# 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 2a9uA 144 4.60e-03 1x8vA 455 1.49e-01 1w68A 390 4.40e-01 a.25.1.2 109216 1gvhA 396 4.75e-01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1mswD 883 6.25e-01 e.8.1.3 79427 1lfkA 398 7.95e-01 a.104.1.1 77926 1sqgA 429 1.30e+00 a.79.1.3,c.66.1.38 105912,105913 1oyzA 280 1.57e+00 a.118.1.16 93775 2h1nA 567 2.03e+00 2fd5A 180 2.43e+00 1ka2A 499 2.44e+00 d.92.1.5 77305 2cwyA 94 2.69e+00 1gmjA 84 2.95e+00 h.4.8.1 65310 1h3nA 878 3.64e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1gl2C 65 3.86e+00 h.1.15.1 65280 1odoA 408 4.00e+00 a.104.1.1 92783 1i7kA 179 4.39e+00 1u9aA d.20.1.1 61889 1yn9A 169 4.97e+00 1vrmA 325 5.11e+00 1w5tA 412 5.15e+00 1vddA 228 5.57e+00 e.49.1.1 108519 1lniA 96 5.66e+00 d.1.1.2 74046 2ah6A 208 5.87e+00 1lrv 244 6.00e+00 1lrv a.118.1.5 19146 2bcqA 335 6.07e+00 1mun 225 6.13e+00 1mun a.96.1.2 18744 1kkhA 317 6.37e+00 d.14.1.5,d.58.26.3 72645,72646 1wu7A 434 6.60e+00 1ho8A 480 6.94e+00 1ho8A a.118.1.9 61107 1u2wA 122 7.21e+00 1hm6A 346 7.74e+00 1avc a.65.1.1 18147 1jhgA 101 7.80e+00 1jhgA a.4.12.1 19009 1a5t 334 7.94e+00 1a5t a.80.1.1,c.37.1.20 18450,32423 1s9pA 227 8.64e+00 a.123.1.1 105384 1tw9A 206 9.53e+00 a.45.1.1,c.47.1.5 107381,107382 2c12A 439 1.01e+01 2bkyX 89 1.02e+01 1wgzA 510 1.03e+01 1wa8A 99 1.03e+01 1g5aA 628 1.04e+01 b.71.1.1,c.1.8.1 65152,65153 1g8pA 350 1.15e+01 1g8pA c.37.1.20 60376 1cqxA 403 1.15e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1kmiZ 214 1.16e+01 h.4.11.1 72752 1yf9A 171 1.17e+01 1yb3A 175 1.24e+01 1pylA 97 1.29e+01 d.1.1.2 104391 1oaa 259 1.36e+01 1oaa c.2.1.2 29829 1w27A 714 1.48e+01 1i4mA 108 1.51e+01 d.6.1.1 66025 1b3uA 588 1.53e+01 1b3uA a.118.1.2 19135 1gtkA 313 1.59e+01 c.94.1.1,d.50.2.1 76346,76347 1io2A 213 1.67e+01 1ekeA c.55.3.1 62612 2cohA 202 1.70e+01 1cuk 203 1.70e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1iq8A 582 1.73e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1tx4A 198 1.77e+01 1tx4A a.116.1.1 19098 1kwfA 363 1.92e+01 a.102.1.2 73078 1y8aA 332 1.93e+01 1pmzA 86 1.94e+01 a.39.1.10 104195 1i4yA 114 1.94e+01 2mhr a.24.4.1 61738 2c3mA 1231 2.00e+01 1khdA 345 2.02e+01 a.46.2.1,c.27.1.1 77400,77401 2gf4A 100 2.06e+01 1wwzA 159 2.12e+01 1mgrA 99 2.12e+01 d.1.1.2 79106 1y9qA 192 2.28e+01 1izcA 339 2.28e+01 c.1.12.5 83838 1o9rA 162 2.31e+01 a.25.1.1 86706 2h58A 330 2.40e+01 1x1nA 524 2.45e+01 2f6hX 419 2.48e+01 1colA 204 2.49e+01 1a87 f.1.1.1 43378 1pi1A 185 2.52e+01 a.29.7.1 94699 2a72A 146 2.55e+01 2fq4A 192 2.56e+01 1ds1A 324 2.57e+01 1drtA b.82.2.2 28127 1fpzA 212 2.60e+01 1fpzA c.45.1.1 59976 1pszA 303 2.62e+01 1toaA c.92.2.2 35600 1jk0B 345 2.62e+01 a.25.1.2 63143 2ap3A 199 2.63e+01 1elwA 118 2.64e+01 1a17 a.118.8.1 19207 1uhgA 385 2.69e+01 e.1.1.1 88491 2bbhA 269 2.84e+01 1vl7A 157 2.84e+01 b.45.1.1 108732 1kl9A 182 2.84e+01 b.40.4.5 72681 1tbfA 347 2.85e+01 a.211.1.2 106743 1zarA 282 2.85e+01 2b0oE 301 2.85e+01 2if1 126 2.86e+01 2if1 d.64.1.1 39547 1zhxA 438 2.87e+01 2fuqA 747 2.88e+01 1wpaA 114 2.90e+01 1i52A 236 2.97e+01 1i52A c.68.1.13 61767 1rktA 205 2.98e+01 a.4.1.9,a.121.1.1 97623,97624 2f23A 156 2.98e+01 1vkuA 100 2.98e+01 a.28.1.1 108690 1nd6A 354 3.01e+01 c.60.1.2 80407 1y9bA 90 3.03e+01 1go3F 107 3.07e+01 a.60.8.2 65407 1ne9A 335 3.14e+01 d.108.1.4,d.108.1.4 91839,91840 1z72A 225 3.16e+01 1tffA 234 3.18e+01 d.3.1.11 106854 1xszA 356 3.27e+01 1l9lA 74 3.30e+01 a.64.1.1 77827 1wt4A 73 3.32e+01 1rzhM 307 3.36e+01 f.26.1.1 98165 1l8dA 112 3.40e+01 h.4.12.1 73687 1up7A 417 3.40e+01 2cp8A 54 3.41e+01 1xrsA 516 3.51e+01 1sg0A 230 3.52e+01 1lj9A 144 3.54e+01 a.4.5.28 78035 2ahmA 88 3.55e+01 2aamA 309 3.60e+01 1k3yA 221 3.66e+01 a.45.1.1,c.47.1.5 77245,77246 2ccmA 191 3.80e+01 1ztuA 341 3.81e+01 1tiiC 53 3.86e+01 1tiiC 1wm1A 317 3.96e+01 c.69.1.7 109405 1yodA 30 4.00e+01 2c9wA 169 4.00e+01 2ar0A 541 4.08e+01 1hq1A 105 4.10e+01 1dulA a.36.1.1 17120 2a9iA 113 4.11e+01 1kr7A 110 4.13e+01 a.1.1.4 72890 1vmaA 306 4.15e+01 a.24.13.1,c.37.1.10 108887,108888 2ff4A 388 4.19e+01 1w2yA 229 4.20e+01 a.204.1.1 109140 1jbkA 195 4.21e+01 c.37.1.20 71631 1uzeA 589 4.21e+01 d.92.1.5 108174 2fiyA 309 4.22e+01 1nc5A 373 4.28e+01 a.102.1.6 85548 1gpuA 680 4.29e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1gs9A 165 4.30e+01 a.24.1.1 83313 1r31A 428 4.33e+01 d.58.20.1,d.179.1.1 96897,96898 1u4bA 580 4.34e+01 c.55.3.5,e.8.1.1 107664,107665 1jkoC 52 4.35e+01 a.4.1.2 66809 1i39A 225 4.43e+01 1ekeA c.55.3.1 61585 1y7qA 98 4.48e+01 2gh1A 301 4.49e+01 1i1rB 181 4.53e+01 1i1rB a.26.1.1 61548 1fjgN 61 4.53e+01 1fjfN g.39.1.7 45154 1hl2A 297 4.54e+01 c.1.10.1 83581 1gl2D 65 4.55e+01 h.1.15.1 65281 1uj6A 227 4.56e+01 c.124.1.4,d.58.40.1 107898,107899 1xqrA 296 4.57e+01 1bed 181 4.59e+01 1fvkA c.47.1.13 90330 1q79A 514 4.64e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1qexA 288 4.65e+01 1qexA b.32.1.1 24425 1gw5A 621 4.67e+01 a.118.1.10 70629 1zejA 293 4.67e+01 1q2zA 120 4.78e+01 a.118.19.1 95656 1x3kA 152 4.81e+01 1zx1A 231 4.82e+01 1h1dA 221 4.84e+01 c.66.1.1 83452 1wh5A 80 4.87e+01 1yiiA 320 4.94e+01 1w7bA 339 4.96e+01 1qh8A 478 5.00e+01 1qguA c.92.2.3 35633 1q35A 320 5.03e+01 c.94.1.1 95661 1ew4A 106 5.04e+01 1ew4A d.82.2.1 40023 2bl8A 103 5.21e+01 1vkeA 133 5.31e+01 a.152.1.2 108650 1nkpA 88 5.32e+01 a.38.1.1 80573 2hmzA 113 5.33e+01 2mhr a.24.4.1 16564 2bb6A 414 5.34e+01 1u1iA 392 5.37e+01 c.2.1.3,d.81.1.3 107582,107583 2d5xB 146 5.40e+01 1k6kA 143 5.41e+01 a.174.1.1 77274 1nznA 126 5.44e+01 a.118.8.1 92382 1l6kA 77 5.45e+01 h.6.1.1 77724 2b1eA 564 5.48e+01 1nrlA 316 5.52e+01 a.123.1.1 92091 1dowA 205 5.52e+01 1dovA a.24.9.1 16626 1ez0A 510 5.56e+01 1eyyA c.82.1.1 35385 1jbwA 428 5.59e+01 c.59.1.2,c.72.2.2 62860,62861 1f7cA 231 5.62e+01 1f7cA a.116.1.1 19107 1uruA 244 5.75e+01 h.4.14.1 99835 3pviA 157 5.78e+01 3pviA c.52.1.6 33300 1l1eA 287 5.85e+01 c.66.1.18 73454 2a1iA 146 5.90e+01 1xqoA 256 5.95e+01 2ex5A 207 6.10e+01 2b4jC 98 6.22e+01 1s28A 132 6.23e+01 d.198.1.1 105223 1gakA 141 6.29e+01 1gakA a.19.1.1 16415 1wusA 180 6.29e+01 1wzcA 249 6.38e+01 1po5A 476 6.43e+01 a.104.1.1 94963 1fmtA 314 6.47e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1n1bA 549 6.56e+01 a.102.4.1,a.128.1.3 79799,79800 1twfC 318 6.58e+01 1lm5A 214 6.58e+01 d.211.2.1 74029 1kcfA 258 6.71e+01 a.140.2.1,c.55.3.7 68434,68435 1fh0A 221 6.74e+01 1cs8A d.3.1.1 59832 1nnlA 225 6.75e+01 c.108.1.4 85906 2bemA 170 6.79e+01 1ui5A 215 6.82e+01 a.4.1.9,a.121.1.1 107856,107857 1e5rA 290 6.84e+01 1e5rA b.82.2.4 59276 2fbqA 235 6.87e+01 1vd3A 217 7.08e+01 1wljA 189 7.12e+01 1yarA 233 7.25e+01 1ee8A 266 7.32e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1h5uA 842 7.36e+01 1a8i c.87.1.4 60655 1ujwB 135 7.39e+01 h.4.9.1 99472 1tjoA 182 7.46e+01 1gxyA 226 7.55e+01 d.166.1.3 76380 2gpiA 91 7.55e+01 1sur 215 7.60e+01 1sur c.26.2.2 31620 1gjjA 168 7.62e+01 a.140.1.1,a.140.1.1 83291,83292 1o17A 345 7.67e+01 a.46.2.1,c.27.1.1 80765,80766 1dk8A 147 7.71e+01 1agrE a.91.1.1 18548 1g5cA 170 7.71e+01 1g5cA c.53.2.1 60264 1u9tA 354 7.71e+01 1s6bB 119 7.84e+01 a.133.1.2 98593 2cjpA 328 7.89e+01 1ixkA 315 7.89e+01 c.66.1.38 90716 1gnwA 211 7.90e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1myt 146 7.93e+01 1a6m a.1.1.2 15207 1x6iA 91 7.95e+01 1vqoW 154 7.95e+01 1u60A 310 7.98e+01 e.3.1.2 107692 1s8nA 205 8.04e+01 c.23.1.1 105374 1v1aA 309 8.05e+01 c.72.1.1 100249 1hz6A 72 8.06e+01 2ptl d.15.7.1 61429 1fpoA 171 8.17e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1skvA 69 8.17e+01 a.30.5.1 105690 2b0jA 358 8.25e+01 1nd4A 264 8.26e+01 d.144.1.6 91815 1zkrA 153 8.27e+01 1zs3A 182 8.32e+01 1nvvS 481 8.36e+01 a.117.1.1 86279 1s4kA 120 8.36e+01 a.35.1.6 105254 1sheA 103 8.41e+01 d.274.1.1 105551 2fk8A 318 8.45e+01 1unkA 87 8.47e+01 1cei a.28.2.1 16935 1s3cA 141 8.47e+01 1zymA 258 8.49e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1s9rA 410 8.49e+01 d.126.1.4 98758 1nd9A 49 8.51e+01 a.6.1.6 85575 2fkiA 126 8.55e+01 1h5wA 309 8.57e+01 e.27.1.1 65635 1quuA 250 8.58e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 2f4mA 295 8.60e+01 1w99A 558 8.69e+01 1c3cA 429 8.84e+01 1c3cA a.127.1.1 19425 1xfhA 422 8.86e+01 1bg2 325 8.91e+01 1bg2 c.37.1.9 32189 1gjnA 153 8.96e+01 a.1.1.2 70191 2cqsA 842 8.99e+01 1jubA 311 8.99e+01 c.1.4.1 90908 2ae0X 345 9.00e+01