e+01 1qdlA d.161.1.1 61543 1nw3A 416 1.82e+01 c.66.1.31 86288 1ohlA 342 1.83e+01 c.1.10.3 87035 1gkkA 297 1.83e+01 c.69.1.2 65248 1z9bA 135 1.86e+01 1e1oA 504 1.87e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1lylA 504 1.89e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1fmaE 150 1.89e+01 1fmaE d.41.5.1 38630 1ou0A 207 1.93e+01 c.23.17.1 93536 1gklA 297 1.93e+01 c.69.1.2 65250 1wb4A 297 1.96e+01 1o12A 376 1.97e+01 b.92.1.5,c.1.9.10 80758,80759 1gggA 226 2.03e+01 1lst c.94.1.1 35817 3mdeA 385 2.03e+01 3mdeA a.29.3.1,e.6.1.1 16594,42855 1fm0E 150 2.07e+01 1fmaE d.41.5.1 38629 3gcb 470 2.10e+01 3gcb d.3.1.1 37032 1d4vB 163 2.17e+01 1d4vB b.22.1.1 23884 1buhB 79 2.21e+01 1puc d.97.1.1 40686 1kmvA 186 2.22e+01 c.71.1.1 72757 1l6wA 220 2.23e+01 c.1.10.1 73632 1p1lA 102 2.25e+01 d.58.5.2 87695 1opc 110 2.27e+01 1opc a.4.6.1 16231 1xkpC 143 2.27e+01 1a6r 471 2.28e+01 3gcb d.3.1.1 37033 1g3uA 214 2.28e+01 c.37.1.1 65132 1v64A 108 2.29e+01 a.21.1.1 108392 4ts1A 319 2.30e+01 2ts1 c.26.1.1 31565 1httA 423 2.32e+01 1adjA c.51.1.1,d.104.1.1 33178,40727 2dlbA 80 2.42e+01 1h7nA 342 2.49e+01 1b4kA c.1.10.3 60726 1ag8A 499 2.50e+01 1bpwA c.82.1.1 35341 1zejA 293 2.65e+01 1zid 268 2.66e+01 1eny c.2.1.2 29911 1aw5 326 2.67e+01 1b4kA c.1.10.3 29181 1odd 118 2.68e+01 1opc a.4.6.1 16232 1qwrA 319 2.79e+01 b.82.1.3 96491 2b34A 199 2.90e+01 1dqsA 393 2.99e+01 1dqsA e.22.1.1 43347 1eokA 290 3.01e+01 1eokA c.1.8.5 28991 1a0qH 217 3.04e+01 1mfa b.1.1.1,b.1.1.2 20287,21279 1h8eG 272 3.06e+01 1e79G c.49.2.1 60756 1wvqA 167 3.11e+01 1toaA 313 3.14e+01 1toaA c.92.2.2 35598 1kmnD 424 3.14e+01 1adjA c.51.1.1,d.104.1.1 33185,40734 1iv8A 720 3.21e+01 b.71.1.1,c.1.8.1 76842,76843 1ys4A 354 3.24e+01 1bu8A 452 3.24e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1mak 113 3.25e+01 8fabA b.1.1.1 19825 1pch 88 3.27e+01 1ptf d.94.1.1 40564 1inlA 296 3.33e+01 c.66.1.17 66220 1tx4B 178 3.34e+01 1ctqA c.37.1.8 32045 1um5H 217 3.36e+01 1g3mA 294 3.38e+01 c.37.1.5 83268 1wxxA 382 3.40e+01 1souA 194 3.40e+01 c.124.1.6 105858 1hmpA 217 3.42e+01 1qk3A c.61.1.1 34075 2b20A 403 3.43e+01 1t4hA 290 3.45e+01 d.144.1.7 106420 1sg6A 393 3.51e+01 e.22.1.1 105522 1rlhA 173 3.62e+01 d.256.1.1 97646 1hcrA 52 3.67e+01 1hcrA a.4.1.2 16020 1kmqA 184 3.70e+01 c.37.1.8 84412 1gpc 218 3.76e+01 1gpc b.40.4.7 25393 1p4cA 380 3.78e+01 c.1.4.1 94100 1wruA 379 3.80e+01 1hlrA 907 3.87e+01 2calA 154 3.89e+01 2aq8A 269 3.94e+01 1a4jA 217 3.95e+01 8fabA b.1.1.1,b.1.1.2 20232,21244 1vlbA 907 3.97e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 2faoA 309 3.97e+01 1ea7A 310 3.98e+01 c.41.1.1 70086 1wddS 128 4.00e+01 1ylvA 342 4.03e+01 1b4kA c.1.10.3 29180 1nz0A 118 4.05e+01 d.14.1.2 86433 1uf2A 1019 4.06e+01 e.28.1.2 99289 1a3z 155 4.06e+01 1rcy b.6.1.1 23019 1p35A 299 4.07e+01 1p35A b.28.1.1 23925 1m5sA 297 4.07e+01 d.58.33.1,d.58.33.1 74511,74512 2ck3G 272 4.10e+01 1b26A 416 4.17e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 2bgiA 272 4.17e+01 1e30A 155 4.17e+01 1rcy b.6.1.1 23016 1cur 155 4.23e+01 1rcy b.6.1.1 23021 2tbd 134 4.25e+01 2tbd d.89.1.1 40241 1jkvA 266 4.27e+01 a.25.1.3 71719 1nt4A 391 4.28e+01 c.60.1.2 92102 3vtk 343 4.29e+01 1qhiA c.37.1.1 31884 1zvdA 380 4.35e+01 1o9iA 266 4.37e+01 a.25.1.3 92671 1k75A 434 4.44e+01 c.82.1.2 68253 1rcy 151 4.47e+01 1rcy b.6.1.1 23018 1huvA 380 4.58e+01 c.1.4.1 61277 1rboC 123 4.66e+01 1rboC d.73.1.1 39634 1w9yA 319 4.67e+01 1z08A 170 4.69e+01 1ualA 274 4.74e+01 c.116.1.4 88383 1eny 268 4.75e+01 1eny c.2.1.2 29910 1xfjA 261 4.75e+01 d.194.1.2 109585 8rucI 123 4.77e+01 1rboC d.73.1.1 39629 1zkcA 197 4.78e+01 1nbwA 607 4.79e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1eyeA 280 4.84e+01 1aj2 c.1.21.1 29672 1kxpD 458 4.90e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1jkoC 52 4.92e+01 a.4.1.2 66809 1xrjA 261 4.93e+01 1gcb 454 4.95e+01 3gcb d.3.1.1 37034 1kxqE 120 4.96e+01 b.1.1.1 73171 1d4xG 126 4.98e+01 1d0nA d.109.1.1 59109 1r1mA 164 5.00e+01 d.79.7.1 96820 2ts1 419 5.02e+01 2ts1 c.26.1.1 31564 1cs8A 316 5.04e+01 1cs8A d.3.1.1 37065 2oatA 439 5.04e+01 2dkb c.67.1.4 34452 1t6cA 315 5.10e+01 c.55.1.8,c.55.1.8 106558,106559 1efdN 266 5.11e+01 1efdN c.92.2.1 35597 1pl8A 356 5.13e+01 b.35.1.2,c.2.1.1 94878,94879 1cjl 312 5.13e+01 1cs8A d.3.1.1 37066 1kaeA 434 5.19e+01 c.82.1.2 72247 1yb2A 275 5.27e+01 1oatA 439 5.28e+01 2dkb c.67.1.4 34461 1yagG 125 5.31e+01 1d0nA d.109.1.1 40846 1nm1G 125 5.32e+01 d.109.1.1 80653 1sxrA 183 5.40e+01 d.118.1.1 106101 1hy3A 294 5.44e+01 c.37.1.5 71090 1zwtA 158 5.51e+01 2b25A 336 5.60e+01 1kinA 366 5.64e+01 1wdnA 226 5.66e+01 1lst c.94.1.1 35816 1zcjA 463 5.75e+01 1hr6A 475 5.78e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1jg1A 235 5.86e+01 c.66.1.7 66661 1kmmA 424 5.86e+01 1adjA c.51.1.1,d.104.1.1 33174,40723 1jc9A 269 5.88e+01 d.171.1.1 66490 1zq1C 633 5.90e+01 2bklA 695 5.92e+01 1k5wA 152 5.96e+01 b.7.1.2 68212 1g24A 211 6.01e+01 1g24A d.166.1.1 42270 1dyr 206 6.05e+01 1aoeA c.71.1.1 34916 1uovA 159 6.13e+01 b.7.1.2 107974 2aobA 99 6.15e+01 1kv7A 488 6.18e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1j3kA 280 6.21e+01 c.71.1.1 84070 1a4kA 217 6.24e+01 8fabA b.1.1.1,b.1.1.2 20236,21248 1f06A 320 6.26e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1rw7A 243 6.30e+01 c.23.16.2 97963 1eluB 390 6.34e+01 1elqA c.67.1.3 34435 1nfjA 89 6.37e+01 d.68.6.1 91866 1elqA 390 6.46e+01 1elqA c.67.1.3 34436 1eluA 390 6.46e+01 1elqA c.67.1.3 34434 1u0tA 307 6.53e+01 e.52.1.1 107567 1li4A 432 6.55e+01 c.2.1.4,c.23.12.3 84616,84617 1lfb 99 6.56e+01 1lfb a.4.1.1 15989 1rwzA 245 6.57e+01 d.131.1.2,d.131.1.2 98005,98006 1qm4A 396 6.63e+01 1mxb d.130.1.1,d.130.1.1,d.130.1.1 41350,41351,41352 2lfb 100 6.67e+01 1lfb a.4.1.1 15990 1i1hA 219 6.69e+01 1f2vA c.23.17.1 61530 1jysA 242 6.87e+01 c.56.2.1 77216 1h0xA 100 6.94e+01 d.68.6.1 76451 1nzoA 363 7.00e+01 b.105.1.1,e.3.1.1 92383,92384 1a7aA 432 7.03e+01 1b3rA c.2.1.4,c.23.12.3 30104,31364 1c8bA 371 7.06e+01 1c8bA c.56.1.2 59082 2avyC 232 7.07e+01 1fpqA 372 7.13e+01 1fpqA a.4.5.29,c.66.1.12 59947,59948 1jjiA 311 7.21e+01 c.69.1.2 66766 1g0uG 252 7.25e+01 d.153.1.4 41952 1wkaA 147 7.28e+01 1cskA 71 7.30e+01 1ckaA b.34.2.1 24513 2b2nA 344 7.36e+01 1vhh 162 7.41e+01 1vhh d.65.1.2 39550 1df7A 159 7.42e+01 3dfr c.71.1.1 34885 1lt8A 406 7.48e+01 c.1.26.1 78186 1kwkA 645 7.49e+01 b.71.1.1,c.1.8.1,c.23.16.5 77565,77566,77567 1c0aA 585 7.52e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1mp9A 198 7.55e+01 d.129.1.1,d.129.1.1 91385,91386 2bvfA 459 7.58e+01 1z5rA 306 7.62e+01 3dapA 320 7.63e+01 1dapA c.2.1.3,d.81.1.3 30051,39966 1ruwA 69 7.64e+01 2fa8A 105 7.67e+01 1z6fA 363 7.74e+01 1tf4A 605 7.76e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1bdb 277 7.79e+01 1bdb c.2.1.2 29874 1z6kA 293 7.81e+01 8dfr 189 7.85e+01 1aoeA c.71.1.1 34895 1b3rA 431 7.87e+01 1b3rA c.2.1.4,c.23.12.3 30106,31366 2a0mA 316 7.88e+01 2exrA 524 7.90e+01 1uowA 159 7.98e+01 b.7.1.2 107975 1aoeA 192 8.04e+01 1aoeA c.71.1.1 34923 2bkyA 97 8.06e+01 1sfe 180 8.07e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 1din 236 8.10e+01 1din c.69.1.9 34682 1w5fA 353 8.11e+01 1w77A 228 8.11e+01 1uj2A 252 8.15e+01 c.37.1.6 99452 1v7zA 260 8.22e+01 c.125.1.1 100488 1tbd 134 8.24e+01 2tbd d.89.1.1 40240 1c4kA 730 8.31e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31273,34502,41123 1tvlA 454 8.32e+01 c.1.16.4 107366 1nxiA 132 8.34e+01 d.58.47.1 86381 1bhjA 292 8.37e+01 1xvaA c.66.1.5 34189 1wi1A 126 8.37e+01 1z5oA 242 8.43e+01 2auaA 224 8.51e+01 1id0A 152 8.63e+01 d.122.1.3 66111 1f2vA 219 8.69e+01 1f2vA c.23.17.1 59627 1griA 217 8.77e+01 1griA b.34.2.1,b.34.2.1,d.93.1.1 24531,24532,40473 1k1gA 131 8.82e+01 d.51.1.1 68015 1w70A 60 8.85e+01 1mgpA 313 8.87e+01 c.119.1.1 79098 1dgjA 907 8.87e+01 1alo a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 17909,37694,38585,41415 1esmA 316 8.89e+01 1esmA c.37.1.6 31953 2a6aA 218 8.95e+01 1l3iA 192 9.00e+01 c.66.1.22 77676