# 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.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 2gj8A 172 2.36e-01 1avaA 403 3.05e-01 1jdc b.71.1.1,c.1.8.1 27797,28784 1amy 403 3.31e-01 1jdc b.71.1.1,c.1.8.1 27799,28786 1vggA 161 3.50e-01 1vp4A 425 3.71e-01 1jztA 246 1.34e+00 c.104.1.1 63319 2al2A 436 1.55e+00 1e9rA 437 1.70e+00 c.37.1.11 64827 1oneA 436 1.78e+00 4enl c.1.11.1,d.54.1.1 29200,38844 1phk 298 1.81e+00 1cdkA d.144.1.7 41635 1uirA 314 1.88e+00 c.66.1.17 99429 1lc5A 364 1.95e+00 c.67.1.1 73827 4enl 436 1.96e+00 4enl c.1.11.1,d.54.1.1 29202,38846 1ng4A 390 2.26e+00 c.3.1.2,d.16.1.3 85666,85667 1eg9A 449 2.31e+00 1ndoA b.33.1.2,d.129.3.3 24443,41322 2al1A 436 2.36e+00 1bqk 124 2.41e+00 1bqk b.6.1.1 22889 1w77A 228 2.56e+00 1ryiA 382 2.58e+00 1xbsA 149 2.64e+00 1o7nA 449 2.69e+00 b.33.1.2,d.129.3.3 81162,81163 1vl6A 388 2.97e+00 c.2.1.7,c.58.1.3 108724,108725 2fckA 181 3.31e+00 1ht6A 405 3.46e+00 b.71.1.1,c.1.8.1 83629,83630 1xwyA 264 4.18e+00 1fcyA 236 4.61e+00 2lbd a.123.1.1 19282 1dar 691 5.01e+00 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 2ffuA 501 5.04e+00 1wstA 417 5.05e+00 2gzaA 361 5.63e+00 1te6A 439 5.66e+00 c.1.11.1,d.54.1.1 106797,106798 1ko6A 187 5.81e+00 b.119.1.1 77471 1xewY 172 6.28e+00 1aszB 490 6.78e+00 1b8aA b.40.4.1,d.104.1.1 25241,40762 1s2dA 167 6.91e+00 c.23.14.1 98377 2a7mA 250 7.20e+00 2akzA 439 7.59e+00 1yb0A 159 8.12e+00 1r5tA 142 8.22e+00 c.97.1.1 104812 2g5cA 281 8.24e+00 1qysA 106 8.77e+00 k.41.1.1 96603 1w1wA 430 8.92e+00 1ymqA 261 9.46e+00 1f2tB 148 9.54e+00 1f2tB 2c1lA 358 9.55e+00 1u2zA 433 9.91e+00 c.66.1.31 107626 2av4A 162 1.02e+01 1qo0D 196 1.06e+01 1qo0D c.23.1.3 31125 1q2lA 939 1.07e+01 2cxcA 144 1.11e+01 1d8wA 426 1.23e+01 1de5A c.1.15.2 29394 1nrfA 262 1.30e+01 e.3.1.1 92086 1t3tA 1303 1.36e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1htqA 477 1.38e+01 d.15.9.1,d.128.1.1 71035,71036 1pzxA 289 1.40e+01 c.119.1.1 95484 1ri7A 171 1.44e+01 a.4.5.32,d.58.4.2 97504,97505 1b7gO 340 1.46e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1jmtA 104 1.48e+01 d.58.7.3 63180 2cviA 83 1.51e+01 1b8oA 284 1.54e+01 1b8oA c.56.2.1 33762 2eueA 279 1.60e+01 1fo8A 343 1.60e+01 1foaA c.68.1.10 59927 2av5A 120 1.60e+01 1u2wA 122 1.69e+01 1ve0A 134 1.76e+01 1wduA 245 1.76e+01 d.151.1.1 109286 1rwzA 245 1.77e+01 d.131.1.2,d.131.1.2 98005,98006 1yj7A 171 1.84e+01 1p0iA 529 1.91e+01 c.69.1.1 93867 1jx2B 315 1.92e+01 c.37.1.8 67404 1xhbA 472 1.95e+01 1wvqA 167 1.95e+01 1krhA 338 1.97e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1gefA 123 1.98e+01 1gefA c.52.1.18 60465 1slqA 278 2.00e+01 f.47.1.1 105719 1wi1A 126 2.04e+01 2ab5A 269 2.05e+01 2fuvA 549 2.12e+01 1sviA 195 2.15e+01 c.37.1.8 106048 1fsz 372 2.20e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1zpvA 91 2.24e+01 2bhuA 602 2.28e+01 1yloA 348 2.28e+01 1e5eA 404 2.30e+01 1ibjA c.67.1.3 59265 2fmr 65 2.32e+01 2fmr d.51.1.1 38808 1gewA 356 2.33e+01 1gewA c.67.1.1 60470 1pcfA 66 2.37e+01 1pcfA d.18.1.1 38142 1g55A 343 2.38e+01 1g55A c.66.1.26 34247 1tvfA 369 2.40e+01 b.105.1.2,e.3.1.1 107358,107359 2fiqA 420 2.40e+01 1yghA 164 2.42e+01 1yghA d.108.1.1 40802 1k8rB 110 2.47e+01 d.15.1.5 72180 1r8sA 164 2.58e+01 c.37.1.8 97247 1lci 550 2.61e+01 1lci e.23.1.1 43349 1uwsA 489 2.65e+01 c.1.8.4 108073 1ursA 402 2.68e+01 c.94.1.1 99833 2bo4A 397 2.69e+01 1vjeA 166 2.70e+01 d.185.1.2 100807 1innA 166 2.70e+01 1j98A d.185.1.2 62608 1vr9A 213 2.76e+01 1frpA 335 2.77e+01 1frpA e.7.1.1 42875 2bleA 367 2.86e+01 1fvgA 199 2.87e+01 1fvaA d.58.28.1 39408 1jmsA 381 2.89e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 2b61A 377 2.94e+01 3pmgA 561 2.94e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1cl1A 395 2.96e+01 1cl2A c.67.1.3 34395 1k2fA 190 3.07e+01 b.8.1.2 68054 1fg7A 356 3.10e+01 1gewA c.67.1.1 59819 1cvrA 435 3.12e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1zd9A 188 3.12e+01 1o4sA 389 3.15e+01 c.67.1.1 86620 1eceA 358 3.16e+01 1eceA c.1.8.3 28813 1ltoA 245 3.17e+01 b.47.1.2 84707 1i9gA 280 3.18e+01 c.66.1.13 62090 1lvwA 295 3.19e+01 c.68.1.6 84723 2fliA 220 3.25e+01 1nslA 184 3.27e+01 d.108.1.1 86137 1wn5A 130 3.27e+01 1u1hA 765 3.27e+01 c.1.22.2,c.1.22.2 107580,107581 1u1jA 765 3.30e+01 c.1.22.2,c.1.22.2 107590,107591 2f1rA 171 3.35e+01 1nv8A 284 3.35e+01 c.66.1.30 86224 2ge3A 170 3.39e+01 1fzyA 149 3.40e+01 d.20.1.1 65072 2es7A 142 3.41e+01 1rq2A 382 3.43e+01 c.32.1.1,d.79.2.1 105048,105049 1vcbA 118 3.46e+01 1vcbA d.15.1.1 37603 1wggA 96 3.48e+01 1zbsA 291 3.48e+01 2c1cA 312 3.50e+01 1ws0A 156 3.50e+01 1j27A 102 3.57e+01 d.58.50.1 90778 1vheA 373 3.64e+01 b.49.3.1,c.56.5.4 100669,100670 2faoA 309 3.67e+01 1fa0A 537 3.76e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1yr0A 175 3.78e+01 1ia9A 280 3.81e+01 1ia9A d.144.1.5 62113 2gcfA 73 3.85e+01 1ef1C 90 3.85e+01 1ef1C a.137.5.1 19642 1yc5A 246 3.94e+01 1vi4A 174 4.00e+01 c.8.7.1 100731 1h6zA 913 4.04e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 2f5gA 133 4.08e+01 2fnjB 118 4.11e+01 1geqA 248 4.14e+01 2tysA c.1.2.4 28589 1n3bA 216 4.15e+01 c.37.1.1 79959 1s96A 219 4.17e+01 c.37.1.1 98740 1dqpA 230 4.18e+01 1dqnA c.61.1.1 34069 1vk3A 615 4.20e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1vqsA 116 4.23e+01 1twfK 120 4.26e+01 1bdfA 235 4.27e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1k0fA 277 4.28e+01 c.92.2.2 71974 1xdpA 687 4.33e+01 1a0i 348 4.37e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1yckA 175 4.38e+01 1cl8A 276 4.39e+01 1ckqA c.52.1.1 33230 1p8kZ 254 4.40e+01 d.95.2.1,d.95.2.1 94361,94362 2f9nA 245 4.43e+01 1wqaA 455 4.44e+01 1d3yA 301 4.45e+01 1d3yA e.12.1.1 43252 2bvcA 486 4.47e+01 1pieA 419 4.47e+01 d.14.1.5,d.58.26.7 94706,94707 2dbbA 151 4.48e+01 1vig 71 4.48e+01 1vih d.51.1.1 38806 1pdz 434 4.49e+01 4enl c.1.11.1,d.54.1.1 29215,38859 2a0jA 149 4.51e+01 1t8tA 271 4.54e+01 c.37.1.5 106685 2glfA 450 4.59e+01 1q9uA 130 4.59e+01 d.129.7.1 96314 2b4aA 138 4.59e+01 4crxA 322 4.59e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1dqnA 230 4.63e+01 1dqnA c.61.1.1 34067 1tcvA 287 4.78e+01 1o58A 303 4.82e+01 c.79.1.1 92491 1id1A 153 4.86e+01 1id1A c.2.1.9 62286 1mwmA 320 4.87e+01 c.55.1.1,c.55.1.1 79580,79581 1tfr 305 4.88e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1i50K 120 5.04e+01 d.74.3.2 61765 1o3yA 166 5.11e+01 c.37.1.8 86618 1tljA 213 5.14e+01 d.282.1.1 107126 1u7lA 392 5.27e+01 1lucA 355 5.29e+01 1lucA c.1.16.1 29547 1r5lA 262 5.32e+01 a.5.3.1,c.13.1.1 97099,97100 1uh5A 329 5.36e+01 c.2.1.2 107840 2fexA 188 5.37e+01 2gu2A 312 5.43e+01 1u6mA 199 5.45e+01 1b56 135 5.48e+01 1hmt b.60.1.2 27183 1h5rA 293 5.49e+01 c.68.1.6 65623 1iukA 140 5.49e+01 c.2.1.8 83712 1f08A 148 5.52e+01 1f08A d.89.1.2 59564 2cpgA 45 5.54e+01 2cpgA a.43.1.3 17455 1bf6A 291 5.59e+01 1pscA c.1.9.3 29065 1bykA 255 5.64e+01 1bykA c.93.1.1 35706 2choA 716 5.76e+01 1f44A 324 5.85e+01 a.60.9.1,d.163.1.1 64982,64983 1oqvA 192 5.96e+01 d.24.1.2 87320 1g66A 207 5.97e+01 1bs9 c.69.1.30 31329 1kepA 348 6.04e+01 c.2.1.2 68536 1n5nA 180 6.04e+01 d.167.1.1 85336 1jx6A 342 6.08e+01 c.93.1.1 67406 1rpxA 230 6.10e+01 1rpxA c.1.2.2 28536 1ob8A 135 6.10e+01 1f2dA 341 6.13e+01 1f2dA c.79.1.1 35298 1tqjA 230 6.15e+01 c.1.2.2 107228 2ajrA 331 6.18e+01 1pvvA 315 6.19e+01 c.78.1.1,c.78.1.1 95190,95191 1nd4A 264 6.21e+01 d.144.1.6 91815 1xahA 354 6.24e+01 1nrzA 164 6.24e+01 c.38.1.1 86131 1oc2A 348 6.35e+01 c.2.1.2 92765 1wyzA 242 6.37e+01 1iyxA 432 6.43e+01 c.1.11.1,d.54.1.1 83815,83816 1vhtA 218 6.56e+01 c.37.1.1 100700 1j0dA 341 6.59e+01 c.79.1.1 83902 3tmkA 216 6.62e+01 3tmkA c.37.1.1 31920 1oj4A 283 6.64e+01 d.14.1.5,d.58.26.5 93083,93084 1oaa 259 6.64e+01 1oaa c.2.1.2 29829 1m1hA 248 6.67e+01 b.114.1.1,d.58.42.1 78415,78416 1f52A 468 6.69e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 1efpB 252 6.73e+01 1efvB c.26.2.3 31636 1ojxA 263 6.76e+01 c.1.10.1 93164 1b3aA 67 6.77e+01 1b3aA d.9.1.1 37410 2an9A 207 6.80e+01 1wwzA 159 6.82e+01 1euvB 86 6.90e+01 1a5r d.15.1.1 37598 1otjA 283 6.96e+01 b.82.2.5 93517 2h6dA 276 7.00e+01 1i2aA 219 7.04e+01 e.24.1.1 90660 1s3zA 165 7.06e+01 d.108.1.1 105250 2bb3A 221 7.06e+01 1wmhB 86 7.06e+01 2cw5A 255 7.08e+01 2ggcA 263 7.09e+01 1blxA 326 7.18e+01 1hcl d.144.1.7 41596 1svy 114 7.20e+01 1svy d.109.1.1 40831 1pu1A 94 7.22e+01 d.266.1.1 104307 1v60A 123 7.23e+01 1gegA 256 7.24e+01 1ybvA c.2.1.2 29888 2f1fA 164 7.41e+01 1k3tA 359 7.57e+01 c.2.1.3,d.81.1.1 72022,72023 1v8hA 107 7.63e+01 1rz3A 201 7.64e+01 c.37.1.6 98132 1h6hA 143 7.67e+01 d.189.1.1 65681 1nxiA 132 7.79e+01 d.58.47.1 86381 1xg8A 111 7.90e+01 1c8cA 64 7.92e+01 1azpA b.34.13.1 59084 7odcA 424 7.93e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 2czrA 226 7.93e+01 2cxxA 190 7.94e+01 1ooeA 236 7.99e+01 c.2.1.2 87196 1gowA 489 8.02e+01 1qvbA c.1.8.4 28981 3sdhA 146 8.09e+01 3sdhA a.1.1.2 14984 1g3qA 237 8.09e+01 1hyqA c.37.1.10 60237 1lm8B 118 8.09e+01 d.15.1.1 74033 2arhA 203 8.12e+01 2a5dA 175 8.15e+01 1i52A 236 8.19e+01 1i52A c.68.1.13 61767 1yp2A 451 8.19e+01 1bazA 53 8.24e+01 1bazA a.43.1.1 17421 1n4qB 377 8.30e+01 a.102.4.3 91636 1eu8A 409 8.33e+01 1eu8A c.94.1.1 59502 1w5fA 353 8.34e+01 1uouA 474 8.39e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1ycsB 239 8.40e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 1w6tA 444 8.43e+01 1ej1A 190 8.47e+01 1ejhA d.86.1.1 40144 1f8yA 157 8.51e+01 1f8xA c.23.14.1 31395 1g2rA 100 8.51e+01 1g2rA d.192.1.1 60231 1mml 265 8.55e+01 1mml e.8.1.2 43015 1k8kE 178 8.59e+01 a.148.1.1 68311 1e8cA 498 8.61e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1ec7A 446 8.62e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1qgvA 142 8.76e+01 1qgvA c.47.1.8 33056 1mumA 295 8.78e+01 c.1.12.7 85108 1z6nA 167 8.81e+01 1w8sA 263 8.83e+01 1zin 217 8.91e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1o4yA 288 8.94e+01 b.29.1.2 92473