# 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 1xfkA 336 3.64e-01 1nrlA 316 7.51e-01 a.123.1.1 92091 1u3wA 374 9.89e-01 2gfhA 260 1.28e+00 1ru3A 732 1.53e+00 e.26.1.3 97835 1qf5A 431 2.12e+00 1adeA c.37.1.10 32212 1jofA 365 2.51e+00 b.69.10.1 71775 1n8kA 374 2.63e+00 b.35.1.2,c.2.1.1 80298,80299 1vr7A 142 2.97e+00 2ga9D 469 3.02e+00 1wljA 189 3.14e+00 2rslA 140 3.21e+00 2rslA c.53.1.1 33345 1e4mM 501 3.24e+00 1e70M c.1.8.4 59226 1tiqA 180 4.13e+00 d.108.1.1 107010 1hdhA 536 4.23e+00 c.76.1.2 65805 1ks8A 433 4.56e+00 a.102.1.2 77519 1bd8 156 5.41e+00 1bd8 d.211.1.1 19157 1vloA 381 5.46e+00 b.44.2.1,d.250.1.1 108838,108839 2b0oE 301 5.59e+00 1qh5A 260 5.65e+00 1qh5A d.157.1.2 42057 1mtyD 512 5.67e+00 1mhyD a.25.1.2 16742 2fgtA 417 5.70e+00 1kwfA 363 6.13e+00 a.102.1.2 73078 1div 149 6.45e+00 1div d.99.1.1,d.100.1.1 40692,40693 1vybA 238 6.99e+00 d.151.1.1 108897 2aq4A 434 7.24e+00 1dxeA 256 8.21e+00 1dxeA c.1.12.5 29310 1vyfA 135 8.28e+00 b.60.1.2 108902 1twdA 256 8.43e+00 c.1.30.1 107397 2fxqA 264 8.47e+00 2bw4A 340 8.51e+00 1f9vA 347 9.24e+00 1bg2 c.37.1.9 59745 1x8qA 184 9.46e+00 1d2nA 272 9.57e+00 1d2nA c.37.1.20 32428 1m2kA 249 9.66e+00 c.31.1.5 84754 1z82A 335 1.05e+01 1sr4B 261 1.05e+01 d.151.1.1 105949 1yhtA 367 1.10e+01 2bgiA 272 1.13e+01 1wkbA 810 1.16e+01 1gd1O 334 1.23e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1ctt 294 1.27e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1ub0A 258 1.28e+01 c.72.1.2 88394 1zy9A 564 1.32e+01 2bghA 421 1.33e+01 1ssqA 267 1.34e+01 b.81.1.6 105993 1ydyA 356 1.35e+01 2cklB 165 1.37e+01 1njhA 119 1.40e+01 b.128.1.1 85787 1nbwA 607 1.56e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1v02A 565 1.60e+01 c.1.8.4 108194 1lzjA 292 1.63e+01 c.68.1.9 74352 1j9lA 247 1.64e+01 c.106.1.1 62762 1a8s 273 1.66e+01 1brt c.69.1.12 34710 1vjfA 180 1.67e+01 d.116.1.1 100809 1ne7A 289 1.67e+01 c.124.1.1 91833 1jbwA 428 1.69e+01 c.59.1.2,c.72.2.2 62860,62861 1v4vA 376 1.73e+01 c.87.1.3 100313 1zp4A 304 1.76e+01 1o6dA 163 1.79e+01 c.116.1.3 92567 1iz5A 249 1.81e+01 d.131.1.2,d.131.1.2 83834,83835 1nnlA 225 1.81e+01 c.108.1.4 85906 2b4yA 271 1.85e+01 1dgfA 497 1.87e+01 1cf9A e.5.1.1 42782 1cf7B 95 1.87e+01 1cf7B a.4.5.17 16152 2awpA 198 1.92e+01 1vj0A 380 1.97e+01 b.35.1.2,c.2.1.1 100786,100787 1zaiA 363 1.98e+01 2cfuA 658 2.03e+01 1uheA 97 2.16e+01 1m93A 55 2.17e+01 e.1.1.1 91235 1w7lA 422 2.19e+01 c.67.1.1 109226 1k55A 246 2.19e+01 e.3.1.1 68156 1q2bA 434 2.22e+01 b.29.1.10 95624 1p1mA 406 2.24e+01 b.92.1.4,c.1.9.9 87696,87697 1opd 85 2.30e+01 1ptf d.94.1.1 40560 2cq2A 114 2.35e+01 3chbD 104 2.39e+01 3chbD b.40.2.1 24970 2gl5A 410 2.40e+01 2an3A 289 2.41e+01 1y7lA 316 2.43e+01 2bwbA 46 2.44e+01 1qwgA 251 2.47e+01 c.1.27.1 96473 1ojrA 274 2.50e+01 c.74.1.1 93147 1k6iA 352 2.51e+01 c.2.1.2 68223 1x9mA 698 2.52e+01 1je0A 236 2.52e+01 c.56.2.1 66581 1twfA 1733 2.56e+01 1ua7A 422 2.67e+01 b.71.1.1,c.1.8.1 107759,107760 2a67A 167 2.68e+01 1c52 131 2.72e+01 1c52 a.3.1.1 15810 1h4vB 421 2.74e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1repC 251 2.74e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1nc5A 373 2.75e+01 a.102.1.6 85548 1amuA 563 2.75e+01 1amuA e.23.1.1 43351 2g9iA 249 2.77e+01 1hleA 345 2.81e+01 1ovaA e.1.1.1 42618 1rqwA 207 2.84e+01 b.25.1.1 97781 1xovA 326 2.85e+01 1b3uA 588 2.85e+01 1b3uA a.118.1.2 19135 1dj0A 264 2.87e+01 1dj0A d.265.1.1 90337 1dosA 358 2.88e+01 1dosA c.1.10.2 29175 1lurA 339 2.89e+01 b.30.5.4 84717 1kutA 230 2.92e+01 d.143.1.1 73017 2biqA 219 3.06e+01 1wrjA 156 3.10e+01 16vpA 366 3.10e+01 16vpA d.180.1.1 42601 1c93A 265 3.18e+01 2ebn c.1.8.5 28998 1wyuB 474 3.18e+01 1p2hA 571 3.21e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 2b8nA 429 3.22e+01 1ze3C 205 3.23e+01 1e5kA 201 3.27e+01 1fr9A c.68.1.8 34578 2sli 679 3.27e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1w0pA 781 3.30e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 2fclA 169 3.30e+01 1sflA 238 3.31e+01 1ek9A 428 3.32e+01 1ek9A f.5.1.1 43809 1jr7A 311 3.35e+01 b.82.2.3 63255 1vcdA 126 3.37e+01 1v5vA 401 3.41e+01 1cvrA 435 3.44e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1gtmA 419 3.45e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1gntA 553 3.46e+01 e.26.1.1 70290 1eg3A 261 3.49e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1fs5A 266 3.53e+01 c.124.1.1 65044 1qwnA 1045 3.54e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1tr9A 341 3.58e+01 1r89A 437 3.61e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1xn5A 146 3.64e+01 1qqp1 213 3.66e+01 1qqp1 1ymtA 246 3.67e+01 1pe9A 361 3.75e+01 b.80.1.1 94595 1rhs 296 3.76e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1c96A 753 3.79e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1nb8A 353 3.80e+01 d.3.1.9 80385 1e3dA 266 3.80e+01 2frvA e.19.1.1 59188 1tzjA 338 3.83e+01 1a78A 134 3.83e+01 1c1lA b.29.1.3 24212 1d4xG 126 3.84e+01 1d0nA d.109.1.1 59109 2aq8A 269 3.90e+01 1u8fO 335 3.93e+01 1x3lA 440 3.95e+01 1mnaA 298 4.00e+01 c.69.1.22 79322 1gj7B 253 4.02e+01 1e6yA 569 4.03e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 1xcbA 211 4.08e+01 a.4.5.38,c.2.1.12 109552,109553 1hxxA 340 4.14e+01 2omf f.4.3.1 61385 1pixA 587 4.16e+01 c.14.1.4 94708 1rp4A 389 4.17e+01 a.227.1.1 105027 1e4yA 214 4.17e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1p0kA 349 4.18e+01 c.1.4.1 87648 1mrg 263 4.22e+01 1mrj d.165.1.1 42183 1wzoA 246 4.22e+01 2aaoA 166 4.28e+01 1d0cA 444 4.33e+01 d.174.1.1 64769 1jv1A 505 4.36e+01 c.68.1.5 71892 1gefA 123 4.36e+01 1gefA c.52.1.18 60465 1j5xA 342 4.37e+01 c.80.1.1 71591 1oaoC 729 4.40e+01 e.26.1.3 86746 1lt8A 406 4.41e+01 c.1.26.1 78186 1cjxA 357 4.47e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1ntyA 311 4.50e+01 a.87.1.1,b.55.1.1 103873,103874 1o0yA 260 4.58e+01 c.1.10.1 80756 1ov2A 99 4.60e+01 a.13.1.1 93580 1hqz1 141 4.61e+01 2culA 232 4.62e+01 1h72C 296 4.65e+01 d.14.1.5,d.58.26.1 60712,60713 1rqbA 539 4.67e+01 a.5.7.2,c.1.10.5 105057,105058 1wyuA 438 4.72e+01 1xqwA 293 4.72e+01 1z15A 344 4.73e+01 1ynpA 317 4.79e+01 1bu6O 501 4.80e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 2flsA 132 4.81e+01 1zpvA 91 4.83e+01 1rsy 152 4.83e+01 1rsy b.7.1.2 23192 1cl8A 276 4.85e+01 1ckqA c.52.1.1 33230 1rypL 212 4.86e+01 d.153.1.4 41880 1ys4A 354 4.86e+01 1d3gA 367 4.87e+01 1d3gA c.1.4.1 28600 1ur4A 399 4.87e+01 1r77A 103 4.91e+01 1rr7A 129 4.92e+01 a.4.1.14 105075 1ogiA 303 4.92e+01 b.43.4.2,c.25.1.1 92914,92915 1gu7A 364 4.97e+01 b.35.1.2,c.2.1.1 83321,83322 1t5rA 284 5.00e+01 f.6.1.1 106465 1xrtA 467 5.01e+01 1yozA 116 5.04e+01 1f0nA 285 5.04e+01 1dqyA c.69.1.3 34636 1j6wA 175 5.04e+01 1j98A d.185.1.2 62663 1qqqA 264 5.13e+01 1bkpA d.117.1.1 40931 1ns5A 155 5.15e+01 c.116.1.3 80705 1b6g 310 5.28e+01 1b6g c.69.1.8 34661 1pvvA 315 5.28e+01 c.78.1.1,c.78.1.1 95190,95191 1h1nA 305 5.31e+01 c.1.8.3 70855 2as0A 396 5.39e+01 1r6dA 337 5.43e+01 c.2.1.2 97148 1w9hA 427 5.45e+01 1t94A 459 5.52e+01 d.240.1.1,e.8.1.7 106701,106702 1svpA 161 5.58e+01 1svpA b.47.1.3 26384 1s5jA 847 5.61e+01 2aefA 234 5.64e+01 2b7eA 59 5.72e+01 1g6aA 271 5.72e+01 1btl e.3.1.1 42704 1eexA 554 5.72e+01 1dioA c.1.19.3 29650 1vhqA 232 5.73e+01 c.23.16.2 100696 1zh5A 195 5.76e+01 2g0wA 296 5.78e+01 1qavA 90 5.79e+01 1qauA b.36.1.1 24777 1axiB 236 5.86e+01 1axiB b.1.2.1,b.1.2.1 21997,21998 1ksiA 642 5.88e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1s29A 92 6.02e+01 a.4.5.46 98373 2f9cA 334 6.02e+01 1ezfA 340 6.07e+01 1ezfA a.128.1.2 19440 1wouA 123 6.13e+01 c.47.1.16 109471 1ej0A 180 6.16e+01 1ej0A c.66.1.2 34179 1ydmA 187 6.16e+01 4ubpC 570 6.21e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1p5dX 463 6.27e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1ars 396 6.28e+01 1ajsA c.67.1.1 34287 1eg2A 319 6.29e+01 1eg2A c.66.1.11 34249 1f8fA 371 6.30e+01 b.35.1.2,c.2.1.1 83246,83247 1efyA 350 6.32e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1bgp 309 6.33e+01 1bgp a.93.1.1 18690 1gyxA 76 6.36e+01 d.80.1.1 76387 1sw5B 275 6.38e+01 c.94.1.1 106070 2fflA 756 6.40e+01 1efpB 252 6.40e+01 1efvB c.26.2.3 31636 1u9tA 354 6.45e+01 1tqnA 486 6.46e+01 a.104.1.1 107238 1yh2A 175 6.47e+01 2av4A 162 6.53e+01 1ois 223 6.54e+01 1a36A e.15.1.1 43267 1mzyA 333 6.55e+01 b.6.1.3,b.6.1.3 103848,103849 2fbaA 492 6.58e+01 1fvgA 199 6.62e+01 1fvaA d.58.28.1 39408 1m2oA 768 6.63e+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 1mj5A 302 6.65e+01 c.69.1.8 91285 1b7yB 785 6.77e+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 1id0A 152 6.78e+01 d.122.1.3 66111 1jftA 340 6.80e+01 a.35.1.5,c.93.1.1 66652,66653 1sbyA 254 6.81e+01 1fehA 574 6.83e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1sqsA 242 6.90e+01 c.23.5.5 98968 1u6eA 335 6.95e+01 1vr0A 247 6.96e+01 1ojjA 402 6.99e+01 b.29.1.10 93130 1dqgA 135 7.05e+01 1dqgA b.42.2.2 25579 1z9tA 255 7.09e+01 1yz4A 160 7.10e+01 1dqzA 280 7.12e+01 1dqyA c.69.1.3 34638 1zdnA 158 7.23e+01 1qysA 106 7.24e+01 k.41.1.1 96603 1pq4A 291 7.30e+01 c.92.2.2 94995 1g38A 393 7.36e+01 2admA c.66.1.27 60235 1vb3A 428 7.38e+01 2boqA 331 7.43e+01 1dmgA 225 7.44e+01 1dmgA c.22.1.1 31036 1vqoW 154 7.44e+01 1u69A 163 7.50e+01 d.32.1.7 107699 1xj4A 119 7.54e+01 1zcjA 463 7.58e+01 1ex2A 189 7.62e+01 1ex2A c.51.4.2 33225 1wl4A 397 7.66e+01 2f57A 317 7.70e+01 1m2tA 254 7.70e+01 d.165.1.1 84761 1bt3A 345 7.75e+01 1bt3A a.86.1.2 18507 1i8fA 81 7.77e+01 1i8fA b.38.1.1 61959 1ejxC 567 7.79e+01 b.92.1.1,c.1.9.2 83184,83185 1kyfA 247 7.81e+01 b.1.10.1,d.105.1.1 73220,73221 1odzA 386 7.82e+01 c.1.8.3 86889 1exg 110 7.85e+01 1exg b.2.2.1 22387 1mkaA 171 7.87e+01 1mkaA d.38.1.2 38543 1m98A 317 7.92e+01 a.175.1.1,d.17.4.6 78866,78867 1cjaA 342 7.93e+01 1cjaA d.144.1.3 41708 1m12A 84 7.93e+01 a.64.1.1 84745 2aeeA 211 7.95e+01 1pp0A 199 7.98e+01 d.103.1.1 104211 2a9iA 113 8.01e+01 1o3uA 135 8.01e+01 a.24.16.3 86615 2hvm 273 8.05e+01 1cnv c.1.8.5 28985 1yzxA 226 8.06e+01 1amx 180 8.08e+01 1amx b.2.3.1 22410 1s5aA 150 8.09e+01 d.17.4.10 98525 1r5tA 142 8.12e+01 c.97.1.1 104812 1dkuA 317 8.13e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1vheA 373 8.16e+01 b.49.3.1,c.56.5.4 100669,100670 1e2kA 331 8.18e+01 1qhiA c.37.1.1 31854 1x1iA 752 8.21e+01 1o97C 264 8.22e+01 c.26.2.3 81232 1f1uA 323 8.24e+01 d.32.1.3,d.32.1.3 83200,83201 1t13A 158 8.28e+01 1i1qB 192 8.34e+01 1qdlB c.23.16.1 61544 2a97A 439 8.34e+01 5nul 138 8.36e+01 5nul c.23.5.1 31191 2b81A 323 8.40e+01 1j4aA 333 8.43e+01 c.2.1.4,c.23.12.1 71502,71503 1woqA 267 8.48e+01 c.55.1.10,c.55.1.10 109462,109463 1s14A 194 8.48e+01 d.122.1.2 98329 1cnv 299 8.55e+01 1cnv c.1.8.5 28989 2bzlA 325 8.60e+01 1augA 215 8.63e+01 1a2zA c.56.4.1 33798 1sw5A 275 8.64e+01 c.94.1.1 106069 1e8gA 560 8.64e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1enfA 212 8.70e+01 3seb b.40.2.2,d.15.6.1 25198,37787 1t4bA 367 8.70e+01 c.2.1.3,d.81.1.1 106406,106407 1pg4A 652 8.72e+01 e.23.1.1 88067 2fq3A 104 8.81e+01 1uanA 227 8.83e+01 c.134.1.1 99135 1uwzA 136 8.90e+01 c.97.1.1 108081 2eu9A 355 8.92e+01 1g87A 614 8.93e+01 a.102.1.2,b.2.2.2 83275,83276 8fabB 224 8.93e+01 1igtB b.1.1.1,b.1.1.2 19773,20883 1ni4A 365 8.94e+01 c.36.1.11 85728 1vjjA 692 8.96e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 2cxcA 144 8.98e+01