# 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 1pdo 135 1.75e-01 1pdo c.54.1.1 33376 1kewA 361 1.86e-01 c.2.1.2 68544 1bxkA 355 1.93e-01 1bxkA c.2.1.2 29803 1e7rA 321 2.54e-01 1bsvA c.2.1.2 29808 1uqrA 154 2.55e-01 c.23.13.1 99779 1xyzA 347 3.18e-01 1taxA c.1.8.3 28804 1e6uA 321 3.19e-01 1bsvA c.2.1.2 29805 1i60A 278 3.97e-01 c.1.15.4 71118 2aq4A 434 4.85e-01 1i6pA 220 6.73e-01 1ddzA c.53.2.1 61848 1qtwA 285 7.08e-01 1qumA c.1.15.1 29392 1u02A 239 8.01e-01 c.108.1.15 107538 1on3A 523 8.12e-01 c.14.1.4,c.14.1.4 87107,87108 1o60A 292 8.13e-01 c.1.10.4 92532 1nbaA 264 8.27e-01 1nbaA c.33.1.3 31753 1o20A 427 1.03e+00 c.82.1.1 86556 1jmvA 141 1.24e+00 c.26.2.4 66897 1obdA 306 1.25e+00 d.143.1.1 86767 1ufoA 238 1.30e+00 c.69.1.27 99344 1mjhA 162 1.34e+00 1mjhA c.26.2.4 31639 1vbuA 328 1.34e+00 2cbiA 594 1.40e+00 1a48 306 1.56e+00 1a48 d.143.1.1 41590 12asA 330 1.66e+00 12asA d.104.1.1 40783 2f5gA 133 1.76e+00 1opr 213 1.80e+00 1opr c.61.1.1 34091 4pgaA 337 1.80e+00 4pgaA c.88.1.1 35565 1gesA 450 1.92e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 2cwxA 430 1.93e+00 2d69A 430 2.00e+00 2fnaA 357 2.02e+00 1ipaA 274 2.64e+00 c.116.1.1,d.79.3.3 71254,71255 1vplA 256 2.69e+00 2ffeA 311 2.84e+00 2d13A 227 2.98e+00 1gtzA 156 3.04e+00 c.23.13.1 70539 1d0iA 156 3.20e+00 2dhqA c.23.13.1 31383 1h05A 146 3.48e+00 c.23.13.1 76433 2bmaA 470 3.61e+00 1ewkA 490 3.67e+00 1ewkA c.93.1.1 35712 2btzA 394 3.69e+00 1lh0A 213 3.76e+00 c.61.1.1 73896 2dhqA 146 3.81e+00 2dhqA c.23.13.1 31382 1jclA 260 3.84e+00 c.1.10.1 66501 1yzgA 179 3.96e+00 1p1xA 260 4.07e+00 c.1.10.1 104060 2c6cA 707 4.13e+00 1xrsA 516 4.24e+00 1uanA 227 4.44e+00 c.134.1.1 99135 1c93A 265 4.65e+00 2ebn c.1.8.5 28998 1zmbA 290 4.69e+00 1z41A 338 4.73e+00 1zbqA 327 4.94e+00 1ix9A 205 4.96e+00 a.2.11.1,d.44.1.1 76899,76900 1i0hA 205 5.33e+00 1avmA a.2.11.1,d.44.1.1 15760,38685 1sflA 238 5.43e+00 1lzlA 323 5.47e+00 c.69.1.2 78306 2c1lA 358 5.63e+00 7odcA 424 5.73e+00 7odcA b.49.2.3,c.1.6.1 26488,28650 1t06A 235 5.97e+00 a.118.1.17 106194 1o58A 303 6.10e+00 c.79.1.1 92491 1vq3A 94 6.22e+00 2b7kA 200 6.45e+00 1php 394 6.72e+00 16pk c.86.1.1 35452 2pth 193 6.74e+00 2pth c.56.3.1 33793 1p1jA 533 6.91e+00 c.2.1.3,d.81.1.3 87687,87688 1o9iA 266 6.93e+00 a.25.1.3 92671 1jkvA 266 6.99e+00 a.25.1.3 71719 1r85A 379 7.08e+00 c.1.8.3 104839 2f5xA 312 7.43e+00 2bleA 367 7.63e+00 1brwA 433 8.00e+00 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1to3A 304 8.17e+00 c.1.10.1 107161 1yxyA 234 8.45e+00 2fyxA 143 8.48e+00 1owqA 361 8.62e+00 c.1.8.5,d.26.3.1 104041,104042 1oroA 213 8.70e+00 1opr c.61.1.1 34093 1y8qB 640 8.74e+00 1vh7A 265 8.84e+00 c.1.2.1 100646 1tzbA 302 9.02e+00 c.80.1.1 107470 1x9iA 302 9.11e+00 1j0dA 341 9.21e+00 c.79.1.1 83902 1edt 271 9.24e+00 2ebn c.1.8.5 28993 1lehA 364 9.24e+00 1bw9A c.2.1.7,c.58.1.1 30268,33916 1xkyA 301 9.24e+00 7a3hA 303 9.60e+00 7a3hA c.1.8.3 28817 1rljA 139 9.83e+00 c.23.5.7 104983 1gqiA 708 9.86e+00 c.1.8.10,d.92.2.2 76279,76280 1q1gA 276 1.00e+01 c.56.2.1 95574 1b74A 254 1.06e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1o4vA 183 1.06e+01 c.23.8.1 86628 1j0aA 325 1.08e+01 c.79.1.1 83871 1e4yA 214 1.09e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1oq9A 363 1.09e+01 a.25.1.2 87257 1sc6A 404 1.10e+01 1ag9A 175 1.11e+01 1rcf c.23.5.1 31178 2bnfB 241 1.12e+01 1e9lA 377 1.15e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1yb0A 159 1.15e+01 1y8oA 419 1.16e+01 1u7nA 336 1.17e+01 c.77.1.4 107726 1f74A 293 1.18e+01 1nal3 c.1.10.1 29079 2bneA 241 1.18e+01 1dekA 241 1.23e+01 1dekA c.37.1.1 31842 1j5vA 351 1.24e+01 c.72.1.1 71585 2c5uA 375 1.25e+01 1c3cA 429 1.25e+01 1c3cA a.127.1.1 19425 1vf8A 377 1.28e+01 2fcr 173 1.29e+01 1rcf c.23.5.1 31151 1lt8A 406 1.29e+01 c.1.26.1 78186 1s7hA 200 1.29e+01 d.58.48.2 105349 2cmd 312 1.30e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1ir6A 424 1.31e+01 c.107.1.2 71342 1s99A 200 1.44e+01 1ta8A 332 1.47e+01 1mldA 314 1.48e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1e5xA 486 1.48e+01 c.79.1.1 59283 2afbA 351 1.48e+01 2c5aA 379 1.51e+01 16pk 415 1.51e+01 16pk c.86.1.1 35454 1w0mA 226 1.52e+01 c.1.1.1 109027 1vc4A 254 1.52e+01 c.1.2.4 100557 1u1iA 392 1.52e+01 c.2.1.3,d.81.1.3 107582,107583 2a6mA 155 1.67e+01 1rd5A 262 1.70e+01 1l8nA 679 1.71e+01 c.1.8.10,d.92.2.2 84564,84565 1c96A 753 1.72e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1uhwA 109 1.72e+01 a.4.5.31 99410 1dbqA 289 1.75e+01 1qpzA c.93.1.1 35666 2cxhA 217 1.81e+01 2c6qA 351 1.84e+01 1mv8A 436 1.85e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1iugA 352 1.86e+01 c.67.1.3 90699 1sfjA 238 1.87e+01 1rypJ 204 1.88e+01 d.153.1.4 41878 1gz6A 319 1.88e+01 c.2.1.2 76410 1wekA 217 1.95e+01 1tzjA 338 1.95e+01 1vqtA 213 1.96e+01 1l6wA 220 1.96e+01 c.1.10.1 73632 1ptmA 329 1.99e+01 c.77.1.3 95104 1czaN 917 2.00e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1ww8A 439 2.06e+01 1bkjA 240 2.11e+01 1bkjA d.90.1.1 40243 1cliA 345 2.11e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1nni1 174 2.12e+01 8acn 754 2.16e+01 1amj c.8.2.1,c.83.1.1 30724,35400 1i2oA 316 2.16e+01 1onrA c.1.10.1 61574 1onrA 316 2.18e+01 1onrA c.1.10.1 29169 1ybdA 239 2.19e+01 1zmtA 254 2.21e+01 1sviA 195 2.23e+01 c.37.1.8 106048 1t0hB 224 2.27e+01 c.37.1.1 106208 1xqiA 195 2.28e+01 1m3qA 317 2.29e+01 a.96.1.3,d.129.1.2 91184,91185 2a2lA 145 2.33e+01 1m5q1 130 2.34e+01 1jilA 420 2.36e+01 c.26.1.1 66745 1hkkA 364 2.37e+01 c.1.8.5,d.26.3.1 90634,90635 1lv7A 257 2.43e+01 c.37.1.20 78232 1pvdA 537 2.43e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1thfD 253 2.50e+01 1thfD c.1.2.1 28535 1k1xA 659 2.52e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1fmcA 255 2.54e+01 1cydA c.2.1.2 29856 1pwxA 254 2.56e+01 c.2.1.2 95262 1mw9X 592 2.60e+01 e.10.1.1 91480 1qj5A 429 2.61e+01 1dtyA c.67.1.4 34493 1u9iA 519 2.61e+01 2rslA 140 2.62e+01 2rslA c.53.1.1 33345 1wb0A 445 2.62e+01 1h7wA 1025 2.64e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1v02A 565 2.69e+01 c.1.8.4 108194 2bznA 351 2.72e+01 2d2eA 250 2.73e+01 1w5fA 353 2.75e+01 1mnaA 298 2.84e+01 c.69.1.22 79322 1gteA 1025 2.84e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1nv8A 284 2.87e+01 c.66.1.30 86224 1uuqA 440 2.89e+01 c.1.8.3 100015 1ypvA 313 2.92e+01 1jhdA 396 2.94e+01 b.122.1.3,c.26.1.5 66712,66713 1eg2A 319 2.94e+01 1eg2A c.66.1.11 34249 1l2lA 457 2.95e+01 c.72.1.3 77656 1f60A 458 2.96e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1kv5A 250 2.98e+01 c.1.1.1 73052 1uqtA 482 3.01e+01 c.87.1.6 99794 1f2dA 341 3.02e+01 1f2dA c.79.1.1 35298 1j1uA 306 3.03e+01 c.26.1.1 83980 1efvA 315 3.05e+01 1efvA c.26.2.3,c.31.1.2 31633,31728 1t3lA 337 3.10e+01 b.34.2.1,c.37.1.1 106358,106359 1e4iA 447 3.17e+01 1e70M c.1.8.4 59225 1pszA 303 3.19e+01 1toaA c.92.2.2 35600 2bfwA 200 3.20e+01 2fsqA 243 3.20e+01 1un7A 400 3.25e+01 b.92.1.5,c.1.9.10 99657,99658 2bsxA 253 3.26e+01 2abbA 364 3.30e+01 1kkoA 413 3.31e+01 c.1.11.2,d.54.1.1 68675,68676 1gs5A 258 3.34e+01 c.73.1.2 70395 1iupA 282 3.36e+01 c.69.1.10 76815 1hjsA 332 3.36e+01 c.1.8.3 83492 1ijgA 309 3.39e+01 1fouA e.27.1.1 62493 1jw9B 249 3.46e+01 c.111.1.1 67377 1n7kA 234 3.47e+01 c.1.10.1 85374 1ua4A 455 3.52e+01 c.72.1.3 99128 1vzwA 244 3.54e+01 1fgs 428 3.55e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 2irfG 113 3.58e+01 2irfG a.4.5.23 16185 1l8bA 190 3.60e+01 d.86.1.1 73683 1yarA 233 3.64e+01 1snyA 267 3.66e+01 c.2.1.2 105833 1ursA 402 3.70e+01 c.94.1.1 99833 1g8mA 593 3.75e+01 1g8mA c.24.1.3,c.97.2.1 60371,60372 2arzA 247 3.78e+01 1qxhA 167 3.85e+01 c.47.1.10 96528 2b5dX 528 3.88e+01 1zzmA 259 3.88e+01 1vypX 364 3.94e+01 c.1.4.1 108905 2mnr 357 3.94e+01 2mnr c.1.11.2,d.54.1.1 29245,38889 1j9yA 385 3.95e+01 1j9yA c.1.8.3 62791 1uk8A 282 3.96e+01 c.69.1.10 107907 1g61A 228 3.97e+01 1g61A d.126.1.1 41126 1oj4A 283 4.01e+01 d.14.1.5,d.58.26.5 93083,93084 1mdl 359 4.05e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1h5wA 309 4.07e+01 e.27.1.1 65635 1rhcA 330 4.08e+01 c.1.16.3 97468 1k7cA 233 4.09e+01 c.23.10.4 68267 1m6eX 359 4.10e+01 c.66.1.35 91188 1xgsA 295 4.14e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1fh9A 312 4.21e+01 1taxA c.1.8.3 28913 1jl3A 139 4.22e+01 c.44.1.1 66826 1uhvA 500 4.23e+01 b.71.1.2,c.1.8.3 99402,99403 1v8aA 265 4.24e+01 c.72.1.2 100494 1fzqA 181 4.25e+01 1hurA c.37.1.8 32060 1wwlA 312 4.28e+01 2bwfA 77 4.29e+01 1k6wA 426 4.30e+01 b.92.1.2,c.1.9.5 68236,68237 1ru8A 232 4.32e+01 c.26.2.1 97849 1dvjA 246 4.32e+01 1dvjA c.1.2.3 28546 1vyrA 364 4.32e+01 c.1.4.1 108906 1deoA 233 4.36e+01 1deoA c.23.10.4 31345 1efvB 255 4.38e+01 1efvB c.26.2.3 31634 1pjqA 457 4.46e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1km4A 247 4.49e+01 c.1.2.3 72740 2f6hX 419 4.51e+01 1iso 416 4.52e+01 1iso c.77.1.1 35065 1g0cA 364 4.54e+01 7a3hA c.1.8.3 60165 1nu0A 138 4.54e+01 c.55.3.8 92165 1ydnA 295 4.55e+01 2ez9A 603 4.59e+01 2b6hA 192 4.61e+01 1in4A 334 4.62e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1nr0A 611 4.64e+01 b.69.4.1,b.69.4.1 86078,86079 1ebmA 317 4.66e+01 1ebmA a.96.1.3,d.129.1.2 18751,41300 1pv5A 264 4.69e+01 d.251.1.1 95150 1id0A 152 4.71e+01 d.122.1.3 66111 1vjgA 218 4.73e+01 c.23.10.6 100810 1ydhA 216 4.74e+01 1tpfA 250 4.76e+01 1amk c.1.1.1 28467 1m6iA 493 4.84e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1ra0A 430 4.87e+01 1qmhA 347 4.87e+01 1qmhA c.47.2.1,d.68.2.1 33082,39568 1guzA 310 4.89e+01 c.2.1.5,d.162.1.1 65586,65587 1pb1A 416 4.93e+01 c.77.1.1 88014 1kshA 186 4.96e+01 c.37.1.8 72914 1v8bA 479 4.97e+01 1tv8A 340 4.98e+01 c.1.28.3 107352 1ybzA 91 5.01e+01 1ls1A 295 5.01e+01 a.24.13.1,c.37.1.10 78170,78171 1gzsB 165 5.03e+01 a.168.1.1 76425 1y5eA 169 5.04e+01 1ji0A 240 5.04e+01 c.37.1.12 71665 1dofA 403 5.05e+01 1c3cA a.127.1.1 19429 1l1qA 186 5.05e+01 c.61.1.1 77653 2d1sA 548 5.07e+01 1mr3F 181 5.10e+01 c.37.1.8 79422 1k7kA 221 5.22e+01 c.51.4.1 72104 1wab 232 5.24e+01 1wab c.23.10.3 31341 1es9A 232 5.26e+01 1wab c.23.10.3 31340 1tg7A 971 5.32e+01 2cfxA 144 5.33e+01 2c1dA 264 5.35e+01 1h61A 364 5.38e+01 1oyc c.1.4.1 60657 1wzzA 334 5.39e+01 1w8sA 263 5.39e+01 2aefA 234 5.41e+01 1jksA 294 5.44e+01 d.144.1.7 71710 1uz5A 402 5.44e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1sf8A 126 5.45e+01 d.271.1.1 105472 1w5qA 337 5.47e+01 1qh8A 478 5.47e+01 1qguA c.92.2.3 35633 1u9jA 358 5.50e+01 1ep3A 311 5.50e+01 2dorA c.1.4.1 28597 2fkbA 180 5.51e+01 1y8aA 332 5.55e+01 1gvoA 364 5.57e+01 c.1.4.1 76357 1xesA 413 5.59e+01 1o7jA 327 5.63e+01 c.88.1.1 81140 1b4kA 337 5.64e+01 1b4kA c.1.10.3 29184 1ohvA 472 5.65e+01 c.67.1.4 93031 1rh5A 436 5.67e+01 f.41.1.1 97464 1uptC 170 5.69e+01 c.37.1.8 99769 1pii 452 5.69e+01 1pii c.1.2.4,c.1.2.4 28559,28563 1m5wA 243 5.77e+01 c.1.24.1 84836 2byoA 207 5.80e+01 1fhdA 312 5.80e+01 1taxA c.1.8.3 28915 1yoeA 322 5.87e+01 1dqzA 280 5.90e+01 1dqyA c.69.1.3 34638 1hwxA 501 5.94e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 1r53A 382 5.95e+01 d.258.1.1 97063 1uurA 473 5.95e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1v7zA 260 5.96e+01 c.125.1.1 100488 1ml4A 308 5.97e+01 c.78.1.1,c.78.1.1 79255,79256 2chnA 716 5.99e+01 1giqA 413 6.01e+01 d.166.1.1,d.166.1.1 76224,76225 1xzoA 174 6.04e+01 1ojxA 263 6.05e+01 c.1.10.1 93164 1tjyA 316 6.08e+01 c.93.1.1 107062 1qmpA 130 6.10e+01 1dz3A c.23.1.1 31106 2ew8A 249 6.11e+01 1uf5A 303 6.13e+01 d.160.1.2 107808 1nrgA 261 6.15e+01 b.45.1.1 80694 1b8fA 509 6.20e+01 1b8fA a.127.1.2 19434 1blxA 326 6.21e+01 1hcl d.144.1.7 41596 1fkx 349 6.23e+01 1a4mA c.1.9.1 29018 1lqtA 456 6.23e+01 c.3.1.1,c.4.1.1 74198,74199 1sr8A 298 6.27e+01 e.54.1.1 105959 1mkzA 172 6.29e+01 c.57.1.1 84998 1gzgA 337 6.30e+01 c.1.10.3 70805 1paqA 189 6.30e+01 a.118.1.14 94413 1mdwA 328 6.31e+01 d.3.1.3 84934 1ub3A 220 6.32e+01 c.1.10.1 88395 1eceA 358 6.40e+01 1eceA c.1.8.3 28813 1erzA 303 6.41e+01 1erzA d.160.1.2 59498 5reqA 727 6.46e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 1g6oA 330 6.48e+01 1g6oA c.37.1.11 32430 1poxA 585 6.49e+01 1poxA c.31.1.3,c.36.1.5,c.36.1.9 31731,31793,31794 2g09A 297 6.50e+01 1j7nA 776 6.51e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1u2zA 433 6.55e+01 c.66.1.31 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