# List of top-scoring protein chains for t06-100-30-str2-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 1wqaA 455 2.17e-01 2dbbA 151 6.93e-01 1b8oA 284 8.56e-01 1b8oA c.56.2.1 33762 1tcvA 287 1.10e+00 1e9rA 437 1.52e+00 c.37.1.11 64827 1bqk 124 1.90e+00 1bqk b.6.1.1 22889 1f2tB 148 2.34e+00 1f2tB 1vheA 373 3.17e+00 b.49.3.1,c.56.5.4 100669,100670 1vjeA 166 3.45e+00 d.185.1.2 100807 1yb0A 159 3.83e+00 1xahA 354 3.89e+00 1wtaA 275 5.04e+00 1fcyA 236 5.20e+00 2lbd a.123.1.1 19282 2av4A 162 5.37e+00 2f5gA 133 5.43e+00 1r5lA 262 5.61e+00 a.5.3.1,c.13.1.1 97099,97100 2ffuA 501 6.70e+00 1twfK 120 7.13e+00 1cb0A 283 7.16e+00 1cb0A c.56.2.1 33790 1hzdA 272 8.19e+00 c.14.1.3 65969 1zpvA 91 8.24e+00 1qe5A 266 8.35e+00 1b8oA c.56.2.1 33784 1b4bA 71 8.61e+00 1b4aA d.74.2.1 39718 2al2A 436 8.71e+00 1vp4A 425 8.74e+00 1d3yA 301 8.93e+00 1d3yA e.12.1.1 43252 1u7lA 392 8.95e+00 1s2dA 167 8.96e+00 c.23.14.1 98377 2bsxA 253 9.49e+00 2fckA 181 9.53e+00 2al1A 436 9.71e+00 2cviA 83 9.72e+00 1wi1A 126 9.84e+00 1oneA 436 9.85e+00 4enl c.1.11.1,d.54.1.1 29200,38844 1qo0D 196 9.95e+00 1qo0D c.23.1.3 31125 1odkA 235 1.07e+01 c.56.2.1 86863 1wz8A 264 1.11e+01 1w77A 228 1.13e+01 1zd9A 188 1.14e+01 1yj7A 171 1.15e+01 2a5dA 175 1.15e+01 1tfr 305 1.16e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1jysA 242 1.17e+01 c.56.2.1 77216 1s3zA 165 1.20e+01 d.108.1.1 105250 1bouB 302 1.20e+01 1bouB c.56.6.1 33859 1v60A 123 1.23e+01 1q2lA 939 1.27e+01 2akzA 439 1.36e+01 2g5cA 281 1.37e+01 1g63A 181 1.39e+01 1g5qA c.34.1.1 60299 1fxlA 167 1.43e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1g66A 207 1.43e+01 1bs9 c.69.1.30 31329 1vqsA 116 1.47e+01 2arhA 203 1.48e+01 2b4aA 138 1.50e+01 1ko6A 187 1.50e+01 b.119.1.1 77471 2cxcA 144 1.50e+01 1d3vA 323 1.56e+01 1d3vA c.42.1.1 32559 1xwyA 264 1.65e+01 1bdfA 235 1.65e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1tljA 213 1.66e+01 d.282.1.1 107126 1jndA 420 1.66e+01 c.1.8.5,d.26.3.1 71757,71758 1okgA 373 1.70e+01 c.46.1.2,c.46.1.2,d.26.1.3 93250,93251,93252 1yzfA 195 1.71e+01 1cl8A 276 1.73e+01 1ckqA c.52.1.1 33230 1b3aA 67 1.75e+01 1b3aA d.9.1.1 37410 2b0jA 358 1.77e+01 1x7oA 287 1.79e+01 1wduA 245 1.79e+01 d.151.1.1 109286 2oatA 439 1.79e+01 2dkb c.67.1.4 34452 2g40A 224 1.80e+01 1nf2A 268 1.82e+01 c.108.1.10 91849 2cw5A 255 1.84e+01 1ztuA 341 1.89e+01 1uvqB 198 1.92e+01 b.1.1.2,d.19.1.1 100064,100065 1gd1O 334 1.95e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1geqA 248 1.97e+01 2tysA c.1.2.4 28589 1pvvA 315 2.01e+01 c.78.1.1,c.78.1.1 95190,95191 1gegA 256 2.03e+01 1ybvA c.2.1.2 29888 1zejA 293 2.04e+01 1vkhA 273 2.10e+01 c.69.1.32 108662 1mzbA 136 2.12e+01 a.4.5.42 91497 1in0A 163 2.20e+01 d.58.49.1,d.58.49.1 83694,83695 3pmgA 561 2.24e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1wjuA 100 2.24e+01 2c0nA 203 2.25e+01 1h6hA 143 2.28e+01 d.189.1.1 65681 2fiqA 420 2.29e+01 1sw6A 327 2.31e+01 1sw6A d.211.1.1 19176 1r3sA 367 2.32e+01 c.1.22.1 96963 1jmtA 104 2.38e+01 d.58.7.3 63180 1uirA 314 2.40e+01 c.66.1.17 99429 1oqvA 192 2.43e+01 d.24.1.2 87320 2gcfA 73 2.46e+01 1wj9A 211 2.47e+01 1g0cA 364 2.47e+01 7a3hA c.1.8.3 60165 2b7kA 200 2.51e+01 1sviA 195 2.52e+01 c.37.1.8 106048 1t4aA 84 2.57e+01 d.284.1.1 106404 2btzA 394 2.64e+01 2choA 716 2.68e+01 1nrjB 218 2.69e+01 c.37.1.8 86125 2fuvA 549 2.70e+01 1vr4A 103 2.72e+01 1xewY 172 2.72e+01 1oo0B 110 2.75e+01 d.58.7.1 87183 1o9gA 250 2.82e+01 c.66.1.29 86692 1sjiA 350 2.83e+01 1hfeL 421 2.83e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 2fqxA 318 2.83e+01 1ryiA 382 2.84e+01 2bj7A 138 2.88e+01 1wlsA 328 2.89e+01 1t64A 377 2.91e+01 c.42.1.2 106543 2faoA 309 2.93e+01 1xo1A 291 2.99e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1vhoA 346 3.00e+01 b.49.3.1,c.56.5.4 100694,100695 1o7nA 449 3.02e+01 b.33.1.2,d.129.3.3 81162,81163 1hfc 169 3.03e+01 1hfc d.92.1.11 40335 1r8sA 164 3.03e+01 c.37.1.8 97247 2czcA 334 3.04e+01 2ao9A 155 3.06e+01 2bfwA 200 3.07e+01 1uk8A 282 3.07e+01 c.69.1.10 107907 2chnA 716 3.11e+01 1d8wA 426 3.12e+01 1de5A c.1.15.2 29394 1ftrA 296 3.15e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1y93A 159 3.16e+01 1erw 105 3.21e+01 1erv c.47.1.1 32745 1l2tA 235 3.21e+01 c.37.1.12 73514 2d0oA 610 3.28e+01 1r5tA 142 3.31e+01 c.97.1.1 104812 2a8yA 270 3.31e+01 1f3lA 321 3.31e+01 1g6q2 c.66.1.6 59630 1pyoA 167 3.36e+01 c.17.1.1 95370 2fsrA 195 3.38e+01 1on0A 158 3.43e+01 d.108.1.1 87095 1k3rA 268 3.43e+01 b.40.4.10,c.116.1.2 72018,72019 1yloA 348 3.44e+01 1j0dA 341 3.44e+01 c.79.1.1 83902 2aebA 322 3.44e+01 2ab5A 269 3.48e+01 2g2cA 167 3.48e+01 1ru3A 732 3.49e+01 e.26.1.3 97835 1oaa 259 3.52e+01 1oaa c.2.1.2 29829 1vhwA 253 3.53e+01 c.56.2.1 100706 1v8hA 107 3.57e+01 2a1iA 146 3.58e+01 2ffmA 91 3.59e+01 1v4pA 157 3.61e+01 1jmkC 230 3.65e+01 c.69.1.22 71747 1w6uA 302 3.66e+01 1pc6A 146 3.72e+01 d.262.1.1 94430 1eceA 358 3.76e+01 1eceA c.1.8.3 28813 2f51A 118 3.76e+01 1t13A 158 3.79e+01 2glfA 450 3.80e+01 1e8cA 498 3.80e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1pu1A 94 3.81e+01 d.266.1.1 104307 1z47A 355 3.82e+01 1efpB 252 3.82e+01 1efvB c.26.2.3 31636 1rkuA 206 3.84e+01 c.108.1.11 97627 1zosA 230 3.84e+01 1sgwA 214 3.95e+01 c.37.1.12 105541 1rq2A 382 3.96e+01 c.32.1.1,d.79.2.1 105048,105049 1pxfA 111 3.96e+01 b.40.4.4 88341 1iu8A 206 4.00e+01 c.56.4.1 71436 2c6qA 351 4.00e+01 1n4qB 377 4.05e+01 a.102.4.3 91636 1xppA 115 4.06e+01 1o3yA 166 4.11e+01 c.37.1.8 86618 1ysrA 150 4.12e+01 1qwdA 177 4.13e+01 b.60.1.1 96471 1wcgA 464 4.14e+01 1xc3A 302 4.15e+01 1kt6A 183 4.16e+01 b.60.1.1 84466 2bikB 313 4.17e+01 1cl1A 395 4.17e+01 1cl2A c.67.1.3 34395 1sg4A 260 4.18e+01 1j27A 102 4.20e+01 d.58.50.1 90778 1zzoA 136 4.23e+01 2eifA 136 4.32e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1suwA 249 4.36e+01 e.52.1.1 106027 1dceB 331 4.37e+01 1dceB a.102.4.3 18872 1c0pA 363 4.39e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1zuoA 186 4.43e+01 1zu4A 320 4.43e+01 1f08A 148 4.54e+01 1f08A d.89.1.2 59564 1rybA 212 4.54e+01 c.56.3.1 98098 1st9A 143 4.58e+01 c.47.1.10 98987 1qahA 136 4.59e+01 d.79.1.1 96338 2d00A 109 4.59e+01 2atzA 180 4.63e+01 1fm0E 150 4.65e+01 1fmaE d.41.5.1 38629 1erv 105 4.68e+01 1erv c.47.1.1 32743 1u53A 196 4.72e+01 1xubA 298 4.74e+01 2ah5A 210 4.74e+01 1j5wA 298 4.80e+01 d.104.1.1 71589 1zbsA 291 4.82e+01 1obfO 335 4.83e+01 c.2.1.3,d.81.1.1 86768,86769 8abp 306 4.84e+01 8abp c.93.1.1 35647 1bazA 53 4.89e+01 1bazA a.43.1.1 17421 1xdpA 687 4.89e+01 1zkdA 387 4.96e+01 1iuz 98 4.98e+01 1plc b.6.1.1 22861 1jftA 340 5.01e+01 a.35.1.5,c.93.1.1 66652,66653 2a0mA 316 5.03e+01 1rkqA 282 5.05e+01 c.108.1.10 97621 1h3fA 432 5.07e+01 c.26.1.1,d.66.1.4 76631,76632 2an9A 207 5.18e+01 2bitX 165 5.21e+01 1tqjA 230 5.23e+01 c.1.2.2 107228 1y9aA 360 5.25e+01 1qysA 106 5.26e+01 k.41.1.1 96603 1k7jA 206 5.29e+01 d.115.1.1 72103 1ymqA 261 5.30e+01 1t0hB 224 5.33e+01 c.37.1.1 106208 1o1xA 155 5.37e+01 c.121.1.1 86553 1vjlA 164 5.39e+01 d.257.1.1 100822 1i76A 163 5.44e+01 1hfc d.92.1.11 61877 1vknA 351 5.44e+01 c.2.1.3,d.81.1.1 108676,108677 1m0dA 138 5.45e+01 c.52.1.17 74354 1q45A 391 5.49e+01 c.1.4.1 95780 1xrtA 467 5.58e+01 2aamA 309 5.58e+01 1nrzA 164 5.59e+01 c.38.1.1 86131 1ht6A 405 5.62e+01 b.71.1.1,c.1.8.1 83629,83630 1z2iA 358 5.67e+01 1r6xA 395 5.69e+01 b.122.1.3,c.26.1.5 97167,97168 1ixcA 294 5.74e+01 a.4.5.37,c.94.1.1 83764,83765 1i60A 278 5.79e+01 c.1.15.4 71118 2a5hA 416 5.79e+01 1us5A 314 5.79e+01 c.94.1.1 99856 1dbqA 289 5.86e+01 1qpzA c.93.1.1 35666 1m8aA 70 5.88e+01 d.9.1.1 74579 1w2fA 276 5.96e+01 d.143.1.3 109125 1wexA 104 5.98e+01 1mg7A 417 6.03e+01 d.14.1.6,d.58.26.6 84954,84955 1yzvA 204 6.03e+01 1pmy 123 6.18e+01 1bqk b.6.1.1 22888 2f1fA 164 6.20e+01 2f4nA 273 6.21e+01 1q0uA 219 6.25e+01 c.37.1.19 95512 1j1lA 290 6.27e+01 b.82.1.12 90766 1fcdA 401 6.33e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1bjt 793 6.34e+01 1bjt e.11.1.1 43249 1osdA 72 6.35e+01 d.58.17.1 104022 2f9sA 151 6.37e+01 1h6kZ 98 6.38e+01 d.58.7.1 60686 1nvmB 312 6.44e+01 c.2.1.3,d.81.1.1 86251,86252 1y80A 210 6.48e+01 1fo8A 343 6.53e+01 1foaA c.68.1.10 59927 1t71A 281 6.54e+01 1ys7A 233 6.55e+01 1xq6A 253 6.56e+01 1ne7A 289 6.57e+01 c.124.1.1 91833 2au3A 407 6.57e+01 1e5pA 151 6.58e+01 1bj7 b.60.1.1 59272 1zdzA 302 6.58e+01 1xaoA 121 6.63e+01 1id1A 153 6.67e+01 1id1A c.2.1.9 62286 2bycA 137 6.72e+01 1mwmA 320 6.78e+01 c.55.1.1,c.55.1.1 79580,79581 1gadO 330 6.79e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 1nu4A 97 6.82e+01 d.58.7.1 80731 1eluA 390 6.86e+01 1elqA c.67.1.3 34434 2ge3A 170 6.86e+01 1rloA 271 6.89e+01 1pieA 419 6.90e+01 d.14.1.5,d.58.26.7 94706,94707 1lvwA 295 7.03e+01 c.68.1.6 84723 1m1hA 248 7.03e+01 b.114.1.1,d.58.42.1 78415,78416 1yirA 408 7.03e+01 1rlmA 271 7.05e+01 1m7yA 435 7.09e+01 c.67.1.4 78761 1w3oA 216 7.11e+01 2cpgA 45 7.12e+01 2cpgA a.43.1.3 17455 1uozA 315 7.16e+01 1cseI 71 7.16e+01 1egpA d.40.1.1 38559 1q1aA 289 7.19e+01 c.31.1.5 95561 1zud1 251 7.20e+01 1tr9A 341 7.23e+01 1z0sA 278 7.24e+01 1qgvA 142 7.26e+01 1qgvA c.47.1.8 33056 3sdhA 146 7.26e+01 3sdhA a.1.1.2 14984 1ws0A 156 7.27e+01 1yacA 208 7.38e+01 1yacA c.33.1.3 31757 1qjcA 158 7.42e+01 1b6tA c.26.1.3 63328 2fa8A 105 7.47e+01 1np7A 489 7.49e+01 a.99.1.1,c.28.1.1 80677,80678 1qh8B 519 7.50e+01 1qguB c.92.2.3 35634 1szqA 483 7.50e+01 e.44.1.1 99045 1s2oA 244 7.54e+01 1ppjB 439 7.62e+01 d.185.1.1,d.185.1.1 104254,104255 1cipA 353 7.63e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1zndA 174 7.66e+01 1svy 114 7.75e+01 1svy d.109.1.1 40831 1wa3A 205 7.75e+01 1epxA 370 7.80e+01 1fbaA c.1.10.1 29150 2cw6A 298 7.84e+01 1z41A 338 7.90e+01 1tzjA 338 7.91e+01 1wy2A 351 7.93e+01 1j6wA 175 8.01e+01 1j98A d.185.1.2 62663 1jztA 246 8.02e+01 c.104.1.1 63319 1dbiA 280 8.04e+01 1gci c.41.1.1 32543 1vplA 256 8.12e+01 1zjjA 263 8.15e+01 1wstA 417 8.21e+01 1ng6A 148 8.34e+01 a.182.1.1 85670 2b06A 155 8.35e+01 1ry9A 145 8.35e+01 d.198.1.1 98094 2dcnA 311 8.40e+01 1oxxK 353 8.41e+01 b.40.6.3,c.37.1.12 93715,93716 1t0fA 276 8.43e+01 2d4qA 257 8.48e+01 1wdjA 187 8.49e+01 1n13B 113 8.52e+01 1xfkA 336 8.55e+01 1wyuB 474 8.55e+01 1kicA 339 8.56e+01 c.70.1.1 72510 1jcfA 344 8.57e+01 c.55.1.1,c.55.1.1 62878,62879 1tuvA 114 8.58e+01 1guzA 310 8.61e+01 c.2.1.5,d.162.1.1 65586,65587 1i4uA 181 8.64e+01 b.60.1.1 61732 1e8gA 560 8.66e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1svsA 353 8.69e+01 c.37.1.8 106051 1rm8A 169 8.69e+01 d.92.1.11 97660 1d7uA 433 8.72e+01 2dkb c.67.1.4 34439 1itxA 419 8.73e+01 c.1.8.5,d.26.3.1 71425,71426 1sc6A 404 8.78e+01 2ca6A 386 8.81e+01 1i88A 389 8.82e+01 c.95.1.2,c.95.1.2 66070,66071 2aegA 268 8.83e+01 1qu9A 128 8.83e+01 1qu9A d.79.1.1 39755 1yp2A 451 8.85e+01 1vefA 395 8.89e+01 1r7aA 504 8.92e+01 b.71.1.1,c.1.8.1 97192,97193 1z7xW 461 8.93e+01 1y0zA 330 8.94e+01 1hi9A 274 8.96e+01 1hi9A c.99.1.1 61063 2fyxA 143 9.00e+01