# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1vk1A 242 1.61e-03 d.268.1.2 108634 1u5tC 202 1.79e-01 a.4.5.54,a.4.5.54 107688,107689 1xb4A 202 3.93e-01 1p3dA 475 7.83e-01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1xw3A 110 2.26e+00 1xw4X 110 2.26e+00 1iuhA 198 2.65e+00 d.61.1.2 83711 2etvA 346 2.79e+00 1exqA 154 2.89e+00 1b9dA c.55.3.2 33646 1ve1A 304 2.95e+00 1yzsA 121 3.14e+00 1jbwA 428 3.20e+00 c.59.1.2,c.72.2.2 62860,62861 1o7jA 327 3.71e+00 c.88.1.1 81140 1fgs 428 3.91e+00 1fgs c.59.1.2,c.72.2.2 33959,34962 3csuA 310 4.32e+00 3csuA c.78.1.1,c.78.1.1 35094,35095 1m65A 245 4.96e+00 c.6.3.1 84847 1zz1A 369 5.08e+00 1t5oA 351 5.88e+00 c.124.1.5 106459 1qh5A 260 6.06e+00 1qh5A d.157.1.2 42057 2a0fA 310 6.35e+00 1ads 315 6.47e+00 1frb c.1.7.1 28671 2bbhA 269 6.83e+00 1fxoA 293 7.18e+00 1g0rA c.68.1.6 34524 1lvwA 295 7.53e+00 c.68.1.6 84723 1h5rA 293 7.56e+00 c.68.1.6 65623 2dg5A 366 8.08e+00 1vsd 152 8.09e+00 1cxqA c.55.3.2 33625 2cohA 202 8.27e+00 1i0dA 332 8.47e+00 1pscA c.1.9.3 61487 1bf6A 291 8.75e+00 1pscA c.1.9.3 29065 1hzyA 332 9.04e+00 1pscA c.1.9.3 61468 2agtA 319 9.04e+00 1us0A 316 9.06e+00 c.1.7.1 99850 1pwmA 316 9.08e+00 c.1.7.1 95231 1lnzA 342 9.12e+00 b.117.1.1,c.37.1.8 78112,78113 1a6m 151 1.15e+01 1a6m a.1.1.2 15018 1dmtA 696 1.33e+01 1dmtA d.92.1.4 40296 1r1hA 696 1.33e+01 d.92.1.4 104756 1zoyA 622 1.42e+01 1ydnA 295 1.45e+01 1wr7A 41 1.56e+01 1qo2A 241 1.57e+01 1qo2A c.1.2.1 28533 2b34A 199 1.57e+01 1q7fA 286 1.57e+01 b.68.9.1 96036 1bzpA 153 1.63e+01 1a6m a.1.1.2 15020 1id1A 153 1.63e+01 1id1A c.2.1.9 62286 1gv3A 248 1.64e+01 a.2.11.1,d.44.1.1 70585,70586 1m70A 190 1.67e+01 a.3.1.4,a.3.1.4 91200,91201 2mgb 154 1.70e+01 1a6m a.1.1.2 15102 1qycA 308 1.78e+01 c.2.1.2 96581 1jtkA 136 1.84e+01 c.97.1.1 71862 1h5uA 842 1.84e+01 1a8i c.87.1.4 60655 1m1nA 491 1.85e+01 c.92.2.3 78417 1mlg 154 1.87e+01 1a6m a.1.1.2 15104 1qmqA 414 1.90e+01 1phd a.104.1.1 18907 1uwzA 136 1.90e+01 c.97.1.1 108081 6mhtA 327 1.92e+01 6mhtA c.66.1.26 34226 2mgg 154 1.95e+01 1a6m a.1.1.2 15069 1ef8A 261 2.00e+01 1ef8A c.14.1.3 30921 2c27A 315 2.03e+01 2spl 154 2.05e+01 1a6m a.1.1.2 15047 1wxdA 263 2.06e+01 1mll 154 2.07e+01 1a6m a.1.1.2 15057 1z5zA 271 2.09e+01 1yrcA 414 2.10e+01 1r3sA 367 2.12e+01 c.1.22.1 96963 1cxqA 162 2.12e+01 1cxqA c.55.3.2 33621 1mod 154 2.13e+01 1a6m a.1.1.2 15107 1bea 127 2.15e+01 1bea a.52.1.2 17826 1wn5A 130 2.19e+01 1qy5A 269 2.23e+01 d.122.1.1 96573 2bnfB 241 2.31e+01 2c4jA 218 2.37e+01 2bneA 241 2.40e+01 1mlo 154 2.43e+01 1a6m a.1.1.2 15085 1cs1A 386 2.44e+01 1ibjA c.67.1.3 34399 1xvxA 312 2.44e+01 1a8i 842 2.46e+01 1a8i c.87.1.4 35490 1dz4A 414 2.46e+01 1phd a.104.1.1 18903 1mym 154 2.46e+01 1a6m a.1.1.2 15054 1oatA 439 2.50e+01 2dkb c.67.1.4 34461 1pujA 282 2.62e+01 c.37.1.8 88294 1y81A 138 2.64e+01 8rucI 123 2.64e+01 1rboC d.73.1.1 39629 1uroA 367 2.67e+01 1uroA c.1.22.1 29675 2oatA 439 2.72e+01 2dkb c.67.1.4 34452 1gmuA 143 2.74e+01 b.107.1.1,d.58.38.1 65335,65336 1ecpA 238 2.74e+01 1ecpA c.56.2.1 33775 1pvvA 315 2.74e+01 c.78.1.1,c.78.1.1 95190,95191 1k99A 99 2.76e+01 a.21.1.1 68341 1w98B 283 2.78e+01 1k9sA 237 2.83e+01 c.56.2.1 68359 1o20A 427 2.84e+01 c.82.1.1 86556 1zs9A 261 2.88e+01 1t9kA 347 2.89e+01 c.124.1.5 106721 2c7pA 327 2.95e+01 2a8yA 270 2.98e+01 2bylA 439 2.99e+01 1y0nA 78 3.00e+01 2aelA 374 3.02e+01 1r6uA 437 3.03e+01 c.26.1.1 97163 1zd3A 555 3.04e+01 1odoA 408 3.04e+01 a.104.1.1 92783 1zvpA 133 3.05e+01 1hi2A 135 3.11e+01 7rsa d.5.1.1 61057 1d9tA 289 3.11e+01 1deaA 1gqvA 135 3.16e+01 d.5.1.1 70376 1gjnA 153 3.16e+01 a.1.1.2 70191 1dwtA 153 3.17e+01 1a6m a.1.1.2 15190 1apxA 249 3.19e+01 1ryc a.93.1.1 18669 2frfA 153 3.22e+01 1qqyA 130 3.26e+01 3lzt d.2.1.2 36586 1ajsA 412 3.29e+01 1ajsA c.67.1.1 34276 1yc5A 246 3.34e+01 1xw5A 217 3.36e+01 1ne7A 289 3.39e+01 c.124.1.1 91833 2cy0A 263 3.42e+01 1frb 315 3.45e+01 1frb c.1.7.1 28665 2bivA 243 3.52e+01 1oz2A 331 3.56e+01 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 1u1jA 765 3.63e+01 c.1.22.2,c.1.22.2 107590,107591 1guzA 310 3.68e+01 c.2.1.5,d.162.1.1 65586,65587 2fnaA 357 3.69e+01 2byjA 439 3.71e+01 2d5cA 263 3.74e+01 2bzpA 226 3.90e+01 1afrA 345 3.91e+01 1afrA a.25.1.2 16805 1vl6A 388 3.98e+01 c.2.1.7,c.58.1.3 108724,108725 1l4iA 206 3.99e+01 b.1.11.1,b.7.2.1 73564,73565 1pymA 295 4.05e+01 1pymA c.1.12.7 29308 1gs5A 258 4.10e+01 c.73.1.2 70395 1mw9X 592 4.15e+01 e.10.1.1 91480 1zrn 232 4.29e+01 1qq5A c.108.1.1 43323 2bp1A 360 4.31e+01 2cvxA 888 4.36e+01 1o98A 511 4.39e+01 c.105.1.1,c.76.1.3 86684,86685 1ta3B 303 4.41e+01 c.1.8.3 106732 1wd5A 208 4.41e+01 1yb3A 175 4.41e+01 1ug7A 128 4.44e+01 a.24.24.1 107824 1s9uA 207 4.45e+01 a.184.1.1 105390 1mlwA 301 4.56e+01 d.178.1.1 79289 1dd9A 338 4.57e+01 1dd9A e.13.1.1 43254 1vj5A 555 4.58e+01 c.108.1.2,c.69.1.11 100799,100800 1jdpA 441 4.59e+01 c.93.1.1 62906 2fhpA 187 4.60e+01 1l2uA 245 4.69e+01 c.1.2.3 73516 1mgpA 313 4.69e+01 c.119.1.1 79098 1vl7A 157 4.73e+01 b.45.1.1 108732 2pil 159 4.75e+01 2pil d.24.1.1 38376 1pylA 97 4.78e+01 d.1.1.2 104391 1re9A 414 4.81e+01 1o1yA 239 4.81e+01 c.23.16.1 86554 1qh3A 260 4.82e+01 1qh5A d.157.1.2 42059 1zmdA 474 4.85e+01 2fbwA 621 4.86e+01 1kx5B 102 4.90e+01 a.22.1.1 77594 1rh5A 436 5.01e+01 f.41.1.1 97464 2a65A 519 5.04e+01 1o58A 303 5.06e+01 c.79.1.1 92491 1nnhA 294 5.07e+01 d.104.1.1 92005 1ooeA 236 5.07e+01 c.2.1.2 87196 1wzlA 585 5.09e+01 1tc6A 236 5.12e+01 d.122.1.1 106756 1cydA 244 5.18e+01 1cydA c.2.1.2 29825 1s2wA 295 5.21e+01 c.1.12.7 98407 1zp4A 304 5.22e+01 1ttzA 87 5.27e+01 c.47.1.1 107309 1j4aA 333 5.36e+01 c.2.1.4,c.23.12.1 71502,71503 1pwhA 327 5.36e+01 c.79.1.1 95224 1tc1A 220 5.37e+01 1tc1A c.61.1.1 34083 2fj6A 82 5.37e+01 5rubA 490 5.38e+01 1burA c.1.14.1,d.58.9.1 29382,39288 1fc1A 224 5.40e+01 1igtB b.1.1.2,b.1.1.2 21520,21521 2tysA 268 5.40e+01 2tysA c.1.2.4 28572 1rzhM 307 5.41e+01 f.26.1.1 98165 1cqkA 101 5.47e+01 1cqkA b.1.1.2 21547 1zelA 298 5.47e+01 1v5xA 203 5.49e+01 c.1.2.4 100377 1z90A 469 5.58e+01 1ukcA 522 5.61e+01 c.69.1.17 107911 2hbg 147 5.68e+01 2hbg a.1.1.2 15014 1twdA 256 5.71e+01 c.1.30.1 107397 1vphA 149 5.80e+01 1v7zA 260 5.86e+01 c.125.1.1 100488 1f4qA 165 5.89e+01 1alvA a.39.1.8 17360 1wrjA 156 5.90e+01 1tfzA 424 5.91e+01 d.32.1.3,d.32.1.3 106886,106887 1yewC 289 5.98e+01 1dixA 208 5.99e+01 1bk7A d.124.1.1 41122 1b4pA 217 6.00e+01 a.45.1.1,c.47.1.5 83158,83159 1lla 628 6.00e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1i0lA 221 6.01e+01 c.61.1.1 71096 1e6iA 121 6.04e+01 1b91A a.29.2.1 16969 1vmaA 306 6.18e+01 a.24.13.1,c.37.1.10 108887,108888 1vhnA 318 6.21e+01 c.1.4.1 100693 1vbkA 307 6.30e+01 2faoA 309 6.38e+01 1o2dA 371 6.40e+01 e.22.1.2 86591 1oq9A 363 6.41e+01 a.25.1.2 87257 1b0nA 111 6.43e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1q5dA 419 6.48e+01 a.104.1.1 95891 1xdpA 687 6.50e+01 1p42A 270 6.51e+01 d.14.1.7,d.14.1.7 87754,87755 1i60A 278 6.51e+01 c.1.15.4 71118 1a88A 275 6.52e+01 1brt c.69.1.12 34707 1s1pA 331 6.54e+01 c.1.7.1 98350 1j55A 95 6.70e+01 a.39.1.2 77078 1vhwA 253 6.74e+01 c.56.2.1 100706 1eemA 241 6.77e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 2rslA 140 6.86e+01 2rslA c.53.1.1 33345 1juvA 193 6.87e+01 c.71.1.1 90912 1c7sA 858 7.00e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1tvjA 166 7.01e+01 103m 154 7.03e+01 1a6m a.1.1.2 15124 1jztA 246 7.13e+01 c.104.1.1 63319 1e5xA 486 7.27e+01 c.79.1.1 59283 1p0hA 318 7.32e+01 d.108.1.1 93866 1eceA 358 7.32e+01 1eceA c.1.8.3 28813 1eqjA 511 7.32e+01 1ejjA c.105.1.1,c.76.1.3 59495,59496 2g0uA 92 7.32e+01 1ybdA 239 7.44e+01 1zvtA 256 7.44e+01 1u1hA 765 7.46e+01 c.1.22.2,c.1.22.2 107580,107581 1kiyA 374 7.51e+01 a.128.1.5 72555 1din 236 7.52e+01 1din c.69.1.9 34682 2bbrA 195 7.62e+01 1fzqA 181 7.64e+01 1hurA c.37.1.8 32060 2fnjC 96 7.69e+01 1dp4A 435 7.71e+01 1dp4A c.93.1.1 35710 1yyqA 374 7.72e+01 1dp0A 1023 7.79e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22073,22074,23722,24346,28845 1wkyA 464 7.79e+01 1jf3A 147 7.82e+01 a.1.1.2 71642 6gsvA 217 7.83e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1ex2A 189 7.84e+01 1ex2A c.51.4.2 33225 1ml4A 308 7.88e+01 c.78.1.1,c.78.1.1 79255,79256 1nksA 194 7.92e+01 1nksA c.37.1.1 31886 1im5A 180 7.94e+01 c.33.1.3 66211 2gp4A 628 7.97e+01 1xseA 295 8.06e+01 1h1yA 228 8.07e+01 c.1.2.2 76506 1kwgA 645 8.07e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 2d00A 109 8.07e+01 1l6xA 207 8.12e+01 b.1.1.2,b.1.1.2 73642,73643 1ituA 369 8.13e+01 c.1.9.7 71423 1j96A 323 8.19e+01 c.1.7.1 71616 1jz8A 1023 8.28e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1f6dA 376 8.55e+01 1f6dA c.87.1.3 35467 1zi8A 236 8.60e+01 1vk6A 269 8.62e+01 d.113.1.4,d.113.1.4 100851,100852 1lz1 130 8.62e+01 3lzt d.2.1.2 36415 2c1lA 358 8.65e+01 1unlD 208 8.69e+01 2ffjA 300 8.84e+01 1mjfA 281 8.84e+01 c.66.1.17 79198 3thiA 371 8.86e+01 2thiA c.94.1.1 35792 1yn3A 98 8.90e+01 1zq1A 438 8.92e+01 1jsf 130 8.98e+01 3lzt d.2.1.2 36410