# List of top-scoring protein chains for t04-100-30-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 4.81e-03 1x8vA 455 2.92e-01 1h5zA 455 3.04e-01 a.104.1.1 90622 1w68A 390 4.64e-01 a.25.1.2 109216 1u13A 455 5.35e-01 a.104.1.1 107578 1gvhA 396 6.71e-01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1e9xA 455 7.12e-01 1ea1A a.104.1.1 18969 1mswD 883 7.31e-01 e.8.1.3 79427 1qlnA 883 7.57e-01 1cezA e.8.1.3 43111 1lfkA 398 1.27e+00 a.104.1.1 77926 1xsm 390 2.01e+00 1xsm a.25.1.2 16804 1oyzA 280 2.30e+00 a.118.1.16 93775 1h0oA 390 2.60e+00 a.25.1.2 70845 1ka2A 499 2.67e+00 d.92.1.5 77305 1sqgA 429 2.97e+00 a.79.1.3,c.66.1.38 105912,105913 1h3nA 878 3.44e+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 2h1nA 567 4.23e+00 2cwyA 94 4.70e+00 2ah6A 208 6.00e+00 1odoA 408 6.02e+00 a.104.1.1 92783 1deeG 54 6.05e+00 1fc2C a.8.1.1 16343 1b3uA 588 6.08e+00 1b3uA a.118.1.2 19135 1ho8A 480 6.29e+00 1ho8A a.118.1.9 61107 1gmjA 84 6.62e+00 h.4.8.1 65310 1kkhA 317 8.05e+00 d.14.1.5,d.58.26.3 72645,72646 1wa8A 99 8.41e+00 1vddA 228 9.46e+00 e.49.1.1 108519 1wu7A 434 9.57e+00 1lrv 244 9.67e+00 1lrv a.118.1.5 19146 1udvA 89 9.84e+00 d.68.6.1 99224 1u2wA 122 9.87e+00 2fd5A 180 1.03e+01 1w5tA 412 1.03e+01 1rgeA 96 1.12e+01 1rgeA d.1.1.2 36028 1s9pA 227 1.17e+01 a.123.1.1 105384 2bkyX 89 1.17e+01 1ovaA 386 1.20e+01 1ovaA e.1.1.1 42619 1i7kA 179 1.23e+01 1u9aA d.20.1.1 61889 2bcqA 335 1.24e+01 1g8pA 350 1.27e+01 1g8pA c.37.1.20 60376 1lniA 96 1.32e+01 d.1.1.2 74046 1yn9A 169 1.37e+01 1vrmA 325 1.42e+01 1io2A 213 1.42e+01 1ekeA c.55.3.1 62612 1a5t 334 1.43e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1tw9A 206 1.46e+01 a.45.1.1,c.47.1.5 107381,107382 1cqxA 403 1.57e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1g5aA 628 1.58e+01 b.71.1.1,c.1.8.1 65152,65153 1mun 225 1.59e+01 1mun a.96.1.2 18744 1oaa 259 1.61e+01 1oaa c.2.1.2 29829 1y9qA 192 1.63e+01 1yf9A 171 1.67e+01 2c12A 439 1.68e+01 1khdA 345 1.74e+01 a.46.2.1,c.27.1.1 77400,77401 1hm6A 346 1.77e+01 1avc a.65.1.1 18147 1tffA 234 1.77e+01 d.3.1.11 106854 1jhgA 101 1.78e+01 1jhgA a.4.12.1 19009 1yb3A 175 1.88e+01 1gtkA 313 2.06e+01 c.94.1.1,d.50.2.1 76346,76347 1i4mA 108 2.22e+01 d.6.1.1 66025 1iq8A 582 2.32e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1xsnA 335 2.38e+01 1cem 363 2.40e+01 1cem a.102.1.2 18826 1rztA 331 2.41e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1i4yA 114 2.43e+01 2mhr a.24.4.1 61738 1rktA 205 2.45e+01 a.4.1.9,a.121.1.1 97623,97624 1rw2A 152 2.52e+01 a.118.19.1 97961 1kwfA 363 2.56e+01 a.102.1.2 73078 1rzhM 307 2.63e+01 f.26.1.1 98165 1pda 315 2.65e+01 1pda c.94.1.1,d.50.2.1 35751,38794 2cohA 202 2.71e+01 1wt4A 73 2.73e+01 1zhxA 438 2.73e+01 1kmiZ 214 2.75e+01 h.4.11.1 72752 1y6zA 263 2.75e+01 1pylA 97 2.78e+01 d.1.1.2 104391 1elwA 118 2.88e+01 1a17 a.118.8.1 19207 1w27A 714 2.93e+01 2ap3A 199 2.97e+01 1vl7A 157 2.98e+01 b.45.1.1 108732 1jchA 551 3.03e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 2gf4A 100 3.04e+01 2bbhA 269 3.08e+01 2ahmA 88 3.14e+01 1z72A 225 3.20e+01 1f5aA 513 3.21e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39337,75835,75836 1yh6A 179 3.24e+01 1pjqA 457 3.24e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1wgzA 510 3.25e+01 1wwzA 159 3.25e+01 1y8aA 332 3.25e+01 2f6hX 419 3.27e+01 1j7nA 776 3.27e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1tx4A 198 3.31e+01 1tx4A a.116.1.1 19098 1nal1 297 3.36e+01 1nal3 1cuk 203 3.36e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1izcA 339 3.39e+01 c.1.12.5 83838 1pszA 303 3.40e+01 1toaA c.92.2.2 35600 2ccmA 191 3.46e+01 1jk0B 345 3.47e+01 a.25.1.2 63143 1yucA 255 3.54e+01 1x1nA 524 3.57e+01 1ab4 477 3.58e+01 1ab4 e.11.1.1 43251 1pmzA 86 3.61e+01 a.39.1.10 104195 2c3mA 1231 3.61e+01 1o9rA 162 3.62e+01 a.25.1.1 86706 1kekA 1231 3.62e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 2ff4A 388 3.66e+01 1go3F 107 3.70e+01 a.60.8.2 65407 1xwl 580 3.71e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 2h58A 330 3.82e+01 1vkuA 100 3.83e+01 a.28.1.1 108690 1gs9A 165 3.87e+01 a.24.1.1 83313 1f3aA 222 3.96e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1om2A 95 3.97e+01 1om2A a.23.4.1 16520 1jk0A 419 4.03e+01 a.25.1.2 63142 2fq4A 192 4.04e+01 6gsvA 217 4.04e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1b0pA 1231 4.05e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 1pi1A 185 4.06e+01 a.29.7.1 94699 1colA 204 4.09e+01 1a87 f.1.1.1 43378 1q79A 514 4.14e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1fpzA 212 4.15e+01 1fpzA c.45.1.1 59976 2if1 126 4.17e+01 2if1 d.64.1.1 39547 1k3yA 221 4.18e+01 a.45.1.1,c.47.1.5 77245,77246 1ibrB 462 4.25e+01 1qgrA a.118.1.1 19120 1wj7A 104 4.26e+01 1ztuA 341 4.29e+01 1sg0A 230 4.30e+01 2aamA 309 4.32e+01 1mgrA 99 4.35e+01 d.1.1.2 79106 2b0oE 301 4.43e+01 1y9bA 90 4.43e+01 1uhgA 385 4.48e+01 e.1.1.1 88491 1p5sA 203 4.49e+01 a.40.1.1 94147 1i1rB 181 4.62e+01 1i1rB a.26.1.1 61548 1nc5A 373 4.63e+01 a.102.1.6 85548 1nk4A 580 4.64e+01 c.55.3.5,e.8.1.1 91923,91924 2hmzA 113 4.68e+01 2mhr a.24.4.1 16564 2fuqA 747 4.76e+01 1xrsA 516 4.76e+01 2f23A 156 4.78e+01 1l3sA 580 4.78e+01 c.55.3.5,e.8.1.1 84521,84522 1q35A 320 4.79e+01 c.94.1.1 95661 2hmqA 113 4.80e+01 2mhr a.24.4.1 16568 1i39A 225 4.82e+01 1ekeA c.55.3.1 61585 1xqrA 296 4.83e+01 1hl2A 297 4.88e+01 c.1.10.1 83581 1wpaA 114 4.88e+01 1l1eA 287 4.89e+01 c.66.1.18 73454 1o86A 589 4.90e+01 d.92.1.5 81177 1uzeA 589 4.90e+01 d.92.1.5 108174 2a9iA 113 4.97e+01 1nrlA 316 4.99e+01 a.123.1.1 92091 1kr7A 110 5.03e+01 a.1.1.4 72890 1gw5A 621 5.04e+01 a.118.1.10 70629 2bb6A 414 5.17e+01 1tbfA 347 5.20e+01 a.211.1.2 106743 1jbkA 195 5.22e+01 c.37.1.20 71631 2cp8A 54 5.23e+01 2bzsA 236 5.23e+01 1w2yA 229 5.24e+01 a.204.1.1 109140 1f83A 425 5.25e+01 1f82A d.92.1.7 40306 1ds1A 324 5.26e+01 1drtA b.82.2.2 28127 1q2zA 120 5.26e+01 a.118.19.1 95656 1zx1A 231 5.26e+01 1u4bA 580 5.31e+01 c.55.3.5,e.8.1.1 107664,107665 1yodA 30 5.36e+01 2fiyA 309 5.37e+01 1qgrA 876 5.41e+01 1qgrA a.118.1.1 19119 1zq4A 693 5.42e+01 1l8dA 112 5.47e+01 h.4.12.1 73687 1rkpA 326 5.49e+01 a.211.1.2 97620 1up7A 417 5.52e+01 1wh5A 80 5.58e+01 1i52A 236 5.59e+01 1i52A c.68.1.13 61767 1wm1A 317 5.70e+01 c.69.1.7 109405 1nkpA 88 5.70e+01 a.38.1.1 80573 1gpuA 680 5.73e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1qexA 288 5.73e+01 1qexA b.32.1.1 24425 1up6A 416 5.77e+01 c.2.1.5,d.162.1.2 107976,107977 2cjpA 328 5.78e+01 1w99A 558 5.78e+01 1fjgD 209 5.81e+01 1c05A d.66.1.2 39553 1r31A 428 5.82e+01 d.58.20.1,d.179.1.1 96897,96898 1trkA 680 5.86e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31803,31804,33090 2gh1A 301 5.88e+01 1uruA 244 6.09e+01 h.4.14.1 99835 1nznA 126 6.11e+01 a.118.8.1 92382 2fk8A 318 6.24e+01 2a72A 146 6.30e+01 1tiiC 53 6.32e+01 1tiiC 1hdmA 201 6.36e+01 1iakA b.1.1.2,d.19.1.1 21583,38157 1iwhB 146 6.37e+01 a.1.1.2 76883 1p4wA 99 6.42e+01 a.4.6.2 87783 1hq1A 105 6.48e+01 1dulA a.36.1.1 17120 1yiiA 320 6.51e+01 1h1dA 221 6.53e+01 c.66.1.1 83452 1gl2D 65 6.58e+01 h.1.15.1 65281 2ar0A 541 6.63e+01 1hbzA 498 6.64e+01 1cf9A e.5.1.1 60937 1fjgN 61 6.66e+01 1fjfN g.39.1.7 45154 2gpiA 91 6.69e+01 1ee4A 423 6.73e+01 1ee4A a.118.1.1 19128 2c9wA 169 6.75e+01 1t2bA 397 6.78e+01 1hg4A 279 6.79e+01 1lbd a.123.1.1 19333 1xfhA 422 6.83e+01 1e94F 449 6.87e+01 1do0A c.37.1.20 32443 1vid 221 6.87e+01 1vid c.66.1.1 34178 1fmtA 314 6.90e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1avoB 140 7.00e+01 1avoB 1q5dA 419 7.00e+01 a.104.1.1 95891 1l6kA 77 7.05e+01 h.6.1.1 77724 1qh8A 478 7.07e+01 1qguA c.92.2.3 35633 1kl9A 182 7.09e+01 b.40.4.5 72681 1pk5A 248 7.12e+01 a.123.1.1 88139 1s28A 132 7.13e+01 d.198.1.1 105223 1jkoC 52 7.13e+01 a.4.1.2 66809 1p7tA 731 7.30e+01 c.1.13.1 94319 1ui5A 215 7.32e+01 a.4.1.9,a.121.1.1 107856,107857 1a8i 842 7.37e+01 1a8i c.87.1.4 35490 1hz6A 72 7.39e+01 2ptl d.15.7.1 61429 1ew4A 106 7.45e+01 1ew4A d.82.2.1 40023 1zkrA 153 7.45e+01 1zejA 293 7.62e+01 1zymA 258 7.72e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 2b0jA 358 7.75e+01 2bemA 170 7.75e+01 1ujwB 135 7.78e+01 h.4.9.1 99472 1h5uA 842 7.82e+01 1a8i c.87.1.4 60655 1vkeA 133 7.88e+01 a.152.1.2 108650 1h5wA 309 7.95e+01 e.27.1.1 65635 1nd6A 354 7.97e+01 c.60.1.2 80407 1y7qA 98 7.97e+01 1uzcA 71 8.00e+01 a.159.2.1 100222 1xqoA 256 8.10e+01 1c3cA 429 8.15e+01 1c3cA a.127.1.1 19425 1xnfA 275 8.33e+01 1zarA 282 8.34e+01 2d5xB 146 8.40e+01 1vqoW 154 8.43e+01 1i1iP 681 8.48e+01 1i1iP d.92.1.5 40297 1ne9A 335 8.50e+01 d.108.1.4,d.108.1.4 91839,91840 1u1iA 392 8.55e+01 c.2.1.3,d.81.1.3 107582,107583 1wljA 189 8.57e+01 1vmaA 306 8.61e+01 a.24.13.1,c.37.1.10 108887,108888 1wjgA 137 8.61e+01 1gakA 141 8.62e+01 1gakA a.19.1.1 16415 1qynA 153 8.64e+01 d.33.1.1 96597 1vd3A 217 8.67e+01 1vejA 74 8.69e+01 3pviA 157 8.71e+01 3pviA c.52.1.6 33300 1tjoA 182 8.75e+01 1dvoA 152 8.79e+01 1dvoA a.136.1.1 19623 1or7C 90 8.79e+01 a.180.1.1 87336 1po5A 476 8.82e+01 a.104.1.1 94963 1yarA 233 8.86e+01 1ijgA 309 8.94e+01 1fouA e.27.1.1 62493 1wzcA 249 9.00e+01