# List of top-scoring protein chains for t06-100-30-alpha-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 2a9uA 144 3.49e-03 1x8vA 455 3.79e-01 2cwyA 94 5.64e-01 1gvhA 396 7.07e-01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1w68A 390 1.00e+00 a.25.1.2 109216 1mswD 883 1.07e+00 e.8.1.3 79427 1u2wA 122 1.10e+00 1oyzA 280 1.15e+00 a.118.1.16 93775 2h1nA 567 1.53e+00 1vddA 228 1.67e+00 e.49.1.1 108519 1lrv 244 1.75e+00 1lrv a.118.1.5 19146 1yn9A 169 2.13e+00 2c12A 439 2.29e+00 1lfkA 398 2.46e+00 a.104.1.1 77926 1ho8A 480 2.90e+00 1ho8A a.118.1.9 61107 1gl2C 65 3.01e+00 h.1.15.1 65280 1tw9A 206 3.04e+00 a.45.1.1,c.47.1.5 107381,107382 2ah6A 208 3.07e+00 1lniA 96 3.14e+00 d.1.1.2 74046 1gmjA 84 3.33e+00 h.4.8.1 65310 1hm6A 346 3.78e+00 1avc a.65.1.1 18147 2cohA 202 4.31e+00 1jhgA 101 4.80e+00 1jhgA a.4.12.1 19009 1l9lA 74 4.93e+00 a.64.1.1 77827 1uhgA 385 5.11e+00 e.1.1.1 88491 1h3nA 878 5.14e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1ka2A 499 5.46e+00 d.92.1.5 77305 1i4mA 108 5.85e+00 d.6.1.1 66025 1s9pA 227 6.25e+00 a.123.1.1 105384 1q35A 320 6.65e+00 c.94.1.1 95661 1wwzA 159 7.33e+00 1ee4A 423 7.55e+00 1ee4A a.118.1.1 19128 1a5t 334 7.73e+00 1a5t a.80.1.1,c.37.1.20 18450,32423 1r1uA 106 8.41e+00 a.4.5.5 104771 1up7A 417 8.80e+00 1pylA 97 8.98e+00 d.1.1.2 104391 1kkhA 317 9.06e+00 d.14.1.5,d.58.26.3 72645,72646 1b3uA 588 1.00e+01 1b3uA a.118.1.2 19135 1vrmA 325 1.02e+01 1y7yA 74 1.06e+01 2bcqA 335 1.09e+01 1o9rA 162 1.14e+01 a.25.1.1 86706 1wa5B 530 1.14e+01 2bbhA 269 1.14e+01 1mgrA 99 1.16e+01 d.1.1.2 79106 1f7cA 231 1.19e+01 1f7cA a.116.1.1 19107 1yb3A 175 1.27e+01 1sqgA 429 1.30e+01 a.79.1.3,c.66.1.38 105912,105913 2es4D 332 1.30e+01 1cuk 203 1.30e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1tffA 234 1.31e+01 d.3.1.11 106854 1khdA 345 1.31e+01 a.46.2.1,c.27.1.1 77400,77401 1y8aA 332 1.32e+01 1fpzA 212 1.33e+01 1fpzA c.45.1.1 59976 1z72A 225 1.36e+01 1iq8A 582 1.37e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1io2A 213 1.44e+01 1ekeA c.55.3.1 62612 1tx4A 198 1.44e+01 1tx4A a.116.1.1 19098 2gf4A 100 1.46e+01 2f23A 156 1.48e+01 1q2zA 120 1.51e+01 a.118.19.1 95656 2a1iA 146 1.56e+01 1k3yA 221 1.56e+01 a.45.1.1,c.47.1.5 77245,77246 1l8dA 112 1.58e+01 h.4.12.1 73687 1o17A 345 1.60e+01 a.46.2.1,c.27.1.1 80765,80766 1gw5A 621 1.62e+01 a.118.1.10 70629 1wa8A 99 1.63e+01 2c3mA 1231 1.65e+01 1odoA 408 1.67e+01 a.104.1.1 92783 1oaa 259 1.69e+01 1oaa c.2.1.2 29829 1mun 225 1.84e+01 1mun a.96.1.2 18744 1vkeA 133 1.90e+01 a.152.1.2 108650 1g8pA 350 1.92e+01 1g8pA c.37.1.20 60376 1pmzA 86 1.95e+01 a.39.1.10 104195 1x6iA 91 2.04e+01 1nd4A 264 2.10e+01 d.144.1.6 91815 1nkpA 88 2.11e+01 a.38.1.1 80573 1vkuA 100 2.16e+01 a.28.1.1 108690 1w5tA 412 2.21e+01 2fuqA 747 2.21e+01 1l1eA 287 2.21e+01 c.66.1.18 73454 1hq1A 105 2.22e+01 1dulA a.36.1.1 17120 1ztuA 341 2.28e+01 1gtkA 313 2.30e+01 c.94.1.1,d.50.2.1 76346,76347 2ccmA 191 2.32e+01 2bkyX 89 2.35e+01 1i39A 225 2.36e+01 1ekeA c.55.3.1 61585 2fd5A 180 2.41e+01 1xqoA 256 2.55e+01 1keaA 221 2.55e+01 a.96.1.2 68491 1i52A 236 2.64e+01 1i52A c.68.1.13 61767 1gxyA 226 2.70e+01 d.166.1.3 76380 1uj6A 227 2.73e+01 c.124.1.4,d.58.40.1 107898,107899 1y9qA 192 2.77e+01 1kwfA 363 2.78e+01 a.102.1.2 73078 1flcB 175 2.82e+01 1flcB h.3.1.1 45716 1qh8A 478 2.82e+01 1qguA c.92.2.3 35633 1zuhA 168 2.86e+01 1z7lA 276 2.88e+01 1uzeA 589 2.90e+01 d.92.1.5 108174 1y9bA 90 2.90e+01 2db0A 253 2.92e+01 2ar0A 541 2.94e+01 1z3xA 238 3.00e+01 1u00A 227 3.01e+01 1jkoC 52 3.03e+01 a.4.1.2 66809 1yiiA 320 3.08e+01 1nrlA 316 3.08e+01 a.123.1.1 92091 1elwA 118 3.09e+01 1a17 a.118.8.1 19207 1vl7A 157 3.12e+01 b.45.1.1 108732 1xqrA 296 3.13e+01 1wmwA 330 3.13e+01 1cqxA 403 3.15e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1gs9A 165 3.20e+01 a.24.1.1 83313 1f45B 197 3.21e+01 1f45B a.26.1.1 59642 1q79A 514 3.22e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1vqoW 154 3.24e+01 1izcA 339 3.27e+01 c.1.12.5 83838 1z91A 147 3.31e+01 1ne9A 335 3.32e+01 d.108.1.4,d.108.1.4 91839,91840 1x6zA 123 3.32e+01 1u4bA 580 3.32e+01 c.55.3.5,e.8.1.1 107664,107665 1wgzA 510 3.33e+01 1nznA 126 3.35e+01 a.118.8.1 92382 2b5aA 77 3.39e+01 1yi8A 351 3.39e+01 2fk8A 318 3.40e+01 1s8nA 205 3.41e+01 c.23.1.1 105374 1xi1A 575 3.41e+01 2c5kT 95 3.41e+01 1ix9A 205 3.42e+01 a.2.11.1,d.44.1.1 76899,76900 1ew4A 106 3.42e+01 1ew4A d.82.2.1 40023 1go3F 107 3.45e+01 a.60.8.2 65407 1ez0A 510 3.51e+01 1eyyA c.82.1.1 35385 1yodA 30 3.52e+01 2h58A 330 3.52e+01 1k6kA 143 3.55e+01 a.174.1.1 77274 2d5xB 146 3.57e+01 1pszA 303 3.58e+01 1toaA c.92.2.2 35600 1lm5A 214 3.59e+01 d.211.2.1 74029 1yf9A 171 3.63e+01 1vhcA 224 3.66e+01 c.1.10.1 100661 1s3cA 141 3.71e+01 2b0oE 301 3.75e+01 1i7kA 179 3.77e+01 1u9aA d.20.1.1 61889 1fjgN 61 3.82e+01 1fjfN g.39.1.7 45154 1nnlA 225 3.87e+01 c.108.1.4 85906 1zejA 293 3.87e+01 2c9wA 169 4.00e+01 1skvA 69 4.03e+01 a.30.5.1 105690 1hl2A 297 4.05e+01 c.1.10.1 83581 1w7bA 339 4.12e+01 1vmaA 306 4.19e+01 a.24.13.1,c.37.1.10 108887,108888 1i1rB 181 4.19e+01 1i1rB a.26.1.1 61548 1zwyA 185 4.22e+01 2gpiA 91 4.23e+01 2bb6A 414 4.26e+01 1qynA 153 4.27e+01 d.33.1.1 96597 1no1A 126 4.30e+01 a.179.1.1 85913 1zhxA 438 4.31e+01 1gakA 141 4.35e+01 1gakA a.19.1.1 16415 1wwpA 119 4.36e+01 1g4yB 101 4.39e+01 1g4yB f.15.1.1 60251 1pzlA 237 4.40e+01 a.123.1.1 104393 1wpaA 114 4.41e+01 1h1dA 221 4.42e+01 c.66.1.1 83452 1s28A 132 4.42e+01 d.198.1.1 105223 1dowA 205 4.47e+01 1dovA a.24.9.1 16626 1gnwA 211 4.48e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1quuA 250 4.50e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1wusA 180 4.50e+01 1jdhA 529 4.57e+01 a.118.1.1 66549 1q3lA 69 4.63e+01 2cujA 108 4.65e+01 1sumB 235 4.68e+01 a.7.12.1 106025 2cwxA 430 4.69e+01 2g03A 194 4.73e+01 1ds1A 324 4.75e+01 1drtA b.82.2.2 28127 1oj4A 283 4.78e+01 d.14.1.5,d.58.26.5 93083,93084 2f6hX 419 4.79e+01 1zarA 282 4.81e+01 1lshA 1056 4.83e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1pq4A 291 4.86e+01 c.92.2.2 94995 1gweA 503 4.88e+01 e.5.1.1 70667 2fupA 168 4.90e+01 1f20A 435 4.91e+01 b.43.4.1,c.25.1.4 64932,64933 1dm5A 315 4.99e+01 1avc a.65.1.1 18186 1sur 215 5.01e+01 1sur c.26.2.2 31620 1wljA 189 5.02e+01 1u9tA 354 5.03e+01 1rm6C 161 5.08e+01 1pi1A 185 5.12e+01 a.29.7.1 94699 1colA 204 5.17e+01 1a87 f.1.1.1 43378 2fq4A 192 5.21e+01 1jmsA 381 5.22e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1wkqA 164 5.31e+01 c.97.1.2 109393 2d00A 109 5.34e+01 1ee8A 266 5.34e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 2dbyA 368 5.42e+01 1hbnA 549 5.43e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1wkbA 810 5.43e+01 1wx1A 335 5.45e+01 1s6lA 212 5.54e+01 1po5A 476 5.55e+01 a.104.1.1 94963 1qq5A 253 5.59e+01 1qq5A c.108.1.1 43327 1jk0B 345 5.60e+01 a.25.1.2 63143 1w2yA 229 5.61e+01 a.204.1.1 109140 1wm1A 317 5.64e+01 c.69.1.7 109405 2ahmA 88 5.67e+01 1kmiZ 214 5.69e+01 h.4.11.1 72752 1wjgA 137 5.73e+01 2bl8A 103 5.74e+01 1uixA 71 5.75e+01 h.1.27.1 99446 2fbqA 235 5.76e+01 1gl2D 65 5.79e+01 h.1.15.1 65281 1fpoA 171 5.79e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1g5aA 628 5.80e+01 b.71.1.1,c.1.8.1 65152,65153 1n00A 321 5.85e+01 a.65.1.1 85241 1m6kA 251 5.91e+01 e.3.1.1 78695 1yarA 233 5.92e+01 1w99A 558 5.97e+01 1hz6A 72 5.99e+01 2ptl d.15.7.1 61429 3pviA 157 5.99e+01 3pviA c.52.1.6 33300 1o4sA 389 6.12e+01 c.67.1.1 86620 1ui0A 205 6.12e+01 c.18.1.2 99411 2fji1 399 6.14e+01 1knzA 164 6.16e+01 e.34.1.1 68709 1r2zA 274 6.17e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1sheA 103 6.24e+01 d.274.1.1 105551 2gtqA 867 6.26e+01 1opc 110 6.26e+01 1opc a.4.6.1 16231 1p2xA 159 6.35e+01 a.40.1.1 104062 1ybkA 52 6.36e+01 1orjA 130 6.38e+01 a.24.19.1 93456 1ks8A 433 6.38e+01 a.102.1.2 77519 1x3kA 152 6.40e+01 1qsaA 618 6.46e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1kb9A 431 6.47e+01 d.185.1.1,d.185.1.1 77311,77312 1wt4A 73 6.49e+01 1a0p 290 6.51e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 1i4yA 114 6.55e+01 2mhr a.24.4.1 61738 2b1xB 172 6.58e+01 2b0tA 738 6.61e+01 2d69A 430 6.64e+01 1ew6A 137 6.68e+01 1ewaA a.1.1.2 15637 2bt2A 161 6.68e+01 1t3qA 168 6.75e+01 a.56.1.1,d.15.4.2 106367,106368 1bjt 793 6.80e+01 1bjt e.11.1.1 43249 1bl0A 129 6.83e+01 1d5yA a.4.1.8,a.4.1.8 16053,16054 1utg 70 6.85e+01 1utg a.101.1.1 18813 1s6bB 119 6.85e+01 a.133.1.2 98593 2ap3A 199 6.89e+01 1ornA 226 6.94e+01 a.96.1.1 87342 1ta8A 332 6.99e+01 1evyA 366 7.00e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1r6fA 310 7.10e+01 e.46.1.1 97149 2cjpA 328 7.13e+01 1xqsA 280 7.24e+01 2if1 126 7.26e+01 2if1 d.64.1.1 39547 1xfhA 422 7.26e+01 1wy0A 342 7.27e+01 2bwbA 46 7.28e+01 1x4tA 92 7.30e+01 2f94F 350 7.34e+01 1zs3A 182 7.36e+01 1tbfA 347 7.49e+01 a.211.1.2 106743 1q0gA 117 7.54e+01 a.24.22.1 104428 2gaeA 346 7.55e+01 2ex5A 207 7.56e+01 1kl9A 182 7.65e+01 b.40.4.5 72681 1yz4A 160 7.65e+01 1adr 76 7.78e+01 1r69 a.35.1.2 17042 1akhA 61 7.81e+01 1akhA a.4.1.1 15980 1zthA 258 7.84e+01 2cg4A 152 7.85e+01 1qmyA 167 7.93e+01 1qmyA d.3.1.2 37094 2b0jA 358 7.99e+01 1v1aA 309 8.02e+01 c.72.1.1 100249 2axtF 45 8.02e+01 1ve1A 304 8.05e+01 2f57A 317 8.05e+01 1sgmA 191 8.09e+01 a.4.1.9,a.121.1.1 105537,105538 1xm9A 457 8.16e+01 1tiiC 53 8.16e+01 1tiiC 1us7B 265 8.24e+01 a.205.1.1 99858 1h7cA 108 8.25e+01 a.7.5.1 70914 1tn6A 382 8.29e+01 2abk 211 8.30e+01 2abk a.96.1.1 18743 1jhfA 202 8.31e+01 a.4.5.2,b.87.1.1 63057,63058 1h5wA 309 8.38e+01 e.27.1.1 65635 1ugpA 203 8.47e+01 d.149.1.1 107831 2eulA 156 8.51e+01 1sdsA 117 8.55e+01 d.79.3.1 105439 2ae0X 345 8.55e+01 1zx1A 231 8.65e+01 1r31A 428 8.66e+01 d.58.20.1,d.179.1.1 96897,96898 1c52 131 8.70e+01 1c52 a.3.1.1 15810 2ff4A 388 8.70e+01 1hw1A 239 8.71e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1x0tA 120 8.75e+01 1ywwA 85 8.84e+01 1u2kA 309 8.85e+01 1kr7A 110 8.90e+01 a.1.1.4 72890 1sg0A 230 8.92e+01 1w27A 714 8.94e+01