# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 2.92e-17 1qazA a.102.3.1 18848 3a0oA 776 8.90e-06 2fuqA 747 2.35e-04 3e7jA 749 6.43e-04 1ut9A 609 1.62e-02 a.102.1.2,b.1.18.2 99912,99913 1nxcA 478 1.72e-02 a.102.2.1 92293 3cf4A 807 3.29e-02 1ia6A 441 3.51e-02 a.102.1.2 76738 1x9dA 538 4.09e-02 a.102.2.1 121810 1fp3A 402 4.23e-02 1fp3A a.102.1.3 18842 1c3d 294 4.55e-02 1c3d 2ri9A 475 6.45e-02 a.102.2.1 152057 1kwfA 363 6.60e-02 a.102.1.2 73078 2ahfA 377 8.82e-02 1fo3A 460 1.12e-01 1dl2A a.102.2.1 18845 1vd5A 377 1.14e-01 a.102.1.7 108518 1kktA 511 1.23e-01 a.102.2.1 68687 2sqcA 631 1.99e-01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1qqfA 277 2.05e-01 1c3d a.102.4.4 18875 2a73B 991 2.29e-01 2zzrA 397 2.55e-01 2nwlA 422 2.98e-01 1umpA 631 4.79e-01 a.102.4.2,a.102.4.2 99619,99620 1clc 639 4.84e-01 1clc 1clcA 639 4.84e-01 a.102.1.2,b.1.18.2 18835,21872 1hn0A 1021 4.97e-01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 3igoA 486 5.17e-01 3g7jA 219 5.68e-01 1cem 363 6.16e-01 1cem 1tf4A 605 6.31e-01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1jlwA 219 7.86e-01 a.45.1.1,c.47.1.5 71741,71742 1xwmA 217 8.67e-01 a.7.12.1 116132 2a7oA 112 8.68e-01 2nwwA 422 8.98e-01 f.49.1.1 138721 1hzfA 367 1.00e+00 a.102.4.4 76731 1w6kA 732 1.00e+00 a.102.4.2,a.102.4.2 114271,114272 1hcuA 503 1.03e+00 a.102.2.1 65796 3f6dA 219 1.13e+00 3d2fA 675 1.14e+00 1l1yA 678 1.54e+00 a.102.1.2 73486 2fd5A 180 1.57e+00 a.4.1.9,a.121.1.1 133291,133292 2afaA 425 1.95e+00 a.102.1.3 126668 3kdwA 221 2.09e+00 1ks8A 433 2.23e+00 a.102.1.2 77519 3edtB 283 2.27e+00 2gz6A 388 2.30e+00 2pfxA 191 2.35e+00 a.152.1.3 149452 3euvB 427 2.35e+00 1lkvX 232 2.47e+00 a.118.14.1 73980 1r29A 127 2.48e+00 d.42.1.1 96856 1k30A 368 2.51e+00 c.112.1.1 68067 2ijqA 161 2.52e+00 a.246.2.1 137481 3b81A 203 2.59e+00 1iuqA 367 2.87e+00 c.112.1.1 90703 1n7oA 721 2.92e+00 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1ft1B 437 3.16e+00 1ft1B a.102.4.3 18867 2ejqA 130 3.35e+00 d.92.1.17 146875 1eguA 731 3.45e+00 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 2qxlA 658 3.53e+00 1wu4A 396 3.65e+00 a.102.1.2 121272 2o6yA 521 3.71e+00 2h6fB 437 3.78e+00 a.102.4.3 136186 1lfkA 398 3.83e+00 a.104.1.1 77926 3ccgA 190 3.85e+00 3e6uA 411 4.09e+00 3ez8A 537 4.15e+00 1g9gA 629 4.22e+00 a.102.1.2 83279 1fce 629 4.25e+00 1fce 1dceB 331 4.36e+00 1dceB a.102.4.3 18872 1faeA 629 4.42e+00 1fce a.102.1.2 18837 3cihA 739 4.53e+00 2zblA 421 4.66e+00 3dfhA 394 4.85e+00 2cc1A 262 5.02e+00 e.3.1.1 130211 1iufA 144 5.16e+00 a.4.1.7,a.4.1.7 71439,71440 2vccA 891 5.27e+00 1jcrB 437 5.51e+00 a.102.4.3 66507 1wzzA 334 5.82e+00 a.102.1.2 121536 1rwhA 757 5.88e+00 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1tn6B 437 5.95e+00 a.102.4.3 112528 2efeA 267 6.14e+00 3dfgA 162 6.34e+00 3g6iA 204 6.46e+00 1jlvA 209 6.50e+00 a.45.1.1,c.47.1.5 71729,71730 1n4kA 381 6.77e+00 a.118.22.1,b.42.6.1 79992,79993 2hr2A 159 6.97e+00 a.118.8.8 147369 3dssB 331 7.45e+00 a.102.4.3 157841 2xdtA 897 7.54e+00 1zy9A 564 7.83e+00 b.30.5.11,c.1.8.13 125813,125814 1dlcA 584 7.96e+00 b.18.1.3,b.77.2.1,f.1.3.1 23719,27976,43391 3gzkA 537 8.00e+00 1lxkA 721 8.70e+00 a.102.3.2,b.24.1.1,b.30.5.2 74331,74332,74333 2fhfA 1083 8.71e+00 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 2wqmA 310 8.73e+00 1ovlA 271 8.89e+00 a.123.1.1 87455 3k11A 445 8.90e+00 2h8aA 154 8.90e+00 f.56.1.1 147239 2g0dA 409 9.26e+00 a.102.6.1 147057 3gt5A 402 9.39e+00 3f49S 266 9.45e+00 2x1gF 971 1.00e+01 2of3A 266 1.02e+01 1to2E 281 1.02e+01 c.41.1.1 112595 2v8iA 543 1.04e+01 1g87A 614 1.12e+01 a.102.1.2,b.2.2.2 83275,83276 1h6gA 256 1.14e+01 1h6gA a.24.9.1,a.24.9.1 60669,60670 1kn1A 160 1.16e+01 a.1.1.3 77455 1g0cA 364 1.17e+01 7a3hA c.1.8.3 60165 2nr4A 213 1.18e+01 b.45.1.4 148347 2yzsA 315 1.21e+01 1bea 127 1.23e+01 1bea 1beaA 127 1.23e+01 a.52.1.2 17826 1ewqA 765 1.30e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 3c5aA 264 1.31e+01 3bc1A 195 1.32e+01 1gzgA 337 1.36e+01 c.1.10.3 70805 3dw0A 294 1.38e+01 2fefA 294 1.41e+01 a.29.11.1,a.254.1.1 133343,133344 1f24A 402 1.41e+01 1rom a.104.1.1 18953 1w5qA 337 1.44e+01 3ituA 345 1.47e+01 1aorA 605 1.49e+01 1b25A a.110.1.1,d.152.1.1 19042,41794 1zu2A 158 1.49e+01 a.118.8.1 125662 3kz9A 206 1.53e+01 1rom 403 1.54e+01 1rom 1jfbA 404 1.55e+01 a.104.1.1 66624 1vctA 205 1.56e+01 a.7.12.1,d.286.1.1 119986,119987 3dhyA 495 1.57e+01 1cmnA 402 1.58e+01 1rom a.104.1.1 18958 2ov5A 261 1.58e+01 1b3uA 588 1.58e+01 1b3uA a.118.1.2 19135 3hc5A 232 1.65e+01 1oshA 232 1.66e+01 a.123.1.1 93496 3ce6A 494 1.73e+01 2f5jA 181 1.74e+01 1ig8A 486 1.75e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 2g7sA 194 1.79e+01 a.4.1.9,a.121.1.1 134737,134738 1qsaA 618 1.80e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 2p32A 120 1.82e+01 3cnqS 266 1.83e+01 1x8vA 455 1.84e+01 a.104.1.1 114968 3l1bA 233 1.89e+01 2fldA 165 1.92e+01 1b4kA 337 1.93e+01 1b4kA c.1.10.3 29184 1nigA 152 1.94e+01 a.25.2.1 85740 1qzmA 94 1.99e+01 c.37.1.20 96651 1w5nA 337 2.00e+01 1io7A 368 2.04e+01 1f4tA a.104.1.1 18971 1uouA 474 2.05e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 3fxvA 233 2.06e+01 3h5qA 436 2.07e+01 2wioA 431 2.08e+01 3ejbB 404 2.15e+01 1ug6A 431 2.16e+01 c.1.8.4 88490 2okxA 956 2.20e+01 1bueA 265 2.22e+01 1btl e.3.1.1 42727 1qhbA 596 2.36e+01 1qhbA a.111.1.2 19055 2fb5A 205 2.40e+01 d.320.1.1 133235 3htzA 464 2.41e+01 2etvA 346 2.53e+01 c.92.2.4 132372 2j0fA 482 2.54e+01 2zhgA 154 2.58e+01 1wab 232 2.60e+01 1wab 1j55A 95 2.65e+01 a.39.1.2 77078 2q1fA 1022 2.66e+01 3mipA 161 2.66e+01 3dwcA 505 2.67e+01 1es9A 232 2.68e+01 1wab c.23.10.3 31340 3c5tA 122 2.71e+01 2oltA 227 2.75e+01 1ijxA 127 2.77e+01 1ijxA a.141.1.1 62511 1nfiE 215 2.79e+01 1iknD d.211.1.1 19172 3dzaA 191 2.87e+01 2nliA 368 2.87e+01 1itzA 675 2.88e+01 c.36.1.10,c.36.1.6,c.48.1.1 76797,76798,76799 2oc3A 303 2.90e+01 3krwA 688 2.91e+01 1f4tA 368 2.98e+01 1f4tA a.104.1.1 18973 2wk6A 482 2.98e+01 1sgmA 191 2.99e+01 a.4.1.9,a.121.1.1 105537,105538 3iolA 126 3.00e+01 3fooA 106 3.02e+01 1jk0B 345 3.04e+01 a.25.1.2 63143 1j78A 458 3.06e+01 a.126.1.1,a.126.1.1,a.126.1.1 66397,66398,66399 2de6A 392 3.14e+01 b.33.1.2,d.129.3.3 131415,131416 1z1lA 345 3.17e+01 1cv8 174 3.21e+01 1cv8 1cv8A 174 3.21e+01 d.3.1.1 37089 3f5dA 206 3.24e+01 1vqwA 457 3.26e+01 c.3.1.5,c.3.1.5 114028,114029 2vq2A 225 3.28e+01 2zhjA 322 3.28e+01 3f6qA 179 3.33e+01 2aqlA 173 3.35e+01 2axtC 473 3.49e+01 f.55.1.1 144928 1y6zA 263 3.49e+01 1hzoA 271 3.50e+01 e.3.1.1 71092 1cb8A 678 3.51e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 2ns0A 85 3.51e+01 a.4.5.76 148381 2uy1A 493 3.55e+01 1bs2A 607 3.57e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 16930,31597,39563 2x6hA 696 3.63e+01 3gbhA 213 3.75e+01 1yrlA 491 3.76e+01 1iv8A 720 3.77e+01 b.71.1.1,c.1.8.1 76842,76843 1j32A 388 3.79e+01 c.67.1.1 77067 2du2A 374 3.83e+01 1g7oA 215 3.87e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 3ig5A 692 3.90e+01 3gpvA 148 3.92e+01 3feyC 467 3.94e+01 3eu8A 430 3.94e+01 2zonG 87 3.94e+01 1otvA 259 3.97e+01 a.132.1.4 93526 2q40A 367 4.04e+01 e.50.1.1 139814 1hfeL 421 4.05e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 3ck6A 252 4.14e+01 3i16A 427 4.20e+01 1avsA 90 4.32e+01 1cll a.39.1.5 17226 3lmmA 583 4.34e+01 1ojxA 263 4.38e+01 c.1.10.1 93164 3ls8A 614 4.38e+01 1x9fA 151 4.38e+01 a.1.1.2 114983 3kndA 460 4.43e+01 1k0dA 260 4.43e+01 a.45.1.1,c.47.1.5 67930,67931 2hydA 578 4.45e+01 c.37.1.12,f.37.1.1 136875,136876 1t11A 392 4.45e+01 a.223.1.1,d.241.2.1,d.26.1.1 106236,106237,106238 3lw1A 253 4.49e+01 1isuA 62 4.51e+01 1isuA g.35.1.1 44978 1dd5A 185 4.53e+01 1dd5A d.67.3.1 39564 2z3qA 119 4.61e+01 a.26.1.2 154002 3h8yA 98 4.62e+01 2py5A 575 4.66e+01 c.55.3.5,e.8.1.1 149928,149929 2bk9A 153 4.67e+01 1yfsA 465 4.69e+01 a.203.1.1,d.104.1.1 123088,123089 2iewA 363 4.70e+01 3kruA 343 4.71e+01 1z7lA 276 4.72e+01 1he1A 135 4.73e+01 1he1A a.24.11.1 16641 3hvyA 427 4.74e+01 1ialA 453 4.74e+01 1bk5A a.118.1.1 19116 1wpoA 256 4.77e+01 1lay b.57.1.1 27012 2q01A 497 4.83e+01 1xlyA 234 4.95e+01 a.232.1.1 115457 3cl6A 308 4.99e+01 3dpjA 194 5.00e+01 1kxpD 458 5.00e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1xi1A 575 5.01e+01 c.55.3.5,e.8.1.1 115309,115310 2bnxA 386 5.03e+01 a.118.1.23 128861 2vunA 386 5.04e+01 2ww2A 737 5.05e+01 3einA 209 5.06e+01 1kgnA 329 5.07e+01 a.25.1.2 68584 2vl7A 540 5.07e+01 2pe4A 424 5.14e+01 3i79A 484 5.30e+01 3ivlA 208 5.32e+01 2eplX 627 5.34e+01 1ehaA 558 5.37e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21859,27786,28773 2x77A 189 5.37e+01 2amlA 373 5.44e+01 2h17A 181 5.45e+01 1wovA 250 5.49e+01 a.132.1.1 121124 3ih6A 197 5.60e+01 3c1lA 188 5.62e+01 1j4nA 271 5.62e+01 f.19.1.1 71510 1sw6A 327 5.63e+01 1sw6A d.211.1.1 19176 1n9bA 265 5.63e+01 e.3.1.1 85463 1rroA 108 5.65e+01 a.39.1.4 17195 1omwA 689 5.66e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 2aaxA 275 5.67e+01 1axn 323 5.68e+01 1avc 1axnA 323 5.68e+01 a.65.1.1 18149 3m6jA 145 5.73e+01 2ixnA 310 5.82e+01 a.268.1.1 137777 2nadA 393 5.85e+01 2nadA c.2.1.4,c.23.12.1 30090,31350 2ho1A 252 5.86e+01 2pv7A 298 5.90e+01 a.100.1.12,c.2.1.6 149887,149888 3hlxA 258 5.90e+01 2ogiA 196 5.94e+01 2e8gA 241 5.98e+01 2nacA 393 5.99e+01 2nadA c.2.1.4,c.23.12.1 30088,31348 3ccyA 203 6.04e+01 2j5bA 348 6.08e+01 1ylvA 342 6.13e+01 1b4kA c.1.10.3 29180 3dxpA 359 6.13e+01 2ewhA 98 6.16e+01 d.58.56.1 132466 2ksfA 107 6.19e+01 1qdbA 473 6.20e+01 1qdbA a.138.1.3 19688 1phnB 172 6.20e+01 1qgwC a.1.1.3 15642 1t2bA 397 6.21e+01 1up8A 598 6.26e+01 a.111.1.2 99710 2q3hA 201 6.30e+01 1ywmA 200 6.31e+01 1pyiA 96 6.34e+01 1pyiA g.38.1.1,h.1.3.1 45079,45512 3misA 161 6.34e+01 1ydiA 263 6.35e+01 1vns 609 6.36e+01 1vns 1vnsA 609 6.36e+01 a.111.1.3 19061 1hdsB 145 6.38e+01 1abwA a.1.1.2 15557 1jxhA 288 6.42e+01 c.72.1.2 67415 3hd6A 490 6.44e+01 3lofA 113 6.45e+01 3c7aA 404 6.45e+01 1b33A 160 6.46e+01 1qgwC a.1.1.3 15649 2yv5A 302 6.51e+01 1nvvS 481 6.55e+01 a.117.1.1 86279 3f4mA 161 6.59e+01 3hc6A 232 6.66e+01 1ezfA 340 6.66e+01 1ezfA a.128.1.2 19440 1gxmA 332 6.72e+01 a.102.5.1 76371 256bA 106 6.76e+01 256bA a.24.3.1 16539 1wvgA 359 6.82e+01 c.2.1.2 121339 2zq8A 262 6.83e+01 3efzA 268 6.84e+01 a.118.7.1 158144 3gd2A 229 6.84e+01 2axtD 352 6.90e+01 f.26.1.1 144929 3hx4A 508 6.93e+01 1hy0A 466 6.93e+01 1auwA a.127.1.1 61392 1sctB 151 6.95e+01 3sdhA a.1.1.2 15003 2pziA 681 7.00e+01 3eupA 204 7.04e+01 1iysA 262 7.10e+01 e.3.1.1 90723 1yi8A 351 7.12e+01 1i4aA 318 7.18e+01 1avc a.65.1.1 61681 3dhzA 329 7.22e+01 a.25.1.2 157741 2p74A 263 7.23e+01 3ff1A 446 7.27e+01 1eupA 403 7.30e+01 1rom a.104.1.1 18967 1nd7A 374 7.32e+01 d.148.1.1 91817 1yljA 263 7.32e+01 2qo3A 915 7.35e+01 3hmlA 258 7.38e+01 1xfiA 367 7.38e+01 e.50.1.1 109584 3a9sA 595 7.44e+01 1itcA 516 7.49e+01 b.3.1.1,c.1.8.1 83705,83706 1kq8A 100 7.50e+01 a.4.5.14 68797 2gv8A 447 7.66e+01 c.3.1.5,c.3.1.5 135759,135760 2j5vA 367 7.72e+01 1rw6A 210 7.73e+01 a.47.4.1 105113 1ldfA 281 7.79e+01 f.19.1.1 73845 1binA 143 7.85e+01 2gdm a.1.1.2 15231 1vytE 25 7.89e+01 j.68.1.1 108912 3c68A 761 7.91e+01 3cikA 689 7.96e+01 1dl2A 511 7.96e+01 1dl2A a.102.2.1 18844 1qqyA 130 7.98e+01 3lzt d.2.1.2 36586