# List of top-scoring protein chains for t06-100-30-bys-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 1ihgA 370 5.50e-38 2cpl a.118.8.1,b.62.1.1 62380,62381 1dywA 173 1.00e-37 2cpl b.62.1.1 27505 1yndA 165 1.14e-37 1h0pA 182 1.39e-36 b.62.1.1 76450 1lopA 164 1.99e-28 2cpl b.62.1.1 27510 3sil 379 4.64e-01 3sil b.68.1.1 27542 1dqiA 124 6.79e-01 1do6A b.1.13.1 22357 1mxiA 160 1.33e+00 c.116.1.1 79646 1icpA 376 1.35e+00 1oyc c.1.4.1 62270 1vyrA 364 1.47e+00 c.1.4.1 108906 1dz3A 130 1.50e+00 1dz3A c.23.1.1 31105 1pa1A 310 2.56e+00 c.45.1.2 94404 1dzlA 505 2.83e+00 1dzlA b.121.6.1 23586 1h7sA 365 3.00e+00 d.14.1.3,d.122.1.2 65705,65706 1i6aA 219 3.25e+00 c.94.1.1 61827 1lam 484 3.36e+00 1lam c.50.1.1,c.56.5.3 33166,33829 1gteA 1025 3.41e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1qwgA 251 3.82e+00 c.1.27.1 96473 2fneA 117 4.09e+00 1gj7B 253 4.75e+00 1ezwA 349 4.86e+00 1ezwA c.1.16.3 29558 1fjgE 162 4.93e+00 1pkp d.14.1.1,d.50.1.2 37553,38789 1c96A 753 5.39e+00 1amj c.8.2.1,c.83.1.1 30727,35403 1thfD 253 5.62e+00 1thfD c.1.2.1 28535 1cliA 345 7.04e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 2gk3A 256 7.40e+00 1lq9A 112 7.56e+00 d.58.4.3 78129 1qwyA 291 8.17e+00 b.84.3.2 96509 1o7iA 119 9.17e+00 b.40.4.3 86642 1sgwA 214 1.08e+01 c.37.1.12 105541 1jtdB 273 1.11e+01 b.69.5.2 67265 1dg9A 157 1.14e+01 1dg9A c.44.1.1 32637 1hq8A 123 1.16e+01 1b6e d.169.1.1 61127 1vfjA 116 1.19e+01 1a70 97 1.21e+01 1awd d.15.4.1 37678 1g8sA 230 1.23e+01 c.66.1.3 90507 1o4vA 183 1.24e+01 c.23.8.1 86628 1oxxK 353 1.25e+01 b.40.6.3,c.37.1.12 93715,93716 1ekgA 127 1.33e+01 1dlxA d.82.2.1 40021 1fj2A 232 1.35e+01 1auoA c.69.1.14 34720 1xubA 298 1.36e+01 1h4xA 117 1.41e+01 1auz c.13.2.1 60626 1dl5A 317 1.48e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1lf7A 182 1.48e+01 b.60.1.1 73878 1a8s 273 1.54e+01 1brt c.69.1.12 34710 1gotG 73 1.58e+01 1tbgE a.137.3.1 19629 1mqoA 227 1.60e+01 d.157.1.1 103846 1rzhH 260 1.62e+01 b.41.1.1,f.23.10.1 98162,98163 1oflA 481 1.65e+01 b.80.1.4 103934 1v6sA 390 1.67e+01 c.86.1.1 100424 1fh0A 221 1.70e+01 1cs8A d.3.1.1 59832 1dysA 348 1.72e+01 1bvwA c.6.1.1 30669 1ve2A 235 1.75e+01 1elvA 333 1.76e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1vlaA 150 1.76e+01 d.227.1.2 108735 1e1oA 504 1.84e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1d3gA 367 1.85e+01 1d3gA c.1.4.1 28600 1s2oA 244 1.92e+01 1bed 181 1.92e+01 1fvkA c.47.1.13 90330 1fsgA 233 1.97e+01 1qk3A c.61.1.1 34029 1pz7A 204 1.98e+01 b.29.1.4 95405 1ejxC 567 2.05e+01 b.92.1.1,c.1.9.2 83184,83185 1e5kA 201 2.07e+01 1fr9A c.68.1.8 34578 1h3nA 878 2.22e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1v7wA 807 2.31e+01 a.102.1.4,b.30.5.3 108411,108412 1rx0A 393 2.36e+01 a.29.3.1,e.6.1.1 98007,98008 1awd 94 2.39e+01 1awd d.15.4.1 37673 1llnA 262 2.50e+01 d.165.1.1 84625 1gd0A 122 2.60e+01 1dptA d.80.1.3 39834 1w2wB 191 2.62e+01 1vhwA 253 2.65e+01 c.56.2.1 100706 1i12A 160 2.66e+01 1i21A d.108.1.1 61515 1i3cA 149 2.74e+01 c.23.1.1 71112 1lqtA 456 2.75e+01 c.3.1.1,c.4.1.1 74198,74199 1w96A 554 2.76e+01 1j7gA 144 2.78e+01 c.110.1.1 84130 1zoiA 276 2.81e+01 1dgnA 89 2.85e+01 1dgnA a.77.1.3 18436 1h30A 422 2.91e+01 b.29.1.4,b.29.1.4 76604,76605 1nkiA 135 2.98e+01 d.32.1.2 91941 1b77A 228 3.01e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1nycA 111 3.08e+01 b.61.2.2 92336 1kgsA 225 3.13e+01 a.4.6.1,c.23.1.1 68596,68597 1mfgA 95 3.17e+01 b.36.1.1 79043 1byrA 155 3.19e+01 1byrA d.136.1.1 41450 1yleA 342 3.19e+01 1dekA 241 3.21e+01 1dekA c.37.1.1 31842 1fxkB 109 3.21e+01 1fxkA a.2.5.1 15704 1ewnA 219 3.24e+01 1bnkA b.46.1.2 25762 1ogiA 303 3.33e+01 b.43.4.2,c.25.1.1 92914,92915 1us5A 314 3.33e+01 c.94.1.1 99856 1e9pA 151 3.41e+01 1mfmA b.1.8.1 22215 1in6A 334 3.45e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1oygA 447 3.46e+01 b.67.2.2 93726 1j71A 334 3.53e+01 1eagA b.50.1.2 62669 1ocyA 198 3.59e+01 d.231.1.1 86817 2sli 679 3.60e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1vjvA 415 3.64e+01 d.3.1.9 108632 1hy7A 173 3.73e+01 d.92.1.11 65957 1n40A 396 3.82e+01 a.104.1.1 79977 1h5rA 293 3.84e+01 c.68.1.6 65623 1aisA 182 3.89e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1lv7A 257 3.93e+01 c.37.1.20 78232 1k07A 263 3.95e+01 d.157.1.1 77218 1fonA 240 3.99e+01 5ptp b.47.1.2 26231 1jbeA 128 4.02e+01 3chy c.23.1.1 62845 1ixkA 315 4.06e+01 c.66.1.38 90716 1h5uA 842 4.29e+01 1a8i c.87.1.4 60655 1xocA 520 4.31e+01 1acf 125 4.33e+01 3nul d.110.1.1 40882 1jfbA 404 4.41e+01 a.104.1.1 66624 1guiA 155 4.46e+01 b.18.1.14 76351 1frrA 95 4.51e+01 1awd d.15.4.1 37674 1h8dH 260 4.55e+01 5ptp 1lniA 96 4.57e+01 d.1.1.2 74046 1m40A 263 4.57e+01 e.3.1.1 74437 1qe3A 489 4.69e+01 2bce c.69.1.1 34630 1bfg 146 4.73e+01 1bfg b.42.1.1 25485 1jer 138 4.79e+01 2cbp b.6.1.1 23022 1bqcA 302 4.81e+01 1bqcA c.1.8.3 28831 1p5vA 235 4.82e+01 b.1.11.1,b.7.2.1 87812,87813 1pbyA 489 4.84e+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 1jmuB 666 4.88e+01 1xk7A 408 4.88e+01 1jb9A 316 4.90e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1j4aA 333 4.94e+01 c.2.1.4,c.23.12.1 71502,71503 1kw3B 292 4.95e+01 d.32.1.3,d.32.1.3 77549,77550 1r29A 127 4.99e+01 d.42.1.1 96856 1brfA 53 5.01e+01 1rb9 g.41.5.1 45236 1v0wA 506 5.09e+01 d.136.1.2,d.136.1.2 108220,108221 1rtqA 299 5.12e+01 c.56.5.4 97819 1hyvA 166 5.21e+01 1b9dA c.55.3.2 61424 1ursA 402 5.27e+01 c.94.1.1 99833 1hqz1 141 5.44e+01 1j5pA 253 5.46e+01 d.81.1.3,c.2.1.3 71577,83092 1f4pA 147 5.51e+01 5nul c.23.5.1 59651 1vkpA 383 5.52e+01 d.126.1.6 108686 1a0tP 413 5.53e+01 1a0tP f.4.3.2 43794 1jl3A 139 5.64e+01 c.44.1.1 66826 1uxy 340 5.69e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1rp0A 284 5.69e+01 1isiA 265 5.74e+01 e.4.1.1 71394 1a2zA 220 5.75e+01 1a2zA c.56.4.1 33794 1ju2A 536 5.78e+01 c.3.1.2,d.16.1.1 77169,77170 1ooyA 481 5.81e+01 c.124.1.3,c.124.1.2 93388,93389 1u0fA 564 6.02e+01 1dkiA 371 6.03e+01 1dkiA d.3.1.1 37090 1dxrH 258 6.05e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1erjA 393 6.07e+01 1erjA b.69.4.1 27660 1a12A 413 6.11e+01 1a12A b.69.5.1 27663 1ea5A 537 6.13e+01 2bce c.69.1.1 34592 1rk6A 496 6.18e+01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 1ojrA 274 6.20e+01 c.74.1.1 93147 1mb3A 124 6.23e+01 c.23.1.1 78907 1vhuA 211 6.26e+01 c.50.1.2 100703 1ogwA 76 6.28e+01 d.15.1.1 87001 1gesA 450 6.42e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1amm 174 6.43e+01 1amm b.11.1.1,b.11.1.1 23587,23588 1f20A 435 6.43e+01 b.43.4.1,c.25.1.4 64932,64933 1oalA 151 6.44e+01 b.1.8.1 86739 1vclA 432 6.46e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1ah7 245 6.48e+01 1ah7 a.124.1.1 19339 1xqaA 113 6.50e+01 1ja1A 622 6.53e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1dgwX 79 6.54e+01 1caxB b.82.1.2 28091 1si6X 282 6.70e+01 1ffyA 917 6.73e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1jh3A 107 6.73e+01 d.66.1.4 71661 1e9rA 437 6.76e+01 c.37.1.11 64827 1kicA 339 6.80e+01 c.70.1.1 72510 1n62B 809 6.85e+01 d.41.1.1,d.133.1.1 80092,80093 1jmxA 494 6.89e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1cp2A 269 6.91e+01 1cp2A c.37.1.10 32269 1sjwA 144 7.00e+01 d.17.4.9 98899 1k92A 455 7.02e+01 c.26.2.1,d.210.1.1 68325,68326 1nytA 271 7.13e+01 c.2.1.7,c.58.1.5 86417,86418 1bcpB 199 7.16e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 1nykA 165 7.18e+01 b.33.1.1 86408 1iscA 192 7.20e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1llfA 534 7.30e+01 c.69.1.17 78094 1tt8A 164 7.30e+01 1gtmA 419 7.37e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1f3lA 321 7.38e+01 1g6q2 c.66.1.6 59630 1sh8A 154 7.45e+01 d.38.1.5 105549 1opd 85 7.50e+01 1ptf d.94.1.1 40560 1gkmA 509 7.54e+01 a.127.1.2 70228 1mpgA 282 7.67e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1uozA 315 7.73e+01 1l3kA 196 7.76e+01 d.58.7.1,d.58.7.1 73539,73540 1hh5A 68 7.86e+01 1new a.138.1.1 61041 1iueA 98 7.91e+01 d.15.4.1 90697 1fjjA 159 8.01e+01 1fjjA b.17.1.2 59852 1el6A 219 8.02e+01 1el6B d.182.1.1 42606 1f7dA 136 8.09e+01 1dun b.85.4.1 28353 1vj2A 126 8.10e+01 b.82.1.10 100796 1iirA 415 8.17e+01 1iirA c.87.1.5 62453 1byfA 125 8.20e+01 1byfA d.169.1.1 42419 1pmhX 185 8.20e+01 b.18.1.18 104193 1gouA 116 8.29e+01 d.1.1.2 65429 1dzfA 215 8.34e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1j30A 144 8.49e+01 a.25.1.1 90806 1ji6A 589 8.53e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1z2uA 150 8.54e+01 1ee6A 197 8.66e+01 1ee6A b.80.1.1 28024 1dmgA 225 8.67e+01 1dmgA c.22.1.1 31036 1pbjA 125 8.69e+01 d.37.1.1,d.37.1.1 94414,94415 1ijbA 202 8.72e+01 c.62.1.1 71229 1mr7A 209 8.79e+01 b.81.1.3 91430 1b9hA 388 8.79e+01 1b9hA c.67.1.4 34488 1w0nA 131 8.83e+01 1i0vA 104 8.91e+01 9rnt d.1.1.4 36054 1xttA 216 8.91e+01 1frd 98 8.95e+01 1awd d.15.4.1 37648 1xy7A 166 8.95e+01