# 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 1snzA 344 3.07e-24 b.30.5.4 98930 1nszA 347 3.36e-19 b.30.5.4 80724 1lurA 339 1.05e-18 b.30.5.4 84717 1z45A 699 1.13e-17 b.30.5.4,c.2.1.2 124427,124428 1ygaA 342 2.61e-17 2cirA 297 1.84e-15 2htaA 309 9.99e-15 1jovA 270 7.83e-13 b.30.5.7 84192 3bs6A 280 4.72e-01 2h1tA 188 6.61e-01 2qe8A 343 9.80e-01 1elvA 333 1.16e+00 5ptp b.47.1.2,g.18.1.1 59454,59455 1w6gA 646 1.55e+00 b.30.2.1,d.17.2.1,d.17.2.1 120660,120661,120662 1vclA 432 1.73e+00 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1rjoA 646 1.83e+00 b.30.2.1,d.17.2.1,d.17.2.1 111832,111833,111834 3blcA 330 1.95e+00 2d1wA 638 2.16e+00 b.30.2.1,d.17.2.1,d.17.2.1 131145,131146,131147 2be1A 339 2.17e+00 1ui7A 638 2.40e+00 b.30.2.1,d.17.2.1,d.17.2.1 99413,99414,99415 1te5A 257 2.66e+00 d.153.1.1 106795 1yewA 382 2.84e+00 1ui8A 638 2.85e+00 b.30.2.1,d.17.2.1,d.17.2.1 99419,99420,99421 2b9lA 394 3.00e+00 1y3tA 337 3.47e+00 b.82.1.5 122600 2ag9A 164 4.00e+00 2ac1A 541 4.34e+00 2qxiA 224 4.39e+00 2h0vA 338 4.75e+00 1dq3A 454 5.38e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1w8oA 601 5.52e+00 b.1.18.2,b.18.1.1,b.68.1.1 114374,114375,114376 1mzyA 333 5.74e+00 b.6.1.3,b.6.1.3 103848,103849 1h54A 754 6.46e+00 a.102.1.4,b.30.5.3 60634,60635 1sx5A 244 6.47e+00 c.52.1.2 99023 1iqyA 638 6.65e+00 b.30.2.1,d.17.2.1,d.17.2.1 76763,76764,76765 2ghsA 326 6.96e+00 b.68.6.1 135209 1w18A 493 7.20e+00 1hn0A 1021 7.28e+00 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 2aq5A 402 7.86e+00 2cwsA 237 8.28e+00 2d73A 738 8.73e+00 1so9A 164 8.87e+00 b.146.1.1 105842 1b9vA 390 8.92e+00 2qwc b.68.1.1 27603 1k3iA 656 9.41e+00 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 2qc1B 212 9.67e+00 2vdaA 828 1.05e+01 1z5hA 780 1.06e+01 1eaxA 241 1.06e+01 b.47.1.2 64889 1pl3A 186 1.08e+01 b.1.9.1 88158 1wcqA 601 1.08e+01 b.1.18.2,b.18.1.1,b.68.1.1 120894,120895,120896 3sil 379 1.16e+01 3sil 3silA 379 1.16e+01 b.68.1.1 27542 1ltoA 245 1.18e+01 b.47.1.2 84707 2a50B 168 1.21e+01 1eonA 245 1.28e+01 1rvaA c.52.1.2 33238 1g13A 162 1.31e+01 1g13A b.95.1.1 60194 1lp3A 519 1.32e+01 b.121.5.2 74169 2f9nA 245 1.34e+01 2ag4A 164 1.39e+01 b.95.1.1 126717 1zhpA 238 1.40e+01 2nqcA 138 1.42e+01 1nn6A 228 1.44e+01 b.47.1.2 85893 1nls 237 1.45e+01 1nls 2z3zA 706 1.49e+01 1u0tA 307 1.50e+01 e.52.1.1 107567 2avtA 378 1.53e+01 2uu8A 237 1.55e+01 1d7cA 190 1.55e+01 1d7bA b.1.9.1 22309 1eylA 186 1.58e+01 1wba b.42.4.1 25593 2d5lA 706 1.67e+01 2q5iA 691 1.76e+01 2ojhA 297 1.78e+01 1euwA 152 1.82e+01 1dupA b.85.4.1 28349 1xmzA 241 1.82e+01 2btvA 901 1.83e+01 2btvA e.28.1.1 43376 1gpr 162 1.88e+01 1gpr 1gprA 162 1.88e+01 b.84.3.1 28267 1a0lA 244 1.93e+01 5ptp b.47.1.2 26286 3b8xA 390 2.04e+01 1zpuA 534 2.07e+01 1bcpB 199 2.08e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 2a9gA 418 2.10e+01 d.126.1.4 126435 1genA 218 2.16e+01 b.66.1.1 27536 2ze0A 555 2.17e+01 2a15A 139 2.22e+01 d.17.4.3 125973 2p4oA 306 2.27e+01 1p57B 255 2.29e+01 b.47.1.2 94126 1jssA 224 2.29e+01 d.129.3.2 71844 2qxvA 361 2.29e+01 2mspA 126 2.37e+01 1mspA b.1.11.2 22335 1cv8 174 2.38e+01 1cv8 1cv8A 174 2.38e+01 d.3.1.1 37089 2p52A 196 2.38e+01 2geeA 203 2.50e+01 1k1xA 659 2.51e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 2ioiA 201 2.51e+01 2z8gA 549 2.57e+01 1cfb 205 2.60e+01 1cfb 1cfbA 205 2.60e+01 b.1.2.1,b.1.2.1 21991,21992 1dzlA 505 2.67e+01 1dzlA b.121.6.1 23586 1fi8A 228 2.68e+01 5ptp b.47.1.2 26374 2v9lA 274 2.70e+01 1gof 639 2.72e+01 1gof 2dawA 154 2.72e+01 1mixA 206 2.73e+01 a.11.2.1,b.55.1.5 79166,79167 1e1hA 287 2.80e+01 d.92.1.7 83167 1zhrA 238 2.80e+01 1x0cA 549 2.93e+01 1xszA 356 2.96e+01 a.118.3.1,d.129.9.1 116005,116006 1xx9A 238 2.98e+01 b.47.1.2 116149 2aenA 164 3.04e+01 1zhmA 238 3.06e+01 2qqjA 325 3.07e+01 1nkgA 508 3.08e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1fgyA 127 3.09e+01 1faoA b.55.1.1 26976 1j5uA 136 3.17e+01 d.208.1.1 71584 1vjjA 692 3.17e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1gesA 450 3.27e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1umzA 278 3.27e+01 b.29.1.2 99639 1arb 268 3.33e+01 1arb 1arbA 268 3.33e+01 b.47.1.1 25766 1pexA 207 3.34e+01 b.66.1.1 27540 1opoA 348 3.41e+01 b.121.4.7 87240 1k8kC 372 3.44e+01 b.69.4.1 68308 1gvkB 240 3.46e+01 b.47.1.2 70610 1rg8A 146 3.50e+01 b.42.1.1 111801 1gxrA 337 3.56e+01 b.69.4.1 70722 1zhxA 438 3.57e+01 d.338.1.1 125112 1qwzA 235 3.58e+01 b.100.1.1 96510 2b5iC 199 3.60e+01 b.1.2.1,b.1.2.1 127898,127899 1ejxB 101 3.61e+01 b.85.3.1 83183 1m1lA 236 3.63e+01 d.260.1.1 91166 3brgC 427 3.65e+01 2a6vA 226 3.69e+01 b.29.1.13 126312 1v3eA 431 3.72e+01 b.68.1.1 100287 2gc1A 188 3.75e+01 b.82.1.7 134928 3c8dA 403 3.79e+01 2p7jA 287 3.82e+01 1l8rA 101 3.90e+01 a.6.1.4 73700 1t5eA 360 3.96e+01 f.46.1.1 106436 1hyuA 521 3.97e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 3cihA 739 4.06e+01 2g8sA 353 4.13e+01 2rg4A 216 4.14e+01 1rmg 422 4.19e+01 1rmg 1rmgA 422 4.19e+01 b.80.1.3 28029 2vl0A 321 4.19e+01 1r8nA 185 4.25e+01 b.42.4.1 104851 1wnhA 225 4.28e+01 1oe1A 336 4.30e+01 b.6.1.3,b.6.1.3 86891,86892 2ovrB 445 4.33e+01 1ekfA 365 4.37e+01 1ekfA e.17.1.1 59445 2d3vA 196 4.44e+01 1qnjA 240 4.53e+01 5ptp b.47.1.2 26238 1ndh 272 4.55e+01 1ndh 3b9cA 144 4.56e+01 1z4vA 532 4.67e+01 1afcA 140 4.68e+01 1bfg b.42.1.1 25506 1lshA 1056 4.79e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1zsoA 164 4.81e+01 b.166.1.1 125610 1x82A 190 4.84e+01 b.82.1.7 114955 1qxrA 189 4.84e+01 b.82.1.7 96552 3cvoA 202 4.87e+01 2mev1 277 4.90e+01 2mev1 1ao5A 237 4.92e+01 5ptp b.47.1.2 26334 2ff4A 388 4.97e+01 a.4.6.1,a.118.8.3,b.26.1.2 133367,133368,133369 1z8kA 193 5.05e+01 b.159.1.1 124703 2ofzA 138 5.05e+01 2bbvA 363 5.14e+01 2bbvA b.121.4.4 23323 2p90A 319 5.15e+01 1yfqA 342 5.15e+01 b.69.4.2 116680 1u2bA 138 5.19e+01 b.55.1.1 119474 1hurA 180 5.23e+01 1hurA c.37.1.8 32052 2b6hA 192 5.40e+01 c.37.1.8 127994 2oq5A 232 5.41e+01 2vgbA 528 5.48e+01 2ojwA 384 5.50e+01 1q2bA 434 5.52e+01 b.29.1.10 95624 1sefA 274 5.57e+01 b.82.1.11 105452 1abrB 267 5.57e+01 1abrB b.42.2.1,b.42.2.1 25563,25564 2brjA 188 5.58e+01 1egnA 434 5.60e+01 1celA b.29.1.10 59411 1nscA 390 5.68e+01 2qwc b.68.1.1 27591 3cp0A 82 5.75e+01 1zj8A 566 5.75e+01 1utcA 363 5.76e+01 a.118.1.4,b.69.6.1 99914,99915 1dymA 402 5.83e+01 1celA b.29.1.10 24304 1kbpA 432 5.85e+01 4kbpA b.1.12.1,d.159.1.1 22349,42068 1h0hA 977 5.87e+01 b.52.2.2,c.81.1.1 76435,76436 2awaA 390 5.89e+01 1m9uA 241 5.92e+01 b.47.1.2 74601 1pbyA 489 5.93e+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 2dvyA 226 5.94e+01 2a1hA 365 5.95e+01 e.17.1.1 125997 1mkfA 382 5.98e+01 b.116.1.1 79232 1p3hA 99 5.98e+01 b.35.1.1 87734 1es6A 296 6.08e+01 1es6A b.31.1.1,b.31.1.1 83048,83049 2v9tB 220 6.15e+01 1mctA 223 6.15e+01 5ptp b.47.1.2 25961 1fm4A 159 6.19e+01 1bv1 d.129.3.1 76186 1lp9E 194 6.20e+01 b.1.1.1,b.1.1.2 91086,91087 2pjsA 119 6.31e+01 1cq3A 233 6.35e+01 1cq3A b.27.1.1 23923 1fcdA 401 6.38e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1p63A 144 6.40e+01 b.42.1.1 94153 1vf7A 369 6.41e+01 f.46.1.1 108557 1q0eA 152 6.44e+01 b.1.8.1 95504 2a31A 223 6.48e+01 b.47.1.2 126068 2fu5C 183 6.48e+01 c.37.1.8 134104 2vovA 336 6.56e+01 1lmiA 131 6.60e+01 b.1.19.1 78098 1gvhA 396 6.70e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1ojjA 402 6.75e+01 b.29.1.10 93130 1gnd 447 6.78e+01 1gnd 2d0jA 246 6.78e+01 4kbpA 432 6.79e+01 4kbpA b.1.12.1,d.159.1.1 22345,42064 1y56B 382 6.82e+01 2bo9B 222 6.90e+01 d.17.1.5,d.17.1.5 128898,128899 1of8A 370 6.93e+01 c.1.10.4 92819 2fjtA 182 6.93e+01 1ybyA 215 6.97e+01 1k3bA 119 7.11e+01 b.61.5.1 72016 2oqcA 327 7.18e+01 1ww7A 160 7.21e+01 1v1hA 103 7.24e+01 b.83.1.1,h.1.17.1 108243,108244 1rc6A 261 7.25e+01 b.82.1.11 97287 1h9hE 223 7.30e+01 b.47.1.2 103810 1wl7A 312 7.32e+01 b.67.2.1 120996 1fg7A 356 7.43e+01 1gewA c.67.1.1 59819 1zuxA 224 7.51e+01 1h2wA 710 7.59e+01 b.69.7.1,c.69.1.4 76596,76597 1f60A 458 7.59e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1o6gA 710 7.62e+01 b.69.7.1,c.69.1.4 81087,81088 1v0aA 178 7.83e+01 b.18.1.30 119815 1hnf 182 7.83e+01 1qa9A 1hnfA 182 7.83e+01 b.1.1.1,b.1.1.3 19741,21680 1bv1 159 7.84e+01 1bv1 1ppfE 218 7.85e+01 1a7s b.47.1.2 26234 1zy9A 564 7.85e+01 b.30.5.11,c.1.8.13 125813,125814 1gewA 356 7.87e+01 1gewA c.67.1.1 60470 1vm7A 311 7.88e+01 c.72.1.1 108884 1avaC 181 7.91e+01 1avaC b.42.4.1 25604