# List of top-scoring protein chains for T0413.t2k-w0.5 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. # #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 SCOP_domain SCOP_suid 5S 5N 12S 12S 10N 1k4yA 534 2.02e-13 c.69.1.1 72069 2bceA 579 1.92e-12 c.69.1.1 34625 1aqlA 532 2.44e-12 c.69.1.1 34627 1w6rA 543 2.50e-12 c.69.1.1 114283 1aknA 579 2.50e-12 c.69.1.1 34626 1ut6A 537 2.53e-12 c.69.1.1 119698 1ea5A 537 2.54e-12 c.69.1.1 34592 2cekA 535 2.55e-12 c.69.1.1 130347 2dfpA 534 2.55e-12 c.69.1.1 34597 1gqrA 532 2.56e-12 c.69.1.1 70374 1eeaA 534 2.56e-12 c.69.1.1 34609 2hrrA 532 5.88e-12 c.69.1.1 136696 2h7cA 542 5.88e-12 c.69.1.1 136207 1mx1A 548 5.89e-12 c.69.1.1 85165 2ogtA 498 6.10e-12 2ogsA 498 6.13e-12 2c58A 537 8.85e-12 c.69.1.1 129891 1c7jA 489 2.02e-11 c.69.1.1 34631 1qe3A 489 2.12e-11 c.69.1.1 34630 3be8A 588 2.33e-11 2vh8A 562 2.33e-11 1f8uA 583 2.72e-11 c.69.1.1 34620 1b41A 539 2.83e-11 c.69.1.1 34621 1c7iA 489 5.24e-11 c.69.1.1 34632 1jmyA 522 5.26e-11 c.69.1.1 63182 2pm8A 574 6.36e-11 1f6wA 533 6.85e-11 c.69.1.1 34629 1p0iA 529 8.56e-11 c.69.1.1 93867 2j4cA 529 8.59e-11 1c2oA 539 1.14e-10 c.69.1.1 34610 1c2bA 540 1.14e-10 c.69.1.1 34614 2ha2A 543 1.14e-10 c.69.1.1 136274 1n5mA 541 1.15e-10 c.69.1.1 80031 2c0pA 548 1.15e-10 c.69.1.1 129600 1ku6A 549 1.15e-10 c.69.1.1 91037 1maaA 547 1.16e-10 c.69.1.1 34615 1q84A 580 1.16e-10 c.69.1.1 96156 1pv1A 299 2.10e-10 c.69.1.34 111639 2fj0A 551 2.19e-10 2qzpA 562 3.30e-10 3bixA 574 3.36e-10 3b3qA 577 3.52e-10 2hu5A 582 3.62e-10 b.69.7.2,c.69.1.33 136763,136764 1z68A 719 3.75e-10 2jf0A 548 4.16e-10 2uz0A 263 6.03e-10 1orvA 728 8.11e-10 b.70.3.1,c.69.1.24 87354,87355 1jjfA 268 1.05e-09 c.69.1.2 66765 1u8eA 728 1.23e-09 b.70.3.1,c.69.1.24 107733,107734 2gbcA 730 1.27e-09 3c45A 728 1.43e-09 2g63A 726 1.43e-09 b.70.3.1,c.69.1.24 134686,134687 1tk3A 728 1.43e-09 b.70.3.1,c.69.1.24 107069,107070 2oncA 731 1.43e-09 2ripA 729 1.43e-09 2rguA 734 1.43e-09 1pfqA 731 1.43e-09 b.70.3.1,c.69.1.24 88061,88062 1wcyA 740 1.43e-09 b.70.3.1,c.69.1.24 120903,120904 1r9mA 733 1.43e-09 b.70.3.1,c.69.1.24 104870,104871 2bgrA 738 1.44e-09 b.70.3.1,c.69.1.24 128496,128497 1r9nA 739 1.46e-09 b.70.3.1,c.69.1.24 118745,118746 2qt9A 766 1.49e-09 2ha5A 543 1.65e-09 2ecfA 741 2.01e-09 3bl8A 580 2.61e-09 1cleA 534 5.08e-09 c.69.1.17 34771 1llfA 534 5.33e-09 c.69.1.17 78094 2hu8A 582 5.39e-09 b.69.7.2,c.69.1.33 136772,136773 1lppA 549 5.41e-09 c.69.1.17 34764 1crlA 534 5.43e-09 c.69.1.17 34765 1gz7A 534 6.35e-09 c.69.1.17 83401 2d5lA 706 7.19e-09 3bwxA 285 8.01e-09 1dx4A 585 1.00e-08 c.69.1.1 34622 2z3zA 706 1.16e-08 1jt2A 268 1.81e-08 c.69.1.2 71858 1evqA 310 2.17e-08 c.69.1.2 34635 2qm0A 275 2.20e-08 1u4nA 310 2.32e-08 c.69.1.2 113021 2og1A 286 3.63e-08 1thgA 544 4.14e-08 c.69.1.17 34763 2hm7A 310 4.29e-08 2dcmA 706 1.20e-07 1c4xA 285 1.22e-07 c.69.1.10 34684 1lzlA 323 1.44e-07 c.69.1.2 78306 2r11A 306 2.15e-07 1ukcA 522 2.25e-07 c.69.1.17 107911 3bdiA 207 2.79e-07 1xrlA 293 3.77e-07 1xrrA 293 3.83e-07 1ehyA 294 4.31e-07 c.69.1.11 34693 1mtzA 293 4.40e-07 c.69.1.7 79467 1xroA 293 4.64e-07 2cjpA 328 4.72e-07 2puhA 286 6.32e-07 2rhwA 283 6.56e-07 2c7bA 311 6.64e-07 1xqvA 293 6.73e-07 1va4A 279 9.86e-07 c.69.1.12 108458 2pujA 286 9.90e-07 1auoA 218 1.24e-06 c.69.1.14 34716 3c5vA 316 1.34e-06 1a8sA 273 2.12e-06 c.69.1.12 34710 2h1iA 226 2.27e-06 1a8qA 274 2.41e-06 c.69.1.12 34702 1jjiA 311 2.44e-06 c.69.1.2 66766 1m33A 258 2.85e-06 c.69.1.26 78514 2zjfA 362 3.90e-06 1fj2A 232 3.92e-06 c.69.1.14 34720 2e3jA 356 4.30e-06 1womA 271 5.24e-06 1u2eA 289 6.24e-06 1a88A 275 6.98e-06 c.69.1.12 34707 1xqwA 293 8.42e-06 1r3dA 264 9.71e-06 c.69.1.35 111680 2o7rA 338 1.25e-05 2ockA 254 1.29e-05 1ufoA 238 1.55e-05 c.69.1.27 99344 1zoiA 276 1.91e-05 1jfrA 262 2.00e-05 c.69.1.16 34724 2r8bA 251 2.20e-05 2ocgA 254 2.63e-05 1r1dA 247 3.03e-05 c.69.1.29 96813 1tqhA 247 3.07e-05 c.69.1.29 107225 3c5wP 310 3.17e-05 1j1iA 296 3.43e-05 c.69.1.10 83977 2d0dA 282 3.68e-05 1y37A 304 3.92e-05 1hkhA 279 4.46e-05 c.69.1.12 90628 3bdvA 191 5.14e-05 1jkmA 361 5.65e-05 c.69.1.2 34633 2vf2A 311 7.51e-05 1zd3A 555 0.000126 c.108.1.2,c.69.1.11 124930,124931 1gkkA 297 0.000153 c.69.1.2 65248 2bklA 695 0.000159 2i3dA 249 0.000172 1xfdA 723 0.000176 b.70.3.1,c.69.1.24 115251,115252 2d80A 318 0.000191 1l7aA 318 0.000305 c.69.1.25 77772 1hdeA 310 0.000387 c.69.1.8 34675 1bezA 310 0.000431 c.69.1.8 34666 2yxpX 310 0.000437 1b6gA 310 0.000439 c.69.1.8 34661 2pblA 262 0.000441 1uk8A 282 0.000446 c.69.1.10 107907 1cr6A 554 0.000480 c.69.1.11,c.108.1.2 34687,43337 2oclA 254 0.000567 1wb4A 297 0.000684 c.69.1.2 120827 3bf7A 255 0.000734 3bf8A 255 0.000818 1wm1A 317 0.000924 c.69.1.7 109405 3bxpA 277 0.001143 1odsA 318 0.001892 c.69.1.25 86877 1q0rA 298 0.002010 c.69.1.28 95508 3bjrA 283 0.002050 2fukA 220 0.002704 2gzsA 278 0.003522 1ycdA 243 0.003609 1ivyA 452 0.003630 c.69.1.5 34654 2qubA 615 0.003840 1hlgA 371 0.004184 c.69.1.6 34656 2d81A 318 0.005325 2pshA 319 0.005647 2psdA 318 0.005700 2psjA 319 0.005743 3b5eA 223 0.005768 2psfA 310 0.006007 1qgeD 222 0.007348 c.69.1.18 34773 1odtC 318 0.009315 c.69.1.25 86885 1azwA 313 0.009403 c.69.1.7 34658 1ys1X 320 0.009516 1cvlA 319 0.01033 c.69.1.18 34786 1tahA 318 0.01038 c.69.1.18 34775 2rauA 354 0.01125 1zi9A 236 0.01321 2o2gA 223 0.01496 1y7iA 268 0.01611 c.69.1.20 116546 1xklA 273 0.01660 c.69.1.20 115410 1zi6A 236 0.01717 1zixA 236 0.01787 1zicA 236 0.01801 1zi8A 236 0.01887 1bn7A 294 0.02234 c.69.1.8 34677 1cqwA 295 0.02280 c.69.1.8 34679 3c8dA 403 0.02402 1sfrA 304 0.02502 c.69.1.3 105500 1yr2A 741 0.03395 1dqyA 283 0.03554 c.69.1.3 34640 2yysA 286 0.03567 1dqzA 280 0.03572 c.69.1.3 34638 1vlqA 337 0.04571 c.69.1.25 108848 1mnaA 298 0.04631 c.69.1.22 79322 1va5A 303 0.04637 c.69.1.3 108464 2h7xA 319 0.04671 c.69.1.22 136227 4lipD 320 0.05279 c.69.1.18 34783 1a8uA 277 0.05378 c.69.1.12 34703 1broA 277 0.05758 c.69.1.12 34700 1vz3A 710 0.06451 b.69.7.1,c.69.1.4 108947,108948 1vkhA 273 0.07150 c.69.1.32 108662 2fx5A 258 0.07533 1h2xA 710 0.07625 b.69.7.1,c.69.1.4 76598,76599 1zj4A 236 0.07668 1h2wA 710 0.07744 b.69.7.1,c.69.1.4 76596,76597 2z8zA 617 0.07799 2z8xA 617 0.07959 1e5tA 710 0.08191 b.69.7.1,c.69.1.4 27676,34644 1vz2A 710 0.08274 b.69.7.1,c.69.1.4 108945,108946 1imjA 210 0.08420 c.69.1.23 71246 2qruA 274 0.09888 1ziyA 236 0.1010 1o6fA 710 0.1029 b.69.7.1,c.69.1.4 81085,81086 1zj5A 236 0.1111 1whsA 255 0.1138 c.69.1.5 34649 2jbwA 386 0.1139 1whtA 256 0.1163 c.69.1.5 34646 1bcsA 263 0.1255 c.69.1.5 34647 1ggvA 232 0.1288 c.69.1.9 34683 1t2nA 181 0.1313 c.69.1.18 112226 1o6gA 710 0.1463 b.69.7.1,c.69.1.4 81087,81088 1t4mA 181 0.1686 c.69.1.18 112243 3sc2A 259 0.1722 c.69.1.5 34648 1ispA 181 0.1765 c.69.1.18 76778 1bu8A 452 0.1779 b.12.1.2,c.69.1.19 23647,34795 2qxuA 179 0.1908 2oxeA 466 0.1921 1f0nA 285 0.2053 c.69.1.3 34636 2pvsA 452 0.2069 1ex9A 285 0.2435 c.69.1.18 34785 1w52X 452 0.2955 1rp1A 450 0.3220 b.12.1.2,c.69.1.19 23646,34794 3tglA 269 0.3802 c.69.1.17 34733 1r88A 280 0.3882 c.69.1.3 97219 1brtA 277 0.4204 c.69.1.12 34699 1dinA 236 0.4555 c.69.1.9 34682 2pplA 485 0.4568 2qmqA 286 0.4794 1lpbB 449 0.5346 b.12.1.2,c.69.1.19 23643,34791 1tibA 269 0.5901 c.69.1.17 34738 1ryyA 652 0.5972 b.18.1.13,c.69.1.21 118821,118822 2pl5A 366 0.5978 1k8qA 377 0.6176 c.69.1.6 72177 2qs9A 194 0.6466 1tglA 269 0.6733 c.69.1.17 34734 4tglA 269 0.6739 c.69.1.17 34735 1gplA 432 0.7338 b.12.1.2,c.69.1.19 23645,34793 5tglA 269 0.9515 c.69.1.17 34736 1wpxA 421 1.121 c.69.1.5 121156 2b61A 377 1.336 2b9vA 652 1.557 b.18.1.13,c.69.1.21 128199,128200 1sckA 257 1.646 c.69.1.20 105421 1yb6A 256 1.662 c.69.1.20 122870 1qj4A 257 1.666 c.69.1.20 34796 2hfkA 319 1.981 1z7aA 308 2.126 c.6.2.6 124591 1pjaA 302 2.178 c.69.1.13 94758 2pbqA 178 2.552 2iqcA 210 2.727 1cpyA 421 3.007 c.69.1.5 34651 2o8nA 265 3.126 1kezA 300 3.537 c.69.1.22 68546 1mo2A 294 3.543 c.69.1.22 79331 1mpxA 615 3.760 b.18.1.13,c.69.1.21 85041,85042 2oryA 346 4.086 1afrA 345 4.498 a.25.1.2 16805 1oq9A 363 5.007 a.25.1.2 87257 2j2fA 363 5.036 1h4fA 406 5.104 c.95.1.1,c.95.1.1 90609,90610 2fg5A 192 5.990 c.37.1.8 133401 1e8nA 710 7.635 b.69.7.1,c.69.1.4 27675,34643 1qz8A 113 7.655 b.140.1.1 96619 1lgyA 269 7.781 c.69.1.17 34758 1ethA 448 7.954 b.12.1.2,c.69.1.19 23641,34789 1uw7A 143 8.143 b.140.1.1 100099 1tiaA 279 8.326 c.69.1.17 34737 2bywA 418 9.029 c.95.1.1,c.95.1.1 129498,129499 1iayA 428 9.279 c.67.1.4 62130 1f91A 406 9.479 c.95.1.1,c.95.1.1 59713,59714 1ek4A 418 9.553 c.95.1.1,c.95.1.1 59436,59437 1dd8A 406 9.562 c.95.1.1,c.95.1.1 35932,35933 2vbaA 406 9.572 1eysL 280 10.03 f.26.1.1 43515 2bz4A 418 10.65 c.95.1.1,c.95.1.1 129542,129543 1ob8A 135 10.86 c.52.1.18 111627 2i5nL 273 11.72 f.26.1.1 137066 2hdwA 367 12.09 1dxrL 273 12.25 f.26.1.1 43431 2bz3A 418 13.50 c.95.1.1,c.95.1.1 129534,129535 2cb9A 244 13.99 2qjwA 176 14.50 2hihA 431 15.08 1iy9A 275 16.18 c.66.1.17 76943 2b2cA 314 16.86 c.66.1.17 127706 1hplA 449 19.52 b.12.1.2,c.69.1.19 23639,34787 2dksA 130 20.87 1piwA 360 21.35 b.35.1.2,c.2.1.1 104156,104157 3bxoA 239 21.66 2qeeA 437 22.40 1o89A 345 24.53 b.35.1.2,c.2.1.1 92644,92645 2pw9A 268 24.78 1mzpA 217 24.97 e.24.1.1 79710 1tujA 123 26.74 1lb6A 160 26.94 b.8.1.1 73798 1lb4A 159 27.23 b.8.1.1 73796 2q08A 427 34.55 2pnkA 428 34.58 1nqkA 381 37.19 c.1.16.4 92050 1m41A 380 37.20 c.1.16.4 78595 1dwqA 262 37.40 c.69.1.20 34808 1eiwA 111 37.81 c.23.3.1 31130 1gt6A 269 40.26 c.69.1.17 76342 1qdbA 473 40.51 a.138.1.3 19688 2b7oA 464 40.64 c.1.10.8 128047 2bdtA 189 41.72 c.37.1.25 128344 1q87A 221 42.07 e.47.1.1 96192 2qj8A 332 42.16 1rykA 69 48.57 a.60.11.1 98105 2pkgA 580 51.04 a.118.1.2 139708 2nymA 582 51.18 a.118.1.2 138821 2ed1A 76 52.17 1b3uA 588 52.20 a.118.1.2 19135 2ie4A 589 52.29 a.118.1.2 137291 2pf4A 589 53.22 4ubpC 570 53.54 b.92.1.1,c.1.9.2 28431,29053 1ie7C 570 54.41 b.92.1.1,c.1.9.2 62315,62316 1im8A 244 55.44 c.66.1.14 66212 2icsA 379 56.03 b.92.1.8,c.1.9.14 137241,137242 3bwcA 304 56.26 1bh9A 45 58.89 a.22.1.3 16483 1iz7A 295 59.92 c.69.1.8 76982 1g42A 296 59.97 c.69.1.8 65139 1cv2A 296 60.29 c.69.1.8 34680 2jozA 135 61.12 2p4sA 373 61.65 2fn0A 437 62.04 d.161.1.1 133799 1wcfA 171 62.49 1sxvA 172 62.50 1mj5A 302 64.03 c.69.1.8 91285 2aq4A 434 66.19 1t2uA 214 67.12 c.15.1.3,c.15.1.3 99096,99097 1m54A 363 67.98 c.79.1.1 74463 1k9vF 201 68.25 c.23.16.1 68365 1kxjA 205 69.09 c.23.16.1 73153 1igfH 221 70.77 b.1.1.1,b.1.1.2 19813,20923 2yvuA 186 70.97 1t15A 214 71.01 c.15.1.3,c.15.1.3 99067,99068 1jbqA 435 77.17 c.79.1.1 62850 1iuaA 83 77.60 g.35.1.1 71438 2ingX 213 78.19 3b89A 252 78.80 1nf5B 286 79.07 c.68.1.2 80454 1n5oX 214 79.92 c.15.1.3,c.15.1.3 80033,80034 2c31A 568 80.01 c.31.1.3,c.36.1.5,c.36.1.9 129704,129705,129706 1fgxA 288 80.44 c.68.1.2 34508 2pusA 852 82.48