# List of top-scoring protein chains for t04-100-30-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.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 1qgrA 876 5.63e-22 1qgrA a.118.1.1 19119 2bptA 861 4.33e-20 1ibrB 462 2.75e-15 1qgrA a.118.1.1 19120 1qbkB 890 2.16e-10 1qbkB a.118.1.1 19127 1wa5B 530 4.31e-06 1ee4A 423 9.77e-06 1ee4A a.118.1.1 19128 1b3uA 588 3.42e-02 1b3uA a.118.1.2 19135 1xqsA 280 3.78e-02 1gw5A 621 5.10e-02 a.118.1.10 70629 1xqrA 296 6.46e-02 1yqyA 523 7.97e-02 1oyzA 280 1.48e-01 a.118.1.16 93775 1zwwA 256 3.62e-01 1e7uA 961 4.06e-01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1jdhA 529 4.11e-01 a.118.1.1 66549 2d0tA 406 4.13e-01 2awiA 317 6.28e-01 2bkkA 264 6.37e-01 1i7wA 538 6.76e-01 3bct a.118.1.1 61909 1sly 618 7.14e-01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1qsaA 618 8.87e-01 1qsaA a.118.5.1,d.2.1.6 19182,36988 2sqcA 631 9.05e-01 2sqcA a.102.4.2,a.102.4.2 18854,18855 2pgd 482 1.01e+00 2pgd a.100.1.1,c.2.1.6 18778,30190 1qgdA 662 1.36e+00 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1e8yA 966 1.47e+00 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1l7vA 326 1.88e+00 f.22.1.1 73672 1rzhL 281 1.98e+00 f.26.1.1 98164 1j7lA 264 2.17e+00 d.144.1.6 62697 1pvtA 238 2.40e+00 c.74.1.1 95189 1h5zA 455 2.46e+00 a.104.1.1 90622 1wu4A 396 2.48e+00 2au3A 407 2.79e+00 1jksA 294 3.25e+00 d.144.1.7 71710 1j4nA 271 3.31e+00 f.19.1.1 71510 1rxwA 336 3.39e+00 a.60.7.1,c.120.1.2 98059,98060 1mrg 263 3.40e+00 1mrj d.165.1.1 42183 1qqeA 292 3.65e+00 1qqeA a.118.8.1 19210 2bdwA 362 3.73e+00 1miwA 404 3.76e+00 a.173.1.1,d.218.1.4 79162,79163 1vgoA 253 4.12e+00 1q8yA 373 4.30e+00 d.144.1.7 96234 1eyeA 280 4.70e+00 1aj2 c.1.21.1 29672 2b2hA 399 4.72e+00 1dceB 331 4.80e+00 1dceB a.102.4.3 18872 2g5cA 281 4.84e+00 1yvrA 538 4.91e+00 1a04A 215 4.98e+00 1a04A a.4.6.2,c.23.1.1 16234,31089 1e9xA 455 5.66e+00 1ea1A a.104.1.1 18969 1aj8A 371 5.71e+00 1aj8A a.103.1.1 18900 1o5hA 214 5.90e+00 a.191.1.1 92497 1o26A 232 6.16e+00 d.207.1.1 86566 1yw0A 276 6.23e+00 1lrv 244 6.28e+00 1lrv a.118.1.5 19146 1sziA 247 6.43e+00 a.24.23.1 106159 1e6yB 433 6.56e+00 1mroB a.89.1.1,d.58.31.2 18535,39453 1vgmA 378 6.60e+00 1obbA 480 6.66e+00 c.2.1.5,d.162.1.2 86760,86761 1j0hA 588 6.74e+00 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1td6A 306 6.75e+00 1u13A 455 7.08e+00 a.104.1.1 107578 1t0qA 498 7.09e+00 a.25.1.2 106220 1j7nA 776 7.43e+00 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1tfjA 219 7.45e+00 1h7eA 245 7.79e+00 c.68.1.13 60717 1p4fA 293 8.27e+00 d.144.1.7 104063 1t2dA 322 8.27e+00 c.2.1.5,d.162.1.1 99084,99085 1eysL 280 8.28e+00 6prcL f.26.1.1 43515 1ho8A 480 8.50e+00 1ho8A a.118.1.9 61107 1pu6A 218 8.65e+00 a.96.1.5 95123 1vfrA 218 8.68e+00 1vfrA d.90.1.1 40247 1czaN 917 8.80e+00 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1db1A 259 9.16e+00 1db1A a.123.1.1 19329 1z1lA 345 9.18e+00 1n35A 1267 9.19e+00 e.8.1.4 79935 1lshA 1056 9.25e+00 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1szqA 483 9.81e+00 e.44.1.1 99045 1xo1A 291 1.03e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 2olbA 517 1.06e+01 1jevA c.94.1.1 35721 1jx6A 342 1.08e+01 c.93.1.1 67406 1jetA 517 1.09e+01 1jevA c.94.1.1 35718 1rq2A 382 1.10e+01 c.32.1.1,d.79.2.1 105048,105049 1x8vA 455 1.10e+01 1s4bP 674 1.10e+01 d.92.1.5 105252 1hcuA 503 1.11e+01 a.102.2.1 65796 1r2fA 319 1.12e+01 1r2fA a.25.1.2 16800 1bbhA 131 1.15e+01 1bbhA a.24.3.2 16546 1cb8A 678 1.18e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1vdyA 140 1.21e+01 1r6fA 310 1.23e+01 e.46.1.1 97149 1uarA 285 1.23e+01 c.46.1.2,c.46.1.2 107762,107763 1vom 762 1.26e+01 1lvk b.34.3.1,c.37.1.9 24577,32174 2azjA 289 1.26e+01 1nhyA 219 1.26e+01 a.45.1.1,c.47.1.5 80520,80521 1jgjA 217 1.28e+01 1c3wA f.13.1.1 62952 1tfr 305 1.30e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1mrj 247 1.31e+01 1mrj d.165.1.1 42177 2aebA 322 1.35e+01 1kpgA 287 1.40e+01 c.66.1.18 68735 1howA 373 1.41e+01 1hcl d.144.1.7 41679 1dekA 241 1.41e+01 1dekA c.37.1.1 31842 1ptmA 329 1.42e+01 c.77.1.3 95104 1oyeA 1049 1.42e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1zq4A 693 1.43e+01 2auwA 170 1.43e+01 1otvA 259 1.47e+01 a.132.1.4 93526 1je8A 82 1.54e+01 a.4.6.2 77108 2g62A 325 1.54e+01 1iwhB 146 1.56e+01 a.1.1.2 76883 1yc9A 442 1.61e+01 1gmjA 84 1.62e+01 h.4.8.1 65310 1q5qA 259 1.65e+01 d.153.1.4 95904 1j09A 468 1.65e+01 a.97.1.1,c.26.1.1 77025,77026 1b9oA 123 1.66e+01 3lzt d.2.1.2 36597 1t98A 287 1.69e+01 1xjzA 233 1.72e+01 2fk8A 318 1.79e+01 1ei5A 520 1.80e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1kgnA 329 1.89e+01 a.25.1.2 68584 1y10A 407 1.91e+01 1g99A 408 1.92e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1eyhA 144 1.94e+01 1eduA a.118.9.1 19214 1h2sA 225 1.96e+01 f.13.1.1 76578 1wa5C 960 1.96e+01 3thiA 371 1.99e+01 2thiA c.94.1.1 35792 1jpzA 473 2.07e+01 a.104.1.1 67069 1ux5A 411 2.10e+01 a.207.1.1 100144 1o5kA 306 2.12e+01 c.1.10.1 92504 1h97A 147 2.13e+01 1h97A a.1.1.2 60812 1i3dA 146 2.13e+01 a.1.1.2 61587 1t3qC 288 2.14e+01 d.87.2.1,d.145.1.3 106371,106372 1usyA 275 2.25e+01 2fcwA 109 2.30e+01 1lvk 762 2.31e+01 1lvk b.34.3.1,c.37.1.9 24576,32173 2ac5A 316 2.33e+01 1ldg 316 2.34e+01 1ceqA c.2.1.5,d.162.1.1 30165,42132 1h8eG 272 2.34e+01 1e79G c.49.2.1 60756 3ertA 261 2.35e+01 3erdA a.123.1.1 19292 2d5xB 146 2.37e+01 1eqcA 394 2.41e+01 1cz1A c.1.8.3 28811 1ow4A 129 2.50e+01 a.39.2.1 93628 1xpcA 248 2.52e+01 1n93X 375 2.53e+01 a.206.1.1 91707 1mhqA 148 2.54e+01 a.118.9.2 84973 1z47A 355 2.55e+01 1kktA 511 2.56e+01 a.102.2.1 68687 1xwtA 405 2.62e+01 1toaA 313 2.64e+01 1toaA c.92.2.2 35598 1b25A 619 2.64e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1zn8A 180 2.66e+01 3inkC 133 2.68e+01 3inkC a.26.1.2 16881 1rcwA 231 2.70e+01 a.132.1.4 97299 1fkqA 124 2.71e+01 3lzt d.2.1.2 36601 1iqrA 420 2.71e+01 a.99.1.1,c.28.1.1 66275,66276 2be4A 272 2.74e+01 1szhA 161 2.75e+01 a.226.1.1 106157 1ie9A 259 2.75e+01 1db1A a.123.1.1 62318 1nn5A 215 2.78e+01 c.37.1.1 85892 1h12A 405 2.78e+01 a.102.1.2 83447 1wdcB 156 2.79e+01 1wdcB a.39.1.5 17302 1xw2A 405 2.79e+01 2a97A 439 2.81e+01 1x1iA 752 2.82e+01 1ib2A 349 2.84e+01 1ib2A a.118.1.8 62141 1upkA 341 2.85e+01 a.118.1.15 99758 1f3aA 222 2.92e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1k8kG 151 2.92e+01 a.118.13.1 68313 2fbiA 142 2.98e+01 1bu7A 455 2.98e+01 1bu7A a.104.1.1 18937 1dqeA 137 3.09e+01 1dqeA a.39.2.1 17388 1mkiA 330 3.10e+01 e.3.1.2 84994 1v8dA 235 3.11e+01 c.140.1.1 108425 1dmtA 696 3.11e+01 1dmtA d.92.1.4 40296 1lehA 364 3.13e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1n45A 233 3.14e+01 a.132.1.1 79981 1clc 639 3.15e+01 1clc a.102.1.2,b.1.18.2 18835,21872 1xfxO 149 3.24e+01 1tikA 213 3.26e+01 c.23.5.3 107003 1cnzA 363 3.32e+01 1cnzA c.77.1.1 35061 1pxgA 382 3.41e+01 c.1.20.1 95287 1ituA 369 3.41e+01 c.1.9.7 71423 1r1hA 696 3.43e+01 d.92.1.4 104756 1f3mC 297 3.45e+01 1hcl d.144.1.7 41677 1y9uA 323 3.49e+01 1vqqA 646 3.51e+01 2fiqA 420 3.52e+01 1t9xA 1049 3.53e+01 1rtwA 220 3.58e+01 a.132.1.3 97823 1sig 339 3.58e+01 1sig a.177.1.1 19068 1j1bA 420 3.62e+01 d.144.1.7 90758 2fm9A 215 3.63e+01 1ihp 438 3.66e+01 1ihp c.60.1.2 33993 1r5yA 386 3.73e+01 c.1.20.1 97134 1q35A 320 3.73e+01 c.94.1.1 95661 2ccjA 205 3.73e+01 2a5lA 200 3.78e+01 1v73A 342 3.86e+01 1ej6B 1275 3.86e+01 i.7.1.1 45968 1knvA 293 3.87e+01 c.52.1.7 68707 1ia6A 441 3.99e+01 a.102.1.2 76738 1khvA 516 4.03e+01 e.8.1.4 68627 1v0dA 329 4.06e+01 d.4.1.7 108204 1vqwA 457 4.09e+01 1n97A 389 4.21e+01 a.104.1.1 80335 2ftuA 118 4.24e+01 1gln 468 4.28e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1mngA 203 4.28e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1sd4A 126 4.34e+01 a.4.5.39 105428 2f4wA 187 4.37e+01 1n69A 81 4.38e+01 a.64.1.3 80118 2f2hA 773 4.39e+01 1mo0A 275 4.40e+01 c.1.1.1 79329 1pud 386 4.40e+01 1pud c.1.20.1 29658 1ca1 370 4.46e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1ldjA 760 4.51e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1uocA 289 4.52e+01 c.55.3.9 99686 1a8rA 221 4.53e+01 1a8rA d.96.1.1 40587 2ac3A 316 4.53e+01 1spxA 278 4.55e+01 c.2.1.2 98958 1dlwA 116 4.55e+01 1dlyA a.1.1.1 14982 1jadA 251 4.63e+01 h.4.10.1 66461 1pw4A 451 4.65e+01 f.38.1.1 95198 1i7dA 659 4.69e+01 1d6mA e.10.1.1 61886 2afaA 425 4.76e+01 1k94A 165 4.80e+01 a.39.1.8 68333 1phk 298 4.83e+01 1cdkA d.144.1.7 41635 1hw1A 239 4.90e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1qq5A 253 4.94e+01 1qq5A c.108.1.1 43327 1u2mA 143 5.00e+01 f.48.1.1 107612 1xgwA 176 5.01e+01 1hyhA 309 5.02e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1qq7A 253 5.02e+01 1qq5A c.108.1.1 43329 1rwhA 757 5.02e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1rp4A 389 5.05e+01 a.227.1.1 105027 1kfuL 699 5.10e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1qv1A 195 5.15e+01 a.39.1.5 96347 1k0fA 277 5.18e+01 c.92.2.2 71974 1irdB 146 5.20e+01 a.1.1.2 66287 1aisB 200 5.23e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1dgfA 497 5.24e+01 1cf9A e.5.1.1 42782 1xdwA 331 5.28e+01 1qq8A 214 5.30e+01 1qq8A 1lrzA 426 5.31e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1t46A 313 5.40e+01 d.144.1.7 106397 1o6zA 303 5.41e+01 c.2.1.5,d.162.1.1 81107,81108 1vkpA 383 5.44e+01 d.126.1.6 108686 7aatA 401 5.45e+01 1ajsA c.67.1.1 34250 2aaoA 166 5.46e+01 1y0vH 146 5.48e+01 1e2fA 215 5.50e+01 3tmkA c.37.1.1 59164 1ei7A 158 5.50e+01 1rmvA a.24.5.1 16584 1xm9A 457 5.50e+01 1svvA 359 5.51e+01 c.67.1.1 106054 1gv3A 248 5.52e+01 a.2.11.1,d.44.1.1 70585,70586 2dg5A 366 5.53e+01 1wv2A 265 5.56e+01 1f7uA 607 5.60e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1chuA 540 5.64e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1j1jA 240 5.65e+01 a.118.16.1 90762 2a33A 215 5.70e+01 2spl 154 5.72e+01 1a6m a.1.1.2 15047 1n7hA 381 5.78e+01 c.2.1.2 80250 1vp2A 208 5.78e+01 1whtA 256 5.80e+01 1ivyA c.69.1.5 34646 2eshA 118 5.83e+01 1jb0L 154 5.83e+01 1jb0L f.31.1.1 62829 1whsA 255 5.86e+01 1ivyA c.69.1.5 34649 1tuaA 191 5.95e+01 d.51.1.1,d.51.1.1 107321,107322 1wdyA 285 5.98e+01 1e2gA 215 6.01e+01 3tmkA c.37.1.1 59165 2utgA 70 6.02e+01 1utg a.101.1.1 18814 1w9cA 321 6.04e+01 7a3hA 303 6.04e+01 7a3hA c.1.8.3 28817 1xkrA 206 6.05e+01 1vr5A 547 6.09e+01 1n1jB 97 6.14e+01 a.22.1.3 79814 1xg9A 260 6.18e+01 1m48A 133 6.22e+01 a.26.1.2 74443 1zghA 260 6.28e+01 1i1rB 181 6.34e+01 1i1rB a.26.1.1 61548 1babB 146 6.34e+01 1abwA a.1.1.2 15414 1spgB 147 6.36e+01 1cg5B a.1.1.2 15588 2fpoA 202 6.36e+01 1qgtA 149 6.37e+01 1qgtA a.62.1.1 18135 1v7rA 186 6.42e+01 c.51.4.1 100482 1ggzA 148 6.42e+01 a.39.1.5 70176 1vzoA 355 6.49e+01 d.144.1.7 108971 1ptvA 321 6.50e+01 1pty c.45.1.2 32665 1t6sA 162 6.52e+01 1w78A 422 6.52e+01 1mvwC 147 6.56e+01 i.15.1.1 79525 1t3wA 148 6.58e+01 1utg 70 6.60e+01 1utg a.101.1.1 18813 1zoyC 140 6.64e+01 1yhvA 297 6.66e+01 1cpo 299 6.72e+01 1cpo a.39.3.1,a.39.3.1 17390,17391 1c3pA 375 6.77e+01 1c3pA c.42.1.2 32606 1d5rA 324 6.79e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1io0A 185 6.86e+01 c.10.1.1 76753 2fnuA 375 6.93e+01 1tazA 365 6.96e+01 a.211.1.2 106734 1h4pA 408 7.00e+01 c.1.8.3 90617 1a5t 334 7.04e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1sfkA 76 7.04e+01 a.190.1.1 105488 1v33A 366 7.08e+01 d.264.1.1 100278 1wvvA 265 7.11e+01 1r2rA 248 7.15e+01 c.1.1.1 96875 1ycdA 243 7.16e+01 2akaA 776 7.20e+01 1ezvF 125 7.30e+01 1be3F f.27.1.1 59550 1wbeA 209 7.30e+01 1g2nA 264 7.38e+01 1lbd a.123.1.1 60227 2cwcA 303 7.52e+01 1s1eA 224 7.56e+01 1tph1 247 7.57e+01 1amk 1xsjA 778 7.60e+01 2azqA 311 7.61e+01 1khoA 370 7.62e+01 a.124.1.1,b.12.1.3 72489,72490 1epwA 1290 7.71e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1sh0A 510 7.72e+01 e.8.1.4 98876 2arcA 164 7.82e+01 2arcA b.82.4.1 28148 1gs9A 165 7.85e+01 a.24.1.1 83313 1wusA 180 7.88e+01 1php 394 7.90e+01 16pk c.86.1.1 35452 1kb9G 125 7.92e+01 f.27.1.1 77322 1sz6A 249 7.92e+01 1sy7A 715 7.93e+01 1spgA 144 7.94e+01 1abwA a.1.1.2 15409 2cw8A 537 7.94e+01 1h54A 754 8.06e+01 a.102.1.4,b.30.5.3 60634,60635 1lp8A 254 8.09e+01 d.165.1.1 91082 1rl0A 255 8.13e+01 1at3A 247 8.13e+01 1at3A b.57.1.1 27021 1ji6A 589 8.13e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 2a19B 284 8.15e+01 1rovA 857 8.15e+01 a.119.1.1,b.12.1.1 97674,97675 1ouvA 273 8.16e+01 a.118.18.1 93570 1j7dA 145 8.23e+01 1jatB d.20.1.1 62680 1j9aA 184 8.28e+01 c.55.3.5 84135 1io7A 368 8.30e+01 1f4tA a.104.1.1 18971 2occA 514 8.43e+01 2occA f.24.1.1 43518 1hrhA 136 8.52e+01 1rthA c.55.3.1 33577 1zuwA 272 8.53e+01 1p5zB 263 8.57e+01 c.37.1.1 87815 1qazA 351 8.63e+01 1qazA a.102.3.1 18848 1h0oA 390 8.67e+01 a.25.1.2 70845 1jk0A 419 8.69e+01 a.25.1.2 63142 1xjdA 345 8.76e+01 1goiA 499 8.86e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1vrbA 342 8.88e+01 1rqjA 299 8.92e+01 a.128.1.1 97744 1it2A 146 8.99e+01 a.1.1.2 66365