# List of top-scoring protein chains for t06-100-30-n_notor2-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 2gfhA 260 6.12e-02 1xfkA 336 3.46e-01 1nrlA 316 6.17e-01 a.123.1.1 92091 1u3wA 374 7.24e-01 1hdhA 536 8.47e-01 c.76.1.2 65805 1ru3A 732 1.41e+00 e.26.1.3 97835 2bw4A 340 1.41e+00 1jofA 365 2.63e+00 b.69.10.1 71775 1n8kA 374 2.65e+00 b.35.1.2,c.2.1.1 80298,80299 2rslA 140 2.65e+00 2rslA c.53.1.1 33345 1mtyD 512 3.09e+00 1mhyD a.25.1.2 16742 1qf5A 431 3.16e+00 1adeA c.37.1.10 32212 1bd8 156 3.59e+00 1bd8 d.211.1.1 19157 1tiqA 180 3.69e+00 d.108.1.1 107010 1ks8A 433 4.20e+00 a.102.1.2 77519 2b8nA 429 4.20e+00 1m2kA 249 4.45e+00 c.31.1.5 84754 1j9lA 247 5.14e+00 c.106.1.1 62762 2fgtA 417 5.30e+00 1ua7A 422 5.39e+00 b.71.1.1,c.1.8.1 107759,107760 1vloA 381 5.54e+00 b.44.2.1,d.250.1.1 108838,108839 2b0oE 301 5.77e+00 1ub0A 258 6.09e+00 c.72.1.2 88394 1vyfA 135 6.27e+00 b.60.1.2 108902 2aq4A 434 6.75e+00 1vybA 238 6.83e+00 d.151.1.1 108897 2gdnA 267 7.10e+00 1vj0A 380 7.75e+00 b.35.1.2,c.2.1.1 100786,100787 1yhtA 367 7.88e+00 1d2nA 272 7.97e+00 1d2nA c.37.1.20 32428 1kwfA 363 8.25e+00 a.102.1.2 73078 1twdA 256 8.53e+00 c.1.30.1 107397 1sr4B 261 8.62e+00 d.151.1.1 105949 1f9vA 347 8.80e+00 1bg2 c.37.1.9 59745 1e4mM 501 9.00e+00 1e70M c.1.8.4 59226 1dxeA 256 9.16e+00 1dxeA c.1.12.5 29310 1wljA 189 9.36e+00 1z82A 335 9.63e+00 2awpA 198 9.70e+00 1div 149 9.77e+00 1div d.99.1.1,d.100.1.1 40692,40693 2bghA 421 9.79e+00 1qwgA 251 1.03e+01 c.1.27.1 96473 1gd1O 334 1.08e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1x8qA 184 1.20e+01 1ydyA 356 1.25e+01 2cklB 165 1.28e+01 1njhA 119 1.30e+01 b.128.1.1 85787 1q2bA 434 1.31e+01 b.29.1.10 95624 1xrtA 467 1.36e+01 2an3A 289 1.45e+01 1lzjA 292 1.49e+01 c.68.1.9 74352 1ctt 294 1.53e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 2b4yA 271 1.59e+01 1vjfA 180 1.59e+01 d.116.1.1 100809 1ssqA 267 1.60e+01 b.81.1.6 105993 2b81A 323 1.62e+01 1v02A 565 1.62e+01 c.1.8.4 108194 1iz5A 249 1.64e+01 d.131.1.2,d.131.1.2 83834,83835 1oi0A 124 1.66e+01 c.97.3.1 93045 1mnaA 298 1.68e+01 c.69.1.22 79322 1o6dA 163 1.69e+01 c.116.1.3 92567 1nnlA 225 1.70e+01 c.108.1.4 85906 1wkbA 810 1.70e+01 1ne7A 289 1.70e+01 c.124.1.1 91833 1jbwA 428 1.71e+01 c.59.1.2,c.72.2.2 62860,62861 1cf7B 95 1.74e+01 1cf7B a.4.5.17 16152 1pg4A 652 1.74e+01 e.23.1.1 88067 1zp4A 304 1.83e+01 1y7lA 316 2.00e+01 1kutA 230 2.01e+01 d.143.1.1 73017 1zaiA 363 2.11e+01 1uheA 97 2.13e+01 1k55A 246 2.16e+01 e.3.1.1 68156 2bgiA 272 2.16e+01 1opd 85 2.16e+01 1ptf d.94.1.1 40560 1ksiA 642 2.18e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1v5vA 401 2.18e+01 2cq2A 114 2.20e+01 1m93A 55 2.21e+01 e.1.1.1 91235 1c93A 265 2.22e+01 2ebn c.1.8.5 28998 1xovA 326 2.22e+01 1qwnA 1045 2.23e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1zy9A 564 2.24e+01 2ga9D 469 2.34e+01 2g9iA 249 2.37e+01 2bwbA 46 2.40e+01 1vr7A 142 2.40e+01 1mkmA 249 2.43e+01 a.4.5.33,d.110.2.2 79242,79243 1x9mA 698 2.43e+01 1tr9A 341 2.44e+01 1u8fO 335 2.44e+01 1mrg 263 2.52e+01 1mrj d.165.1.1 42183 1dj0A 264 2.55e+01 1dj0A d.265.1.1 90337 1hleA 345 2.58e+01 1ovaA e.1.1.1 42618 1ymtA 246 2.61e+01 1p1mA 406 2.62e+01 b.92.1.4,c.1.9.9 87696,87697 1k6iA 352 2.71e+01 c.2.1.2 68223 1repC 251 2.71e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1ur4A 399 2.72e+01 2a67A 167 2.72e+01 1h5qA 265 2.76e+01 1cydA c.2.1.2 60643 1twfA 1733 2.77e+01 1a8s 273 2.80e+01 1brt c.69.1.12 34710 1nbwA 607 2.82e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1c52 131 2.82e+01 1c52 a.3.1.1 15810 1rypL 212 2.83e+01 d.153.1.4 41880 1b3uA 588 2.84e+01 1b3uA a.118.1.2 19135 1fhgA 154 2.95e+01 1tlk b.1.1.4 21706 1x3lA 440 2.98e+01 2fclA 169 2.99e+01 2gl5A 410 3.02e+01 1nc5A 373 3.08e+01 a.102.1.6 85548 1p2hA 571 3.11e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1xn5A 146 3.16e+01 1d4xG 126 3.19e+01 1d0nA d.109.1.1 59109 1e4yA 214 3.19e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1je0A 236 3.21e+01 c.56.2.1 66581 1mo9A 523 3.21e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 3chbD 104 3.25e+01 3chbD b.40.2.1 24970 1h4vB 421 3.27e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1r77A 103 3.28e+01 1ht6A 405 3.28e+01 b.71.1.1,c.1.8.1 83629,83630 1m98A 317 3.31e+01 a.175.1.1,d.17.4.6 78866,78867 1lurA 339 3.31e+01 b.30.5.4 84717 1vzyA 291 3.38e+01 1dosA 358 3.47e+01 1dosA c.1.10.2 29175 1ej0A 180 3.49e+01 1ej0A c.66.1.2 34179 1jr7A 311 3.49e+01 b.82.2.3 63255 1hxxA 340 3.50e+01 2omf f.4.3.1 61385 2biqA 219 3.51e+01 1pp0A 199 3.52e+01 d.103.1.1 104211 1h1nA 305 3.63e+01 c.1.8.3 70855 1c96A 753 3.64e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1eg3A 261 3.67e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1tzjA 338 3.73e+01 2cfuA 658 3.74e+01 1axiB 236 3.75e+01 1axiB b.1.2.1,b.1.2.1 21997,21998 2aaoA 166 3.75e+01 1rhs 296 3.76e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1vqzA 341 3.78e+01 1nb8A 353 3.78e+01 d.3.1.9 80385 1qqp1 213 3.79e+01 1qqp1 1amuA 563 3.83e+01 1amuA e.23.1.1 43351 2fflA 756 3.83e+01 1rp4A 389 3.84e+01 a.227.1.1 105027 1enfA 212 3.87e+01 3seb b.40.2.2,d.15.6.1 25198,37787 2aq8A 269 3.87e+01 1yu0A 381 4.12e+01 1u6rA 380 4.19e+01 2culA 232 4.21e+01 1xcbA 211 4.25e+01 a.4.5.38,c.2.1.12 109552,109553 1z9tA 255 4.28e+01 1eg2A 319 4.28e+01 1eg2A c.66.1.11 34249 1b6g 310 4.29e+01 1b6g c.69.1.8 34661 2flsA 132 4.30e+01 1a78A 134 4.31e+01 1c1lA b.29.1.3 24212 1v4vA 376 4.40e+01 c.87.1.3 100313 1ogiA 303 4.42e+01 b.43.4.2,c.25.1.1 92914,92915 1sflA 238 4.44e+01 1f0nA 285 4.47e+01 1dqyA c.69.1.3 34636 1ynpA 317 4.48e+01 1j5xA 342 4.50e+01 c.80.1.1 71591 1p0kA 349 4.51e+01 c.1.4.1 87648 1lt8A 406 4.51e+01 c.1.26.1 78186 1wfxA 186 4.51e+01 1xttA 216 4.58e+01 1m2oA 768 4.60e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1xqwA 293 4.61e+01 1hqz1 141 4.62e+01 1d3cA 686 4.65e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1yzyA 413 4.66e+01 1qg3A 195 4.68e+01 1qg3A b.1.2.1,b.1.2.1 21993,21994 1rqbA 539 4.68e+01 a.5.7.2,c.1.10.5 105057,105058 1jv1A 505 4.72e+01 c.68.1.5 71892 4ubpC 570 4.77e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1wrjA 156 4.78e+01 1ov2A 99 4.82e+01 a.13.1.1 93580 1r5tA 142 4.82e+01 c.97.1.1 104812 1ek9A 428 4.83e+01 1ek9A f.5.1.1 43809 1yf3A 259 4.88e+01 1ns5A 155 4.92e+01 c.116.1.3 80705 1gu7A 364 4.95e+01 b.35.1.2,c.2.1.1 83321,83322 1zpvA 91 4.97e+01 1rr7A 129 5.00e+01 a.4.1.14 105075 1e6yA 569 5.07e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 1vhqA 232 5.08e+01 c.23.16.2 100696 1oaoC 729 5.09e+01 e.26.1.3 86746 1w9hA 427 5.10e+01 1h72C 296 5.13e+01 d.14.1.5,d.58.26.1 60712,60713 2f4qA 346 5.13e+01 1vjjA 692 5.14e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1rsy 152 5.14e+01 1rsy b.7.1.2 23192 1sw5B 275 5.28e+01 c.94.1.1 106070 1g6aA 271 5.29e+01 1btl e.3.1.1 42704 1gntA 553 5.36e+01 e.26.1.1 70290 1t13A 158 5.37e+01 1gefA 123 5.39e+01 1gefA c.52.1.18 60465 1gj7B 253 5.40e+01 1exg 110 5.40e+01 1exg b.2.2.1 22387 1z15A 344 5.43e+01 2sli 679 5.44e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1cjxA 357 5.48e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1e3dA 266 5.49e+01 2frvA e.19.1.1 59188 1khbA 625 5.49e+01 c.91.1.1,c.109.1.1 68606,68607 2gdzA 267 5.54e+01 1efpB 252 5.57e+01 1efvB c.26.2.3 31636 2g0wA 296 5.60e+01 1r6dA 337 5.62e+01 c.2.1.2 97148 2aefA 234 5.68e+01 1gtmA 419 5.70e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1o0yA 260 5.71e+01 c.1.10.1 80756 1h6fA 193 5.73e+01 b.2.5.4 70901 1s29A 92 5.81e+01 a.4.5.46 98373 1nf2A 268 5.91e+01 c.108.1.10 91849 1b63A 333 5.91e+01 1b63A d.14.1.3,d.122.1.2 37566,41107 1f8fA 371 5.92e+01 b.35.1.2,c.2.1.1 83246,83247 1l6rA 227 5.95e+01 c.108.1.10 77768 1ei6A 406 6.01e+01 c.76.1.4 90443 1wouA 123 6.05e+01 c.47.1.16 109471 1s5jA 847 6.08e+01 1wzoA 246 6.08e+01 1vr4A 103 6.10e+01 1cl8A 276 6.13e+01 1ckqA c.52.1.1 33230 1rqwA 207 6.13e+01 b.25.1.1 97781 1ois 223 6.17e+01 1a36A e.15.1.1 43267 1ezfA 340 6.19e+01 1ezfA a.128.1.2 19440 1cnv 299 6.20e+01 1cnv c.1.8.5 28989 2a9dA 372 6.22e+01 1ydmA 187 6.25e+01 1ntyA 311 6.26e+01 a.87.1.1,b.55.1.1 103873,103874 1zh5A 195 6.28e+01 1ogsA 497 6.30e+01 b.71.1.2,c.1.8.3 86997,86998 1dgfA 497 6.32e+01 1cf9A e.5.1.1 42782 1mkaA 171 6.33e+01 1mkaA d.38.1.2 38543 1mj5A 302 6.35e+01 c.69.1.8 91285 1j6wA 175 6.37e+01 1j98A d.185.1.2 62663 2b7eA 59 6.43e+01 2ab0A 205 6.44e+01 1efyA 350 6.44e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1u9tA 354 6.45e+01 1qavA 90 6.45e+01 1qauA b.36.1.1 24777 2fxqA 264 6.47e+01 1gyxA 76 6.48e+01 d.80.1.1 76387 1ars 396 6.55e+01 1ajsA c.67.1.1 34287 1g38A 393 6.56e+01 2admA c.66.1.27 60235 1f5nA 592 6.58e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1wthD 391 6.61e+01 1yozA 116 6.66e+01 1gotB 340 6.74e+01 1tbgA b.69.4.1 27648 1sbyA 254 6.76e+01 1t94A 459 6.80e+01 d.240.1.1,e.8.1.7 106701,106702 1mzyA 333 6.85e+01 b.6.1.3,b.6.1.3 103848,103849 1dkuA 317 6.85e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1wyuB 474 6.92e+01 1u6eA 335 6.97e+01 1zzmA 259 6.97e+01 1qysA 106 6.99e+01 k.41.1.1 96603 1zcjA 463 7.06e+01 2b2aA 199 7.06e+01 1bt3A 345 7.07e+01 1bt3A a.86.1.2 18507 2hvm 273 7.10e+01 1cnv c.1.8.5 28985 1jc9A 269 7.10e+01 d.171.1.1 66490 1fvgA 199 7.11e+01 1fvaA d.58.28.1 39408 1d3gA 367 7.19e+01 1d3gA c.1.4.1 28600 1zruA 264 7.22e+01 1sw5A 275 7.25e+01 c.94.1.1 106069 1e5kA 201 7.30e+01 1fr9A c.68.1.8 34578 1k0fA 277 7.31e+01 c.92.2.2 71974 1vqoW 154 7.38e+01 2fbaA 492 7.43e+01 1i8fA 81 7.45e+01 1i8fA b.38.1.1 61959 1nd6A 354 7.55e+01 c.60.1.2 80407 1pq4A 291 7.58e+01 c.92.2.2 94995 1m07A 111 7.62e+01 d.5.1.1 78328 1my6A 199 7.62e+01 a.2.11.1,d.44.1.1 85232,85233 1vlyA 338 7.66e+01 b.44.2.1,d.250.1.1 108871,108872 1m2tA 254 7.77e+01 d.165.1.1 84761 2ajuH 219 7.86e+01 1vcdA 126 7.89e+01 1iomA 377 7.90e+01 a.103.1.1 83698 1a9xB 379 7.90e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1hjsA 332 7.91e+01 c.1.8.3 83492 1ys4A 354 7.92e+01 1b7yB 785 7.95e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1pixA 587 7.99e+01 c.14.1.4 94708 1o0sA 605 8.03e+01 c.2.1.7,c.58.1.3 86540,86541 1ex2A 189 8.05e+01 1ex2A c.51.4.2 33225 1i1qB 192 8.09e+01 1qdlB c.23.16.1 61544 2ccmA 191 8.12e+01 1sqsA 242 8.14e+01 c.23.5.5 98968 1m12A 84 8.14e+01 a.64.1.1 84745 1yz4A 160 8.21e+01 2cxcA 144 8.28e+01 2a9iA 113 8.32e+01 1ehiA 377 8.34e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1xj4A 119 8.36e+01 1id0A 152 8.39e+01 d.122.1.3 66111 1fs5A 266 8.41e+01 c.124.1.1 65044 2a97A 439 8.44e+01 1x8dA 104 8.47e+01 1u0kA 288 8.49e+01 d.21.1.2,d.21.1.2 107547,107548 8fabB 224 8.51e+01 1igtB b.1.1.1,b.1.1.2 19773,20883 1t5rA 284 8.56e+01 f.6.1.1 106465 2as0A 396 8.56e+01 1y08A 323 8.57e+01 1e2kA 331 8.60e+01 1qhiA c.37.1.1 31854 2f57A 317 8.66e+01 5nul 138 8.68e+01 5nul c.23.5.1 31191 1o3uA 135 8.70e+01 a.24.16.3 86615 1d0cA 444 8.71e+01 d.174.1.1 64769 1ss9A 311 8.72e+01 c.68.1.4 105978 1m6iA 493 8.76e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1g87A 614 8.77e+01 a.102.1.2,b.2.2.2 83275,83276 1sz7A 200 8.80e+01 1n2sA 299 8.89e+01 c.2.1.2 79857 2fq3A 104 8.92e+01 1dqzA 280 8.98e+01 1dqyA c.69.1.3 34638 1zdnA 158 9.00e+01