# List of top-scoring protein chains for t04-100-30-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.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 6.02e-23 1qgrA a.118.1.1 19119 2bptA 861 1.27e-20 1ibrB 462 1.30e-16 1qgrA a.118.1.1 19120 1qbkB 890 5.00e-13 1qbkB a.118.1.1 19127 1ee4A 423 2.65e-05 1ee4A a.118.1.1 19128 1wa5B 530 3.40e-05 1b3uA 588 3.45e-03 1b3uA a.118.1.2 19135 1oyzA 280 1.67e-02 a.118.1.16 93775 1xqrA 296 3.57e-02 1xqsA 280 4.28e-02 1yqyA 523 4.59e-02 1zwwA 256 2.21e-01 1i7wA 538 3.77e-01 3bct a.118.1.1 61909 1lrv 244 4.07e-01 1lrv a.118.1.5 19146 1jdhA 529 5.65e-01 a.118.1.1 66549 1rxwA 336 9.61e-01 a.60.7.1,c.120.1.2 98059,98060 1gw5A 621 1.03e+00 a.118.1.10 70629 1e7uA 961 1.08e+00 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 2bkkA 264 1.27e+00 2bdwA 362 1.39e+00 2au3A 407 1.39e+00 1yvrA 538 1.58e+00 1usyA 275 2.48e+00 1qgdA 662 2.61e+00 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 2sqcA 631 2.99e+00 2sqcA a.102.4.2,a.102.4.2 18854,18855 1chuA 540 3.10e+00 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1clc 639 3.52e+00 1clc a.102.1.2,b.1.18.2 18835,21872 2d0tA 406 3.91e+00 1pvtA 238 3.99e+00 c.74.1.1 95189 1e8yA 966 4.04e+00 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1h4pA 408 4.17e+00 c.1.8.3 90617 1rzhL 281 4.25e+00 f.26.1.1 98164 1a8rA 221 4.36e+00 1a8rA d.96.1.1 40587 2pgd 482 4.75e+00 2pgd a.100.1.1,c.2.1.6 18778,30190 1lvk 762 4.82e+00 1lvk b.34.3.1,c.37.1.9 24576,32173 1td6A 306 5.03e+00 1upkA 341 5.23e+00 a.118.1.15 99758 1mc0A 368 5.95e+00 d.110.2.1,d.110.2.1 78937,78938 1qqeA 292 5.98e+00 1qqeA a.118.8.1 19210 1z5hA 780 6.05e+00 1qsaA 618 6.28e+00 1qsaA a.118.5.1,d.2.1.6 19182,36988 1j7lA 264 6.35e+00 d.144.1.6 62697 2awiA 317 6.43e+00 1dceB 331 6.91e+00 1dceB a.102.4.3 18872 1toaA 313 6.97e+00 1toaA c.92.2.2 35598 1jksA 294 7.05e+00 d.144.1.7 71710 1j0hA 588 7.23e+00 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1kgnA 329 7.97e+00 a.25.1.2 68584 2ac5A 316 8.27e+00 1wu4A 396 8.46e+00 1b25A 619 8.50e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 1tfjA 219 8.54e+00 1tkiA 321 8.75e+00 1tkiA d.144.1.7 41638 1ihp 438 8.78e+00 1ihp c.60.1.2 33993 1eysL 280 8.92e+00 6prcL f.26.1.1 43515 1w33A 181 9.19e+00 2azjA 289 9.28e+00 1k0fA 277 9.39e+00 c.92.2.2 71974 1eyeA 280 9.44e+00 1aj2 c.1.21.1 29672 1yhvA 297 9.99e+00 1n7hA 381 1.04e+01 c.2.1.2 80250 1hcuA 503 1.08e+01 a.102.2.1 65796 1vdyA 140 1.09e+01 1q5qA 259 1.11e+01 d.153.1.4 95904 1j7nA 776 1.11e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1i1rB 181 1.12e+01 1i1rB a.26.1.1 61548 2ac3A 316 1.15e+01 1sziA 247 1.22e+01 a.24.23.1 106159 1czaN 917 1.27e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1mrg 263 1.28e+01 1mrj d.165.1.1 42183 1swxA 209 1.29e+01 a.224.1.1 106075 1vom 762 1.30e+01 1lvk b.34.3.1,c.37.1.9 24577,32174 1eyhA 144 1.30e+01 1eduA a.118.9.1 19214 1o26A 232 1.30e+01 d.207.1.1 86566 2bvaA 292 1.33e+01 1j4nA 271 1.33e+01 f.19.1.1 71510 1v54A 514 1.36e+01 f.24.1.1 100321 2g5cA 281 1.36e+01 1f3mC 297 1.37e+01 1hcl d.144.1.7 41677 2c30A 321 1.37e+01 2tpt 440 1.38e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1p4fA 293 1.44e+01 d.144.1.7 104063 1d0yA 761 1.44e+01 1lvk b.34.3.1,c.37.1.9 24581,32178 1h7eA 245 1.47e+01 c.68.1.13 60717 3ertA 261 1.47e+01 3erdA a.123.1.1 19292 1pw4A 451 1.49e+01 f.38.1.1 95198 1bbhA 131 1.49e+01 1bbhA a.24.3.2 16546 1eqcA 394 1.50e+01 1cz1A c.1.8.3 28811 1ynbA 173 1.51e+01 1zy4A 303 1.59e+01 1f52A 468 1.59e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 1sly 618 1.60e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1b74A 254 1.62e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1a04A 215 1.69e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1q8iA 783 1.70e+01 c.55.3.5,e.8.1.1 96208,96209 1tfr 305 1.70e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1ldjA 760 1.71e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1wbeA 209 1.72e+01 1r2fA 319 1.73e+01 1r2fA a.25.1.2 16800 1gmjA 84 1.75e+01 h.4.8.1 65310 2olbA 517 1.78e+01 1jevA c.94.1.1 35721 7a3hA 303 1.79e+01 7a3hA c.1.8.3 28817 1t0qA 498 1.81e+01 a.25.1.2 106220 2a19B 284 1.82e+01 1r0pA 312 1.82e+01 d.144.1.7 96734 1epwA 1290 1.83e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 2occA 514 1.85e+01 2occA f.24.1.1 43518 1ho8A 480 1.91e+01 1ho8A a.118.1.9 61107 1om1A 332 1.92e+01 d.144.1.7 93347 1t9xA 1049 1.97e+01 1l7vA 326 2.01e+01 f.22.1.1 73672 1yc9A 442 2.15e+01 1dekA 241 2.17e+01 1dekA c.37.1.1 31842 1jetA 517 2.18e+01 1jevA c.94.1.1 35718 1cnzA 363 2.23e+01 1cnzA c.77.1.1 35061 1h5zA 455 2.24e+01 a.104.1.1 90622 1kpgA 287 2.33e+01 c.66.1.18 68735 1nn5A 215 2.36e+01 c.37.1.1 85892 1vfrA 218 2.40e+01 1vfrA d.90.1.1 40247 1xwtA 405 2.44e+01 1rp4A 389 2.51e+01 a.227.1.1 105027 1h12A 405 2.53e+01 a.102.1.2 83447 1xpcA 248 2.55e+01 1xw2A 405 2.60e+01 1kwfA 363 2.63e+01 a.102.1.2 73078 1xjdA 345 2.65e+01 1vgoA 253 2.65e+01 1cem 363 2.67e+01 1cem a.102.1.2 18826 1ei5A 520 2.68e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1o5kA 306 2.69e+01 c.1.10.1 92504 1vp2A 208 2.69e+01 1wdyA 285 2.70e+01 1s4bP 674 2.72e+01 d.92.1.5 105252 1t3wA 148 2.73e+01 1v73A 342 2.74e+01 1mkiA 330 2.74e+01 e.3.1.2 84994 1amy 403 2.77e+01 1jdc b.71.1.1,c.1.8.1 27799,28786 1aj8A 371 2.82e+01 1aj8A a.103.1.1 18900 1tbfA 347 2.87e+01 a.211.1.2 106743 1xo1A 291 2.88e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 2aebA 322 2.97e+01 2f57A 317 2.97e+01 1nt4A 391 2.98e+01 c.60.1.2 92102 1w9iA 770 2.99e+01 2a97A 439 3.00e+01 1ej2A 181 3.01e+01 1f9aA c.26.1.3 59414 2c5uA 375 3.04e+01 1szqA 483 3.04e+01 e.44.1.1 99045 1uarA 285 3.07e+01 c.46.1.2,c.46.1.2 107762,107763 1d1qA 161 3.10e+01 1dg9A c.44.1.1 32642 1lshA 1056 3.11e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1mpgA 282 3.15e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1tikA 213 3.23e+01 c.23.5.3 107003 1rq2A 382 3.26e+01 c.32.1.1,d.79.2.1 105048,105049 1hnuA 280 3.34e+01 1hnoA c.14.1.3 61096 1r6fA 310 3.34e+01 e.46.1.1 97149 1axdA 209 3.34e+01 1gnwA a.45.1.1,c.47.1.5 17730,33024 1a99A 344 3.38e+01 1pot c.94.1.1 35812 1hyhA 309 3.39e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1tllA 688 3.39e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1lj8A 493 3.40e+01 a.100.1.9,c.2.1.6 90392,90393 1w78A 422 3.46e+01 1vgmA 378 3.50e+01 1pu6A 218 3.51e+01 a.96.1.5 95123 1phk 298 3.53e+01 1cdkA d.144.1.7 41635 1cb8A 678 3.57e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1vb3A 428 3.57e+01 1ebfA 358 3.57e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1ir6A 424 3.63e+01 c.107.1.2 71342 1knvA 293 3.67e+01 c.52.1.7 68707 1h54A 754 3.68e+01 a.102.1.4,b.30.5.3 60634,60635 2fnuA 375 3.71e+01 1fehA 574 3.73e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1adjA 421 3.82e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1e9xA 455 3.95e+01 1ea1A a.104.1.1 18969 1ceo 343 3.97e+01 1ceo c.1.8.3 28808 1k87A 669 4.01e+01 a.176.1.1,c.1.23.2 77286,77287 1k8kG 151 4.02e+01 a.118.13.1 68313 1mvwB 145 4.03e+01 i.15.1.1 79524 1rtwA 220 4.23e+01 a.132.1.3 97823 1wurA 220 4.24e+01 1yw0A 276 4.29e+01 1v8dA 235 4.31e+01 c.140.1.1 108425 1q8yA 373 4.36e+01 d.144.1.7 96234 2f4iA 197 4.37e+01 1svvA 359 4.39e+01 c.67.1.1 106054 1e6yB 433 4.42e+01 1mroB a.89.1.1,d.58.31.2 18535,39453 1hrhA 136 4.43e+01 1rthA c.55.3.1 33577 2b43A 526 4.46e+01 2fji1 399 4.51e+01 1miwA 404 4.53e+01 a.173.1.1,d.218.1.4 79162,79163 1avaA 403 4.59e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 1hw1A 239 4.69e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1thg 544 4.74e+01 1thg c.69.1.17 34763 1f7uA 607 4.78e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 2b69A 343 4.80e+01 1obbA 480 4.82e+01 c.2.1.5,d.162.1.2 86760,86761 1z1lA 345 4.97e+01 1lehA 364 4.97e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1je8A 82 5.00e+01 a.4.6.2 77108 1mhqA 148 5.02e+01 a.118.9.2 84973 1fmjA 351 5.05e+01 c.37.1.5 59879 1f3aA 222 5.07e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1o5hA 214 5.09e+01 a.191.1.1 92497 1vzoA 355 5.11e+01 d.144.1.7 108971 1aisB 200 5.17e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1y10A 407 5.20e+01 1zcdA 388 5.25e+01 1m2rA 327 5.28e+01 d.144.1.7 84760 1e2gA 215 5.29e+01 3tmkA c.37.1.1 59165 1dqeA 137 5.29e+01 1dqeA a.39.2.1 17388 1jwqA 179 5.31e+01 c.56.5.6 90921 1jgjA 217 5.36e+01 1c3wA f.13.1.1 62952 2akaA 776 5.37e+01 1vr5A 547 5.39e+01 2g62A 325 5.42e+01 1dkuA 317 5.43e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1syyA 346 5.47e+01 a.25.1.2 106126 1ptmA 329 5.55e+01 c.77.1.3 95104 1j99A 293 5.55e+01 c.37.1.5 71618 1m8jA 181 5.63e+01 c.26.1.3 84875 2c31A 568 5.68e+01 1n69A 81 5.80e+01 a.64.1.3 80118 1oyeA 1049 5.84e+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 1yoyA 175 5.88e+01 1ls6A 295 5.90e+01 c.37.1.5 91115 1dlwA 116 5.91e+01 1dlyA a.1.1.1 14982 1vm6A 228 6.06e+01 c.2.1.3,d.81.1.3 108876,108877 1vrbA 342 6.15e+01 1r6dA 337 6.19e+01 c.2.1.2 97148 1wnfA 328 6.20e+01 1i58A 189 6.22e+01 1b3qA d.122.1.3 61773 1wbsA 360 6.31e+01 1u13A 455 6.47e+01 a.104.1.1 107578 1zc6A 305 6.56e+01 2fk8A 318 6.56e+01 1sig 339 6.61e+01 1sig a.177.1.1 19068 1x0rA 249 6.62e+01 1io0A 185 6.63e+01 c.10.1.1 76753 1jpzA 473 6.63e+01 a.104.1.1 67069 1ycdA 243 6.63e+01 1yacA 208 6.65e+01 1yacA c.33.1.3 31757 2eueA 279 6.66e+01 1xiuA 230 6.71e+01 1lla 628 6.74e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1zoyC 140 6.77e+01 1tuaA 191 6.86e+01 d.51.1.1,d.51.1.1 107321,107322 1ouvA 273 6.88e+01 a.118.18.1 93570 1t98A 287 6.98e+01 2fcwA 109 7.00e+01 1mym 154 7.00e+01 1a6m a.1.1.2 15054 1lyxA 248 7.00e+01 c.1.1.1 78304 1c3wA 222 7.03e+01 1c3wA f.13.1.1 43405 1gv3A 248 7.06e+01 a.2.11.1,d.44.1.1 70585,70586 1xfrA 128 7.07e+01 1t6cA 315 7.08e+01 c.55.1.8,c.55.1.8 106558,106559 1bu7A 455 7.08e+01 1bu7A a.104.1.1 18937 2etvA 346 7.08e+01 1e2fA 215 7.20e+01 3tmkA c.37.1.1 59164 1htqA 477 7.24e+01 d.15.9.1,d.128.1.1 71035,71036 1khvA 516 7.26e+01 e.8.1.4 68627 1vimA 200 7.32e+01 c.80.1.3 100758 1xkrA 206 7.41e+01 1qkmA 255 7.43e+01 3erdA a.123.1.1 19309 1n46A 258 7.47e+01 a.123.1.1 85315 2d2sA 235 7.57e+01 1dlyA 164 7.58e+01 1dlyA a.1.1.1 14983 2eutA 294 7.59e+01 1o5xA 248 7.60e+01 c.1.1.1 92528 1xsvA 113 7.60e+01 1xg2B 153 7.67e+01 1ub0A 258 7.75e+01 c.72.1.2 88394 1h4vB 421 7.80e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1v0dA 329 7.88e+01 d.4.1.7 108204 2a5lA 200 7.88e+01 1repC 251 7.89e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1s7oA 113 7.90e+01 a.4.13.3 105354 1vhzA 198 7.92e+01 d.113.1.1 100718 1uocA 289 7.93e+01 c.55.3.9 99686 1owcA 427 7.94e+01 a.103.1.1 104039 1f74A 293 8.01e+01 1nal3 c.1.10.1 29079 1wosA 364 8.04e+01 b.44.2.1,d.250.1.1 109468,109469 1g99A 408 8.07e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 2ccjA 205 8.15e+01 2fv1A 377 8.17e+01 1h8eG 272 8.18e+01 1e79G c.49.2.1 60756 1t5bA 201 8.38e+01 c.23.5.3 106433 1j1bA 420 8.39e+01 d.144.1.7 90758 1jk0A 419 8.46e+01 a.25.1.2 63142 1vqqA 646 8.50e+01 1ew2A 513 8.51e+01 1b8jA c.76.1.1 59525 1v8bA 479 8.55e+01 2arcA 164 8.57e+01 2arcA b.82.4.1 28148 1ta3B 303 8.58e+01 c.1.8.3 106732 2auwA 170 8.58e+01 2fug5 207 8.68e+01 1vd5A 377 8.71e+01 a.102.1.7 108518 1rlw 126 8.74e+01 1rlw b.7.1.1 23177 1ui5A 215 8.74e+01 a.4.1.9,a.121.1.1 107856,107857 1o6zA 303 8.79e+01 c.2.1.5,d.162.1.1 81107,81108 1nhyA 219 8.91e+01 a.45.1.1,c.47.1.5 80520,80521 1wlsA 328 8.93e+01 1floA 422 8.93e+01 1floA a.60.9.1,d.163.1.1 18106,42166 1b9oA 123 8.94e+01 3lzt d.2.1.2 36597 2bvcA 486 8.97e+01