# List of top-scoring protein chains for t04-100-30-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.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 1snzA 344 3.15e-25 b.30.5.4 98930 1nszA 347 1.90e-20 b.30.5.4 80724 1lurA 339 6.54e-20 b.30.5.4 84717 1z45A 699 1.70e-18 b.30.5.4,c.2.1.2 124427,124428 1ygaA 342 9.55e-18 2cirA 297 2.59e-16 2htaA 309 8.89e-15 1jovA 270 5.49e-13 b.30.5.7 84192 1vclA 432 2.84e-01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 3bs6A 280 3.54e-01 1elvA 333 5.37e-01 5ptp b.47.1.2,g.18.1.1 59454,59455 1rjoA 646 5.71e-01 b.30.2.1,d.17.2.1,d.17.2.1 111832,111833,111834 1ui7A 638 5.83e-01 b.30.2.1,d.17.2.1,d.17.2.1 99413,99414,99415 1w6gA 646 5.99e-01 b.30.2.1,d.17.2.1,d.17.2.1 120660,120661,120662 2d1wA 638 7.77e-01 b.30.2.1,d.17.2.1,d.17.2.1 131145,131146,131147 1ui8A 638 8.37e-01 b.30.2.1,d.17.2.1,d.17.2.1 99419,99420,99421 1w18A 493 9.04e-01 3blcA 330 9.33e-01 1hn0A 1021 1.02e+00 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 2h1tA 188 1.15e+00 1iqyA 638 1.15e+00 b.30.2.1,d.17.2.1,d.17.2.1 76763,76764,76765 2z3zA 706 1.52e+00 1sx5A 244 1.77e+00 c.52.1.2 99023 1te5A 257 2.56e+00 d.153.1.1 106795 2be1A 339 2.70e+00 1arb 268 2.85e+00 1arb 1arbA 268 2.85e+00 b.47.1.1 25766 1v3eA 431 3.15e+00 b.68.1.1 100287 1z5hA 780 3.57e+00 3b9cA 144 3.76e+00 3sil 379 3.80e+00 3sil 3silA 379 3.80e+00 b.68.1.1 27542 2qe8A 343 3.87e+00 1so9A 164 4.02e+00 b.146.1.1 105842 1yewA 382 4.05e+00 1dq3A 454 4.09e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1mzyA 333 4.12e+00 b.6.1.3,b.6.1.3 103848,103849 1y3tA 337 4.71e+00 b.82.1.5 122600 1u0tA 307 4.77e+00 e.52.1.1 107567 1eonA 245 4.96e+00 1rvaA c.52.1.2 33238 1rg8A 146 5.21e+00 b.42.1.1 111801 2b9lA 394 5.24e+00 1eaxA 241 5.66e+00 b.47.1.2 64889 2qxiA 224 5.69e+00 1eylA 186 5.95e+00 1wba b.42.4.1 25593 2vdaA 828 6.13e+00 1qwzA 235 6.21e+00 b.100.1.1 96510 2ac1A 541 6.34e+00 1xmzA 241 6.36e+00 1gof 639 6.61e+00 1gof 3cihA 739 6.88e+00 1oe1A 336 6.92e+00 b.6.1.3,b.6.1.3 86891,86892 1r8nA 185 7.27e+00 b.42.4.1 104851 2a50B 168 7.46e+00 2eixA 243 8.06e+00 2cwsA 237 8.22e+00 1ndh 272 8.54e+00 1ndh 1w8oA 601 8.75e+00 b.1.18.2,b.18.1.1,b.68.1.1 114374,114375,114376 1rc6A 261 9.08e+00 b.82.1.11 97287 1pl3A 186 9.10e+00 b.1.9.1 88158 2nqcA 138 9.86e+00 2aenA 164 9.89e+00 2e8yA 718 9.89e+00 1nscA 390 1.00e+01 2qwc b.68.1.1 27591 2ojhA 297 1.00e+01 2ihoA 293 1.03e+01 2ghsA 326 1.03e+01 b.68.6.1 135209 2d73A 738 1.03e+01 1zuxA 224 1.04e+01 2p52A 196 1.09e+01 1k3iA 656 1.13e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1dymA 402 1.13e+01 1celA b.29.1.10 24304 1xx9A 238 1.18e+01 b.47.1.2 116149 1xszA 356 1.20e+01 a.118.3.1,d.129.9.1 116005,116006 1d7cA 190 1.20e+01 1d7bA b.1.9.1 22309 1wcqA 601 1.23e+01 b.1.18.2,b.18.1.1,b.68.1.1 120894,120895,120896 1wnhA 225 1.27e+01 1rwiA 270 1.28e+01 b.68.9.1 97987 1p63A 144 1.29e+01 b.42.1.1 94153 2d3vA 196 1.30e+01 1z4vA 532 1.36e+01 1lp9E 194 1.37e+01 b.1.1.1,b.1.1.2 91086,91087 1gpr 162 1.40e+01 1gpr 1gprA 162 1.40e+01 b.84.3.1 28267 1mkfA 382 1.44e+01 b.116.1.1 79232 2gysA 419 1.44e+01 b.1.2.1,b.1.2.1,b.1.2.1,b.1.2.1 135865,135866,135867,135868 2z8gA 549 1.50e+01 2ag9A 164 1.55e+01 2o26U 290 1.56e+01 2ofzA 138 1.56e+01 1zhxA 438 1.57e+01 d.338.1.1 125112 1l8rA 101 1.57e+01 a.6.1.4 73700 1x0cA 549 1.60e+01 2ovrB 445 1.61e+01 1z8gA 372 1.62e+01 b.47.1.2,d.170.1.2 124697,124698 1p57B 255 1.64e+01 b.47.1.2 94126 1gxrA 337 1.64e+01 b.69.4.1 70722 1jssA 224 1.65e+01 d.129.3.2 71844 1ju3A 583 1.66e+01 b.18.1.13,c.69.1.21 67300,67301 2qc1B 212 1.66e+01 2f9nA 245 1.67e+01 1nkgA 508 1.67e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1ltoA 245 1.73e+01 b.47.1.2 84707 2qxvA 361 1.73e+01 1nn6A 228 1.76e+01 b.47.1.2 85893 2a15A 139 1.76e+01 d.17.4.3 125973 1mml 265 1.79e+01 1mml 1mmlA 265 1.79e+01 e.8.1.2 43015 1ejxB 101 1.79e+01 b.85.3.1 83183 1y56B 382 1.83e+01 2ioiA 201 1.84e+01 1pbyA 489 1.85e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1oxxK 353 1.87e+01 b.40.6.3,c.37.1.12 93715,93716 2geeA 203 1.87e+01 1p5vA 235 1.93e+01 b.1.11.1,b.7.2.1 87812,87813 3cp0A 82 1.93e+01 1guiA 155 1.96e+01 b.18.1.14 76351 2ze0A 555 1.98e+01 1vpsA 289 2.03e+01 1vpsA b.121.6.1 23336 1oxsC 353 2.03e+01 b.40.6.3,c.37.1.12 87519,87520 1f60A 458 2.04e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1v0aA 178 2.04e+01 b.18.1.30 119815 2d5lA 706 2.06e+01 1sefA 274 2.11e+01 b.82.1.11 105452 1xfdA 723 2.14e+01 b.70.3.1,c.69.1.24 115251,115252 2gm6A 208 2.14e+01 2q18X 293 2.15e+01 1zhpA 238 2.18e+01 2avtA 378 2.20e+01 1vjjA 692 2.20e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1ojjA 402 2.21e+01 b.29.1.10 93130 2oq5A 232 2.23e+01 1h8dH 260 2.25e+01 5ptp 2hykA 245 2.26e+01 2mev1 277 2.28e+01 2mev1 1e1hA 287 2.31e+01 d.92.1.7 83167 1cv8 174 2.32e+01 1cv8 1cv8A 174 2.32e+01 d.3.1.1 37089 1zunB 434 2.36e+01 b.43.3.1,b.44.1.1,c.37.1.8 125677,125678,125679 2ojwA 384 2.42e+01 1avaC 181 2.45e+01 1avaC b.42.4.1 25604 2g8sA 353 2.54e+01 1g13A 162 2.58e+01 1g13A b.95.1.1 60194 2ppnA 107 2.64e+01 1tv8A 340 2.67e+01 c.1.28.3 107352 1mixA 206 2.68e+01 a.11.2.1,b.55.1.5 79166,79167 2mspA 126 2.70e+01 1mspA b.1.11.2 22335 1wba 175 2.71e+01 1wba 1wbaA 175 2.71e+01 b.42.4.1 25591 1zhmA 238 2.72e+01 2b5iB 214 2.72e+01 b.1.2.1,b.1.2.1 127896,127897 1gvhA 396 2.76e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1cqxA 403 2.79e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1zhrA 238 2.81e+01 2r2cA 183 2.88e+01 2cqsA 842 2.90e+01 2aujD 309 2.93e+01 2c5uA 375 2.93e+01 1dzlA 505 2.96e+01 1dzlA b.121.6.1 23586 2h5eA 529 2.98e+01 1fm4A 159 2.98e+01 1bv1 d.129.3.1 76186 2v9tB 220 3.06e+01 1lshA 1056 3.12e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1aol 228 3.13e+01 1aol 1aolA 228 3.13e+01 b.20.1.1 23840 3ckzA 385 3.15e+01 1e42A 258 3.15e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1vjtA 483 3.18e+01 c.2.1.5,d.162.1.2 100833,100834 3c8dA 403 3.20e+01 1gl4A 285 3.21e+01 d.22.1.2,g.3.11.5 65286,65287 2nw2B 243 3.25e+01 3b8xA 390 3.26e+01 1yq2A 1024 3.28e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 123843,123844,123845,123846,123847 1u2bA 138 3.34e+01 b.55.1.1 119474 1a0lA 244 3.36e+01 5ptp b.47.1.2 26286 2a9gA 418 3.39e+01 d.126.1.4 126435 1ja1A 622 3.40e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1o6gA 710 3.42e+01 b.69.7.1,c.69.1.4 81087,81088 1lmiA 131 3.46e+01 b.1.19.1 78098 2p4oA 306 3.47e+01 1fcdA 401 3.52e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1ao5A 237 3.57e+01 5ptp b.47.1.2 26334 1bcpB 199 3.59e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 2amdA 311 3.63e+01 1zgkA 308 3.63e+01 1q2wA 308 3.65e+01 b.47.1.4 88355 1oacA 727 3.65e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 2hr0A 645 3.67e+01 1m1lA 236 3.69e+01 d.260.1.1 91166 2awaA 390 3.74e+01 1jmcA 246 3.76e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 2r55A 231 3.78e+01 1zjkA 403 3.80e+01 b.47.1.2,g.18.1.1,g.18.1.1 125149,125150,125151 2htuA 390 3.85e+01 2h2zA 306 3.87e+01 1z9lA 128 3.92e+01 1rwrA 301 3.99e+01 b.80.1.11 97990 1gesA 450 4.01e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 2vovA 336 4.03e+01 1h54A 754 4.06e+01 a.102.1.4,b.30.5.3 60634,60635 1ppfE 218 4.11e+01 1a7s b.47.1.2 26234 1umkA 275 4.12e+01 b.43.4.2,c.25.1.1 113312,113313 1fgyA 127 4.13e+01 1faoA b.55.1.1 26976 3brbA 313 4.15e+01 1opoA 348 4.18e+01 b.121.4.7 87240 3brgC 427 4.24e+01 2aq5A 402 4.26e+01 2dawA 154 4.30e+01 2fb2A 340 4.36e+01 4ubpB 126 4.45e+01 1ubpB b.85.3.1 28345 1qftA 175 4.45e+01 1qftA b.60.1.1 27151 1ue1A 164 4.53e+01 b.40.4.3 99243 2cuaA 135 4.54e+01 2cuaA b.6.1.2 23039 1on3A 523 4.58e+01 c.14.1.4,c.14.1.4 87107,87108 2go2A 163 4.59e+01 1olrA 224 4.62e+01 b.29.1.11 93330 1rmg 422 4.63e+01 1rmg 1rmgA 422 4.63e+01 b.80.1.3 28029 1kllA 130 4.66e+01 d.32.1.2 72720 2gw4B 162 4.66e+01 1abrB 267 4.68e+01 1abrB b.42.2.1,b.42.2.1 25563,25564 2b5nA 323 4.74e+01 1i7pA 274 4.88e+01 b.43.4.2,c.25.1.1 66048,66049 12asA 330 4.95e+01 12asA d.104.1.1 40783 2f2fC 186 5.09e+01 b.42.2.1 132812 2d1eA 248 5.09e+01 2h0vA 338 5.09e+01 1gydB 315 5.11e+01 b.67.2.1 70751 2sli 679 5.12e+01 2sli 2sliA 679 5.12e+01 b.29.1.9,b.68.1.1 24274,27611 3c6kA 381 5.13e+01 1t3bA 211 5.15e+01 c.47.1.9,d.17.3.1 106341,106342 1qhoA 686 5.16e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 2gc9A 179 5.20e+01 b.60.1.6 134972 3bjsA 428 5.20e+01 1a49A 530 5.22e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 2b6hA 192 5.27e+01 c.37.1.8 127994 2obeA 932 5.29e+01 2iuwA 238 5.36e+01 b.82.2.10 137709 1rtu 114 5.43e+01 9rnt 1rtuA 114 5.43e+01 d.1.1.4 36139 1jv1A 505 5.45e+01 c.68.1.5 71892 2g30A 258 5.46e+01 b.1.10.1,d.105.1.1 134546,134547 3cm1A 139 5.46e+01 1mspA 126 5.49e+01 1mspA b.1.11.2 22333 2adzA 178 5.52e+01 b.55.1.1 126599 1dpjA 329 5.53e+01 1smrA b.50.1.2 26828 2bbvA 363 5.55e+01 2bbvA b.121.4.4 23323 2bo9B 222 5.59e+01 d.17.1.5,d.17.1.5 128898,128899 2gc1A 188 5.59e+01 b.82.1.7 134928 2ak4E 245 5.62e+01 1sr4C 166 5.65e+01 b.42.2.1 105950 2qfmA 364 5.67e+01 2cx7A 130 5.72e+01 1afcA 140 5.73e+01 1bfg b.42.1.1 25506 2dexX 671 5.74e+01 b.2.9.1,b.6.1.6,d.126.1.5 131436,131437,131438 1przA 252 5.75e+01 d.265.1.3 95064 2bibA 547 5.78e+01 b.109.1.1,d.157.1.8 128581,128582 1zj8A 566 5.78e+01 1gewA 356 5.82e+01 1gewA c.67.1.1 60470 1fg7A 356 5.87e+01 1gewA c.67.1.1 59819 3cbwA 353 5.89e+01 2p7jA 287 5.90e+01 1j5uA 136 5.99e+01 d.208.1.1 71584 1z0sA 278 5.99e+01 e.52.1.1 124328 2ismA 352 6.00e+01 1tl2A 236 6.07e+01 1tl2A b.67.1.1 27541 1ru4A 400 6.07e+01 b.80.1.9 97836 1gyhA 318 6.07e+01 b.67.2.1 70757 1j8hD 212 6.13e+01 b.1.1.1,b.1.1.2 71606,71607 2cf8H 257 6.14e+01 1zgsA 447 6.14e+01 1x8mA 288 6.15e+01 b.82.1.13 109516 3c8bA 432 6.19e+01 1k3bA 119 6.21e+01 b.61.5.1 72016 1px5A 349 6.34e+01 a.160.1.2,d.218.1.6 95277,95278 1dkzA 219 6.36e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 2oinA 200 6.39e+01 1cq3A 233 6.42e+01 1cq3A b.27.1.1 23923 2ivwA 113 6.42e+01 1x82A 190 6.43e+01 b.82.1.7 114955 2oqcA 327 6.44e+01 1fwxA 595 6.59e+01 b.6.1.4,b.69.3.1 60069,60070 1d6mA 653 6.59e+01 1d6mA e.10.1.1 43248 1gkzA 388 6.69e+01 a.29.5.1,d.122.1.4 65268,65269 1f0nA 285 6.69e+01 1dqyA c.69.1.3 34636 1qx4A 274 6.72e+01 b.43.4.2,c.25.1.1 104624,104625 1xhnA 184 6.75e+01 b.45.1.1 122007 1bkf 107 6.75e+01 1fkj 1bkfA 107 6.75e+01 d.26.1.1 38382 1w97L 246 6.84e+01 c.55.1.11,c.55.1.11 114406,114407 2bm0A 691 6.84e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 128748,128749,128750,128751,128752 2bvrH 252 6.84e+01 2dvyA 226 6.86e+01 1genA 218 6.87e+01 b.66.1.1 27536 2bh1A 250 6.89e+01 c.55.1.11,c.55.1.11 128506,128507 2hqsA 415 6.91e+01 b.68.4.1,c.51.2.1 136662,136663 1crzA 403 6.94e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1uebA 184 7.03e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 3bk5A 237 7.04e+01 1u5dA 108 7.06e+01 b.55.1.1 119536 1aocA 175 7.07e+01 1aocA g.17.1.5 44817 2o5cA 659 7.09e+01 1i7dA 659 7.28e+01 1d6mA e.10.1.1 61886 1zsoA 164 7.31e+01 b.166.1.1 125610 2hxvA 360 7.32e+01 c.71.1.2,c.97.1.2 136859,136860 2p90A 319 7.35e+01 2b5iC 199 7.36e+01 b.1.2.1,b.1.2.1 127898,127899 3c8iA 141 7.47e+01 1ejxC 567 7.51e+01 b.92.1.1,c.1.9.2 83184,83185 1lwjA 441 7.53e+01 b.71.1.1,c.1.8.1 74303,74304 1uisA 231 7.56e+01 d.22.1.1 99431 1x3eA 165 7.57e+01 2ih8A 559 7.58e+01 b.6.1.3,b.6.1.3,b.6.1.3 137407,137408,137409 1p7tA 731 7.59e+01 c.1.13.1 94319 3cvoA 202 7.59e+01 2j78A 468 7.60e+01 c.1.8.4 138099 1hurA 180 7.63e+01 1hurA c.37.1.8 32052 1l3iA 192 7.63e+01 c.66.1.22 77676 2ag4A 164 7.66e+01 b.95.1.1 126717 2bw2A 140 7.75e+01 1u7bA 261 7.77e+01 d.131.1.2,d.131.1.2 113083,113084 1qxrA 189 7.85e+01 b.82.1.7 96552 1of8A 370 7.88e+01 c.1.10.4 92819 2r47A 157 7.97e+01 1vzqH 250 7.98e+01 1j0hA 588 7.99e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029