# List of top-scoring protein chains for t06-100-30-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 1vjxA 157 7.41e-06 a.25.1.1 100837 2fkzA 155 3.21e-04 1za0A 275 1.77e-03 1nfvA 179 7.22e-03 a.25.1.1 85642 1r03A 182 2.21e-02 a.25.1.1 104675 1gntA 553 2.49e-02 e.26.1.1 70290 1vlgA 176 2.68e-02 a.25.1.1 108816 1tjoA 182 4.32e-02 1jigA 146 1.54e-01 a.25.1.1 71685 2gyqA 175 1.93e-01 1bgc 174 2.45e-01 1bgc a.26.1.1 16822 1jm0A 50 2.47e-01 k.8.1.1 66870 2dchX 216 2.58e-01 1oq9A 363 6.12e-01 a.25.1.2 87257 1n1fA 159 7.44e-01 a.26.1.3 79803 1z0sA 278 8.59e-01 1o9rA 162 8.96e-01 a.25.1.1 86706 1v2dA 381 1.04e+00 c.67.1.1 108281 1b5pA 385 1.05e+00 c.67.1.1 90403 2hekA 371 1.30e+00 1kqpA 271 1.48e+00 c.26.2.1 72883 1gdeA 389 1.49e+00 c.67.1.1 60456 1yuzA 202 1.50e+00 1suwA 249 1.54e+00 e.52.1.1 106027 1z6oM 191 1.79e+00 1w9yA 319 1.80e+00 1q8iA 783 1.82e+00 c.55.3.5,e.8.1.1 96208,96209 1h6gA 256 1.83e+00 1h6gA a.24.9.1,a.24.9.1 60669,60670 1rcwA 231 1.88e+00 a.132.1.4 97299 1us7B 265 1.89e+00 a.205.1.1 99858 2etsA 128 1.93e+00 1orjA 130 2.00e+00 a.24.19.1 93456 1eqfA 280 2.01e+00 1eqfA a.29.2.1,a.29.2.1 16972,16973 1zpyA 95 2.45e+00 1e19A 314 2.85e+00 1b7bA c.73.1.1 34967 2bidA 197 2.94e+00 2bidA f.1.4.1 43398 1gnlA 544 2.97e+00 e.26.1.1 70287 1vrtA 560 3.00e+00 1rthA c.55.3.1,e.8.1.2 33574,43023 1mtyB 384 3.09e+00 1mtyB a.25.1.2 16740 1o4sA 389 3.63e+00 c.67.1.1 86620 1z77A 200 3.70e+00 1w7lA 422 3.70e+00 c.67.1.1 109226 1u6tA 121 3.93e+00 1otkA 249 4.13e+00 a.25.1.2 93521 1ux8A 132 4.19e+00 1vjoA 393 4.25e+00 c.67.1.3 100827 1dpsA 167 4.33e+00 1dpsA a.25.1.1 16716 1wmwA 330 4.65e+00 2trcP 217 4.75e+00 1b9yC c.47.1.6 33051 1rzhM 307 5.12e+00 f.26.1.1 98165 2fymA 431 5.55e+00 1dq3A 454 5.78e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1hxhA 253 5.90e+00 c.2.1.2 76725 1xm3A 264 5.90e+00 1txuA 273 5.99e+00 a.222.1.1 107439 2ethA 154 6.17e+00 1ru0A 105 6.77e+00 1eg5A 384 6.86e+00 1ecxA c.67.1.3 34429 2f6mB 109 7.02e+00 1yizA 429 7.34e+00 1yiyA 429 7.43e+00 1z6oA 212 7.88e+00 1vcsA 102 7.88e+00 1wa5B 530 8.46e+00 1xx1A 285 8.97e+00 1ars 396 9.73e+00 1ajsA c.67.1.1 34287 2dg5A 366 1.00e+01 1f1eA 154 1.01e+01 a.22.1.2 64927 1r6xA 395 1.04e+01 b.122.1.3,c.26.1.5 97167,97168 1o9iA 266 1.04e+01 a.25.1.3 92671 1mvcA 240 1.05e+01 a.123.1.1 79499 1y10A 407 1.08e+01 1hziA 129 1.11e+01 1rcb a.26.1.2 61449 1qs1A 462 1.11e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 1uzeA 589 1.18e+01 d.92.1.5 108174 1no7A 604 1.18e+01 e.48.1.1 92016 1i0dA 332 1.19e+01 1pscA c.1.9.3 61487 1uu1A 335 1.20e+01 c.67.1.1 99993 1c7gA 456 1.23e+01 c.67.1.2 90415 1lb3A 182 1.29e+01 a.25.1.1 77873 3gcb 470 1.29e+01 3gcb d.3.1.1 37032 1om1A 332 1.31e+01 d.144.1.7 93347 1zb1A 392 1.37e+01 1eumA 165 1.42e+01 1eumA a.25.1.1 59507 2cb5A 453 1.42e+01 3gcb d.3.1.1 37035 1b24A 188 1.43e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1b5l 172 1.43e+01 1b5l a.26.1.3 16900 1a8q 274 1.48e+01 1brt c.69.1.12 34702 1c3cA 429 1.51e+01 1c3cA a.127.1.1 19425 1wy1A 172 1.52e+01 1jlvA 209 1.58e+01 a.45.1.1,c.47.1.5 71729,71730 1yovA 537 1.68e+01 1wtaA 275 1.68e+01 1jli 112 1.70e+01 1jli a.26.1.2 16884 1qr0A 228 1.73e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1nekD 115 1.79e+01 f.21.2.2 80432 1vsrA 136 1.81e+01 1vsrA c.52.1.15 33332 1h3lA 87 1.84e+01 a.177.1.1 76639 1xlyA 234 1.86e+01 1v73A 342 1.86e+01 1jdlA 121 1.87e+01 a.3.1.1 66557 1vjpA 394 1.87e+01 c.2.1.3,d.81.1.3 100828,100829 1ofcX 304 1.87e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1musA 477 1.91e+01 c.55.3.4 79494 1l5aA 436 1.93e+01 c.43.1.2,c.43.1.2 75923,75924 1nogA 177 1.97e+01 a.25.2.2 85923 1jsdB 176 1.98e+01 h.3.1.1 63259 1xqaA 113 2.00e+01 1rss 151 2.00e+01 1rss a.75.1.1 18392 1v7pC 200 2.01e+01 c.62.1.1 108408 1izoA 417 2.09e+01 a.104.1.1 83851 1lngA 87 2.12e+01 d.201.1.1 74045 1sd4A 126 2.16e+01 a.4.5.39 105428 1pprM 312 2.18e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1h6pA 203 2.18e+01 a.146.1.1 60690 1jogA 146 2.19e+01 a.24.16.2 77142 1ct9A 553 2.20e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 2ff4A 388 2.22e+01 1ug6A 431 2.24e+01 c.1.8.4 88490 1j31A 262 2.27e+01 d.160.1.2 90808 2bwnA 401 2.29e+01 1n46A 258 2.32e+01 a.123.1.1 85315 1otvA 259 2.34e+01 a.132.1.4 93526 1nkd 65 2.38e+01 1nkd a.30.1.1 16974 2dbbA 151 2.41e+01 2c46A 241 2.42e+01 2f1kA 279 2.42e+01 1sjdA 368 2.46e+01 c.1.11.2,d.54.1.1 105632,105633 1v7nV 163 2.50e+01 a.26.1.2 100476 1zbxB 141 2.50e+01 1zchA 255 2.52e+01 1zejA 293 2.55e+01 1tf5A 844 2.56e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1jk0B 345 2.60e+01 a.25.1.2 63143 1cqxA 403 2.61e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 2gfoA 396 2.62e+01 1fpoA 171 2.64e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 2c1vA 338 2.66e+01 1b67A 68 2.66e+01 1a7w a.22.1.2 16474 2cohA 202 2.72e+01 1lwdA 413 2.73e+01 c.77.1.1 78265 1wmuA 141 2.74e+01 a.1.1.2 109416 1pzlA 237 2.77e+01 a.123.1.1 104393 2au3A 407 2.77e+01 1b7yB 785 2.80e+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 1s2wA 295 2.80e+01 c.1.12.7 98407 1ee4A 423 2.81e+01 1ee4A a.118.1.1 19128 2ajrA 331 2.85e+01 1dkqA 410 2.88e+01 1dklA c.60.1.2 33998 2b7aA 293 2.88e+01 1f5vA 240 2.90e+01 1bkjA d.90.1.1 40255 1r29A 127 2.94e+01 d.42.1.1 96856 1zoiA 276 2.94e+01 1siqA 392 2.95e+01 a.29.3.1,e.6.1.1 105585,105586 1svvA 359 2.98e+01 c.67.1.1 106054 1regX 122 3.05e+01 1regX d.58.27.1 39406 1umnA 165 3.07e+01 a.25.1.1 99607 1ufyA 122 3.12e+01 d.79.1.2 88489 1zybA 232 3.14e+01 1z7lA 276 3.15e+01 2bbhA 269 3.22e+01 1o58A 303 3.32e+01 c.79.1.1 92491 1dcoA 104 3.35e+01 1dcpA d.74.1.1 39680 2h3bA 494 3.36e+01 1lfpA 249 3.37e+01 e.39.1.1 73885 2dbnA 461 3.44e+01 1vls 146 3.48e+01 1vls a.24.2.1 16532 1fcyA 236 3.50e+01 2lbd a.123.1.1 19282 2es4D 332 3.51e+01 1zy7A 403 3.52e+01 2awiA 317 3.53e+01 1o26A 232 3.57e+01 d.207.1.1 86566 1wwpA 119 3.58e+01 1mswD 883 3.58e+01 e.8.1.3 79427 1jflA 228 3.58e+01 c.78.2.1,c.78.2.1 71656,71657 1wn2A 121 3.63e+01 2a1iA 146 3.67e+01 1rh5A 436 3.68e+01 f.41.1.1 97464 1es5A 262 3.68e+01 1skf e.3.1.1 42679 1p9yA 121 3.72e+01 d.241.2.1 94402 1zq9A 285 3.74e+01 1yewC 289 3.76e+01 1xzoA 174 3.77e+01 1urfA 81 3.79e+01 a.2.6.1 99827 1o5zA 442 3.81e+01 c.59.1.2,c.72.2.2 92530,92531 1t7vA 278 3.90e+01 1t6uA 117 3.91e+01 a.24.22.1 106584 1bw0A 416 3.91e+01 1bw0A c.67.1.1 34385 1cxc 124 3.92e+01 1ycc a.3.1.1 15890 1nfp 228 3.92e+01 1nfp c.1.16.2 29555 1zd0A 150 3.94e+01 1lucB 324 3.97e+01 1lucA c.1.16.1 29548 1a8s 273 3.99e+01 1brt c.69.1.12 34710 1u2eA 289 4.00e+01 1ubkL 534 4.01e+01 e.18.1.1 88422 1fp3A 402 4.02e+01 1fp3A a.102.1.3 18842 2anxA 146 4.03e+01 1pufB 73 4.04e+01 a.4.1.1 95132 1ajsA 412 4.05e+01 1ajsA c.67.1.1 34276 1udc 338 4.11e+01 1xel c.2.1.2 29785 1yi8A 351 4.18e+01 2ezh 75 4.19e+01 2ezh a.4.1.2 16029 1wuiL 534 4.19e+01 1vd5A 377 4.28e+01 a.102.1.7 108518 1jbeA 128 4.35e+01 3chy c.23.1.1 62845 2g7sA 194 4.36e+01 1gvnB 287 4.40e+01 c.37.1.21 76354 1kqfC 217 4.41e+01 f.21.1.1 72874 1yozA 116 4.45e+01 1a76 326 4.46e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1v54C 261 4.49e+01 f.25.1.1 100324 1jhfA 202 4.54e+01 a.4.5.2,b.87.1.1 63057,63058 1u7eB 154 4.54e+01 1j77A 209 4.55e+01 1j77A a.132.1.2 62674 1e6yB 433 4.55e+01 1mroB a.89.1.1,d.58.31.2 18535,39453 1tqjA 230 4.62e+01 c.1.2.2 107228 1w9iA 770 4.74e+01 1u2pA 163 4.79e+01 1zkpA 268 4.80e+01 1eswA 500 4.80e+01 1cwyA c.1.8.1 59500 1x6mA 196 4.81e+01 1rqbA 539 4.82e+01 a.5.7.2,c.1.10.5 105057,105058 1tffA 234 4.85e+01 d.3.1.11 106854 1dugA 234 4.86e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 2f4mB 61 4.89e+01 2fbhA 146 4.94e+01 1xg5A 279 4.96e+01 1qopA 268 4.96e+01 2tysA c.1.2.4 28570 1qe3A 489 5.03e+01 2bce c.69.1.1 34630 1mslA 109 5.03e+01 1mslA f.16.1.1 43660 1r1hA 696 5.08e+01 d.92.1.4 104756 1cb8A 678 5.10e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1uddA 226 5.13e+01 a.132.1.3 107776 2akaB 299 5.19e+01 1a32 88 5.21e+01 1a32 a.16.1.2 16384 1q6zA 528 5.21e+01 2fflA 756 5.23e+01 2gvkA 317 5.25e+01 1ugpA 203 5.25e+01 d.149.1.1 107831 1i36A 264 5.26e+01 a.100.1.8,c.2.1.6 71108,71109 1zarA 282 5.26e+01 2sqcA 631 5.27e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1s35A 214 5.28e+01 a.7.1.1,a.7.1.1 98420,98421 1qv9A 283 5.29e+01 c.127.1.1 96356 2bh4X 134 5.30e+01 1e3oC 160 5.31e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 8abp 306 5.35e+01 8abp c.93.1.1 35647 1uehA 253 5.39e+01 c.101.1.1 99259 1ql3A 99 5.40e+01 1ycc a.3.1.1 15822 1wleA 501 5.42e+01 1h1nA 305 5.43e+01 c.1.8.3 70855 1i5pA 633 5.44e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1v93A 296 5.44e+01 c.1.23.1 100532 2d48A 129 5.45e+01 1r0vA 305 5.47e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1vpdA 299 5.47e+01 1vkuA 100 5.48e+01 a.28.1.1 108690 1h4vB 421 5.48e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1uslA 170 5.57e+01 c.121.1.1 99871 1jfzA 154 5.57e+01 a.149.1.1 66655 1xg0C 177 5.58e+01 1jetA 517 5.58e+01 1jevA c.94.1.1 35718 1jvr 137 5.59e+01 1jvr a.61.1.2 18132 1u7iA 136 5.61e+01 d.32.1.7 107724 2tpt 440 5.61e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1x0lA 333 5.62e+01 1jc4A 148 5.63e+01 1jc4A d.32.1.4 62863 2bh7A 261 5.63e+01 2bgxA 261 5.63e+01 1qxoA 388 5.78e+01 d.258.1.1 96539 1gnxA 479 5.78e+01 c.1.8.4 76241 1m98A 317 5.79e+01 a.175.1.1,d.17.4.6 78866,78867 1o2dA 371 5.83e+01 e.22.1.2 86591 1li5A 461 5.89e+01 a.27.1.1,c.26.1.1 73912,73913 1m6sA 347 5.90e+01 c.67.1.1 78701 1huw 166 5.90e+01 1huw a.26.1.1 16831 2g7jA 124 5.91e+01 1dcs 311 5.93e+01 1dcs b.82.2.1 28124 1vf8A 377 5.94e+01 1px5A 349 5.97e+01 a.160.1.2,d.218.1.6 95277,95278 1m6dA 214 5.99e+01 d.3.1.1 84849 1g63A 181 5.99e+01 1g5qA c.34.1.1 60299 1g73A 162 6.05e+01 1fewA a.7.4.1 16332 1sb0A 87 6.07e+01 a.12.1.1 98789 2bw3A 534 6.12e+01 1dmhA 311 6.13e+01 1dmhA b.3.6.1 22633 1s28A 132 6.15e+01 d.198.1.1 105223 1nlwA 80 6.15e+01 a.38.1.1 80633 2fi1A 190 6.17e+01 1d2nA 272 6.17e+01 1d2nA c.37.1.20 32428 1vgmA 378 6.18e+01 1ta3A 274 6.21e+01 c.1.8.5 106731 1m3uA 264 6.29e+01 c.1.12.8 84784 1sfxA 109 6.37e+01 a.4.5.50 105505 1mml 265 6.41e+01 1mml e.8.1.2 43015 1nkpA 88 6.48e+01 a.38.1.1 80573 1m3qA 317 6.57e+01 a.96.1.3,d.129.1.2 91184,91185 2etvA 346 6.63e+01 1e4iA 447 6.64e+01 1e70M c.1.8.4 59225 1utg 70 6.73e+01 1utg a.101.1.1 18813 1v02A 565 6.73e+01 c.1.8.4 108194 1uliA 460 6.78e+01 b.33.1.2,d.129.3.3 107921,107922 1r44A 202 6.86e+01 d.65.1.4 104787 1xwmA 217 6.87e+01 1avqA 228 6.88e+01 1avqA c.52.1.13 33326 1k8kA 418 6.97e+01 c.55.1.1,c.55.1.1 68305,68306 2d9bA 109 7.00e+01 1c93A 265 7.02e+01 2ebn c.1.8.5 28998 1wa8A 99 7.02e+01 1gtzA 156 7.04e+01 c.23.13.1 70539 2d8sA 80 7.06e+01 1mwvA 714 7.10e+01 a.93.1.3,a.93.1.3 85161,85162 1exbA 332 7.12e+01 1qrqA c.1.7.1 28666 2cjpA 328 7.13e+01 1llnA 262 7.16e+01 d.165.1.1 84625 1t77A 414 7.16e+01 1muwA 386 7.18e+01 c.1.15.3 79495 2d2mC 147 7.22e+01 2f94F 350 7.33e+01 1bea 127 7.36e+01 1bea a.52.1.2 17826 1zoqC 47 7.40e+01 1wjtA 103 7.41e+01 2g2dA 193 7.45e+01 1olmA 403 7.46e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1t2dA 322 7.49e+01 c.2.1.5,d.162.1.1 99084,99085 1tzyA 129 7.50e+01 a.22.1.1 107530 2cwcA 303 7.56e+01 1me4A 215 7.56e+01 d.3.1.1 79023 1mdbA 539 7.58e+01 e.23.1.1 79008 2bl2A 156 7.60e+01 1fiqC 763 7.63e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1xouA 192 7.65e+01 1kllA 130 7.66e+01 d.32.1.2 72720 1t2bA 397 7.93e+01 1ru3A 732 7.95e+01 e.26.1.3 97835 1w8iA 156 8.00e+01 1bn7A 294 8.05e+01 1bn6A c.69.1.8 34677 1w7jA 795 8.09e+01 1jmkC 230 8.10e+01 c.69.1.22 71747 1jf9A 408 8.10e+01 1c0nA c.67.1.3 62931 1x9mA 698 8.16e+01 1xffA 240 8.18e+01 d.153.1.1 109580 1k0wA 231 8.18e+01 c.74.1.1 77220 1wyuA 438 8.19e+01 1oboA 169 8.28e+01 c.23.5.1 86776 1r6fA 310 8.28e+01 e.46.1.1 97149 1wu7A 434 8.31e+01 2gb7A 305 8.34e+01 1z6fA 363 8.37e+01 1o5kA 306 8.43e+01 c.1.10.1 92504 1fobA 334 8.45e+01 c.1.8.3 83255 1bbhA 131 8.52e+01 1bbhA a.24.3.2 16546 2cujA 108 8.54e+01 1u9yA 284 8.54e+01 2fbaA 492 8.54e+01 2b0tA 738 8.56e+01 2lisA 136 8.63e+01 1lis a.19.1.1 16405 2al3A 90 8.64e+01 1g6uA 48 8.66e+01 1g6uA k.9.1.1 46425 1w3oA 216 8.68e+01 1uz3A 102 8.69e+01 2h21A 440 8.71e+01 1fseA 74 8.71e+01 1fseA a.4.6.2 60000 1owlA 484 8.72e+01 a.99.1.1,c.28.1.1 93647,93648 1a9xA 1058 8.73e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1p0zA 131 8.77e+01 d.110.6.1 93882 1giqA 413 8.79e+01 d.166.1.1,d.166.1.1 76224,76225 1ymtA 246 8.80e+01 2a6tA 271 8.82e+01 1vmeA 410 8.94e+01 c.23.5.1,d.157.1.3 108893,108894 1ln4A 104 8.95e+01 d.68.4.1 74043 2bj7A 138 8.99e+01