# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 1wolA 122 6.20e-15 1ufbA 127 2.37e-14 a.24.16.3 99331 1o3uA 135 1.06e-13 a.24.16.3 86615 1wwpA 119 2.50e-01 1t0qA 498 3.11e-01 a.25.1.2 106220 1nhyA 219 7.95e-01 a.45.1.1,c.47.1.5 80520,80521 16vpA 366 9.40e-01 16vpA d.180.1.1 42601 1wtyA 119 1.17e+00 1qhdA 398 1.20e+00 1qhdA a.115.1.2,b.19.1.1 63324,63325 1w3iA 293 1.29e+00 c.1.10.1 109152 1na3A 91 1.79e+00 k.38.1.1 85481 1jm6A 407 2.39e+00 a.29.5.1,d.122.1.4 66876,66877 2ftzA 284 2.47e+00 1r71A 178 2.68e+00 a.4.14.1 104823 1xx1A 285 3.15e+00 1zq4A 693 3.33e+00 2fmlA 273 3.87e+00 1sauA 115 4.14e+00 1tbmA 326 4.19e+00 a.211.1.2 106744 2a2fX 325 4.44e+00 2fgeA 995 4.53e+00 1y1uA 585 4.79e+00 1nv8A 284 5.41e+00 c.66.1.30 86224 1gkzA 388 5.50e+00 a.29.5.1,d.122.1.4 65268,65269 1n97A 389 5.53e+00 a.104.1.1 80335 1wkbA 810 5.81e+00 1v3wA 173 5.81e+00 b.81.1.5 100291 2gmyA 153 5.85e+00 1gzsB 165 7.14e+00 a.168.1.1 76425 1m6jA 261 7.16e+00 c.1.1.1 78693 2f42A 179 7.31e+00 2avpA 70 8.13e+00 1tw9A 206 8.18e+00 a.45.1.1,c.47.1.5 107381,107382 1rr7A 129 8.71e+00 a.4.1.14 105075 1u6zA 513 8.74e+00 1yyaA 250 9.27e+00 1j30A 144 9.40e+00 a.25.1.1 90806 1zemA 262 9.72e+00 1khoA 370 9.92e+00 a.124.1.1,b.12.1.3 72489,72490 1ci4A 89 1.01e+01 1qckA a.60.5.1 17970 1rrmA 386 1.03e+01 e.22.1.2 105081 1mtyB 384 1.03e+01 1mtyB a.25.1.2 16740 1dwkA 156 1.13e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1elqA 390 1.16e+01 1elqA c.67.1.3 34436 1eluA 390 1.16e+01 1elqA c.67.1.3 34434 2db0A 253 1.19e+01 1a17 166 1.20e+01 1a17 a.118.8.1 19206 2iu1A 208 1.22e+01 1te6A 439 1.27e+01 c.1.11.1,d.54.1.1 106797,106798 1mo0A 275 1.31e+01 c.1.1.1 79329 2bptA 861 1.32e+01 1j09A 468 1.35e+01 a.97.1.1,c.26.1.1 77025,77026 2cfuA 658 1.36e+01 1ca1 370 1.37e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1r2rA 248 1.37e+01 c.1.1.1 96875 1tffA 234 1.38e+01 d.3.1.11 106854 1yoyA 175 1.38e+01 1wzaA 488 1.47e+01 1e7uA 961 1.51e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1k47A 337 1.56e+01 d.14.1.5,d.58.26.4 72040,72041 1elkA 157 1.64e+01 1dvpA a.118.9.2 19217 1n81A 186 1.70e+01 a.185.1.1 85388 1jj2B 337 1.70e+01 1ffkB b.43.3.2 63086 1s72B 338 1.70e+01 b.43.3.2 105320 1pujA 282 1.78e+01 c.37.1.8 88294 1w0hA 204 1.80e+01 1pinA 163 1.80e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 1g0cA 364 1.83e+01 7a3hA c.1.8.3 60165 2akzA 439 1.85e+01 1vqoB 338 1.88e+01 1t6aA 126 1.92e+01 d.129.8.1 106555 2cmd 312 1.97e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1ws9A 387 1.98e+01 1p5zB 263 2.00e+01 c.37.1.1 87815 2a2rA 210 2.00e+01 1kb9F 74 2.00e+01 f.28.1.1 77321 1lbu 213 2.08e+01 1lbu a.20.1.1,d.65.1.1 16416,39549 1e8yA 966 2.13e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1y0kA 209 2.14e+01 1tqgA 105 2.18e+01 a.24.10.3 107224 2b4vA 468 2.21e+01 1hyeA 313 2.25e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1zk8A 183 2.26e+01 2c1gA 431 2.28e+01 2ak3A 226 2.31e+01 1zin c.37.1.1,g.41.2.1 31892,45193 2c1iA 431 2.32e+01 1pgtA 210 2.33e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1tph1 247 2.37e+01 1amk 2cx9A 387 2.49e+01 1b5qA 472 2.54e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1uruA 244 2.55e+01 h.4.14.1 99835 1kq3A 376 2.59e+01 e.22.1.2 68790 2gtqA 867 2.60e+01 2a9kB 223 2.61e+01 1r9kA 172 2.62e+01 a.168.1.1 104869 1e29A 135 2.66e+01 1e29A a.3.1.1 59161 1aun 208 2.72e+01 1thv b.25.1.1 23900 1dk0A 188 2.75e+01 1b2vA d.35.1.1 38530 1y88A 199 2.78e+01 1kmiZ 214 2.82e+01 h.4.11.1 72752 1ta8A 332 2.83e+01 1ireB 228 2.90e+01 b.34.4.4 76770 1ugpB 226 2.91e+01 b.34.4.4 107832 1ouvA 273 2.91e+01 a.118.18.1 93570 1g24A 211 3.01e+01 1g24A d.166.1.1 42270 1qq7A 253 3.05e+01 1qq5A c.108.1.1 43329 2bmaA 470 3.07e+01 1sz9A 144 3.09e+01 a.118.9.4 106139 1fnnA 389 3.15e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1o5xA 248 3.20e+01 c.1.1.1 92528 1uocA 289 3.20e+01 c.55.3.9 99686 1bpyA 335 3.30e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 1aua 296 3.30e+01 1aua a.5.3.1,c.13.1.1 16290,30882 1q5nA 454 3.32e+01 a.127.1.1 95901 1gvnA 90 3.34e+01 a.8.2.1 76353 1tedA 393 3.38e+01 c.95.1.2 106807 1uwkA 557 3.41e+01 e.51.1.1 108065 1fit 147 3.42e+01 1fit d.13.1.1 37499 2blkA 122 3.44e+01 1gln 468 3.45e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1fuiA 591 3.46e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1zd8A 227 3.47e+01 1ijyA 130 3.53e+01 1ijxA a.141.1.1 62517 2fhi 147 3.55e+01 1fit d.13.1.1 37505 1i50B 1224 3.58e+01 e.29.1.1 61755 1tpfA 250 3.58e+01 1amk c.1.1.1 28467 1riqA 465 3.62e+01 a.203.1.1,d.104.1.1 97516,97517 1ji8A 111 3.67e+01 d.203.1.1 66733 1yfsA 465 3.69e+01 1b8oA 284 3.74e+01 1b8oA c.56.2.1 33762 1c02A 166 3.75e+01 1qspA a.24.10.2 16633 1lyxA 248 3.75e+01 c.1.1.1 78304 1bm9A 122 3.78e+01 1bm9A a.4.5.7 16116 1bf5A 545 3.80e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1mtyD 512 3.81e+01 1mhyD a.25.1.2 16742 2dh4A 340 3.82e+01 1z2iA 358 3.83e+01 2fckA 181 3.87e+01 1lbkA 208 3.87e+01 a.45.1.1,c.47.1.5 73809,73810 1fx8A 281 3.92e+01 f.19.1.1 43651 1z8oA 404 3.93e+01 2d29A 387 3.94e+01 1aky 221 4.05e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1elwA 118 4.06e+01 1a17 a.118.8.1 19207 1qq5A 253 4.08e+01 1qq5A c.108.1.1 43327 1yw5A 177 4.16e+01 1amk 251 4.17e+01 1amk c.1.1.1 28503 1n55A 251 4.25e+01 c.1.1.1 80007 1s6cA 183 4.26e+01 a.39.1.5 98594 1azo 232 4.30e+01 1azo c.52.1.14 33329 1gg3A 279 4.32e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 1xi1A 575 4.34e+01 1q44A 326 4.39e+01 c.37.1.5 95779 1vjlA 164 4.41e+01 d.257.1.1 100822 1khdA 345 4.44e+01 a.46.2.1,c.27.1.1 77400,77401 1zcdA 388 4.45e+01 1bu8A 452 4.53e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1o5zA 442 4.53e+01 c.59.1.2,c.72.2.2 92530,92531 1dofA 403 4.54e+01 1c3cA a.127.1.1 19429 1ii2A 524 4.56e+01 c.91.1.1,c.109.1.1 66146,66147 1ee8A 266 4.57e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1ldfA 281 4.57e+01 f.19.1.1 73845 1z6oM 191 4.57e+01 1vk5A 157 4.58e+01 a.220.1.1 108635 1tazA 365 4.64e+01 a.211.1.2 106734 1bo1A 416 4.68e+01 1bo1A d.143.1.2 41591 1wy5A 317 4.68e+01 1e1oA 504 4.68e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1reqA 727 4.69e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1kv5A 250 4.70e+01 c.1.1.1 73052 1ry6A 360 4.70e+01 c.37.1.9 98090 1mhyD 521 4.74e+01 1mhyD a.25.1.2 16780 1jihA 531 4.76e+01 d.240.1.1,e.8.1.7 90374,90375 1nogA 177 4.79e+01 a.25.2.2 85923 1ct5A 256 4.81e+01 1ct5A c.1.6.2 28663 2genA 197 4.85e+01 2e2aA 105 4.86e+01 a.7.2.1 88499 1f1eA 154 4.93e+01 a.22.1.2 64927 1gcb 454 4.94e+01 3gcb d.3.1.1 37034 1kpsB 171 4.97e+01 a.118.12.1 68787 1nowA 507 4.98e+01 c.1.8.6,d.92.2.1 85936,85937 1ezvB 352 5.04e+01 1ezvB d.185.1.1,d.185.1.1 59543,59544 5reqA 727 5.06e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 1h16A 759 5.13e+01 c.7.1.1 76462 1siqA 392 5.16e+01 a.29.3.1,e.6.1.1 105585,105586 1wt4A 73 5.18e+01 3gcb 470 5.26e+01 3gcb d.3.1.1 37032 1om2A 95 5.26e+01 1om2A a.23.4.1 16520 1b8aA 438 5.27e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1z23A 163 5.31e+01 2cdnA 201 5.31e+01 2a61A 145 5.34e+01 1qqeA 292 5.40e+01 1qqeA a.118.8.1 19210 1ornA 226 5.43e+01 a.96.1.1 87342 1ezvH 74 5.48e+01 1be3H f.28.1.1 59552 1jcdA 52 5.55e+01 h.1.16.1 84157 1jipA 403 5.57e+01 a.104.1.1 66748 1m5yA 408 5.73e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1u1iA 392 5.73e+01 c.2.1.3,d.81.1.3 107582,107583 1h96A 182 5.84e+01 2fha a.25.1.1 60811 1lb3A 182 5.84e+01 a.25.1.1 77873 1ji7A 89 5.87e+01 a.60.1.1 71682 1bc5A 269 5.93e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1e2aA 105 5.99e+01 1e2aA a.7.2.1 16322 1neyA 247 6.01e+01 c.1.1.1 80449 1af7 274 6.03e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1cm5A 759 6.11e+01 1cm5A c.7.1.1 30671 2b0tA 738 6.20e+01 1i45A 248 6.26e+01 1amk c.1.1.1 61665 1aszB 490 6.29e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1mba 147 6.30e+01 2fal a.1.1.2 15149 1eexA 554 6.30e+01 1dioA c.1.19.3 29650 1ah7 245 6.31e+01 1ah7 a.124.1.1 19339 1ap6A 198 6.36e+01 1avmA a.2.11.1,d.44.1.1 15746,38705 1ojaA 520 6.39e+01 c.3.1.2,d.16.1.5 93096,93097 1s3eA 520 6.39e+01 c.3.1.2,d.16.1.5 98426,98427 1lf7A 182 6.40e+01 b.60.1.1 73878 1fc3A 120 6.46e+01 1fc3A a.4.6.3 16237 2gd5A 179 6.51e+01 1sa3A 262 6.52e+01 c.52.1.23 105400 2fymA 431 6.54e+01 2a5yA 204 6.57e+01 1twfB 1224 6.59e+01 1ui0A 205 6.60e+01 c.18.1.2 99411 1ukvG 453 6.63e+01 c.3.1.3,c.3.1.3,d.16.1.6 107915,107916,107917 1oapA 109 6.64e+01 d.79.7.1 92706 2ag5A 246 6.65e+01 1u00A 227 6.69e+01 1xrhA 351 6.70e+01 2fq4A 192 6.74e+01 1dgnA 89 6.74e+01 1dgnA a.77.1.3 18436 2bl8A 103 6.75e+01 1qhtA 775 6.77e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1jvsA 400 6.77e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 1s1eA 224 6.83e+01 1wleA 501 6.84e+01 1ml4A 308 6.85e+01 c.78.1.1,c.78.1.1 79255,79256 1q2lA 939 6.90e+01 1e9rA 437 6.96e+01 c.37.1.11 64827 1rkbA 173 7.01e+01 5croA 66 7.02e+01 1orc a.35.1.2 17044 1y8qA 346 7.17e+01 2bcgG 453 7.23e+01 1n0nA 199 7.36e+01 a.2.11.1,d.44.1.1 79750,79751 1jlwA 219 7.37e+01 a.45.1.1,c.47.1.5 71741,71742 1adoA 363 7.37e+01 1fbaA c.1.10.1 29124 1z82A 335 7.42e+01 1k8kE 178 7.42e+01 a.148.1.1 68311 1s9uA 207 7.44e+01 a.184.1.1 105390 1tu9A 134 7.45e+01 a.1.1.2 107320 1t6jA 714 7.46e+01 1y2mA 716 7.53e+01 1w9cA 321 7.60e+01 1pq4A 291 7.69e+01 c.92.2.2 94995 1wpnA 188 7.70e+01 1zaiA 363 7.80e+01 1mo9A 523 7.94e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1mlwA 301 7.95e+01 d.178.1.1 79289 1m0kA 262 7.98e+01 f.13.1.1 78344 1tikA 213 8.01e+01 c.23.5.3 107003 1p3jA 217 8.10e+01 c.37.1.1,g.41.2.1 94022,94023 1zynA 202 8.15e+01 1c3wA 222 8.16e+01 1c3wA f.13.1.1 43405 1t33A 224 8.19e+01 a.4.1.9,a.121.1.1 106295,106296 1sfkA 76 8.20e+01 a.190.1.1 105488 1rxqA 178 8.20e+01 a.213.1.1 105118 1bcfA 158 8.25e+01 1bcfA a.25.1.1 16648 1hw5A 210 8.34e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 2f4qA 346 8.37e+01 1apxA 249 8.41e+01 1ryc a.93.1.1 18669 1kq6A 141 8.45e+01 d.189.1.1 91020 2a19A 175 8.49e+01 1guxA 218 8.49e+01 1guxA a.74.1.3 18388 1kb9B 352 8.50e+01 d.185.1.1,d.185.1.1 77313,77314 1h05A 146 8.50e+01 c.23.13.1 76433 1pl4A 198 8.52e+01 a.2.11.1,d.44.1.1 94854,94855 1h6kZ 98 8.57e+01 d.58.7.1 60686 1c1dA 355 8.69e+01 1bw9A c.2.1.7,c.58.1.1 30270,33918 1aj8A 371 8.71e+01 1aj8A a.103.1.1 18900 1lo7A 141 8.72e+01 d.38.1.1 74144 2bw3A 534 8.78e+01 1wphA 201 8.80e+01 1p5sA 203 8.83e+01 a.40.1.1 94147 1hlrA 907 8.85e+01 1ui5A 215 8.89e+01 a.4.1.9,a.121.1.1 107856,107857 1vlbA 907 8.91e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 103m 154 8.91e+01 1a6m a.1.1.2 15124 1q0qA 406 8.92e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 2cybA 323 8.94e+01