# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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.soe.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 1qazA 351 8.63e-18 1qazA a.102.3.1 18848 2fuqA 747 9.14e-05 3a0oA 776 1.03e-04 3e7jA 749 2.19e-04 1c3d 294 3.72e-02 1c3d 1ia6A 441 4.24e-02 a.102.1.2 76738 1ut9A 609 6.24e-02 a.102.1.2,b.1.18.2 99912,99913 1clc 639 9.30e-02 1clc 1clcA 639 9.30e-02 a.102.1.2,b.1.18.2 18835,21872 1qqfA 277 1.09e-01 1c3d a.102.4.4 18875 1nxcA 478 1.10e-01 a.102.2.1 92293 1umpA 631 2.03e-01 a.102.4.2,a.102.4.2 99619,99620 1cem 363 2.82e-01 1cem 2sqcA 631 3.40e-01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1vd5A 377 3.64e-01 a.102.1.7 108518 2fd5A 180 4.33e-01 a.4.1.9,a.121.1.1 133291,133292 3cf4A 807 4.40e-01 3g7jA 219 4.54e-01 1jlwA 219 4.87e-01 a.45.1.1,c.47.1.5 71741,71742 2a73B 991 5.32e-01 2gz6A 388 5.69e-01 2ahfA 377 5.81e-01 3gzkA 537 5.86e-01 3f3fC 570 6.14e-01 1fp3A 402 6.32e-01 1fp3A a.102.1.3 18842 1xwmA 217 6.44e-01 a.7.12.1 116132 3ez8A 537 6.59e-01 2ijqA 161 6.70e-01 a.246.2.1 137481 3f6dA 219 6.77e-01 2g0dA 409 7.39e-01 a.102.6.1 147057 2ri9A 475 9.88e-01 a.102.2.1 152057 1kktA 511 1.06e+00 a.102.2.1 68687 1iufA 144 1.21e+00 a.4.1.7,a.4.1.7 71439,71440 1x9dA 538 1.22e+00 a.102.2.1 121810 1hzfA 367 1.36e+00 a.102.4.4 76731 3e6uA 411 1.40e+00 3dfhA 394 1.69e+00 1fo3A 460 2.16e+00 1dl2A a.102.2.1 18845 1lfkA 398 2.52e+00 a.104.1.1 77926 2nwlA 422 2.68e+00 1hcuA 503 2.69e+00 a.102.2.1 65796 3kdwA 221 2.79e+00 1kwfA 363 2.93e+00 a.102.1.2 73078 2r31A 239 2.98e+00 d.381.1.1 151546 1iuqA 367 3.12e+00 c.112.1.1 90703 2vccA 891 3.18e+00 1hn0A 1021 3.24e+00 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1io7A 368 3.26e+00 1f4tA a.104.1.1 18971 1lkvX 232 3.34e+00 a.118.14.1 73980 2zzrA 397 3.36e+00 2ejqA 130 3.78e+00 d.92.1.17 146875 1wu4A 396 3.81e+00 a.102.1.2 121272 2a7oA 112 3.83e+00 3d2fA 675 4.44e+00 1gxmA 332 4.64e+00 a.102.5.1 76371 1h6gA 256 5.05e+00 1h6gA a.24.9.1,a.24.9.1 60669,60670 1r29A 127 5.07e+00 d.42.1.1 96856 1w6kA 732 5.09e+00 a.102.4.2,a.102.4.2 114271,114272 1x9fA 151 5.19e+00 a.1.1.2 114983 1k30A 368 5.26e+00 c.112.1.1 68067 1jlvA 209 5.53e+00 a.45.1.1,c.47.1.5 71729,71730 2xdtA 897 5.91e+00 2nwwA 422 5.94e+00 f.49.1.1 138721 1cv8 174 6.24e+00 1cv8 1cv8A 174 6.24e+00 d.3.1.1 37089 2uy1A 493 6.26e+00 2p4qA 497 6.92e+00 1faeA 629 7.02e+00 1fce a.102.1.2 18837 1rom 403 7.30e+00 1rom 1fce 629 7.41e+00 1fce 1g9gA 629 7.45e+00 a.102.1.2 83279 3dfgA 162 7.47e+00 1dlcA 584 7.69e+00 b.18.1.3,b.77.2.1,f.1.3.1 23719,27976,43391 3edtB 283 8.03e+00 1cmnA 402 8.13e+00 1rom a.104.1.1 18958 1otvA 259 8.18e+00 a.132.1.4 93526 2fefA 294 8.28e+00 a.29.11.1,a.254.1.1 133343,133344 3ejbB 404 8.37e+00 1rwhA 757 8.66e+00 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1nigA 152 8.74e+00 a.25.2.1 85740 1udbA 338 9.07e+00 c.2.1.2 29787 3giaA 444 9.24e+00 2qxlA 658 9.25e+00 3g6iA 204 9.26e+00 1ks8A 433 9.50e+00 a.102.1.2 77519 1udcA 338 9.55e+00 c.2.1.2 29785 2cjlA 204 9.72e+00 1xel 338 9.82e+00 1xel 3cihA 739 9.85e+00 1mpxA 615 9.92e+00 b.18.1.13,c.69.1.21 85041,85042 1l1yA 678 1.01e+01 a.102.1.2 73486 2nr4A 213 1.05e+01 b.45.1.4 148347 2ksfA 107 1.07e+01 2pz0A 252 1.07e+01 1eguA 731 1.07e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 2w96A 271 1.11e+01 2ns0A 85 1.15e+01 a.4.5.76 148381 2w9zA 257 1.15e+01 3ce6A 494 1.19e+01 1vgmA 378 1.20e+01 2zonG 87 1.23e+01 2f5jA 181 1.28e+01 1jfbA 404 1.30e+01 a.104.1.1 66624 1f24A 402 1.31e+01 1rom a.104.1.1 18953 1f4tA 368 1.32e+01 1f4tA a.104.1.1 18973 3dhyA 495 1.35e+01 3b81A 203 1.35e+01 2cc1A 262 1.36e+01 e.3.1.1 130211 1vctA 205 1.36e+01 a.7.12.1,d.286.1.1 119986,119987 3hbvP 462 1.37e+01 2wqmA 310 1.40e+01 1tf4A 605 1.40e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1ig8A 486 1.43e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 3e6iA 476 1.46e+01 3ccgA 190 1.48e+01 1n4kA 381 1.48e+01 a.118.22.1,b.42.6.1 79992,79993 2hr2A 159 1.49e+01 a.118.8.8 147369 1zu2A 158 1.52e+01 a.118.8.1 125662 3hd6A 490 1.56e+01 1to2E 281 1.65e+01 c.41.1.1 112595 1n7oA 721 1.68e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1id0A 152 1.69e+01 d.122.1.3 66111 1iv8A 720 1.72e+01 b.71.1.1,c.1.8.1 76842,76843 2efeA 267 1.74e+01 2kq2A 147 1.75e+01 2bdqA 224 1.79e+01 2vebA 195 1.82e+01 2v8iA 543 1.83e+01 3hc5A 232 1.84e+01 2x1gF 971 1.84e+01 3igoA 486 1.86e+01 3i3tA 355 1.86e+01 1uouA 474 1.90e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 3hmlA 258 1.93e+01 1y6zA 263 1.95e+01 1itzA 675 2.02e+01 c.36.1.10,c.36.1.6,c.48.1.1 76797,76798,76799 1aj5A 173 2.06e+01 1alvA a.39.1.8 17367 1wzzA 334 2.13e+01 a.102.1.2 121536 1omwA 689 2.14e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 3kz9A 206 2.14e+01 1j55A 95 2.15e+01 a.39.1.2 77078 2z3qA 119 2.18e+01 a.26.1.2 154002 2rd3A 223 2.19e+01 1ya0A 497 2.20e+01 a.118.8.1 122785 2o6yA 521 2.27e+01 1g7oA 215 2.28e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1yo8A 634 2.28e+01 3ljiA 304 2.30e+01 1ovlA 271 2.32e+01 a.123.1.1 87455 2okxA 956 2.32e+01 2yzsA 315 2.37e+01 1kn1A 160 2.40e+01 a.1.1.3 77455 2prgA 271 2.41e+01 2prgA a.123.1.1 19311 2j0fA 482 2.44e+01 2bk9A 153 2.46e+01 1zy9A 564 2.49e+01 b.30.5.11,c.1.8.13 125813,125814 2bnxA 386 2.49e+01 a.118.1.23 128861 2fb5A 205 2.51e+01 d.320.1.1 133235 3fxvA 233 2.53e+01 1dd5A 185 2.55e+01 1dd5A d.67.3.1 39564 1o3yA 166 2.55e+01 c.37.1.8 86618 3hbeX 204 2.63e+01 2j5vA 367 2.69e+01 2wioA 431 2.72e+01 1qzmA 94 2.73e+01 c.37.1.20 96651 1r1dA 247 2.75e+01 c.69.1.29 96813 2ja2A 498 2.77e+01 2zhgA 154 2.78e+01 1qqyA 130 2.80e+01 3lzt d.2.1.2 36586 1heiA 451 2.81e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 3eweB 564 2.81e+01 3eu8A 430 2.85e+01 1rxwA 336 2.85e+01 a.60.7.1,c.120.1.2 98059,98060 3hlxA 258 2.86e+01 1wovA 250 2.87e+01 a.132.1.1 121124 1z7lA 276 2.88e+01 1i5gA 144 2.91e+01 1ewxA c.47.1.10 61784 3iolA 126 2.92e+01 3kndA 460 2.94e+01 3ck6A 252 2.99e+01 1us7B 265 3.01e+01 a.205.1.1 99858 3k11A 445 3.01e+01 3e4bA 452 3.05e+01 3lsnA 304 3.06e+01 3c5tA 122 3.07e+01 2wk6A 482 3.09e+01 2bg5A 324 3.11e+01 1avyA 74 3.13e+01 1avyB h.1.17.1 45656 1tlqA 189 3.15e+01 a.195.1.1 107134 1j32A 388 3.15e+01 c.67.1.1 77067 1ojxA 263 3.17e+01 c.1.10.1 93164 1l7vA 326 3.18e+01 f.22.1.1 73672 2zcmA 192 3.19e+01 2yykA 481 3.21e+01 2nliA 368 3.22e+01 1dguA 183 3.25e+01 1dguA a.39.1.5 17333 1bs2A 607 3.25e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 16930,31597,39563 1g0cA 364 3.26e+01 7a3hA c.1.8.3 60165 3dhzA 329 3.28e+01 a.25.1.2 157741 2eplX 627 3.29e+01 1orgA 118 3.30e+01 a.39.2.1 93453 2tpt 440 3.31e+01 1brwA 1ialA 453 3.34e+01 1bk5A a.118.1.1 19116 1u9yA 284 3.34e+01 c.61.1.2,c.61.1.2 119655,119656 3cnqS 266 3.39e+01 1s5jA 847 3.44e+01 c.55.3.5,e.8.1.1 112040,112041 1jcrB 437 3.50e+01 a.102.4.3 66507 1wkuA 254 3.52e+01 1kgnA 329 3.54e+01 a.25.1.2 68584 1tn6B 437 3.54e+01 a.102.4.3 112528 3bc1A 195 3.56e+01 1jxhA 288 3.56e+01 c.72.1.2 67415 1t6uA 117 3.61e+01 a.24.22.1 106584 3c68A 761 3.61e+01 3ituA 345 3.68e+01 2cd8A 436 3.69e+01 3hnhA 258 3.70e+01 1uaaA 673 3.72e+01 1pjr c.37.1.19,c.37.1.19 32401,32402 1zeeA 403 3.74e+01 a.266.1.2 124981 1gzgA 337 3.75e+01 c.1.10.3 70805 3c7aA 404 3.78e+01 2pv7A 298 3.78e+01 a.100.1.12,c.2.1.6 149887,149888 1nfiE 215 3.78e+01 1iknD d.211.1.1 19172 1j09A 468 3.81e+01 a.97.1.1,c.26.1.1 77025,77026 2c1mA 424 3.84e+01 1o6jA 150 3.86e+01 c.47.1.10 81089 2zhjA 322 3.86e+01 1gkmA 509 3.87e+01 a.127.1.2 70228 2afaA 425 3.89e+01 a.102.1.3 126668 1oshA 232 3.89e+01 a.123.1.1 93496 1sctB 151 3.89e+01 3sdhA a.1.1.2 15003 3gpvA 148 3.89e+01 1bea 127 3.91e+01 1bea 1beaA 127 3.91e+01 a.52.1.2 17826 3gt5A 402 3.92e+01 3gi8C 444 3.96e+01 2vq2A 225 3.97e+01 3l1bA 233 3.98e+01 1w5qA 337 4.03e+01 2du2A 374 4.04e+01 1ibrB 462 4.04e+01 1qgrA a.118.1.1 19120 1qhbA 596 4.09e+01 1qhbA a.111.1.2 19055 1p91A 269 4.10e+01 c.66.1.33 94378 3h5qA 436 4.11e+01 1x1iA 752 4.11e+01 a.102.3.2,b.24.1.1,b.30.5.2 121584,121585,121586 1lv7A 257 4.12e+01 c.37.1.20 78232 2d40A 354 4.14e+01 b.82.1.23 146454 3f5dA 206 4.15e+01 2p32A 120 4.17e+01 2ov5A 261 4.19e+01 1dceB 331 4.23e+01 1dceB a.102.4.3 18872 3dssB 331 4.24e+01 a.102.4.3 157841 3f49S 266 4.26e+01 1ewqA 765 4.27e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1avsA 90 4.28e+01 1cll a.39.1.5 17226 3dhpA 496 4.34e+01 b.71.1.1,c.1.8.1 157725,157726 3htzA 464 4.37e+01 2hwvA 121 4.38e+01 1alvA 173 4.41e+01 1alvA a.39.1.8 17370 2og9A 393 4.44e+01 3c5aA 264 4.47e+01 3dxpA 359 4.48e+01 3mavA 395 4.52e+01 2zblA 421 4.56e+01 2aqlA 173 4.57e+01 3ivlA 208 4.64e+01 3d3iA 761 4.67e+01 3k62A 412 4.72e+01 3eqmA 503 4.74e+01 1w5nA 337 4.80e+01 2q1fA 1022 4.82e+01 1rsoB 56 4.83e+01 a.194.1.1 97812 1b4kA 337 4.83e+01 1b4kA c.1.10.3 29184 3ibxA 221 4.87e+01 2oc3A 303 4.90e+01 2bb6A 414 4.92e+01 1a1vA 476 4.97e+01 1heiA c.37.1.14,c.37.1.14 32467,32468 2f94F 350 5.07e+01 2genA 197 5.09e+01 a.4.1.9,a.121.1.1 135062,135063 2vkhA 546 5.09e+01 c.68.1.22 153225 2pe4A 424 5.10e+01 3einA 209 5.11e+01 1f7uA 607 5.15e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1hdsB 145 5.21e+01 1abwA a.1.1.2 15557 1rkxA 357 5.22e+01 c.2.1.2 97631 2j5cA 569 5.22e+01 1b8fA 509 5.23e+01 1b8fA a.127.1.2 19434 3dzaA 191 5.23e+01 1k92A 455 5.28e+01 c.26.2.1,d.210.1.1 68325,68326 1gp2G 71 5.40e+01 1tbgE a.137.3.1 19635 3dw0A 294 5.41e+01 3g68A 352 5.51e+01 2fldA 165 5.51e+01 3isnD 427 5.54e+01 1dxjA 242 5.59e+01 1cnsA d.2.1.1 36244 1isuA 62 5.60e+01 1isuA g.35.1.1 44978 1yfsA 465 5.61e+01 a.203.1.1,d.104.1.1 123088,123089 1ow4A 129 5.61e+01 a.39.2.1 93628 1xfiA 367 5.64e+01 e.50.1.1 109584 3f4mA 161 5.66e+01 1ug6A 431 5.69e+01 c.1.8.4 88490 1z1lA 345 5.75e+01 1bf2 750 5.76e+01 1bf2 1bf2A 750 5.76e+01 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 3gd2A 229 5.79e+01 3hc6A 232 5.81e+01 3ih6A 197 5.81e+01 1yzgA 179 5.85e+01 c.37.1.8 124276 2vl7A 540 5.85e+01 1fkmA 396 5.90e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 2g7rA 117 5.95e+01 2p54A 267 6.00e+01 a.123.1.1 139497 1vytE 25 6.00e+01 j.68.1.1 108912 2qjwA 176 6.06e+01 1g59A 468 6.08e+01 a.97.1.1,c.26.1.1 60257,60258 1axn 323 6.10e+01 1avc 1axnA 323 6.10e+01 a.65.1.1 18149 2ex3B 264 6.15e+01 a.263.1.1 132500 2ct8A 497 6.20e+01 1rroA 108 6.21e+01 a.39.1.4 17195 3gbhA 213 6.25e+01 1he1A 135 6.26e+01 1he1A a.24.11.1 16641 2pfxA 191 6.34e+01 a.152.1.3 149452 3kawA 140 6.34e+01 1ehaA 558 6.36e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21859,27786,28773 3lofA 113 6.37e+01 1r8sA 164 6.48e+01 c.37.1.8 97247 3m8nA 225 6.53e+01 1qhtA 775 6.62e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 3abhA 312 6.64e+01 2i39A 137 6.71e+01 1qqcA 773 6.72e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 2ww2A 737 6.74e+01 1dloB 427 6.74e+01 1rthA e.8.1.2 43041 1iomA 377 6.82e+01 a.103.1.1 83698 1gk8A 475 6.89e+01 c.1.14.1,d.58.9.1 65234,65235 1yrlA 491 6.92e+01 3h8yA 98 6.97e+01 1bueA 265 7.01e+01 1btl e.3.1.1 42727 3feyC 467 7.07e+01 2gv8A 447 7.07e+01 c.3.1.5,c.3.1.5 135759,135760 2fhfA 1083 7.09e+01 b.1.18.2,b.1.18.2,b.3.1.3,b.71.1.1,c.1.8.1 147035,147036,147037,147038,147039 1nvvS 481 7.10e+01 a.117.1.1 86279 1v7wA 807 7.11e+01 a.102.1.4,b.30.5.3 108411,108412 2fzfA 175 7.12e+01 a.25.1.1 134437 1gln 468 7.22e+01 1gln 3lijA 494 7.23e+01 1uw4B 248 7.24e+01 a.118.1.14 100072 2etvA 346 7.27e+01 c.92.2.4 132372 2h8aA 154 7.31e+01 f.56.1.1 147239 1j4nA 271 7.32e+01 f.19.1.1 71510 3g5gA 99 7.38e+01 3ddlA 273 7.39e+01 1g87A 614 7.43e+01 a.102.1.2,b.2.2.2 83275,83276 1aorA 605 7.44e+01 1b25A a.110.1.1,d.152.1.1 19042,41794 1xw2A 405 7.46e+01 a.102.1.2 122389 3kqnA 437 7.48e+01 1w8rA 263 7.48e+01 c.1.10.1 120734 3dmsA 427 7.48e+01 2dqwA 294 7.53e+01 1v4eA 299 7.55e+01 a.128.1.1 100296 1txgA 335 7.56e+01 a.100.1.6,c.2.1.6 112775,112776 2p0vA 489 7.59e+01 a.102.1.8 149142 2ihiA 395 7.59e+01 2f31A 233 7.59e+01 3glcA 295 7.59e+01 1dv2A 452 7.61e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1bxnA 485 7.73e+01 1burA c.1.14.1,d.58.9.1 29376,39282 3efzA 268 7.74e+01 a.118.7.1 158144 1pyiA 96 7.74e+01 1pyiA g.38.1.1,h.1.3.1 45079,45512 2ie7A 318 7.74e+01 a.65.1.1 137293 1lf6A 684 7.74e+01 a.102.1.5,b.30.5.5 77918,77919 1wab 232 7.75e+01 1wab 3c1lA 188 7.78e+01 1j0mA 752 7.81e+01 a.102.3.2,b.24.1.1,b.30.5.2 83910,83911,83912 2pgsA 451 7.82e+01 2px2A 269 7.87e+01 3kylA 596 7.89e+01 2vzmA 436 7.90e+01 2vwkA 773 7.93e+01 c.55.3.5,e.8.1.1 153677,153678 3hvyA 427 7.95e+01 2iewA 363 7.98e+01 2b1eA 564 7.98e+01 3ir4A 218 7.99e+01