# List of top-scoring protein chains for t06-100-30-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 1vjxA 157 4.45e-06 a.25.1.1 100837 2fkzA 155 7.23e-04 1za0A 275 6.64e-03 1nfvA 179 1.46e-02 a.25.1.1 85642 1tjoA 182 4.84e-02 1r03A 182 9.21e-02 a.25.1.1 104675 1vlgA 176 1.91e-01 a.25.1.1 108816 2gyqA 175 2.14e-01 1jm0A 50 2.45e-01 k.8.1.1 66870 1jigA 146 3.37e-01 a.25.1.1 71685 2dchX 216 6.41e-01 1gntA 553 6.85e-01 e.26.1.1 70290 1b5l 172 1.02e+00 1b5l a.26.1.3 16900 1yuzA 202 1.10e+00 1o9rA 162 1.10e+00 a.25.1.1 86706 1bgc 174 1.13e+00 1bgc a.26.1.1 16822 1ru3A 732 1.36e+00 e.26.1.3 97835 2bl2A 156 1.41e+00 1v2dA 381 1.80e+00 c.67.1.1 108281 1q8iA 783 2.35e+00 c.55.3.5,e.8.1.1 96208,96209 1w7lA 422 2.62e+00 c.67.1.1 109226 1kqpA 271 2.90e+00 c.26.2.1 72883 2h3bA 494 2.90e+00 1eqfA 280 3.00e+00 1eqfA a.29.2.1,a.29.2.1 16972,16973 1b5pA 385 3.04e+00 c.67.1.1 90403 1tx2A 297 3.04e+00 c.1.21.1 107420 1dpsA 167 3.05e+00 1dpsA a.25.1.1 16716 2dg5A 366 3.39e+00 1o4sA 389 3.40e+00 c.67.1.1 86620 1pc6A 146 3.53e+00 d.262.1.1 94430 1oq9A 363 3.75e+00 a.25.1.2 87257 2trcP 217 4.26e+00 1b9yC c.47.1.6 33051 1o9iA 266 4.39e+00 a.25.1.3 92671 1ru0A 105 4.45e+00 1z6oM 191 4.64e+00 1ux8A 132 4.89e+00 2ethA 154 5.14e+00 1z77A 200 5.25e+00 1zpyA 95 5.36e+00 1gnlA 544 5.58e+00 e.26.1.1 70287 2cwlA 302 5.77e+00 1uozA 315 5.89e+00 1i0dA 332 6.05e+00 1pscA c.1.9.3 61487 1yiyA 429 6.06e+00 2etsA 128 6.09e+00 1rcwA 231 6.59e+00 a.132.1.4 97299 1yizA 429 6.62e+00 1h6gA 256 6.74e+00 1h6gA a.24.9.1,a.24.9.1 60669,60670 1wmwA 330 7.08e+00 1h4vB 421 7.70e+00 1adjA c.51.1.1,d.104.1.1 60624,60625 1zu0A 529 8.20e+00 1u6tA 121 9.02e+00 1qr0A 228 9.08e+00 1qr0A d.150.1.1,d.150.1.1 59038,59039 1no7A 604 9.16e+00 e.48.1.1 92016 1us7B 265 9.90e+00 a.205.1.1 99858 1yovA 537 1.04e+01 3sdhA 146 1.06e+01 3sdhA a.1.1.2 14984 2a14A 263 1.09e+01 1x6mA 196 1.11e+01 1vjoA 393 1.12e+01 c.67.1.3 100827 1qs1A 462 1.14e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 2c1vA 338 1.18e+01 2ff4A 388 1.20e+01 1r6xA 395 1.21e+01 b.122.1.3,c.26.1.5 97167,97168 1z0sA 278 1.23e+01 1orjA 130 1.25e+01 a.24.19.1 93456 1wmuA 141 1.26e+01 a.1.1.2 109416 1n1fA 159 1.29e+01 a.26.1.3 79803 1nekD 115 1.31e+01 f.21.2.2 80432 1om1A 332 1.32e+01 d.144.1.7 93347 1csh 435 1.34e+01 1csh a.103.1.1 18880 1musA 477 1.36e+01 c.55.3.4 79494 1u2eA 289 1.37e+01 1kkoA 413 1.44e+01 c.1.11.2,d.54.1.1 68675,68676 1eg5A 384 1.45e+01 1ecxA c.67.1.3 34429 2bidA 197 1.48e+01 2bidA f.1.4.1 43398 2f1kA 279 1.49e+01 1vrtA 560 1.49e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1hxhA 253 1.50e+01 c.2.1.2 76725 1y10A 407 1.51e+01 2hekA 371 1.52e+01 2au3A 407 1.52e+01 1mxgA 435 1.55e+01 b.71.1.1,c.1.8.1 85193,85194 2aqjA 538 1.56e+01 1fp3A 402 1.60e+01 1fp3A a.102.1.3 18842 1fpoA 171 1.60e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1ug6A 431 1.64e+01 c.1.8.4 88490 1avqA 228 1.64e+01 1avqA c.52.1.13 33326 1z6oA 212 1.67e+01 1w7jA 795 1.75e+01 1o5kA 306 1.76e+01 c.1.10.1 92504 1xqaA 113 1.77e+01 1suwA 249 1.78e+01 e.52.1.1 106027 1dosA 358 1.78e+01 1dosA c.1.10.2 29175 1c7gA 456 1.79e+01 c.67.1.2 90415 1sd4A 126 1.80e+01 a.4.5.39 105428 1wtaA 275 1.83e+01 1jetA 517 1.85e+01 1jevA c.94.1.1 35718 1xzoA 174 1.88e+01 1txuA 273 1.88e+01 a.222.1.1 107439 2c46A 241 1.89e+01 1j31A 262 1.90e+01 d.160.1.2 90808 1rss 151 1.90e+01 1rss a.75.1.1 18392 1otkA 249 1.94e+01 a.25.1.2 93521 1w2xA 758 1.94e+01 c.14.1.4,c.14.1.4 109134,109135 1dq3A 454 1.98e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1w9yA 319 2.02e+01 1h3lA 87 2.05e+01 a.177.1.1 76639 1oaoC 729 2.06e+01 e.26.1.3 86746 1b67A 68 2.06e+01 1a7w a.22.1.2 16474 1xm3A 264 2.10e+01 1z7lA 276 2.12e+01 1s2wA 295 2.13e+01 c.1.12.7 98407 1nogA 177 2.14e+01 a.25.2.2 85923 1i5pA 633 2.17e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1vls 146 2.18e+01 1vls a.24.2.1 16532 1eswA 500 2.24e+01 1cwyA c.1.8.1 59500 1i3dA 146 2.29e+01 a.1.1.2 61587 1huw 166 2.30e+01 1huw a.26.1.1 16831 1dcoA 104 2.32e+01 1dcpA d.74.1.1 39680 1h8eA 510 2.34e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1uyrA 737 2.35e+01 c.14.1.4,c.14.1.4 100188,100189 1e19A 314 2.40e+01 1b7bA c.73.1.1 34967 1zb1A 392 2.41e+01 1t2bA 397 2.42e+01 1rzhM 307 2.43e+01 f.26.1.1 98165 1jogA 146 2.47e+01 a.24.16.2 77142 1li5A 461 2.48e+01 a.27.1.1,c.26.1.1 73912,73913 1uzeA 589 2.53e+01 d.92.1.5 108174 1gdeA 389 2.54e+01 c.67.1.1 60456 1k0wA 231 2.57e+01 c.74.1.1 77220 1lla 628 2.58e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1sb0A 87 2.67e+01 a.12.1.1 98789 1x38A 602 2.70e+01 2f6mB 109 2.72e+01 1tf5A 844 2.74e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1vjpA 394 2.75e+01 c.2.1.3,d.81.1.3 100828,100829 1v0dA 329 2.77e+01 d.4.1.7 108204 2fymA 431 2.78e+01 1kktA 511 2.82e+01 a.102.2.1 68687 1es5A 262 2.84e+01 1skf e.3.1.1 42679 1rqbA 539 2.85e+01 a.5.7.2,c.1.10.5 105057,105058 2gfoA 396 2.87e+01 1s9pA 227 2.90e+01 a.123.1.1 105384 1vqrA 297 2.91e+01 1p9yA 121 2.92e+01 d.241.2.1 94402 1xk4A 93 2.99e+01 1r0vA 305 3.02e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1f1eA 154 3.05e+01 a.22.1.2 64927 1ofcX 304 3.07e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1jlvA 209 3.07e+01 a.45.1.1,c.47.1.5 71729,71730 1zybA 232 3.08e+01 1gnxA 479 3.10e+01 c.1.8.4 76241 1b7yB 785 3.11e+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 1b24A 188 3.14e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1jflA 228 3.15e+01 c.78.2.1,c.78.2.1 71656,71657 1hziA 129 3.21e+01 1rcb a.26.1.2 61449 1giqA 413 3.25e+01 d.166.1.1,d.166.1.1 76224,76225 2g7sA 194 3.26e+01 1t0fA 276 3.27e+01 1wu4A 396 3.31e+01 1dcs 311 3.33e+01 1dcs b.82.2.1 28124 1xwmA 217 3.36e+01 1xlyA 234 3.37e+01 1jhfA 202 3.38e+01 a.4.5.2,b.87.1.1 63057,63058 2bbhA 269 3.53e+01 1vcsA 102 3.54e+01 1jli 112 3.61e+01 1jli a.26.1.2 16884 1vpbA 451 3.61e+01 1o26A 232 3.62e+01 d.207.1.1 86566 1vgmA 378 3.69e+01 1eexA 554 3.70e+01 1dioA c.1.19.3 29650 1mtyB 384 3.70e+01 1mtyB a.25.1.2 16740 1izoA 417 3.79e+01 a.104.1.1 83851 2fi1A 190 3.81e+01 1epuA 591 3.84e+01 1dn1A e.25.1.1 43358 1sx7A 164 3.86e+01 1xjuA 163 3.89e+01 1lngA 87 3.98e+01 d.201.1.1 74045 1r6uA 437 3.98e+01 c.26.1.1 97163 1a8q 274 4.03e+01 1brt c.69.1.12 34702 1vd5A 377 4.03e+01 a.102.1.7 108518 1px5A 349 4.04e+01 a.160.1.2,d.218.1.6 95277,95278 1wyuA 438 4.04e+01 2d48A 129 4.05e+01 1regX 122 4.12e+01 1regX d.58.27.1 39406 1q35A 320 4.18e+01 c.94.1.1 95661 1r5iD 216 4.19e+01 a.202.1.1 97091 1t2dA 322 4.22e+01 c.2.1.5,d.162.1.1 99084,99085 1vhcA 224 4.23e+01 c.1.10.1 100661 1yhlA 362 4.26e+01 2f22A 144 4.33e+01 1n97A 389 4.45e+01 a.104.1.1 80335 2bg5A 324 4.48e+01 1h1nA 305 4.52e+01 c.1.8.3 70855 1qopA 268 4.64e+01 2tysA c.1.2.4 28570 2etvA 346 4.64e+01 1lb3A 182 4.64e+01 a.25.1.1 77873 1r7lA 110 4.69e+01 d.277.1.1 104837 1vkuA 100 4.70e+01 a.28.1.1 108690 1wa5B 530 4.71e+01 1rw6A 210 4.75e+01 a.47.4.1 105113 1v73A 342 4.83e+01 1pufB 73 4.88e+01 a.4.1.1 95132 2a1iA 146 4.88e+01 1qv9A 283 4.90e+01 c.127.1.1 96356 1bgvA 449 4.92e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1umnA 165 4.92e+01 a.25.1.1 99607 1kfcA 268 4.94e+01 c.1.2.4 77371 1t6sA 162 4.97e+01 1mslA 109 5.03e+01 1mslA f.16.1.1 43660 2d9bA 109 5.03e+01 2tct 207 5.05e+01 2tct a.4.1.9,a.121.1.1 16063,19240 2fv1A 377 5.08e+01 1a32 88 5.09e+01 1a32 a.16.1.2 16384 1uslA 170 5.10e+01 c.121.1.1 99871 2awiA 317 5.15e+01 1w9pA 433 5.15e+01 1iv8A 720 5.18e+01 b.71.1.1,c.1.8.1 76842,76843 1lucB 324 5.20e+01 1lucA c.1.16.1 29548 1j77A 209 5.23e+01 1j77A a.132.1.2 62674 1zd0A 150 5.23e+01 2ck3A 510 5.25e+01 1tqjA 230 5.25e+01 c.1.2.2 107228 1n2sA 299 5.33e+01 c.2.1.2 79857 2f4qA 346 5.34e+01 1nlwA 80 5.35e+01 a.38.1.1 80633 1jc4A 148 5.36e+01 1jc4A d.32.1.4 62863 2bh7A 261 5.37e+01 1e3oC 160 5.44e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1sgmA 191 5.45e+01 a.4.1.9,a.121.1.1 105537,105538 2bgxA 261 5.45e+01 2g7jA 124 5.47e+01 1pw4A 451 5.47e+01 f.38.1.1 95198 1wh5A 80 5.49e+01 1jsdB 176 5.57e+01 h.3.1.1 63259 1m3uA 264 5.60e+01 c.1.12.8 84784 1wleA 501 5.69e+01 1m7vA 363 5.81e+01 d.174.1.1 78748 1pzlA 237 5.91e+01 a.123.1.1 104393 1u7iA 136 5.95e+01 d.32.1.7 107724 1eumA 165 5.96e+01 1eumA a.25.1.1 59507 1hf2A 210 6.02e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1otvA 259 6.02e+01 a.132.1.4 93526 2tpt 440 6.08e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1ars 396 6.08e+01 1ajsA c.67.1.1 34287 2fh5A 185 6.15e+01 2aplA 157 6.16e+01 1fcyA 236 6.18e+01 2lbd a.123.1.1 19282 1yhtA 367 6.20e+01 1urfA 81 6.31e+01 a.2.6.1 99827 1vq3A 94 6.38e+01 1r29A 127 6.41e+01 d.42.1.1 96856 1u9yA 284 6.42e+01 1jltB 122 6.44e+01 a.133.1.2 66868 1ufyA 122 6.48e+01 d.79.1.2 88489 2cohA 202 6.53e+01 1tzvA 142 6.61e+01 a.79.1.1 107526 1ee4A 423 6.61e+01 1ee4A a.118.1.1 19128 1e5rA 290 6.62e+01 1e5rA b.82.2.4 59276 1dkmA 410 6.67e+01 1dklA c.60.1.2 34000 1v02A 565 6.70e+01 c.1.8.4 108194 1tkkA 366 6.71e+01 c.1.11.2,d.54.1.1 107089,107090 2aexA 346 6.76e+01 1lfpA 249 6.79e+01 e.39.1.1 73885 1a5t 334 6.82e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1cxc 124 6.83e+01 1ycc a.3.1.1 15890 1wzdA 215 6.85e+01 1zs3A 182 6.88e+01 2dbnA 461 6.89e+01 1lc5A 364 6.89e+01 c.67.1.1 73827 1nkd 65 6.95e+01 1nkd a.30.1.1 16974 1zrn 232 6.97e+01 1qq5A c.108.1.1 43323 1jk0B 345 7.00e+01 a.25.1.2 63143 1ghpA 258 7.02e+01 1btl e.3.1.1 60520 1s35A 214 7.08e+01 a.7.1.1,a.7.1.1 98420,98421 1su8A 636 7.08e+01 e.26.1.2 98999 1e6yB 433 7.10e+01 1mroB a.89.1.1,d.58.31.2 18535,39453 1t6uA 117 7.10e+01 a.24.22.1 106584 1lvwA 295 7.24e+01 c.68.1.6 84723 1nqkA 381 7.28e+01 c.1.16.4 92050 1vhuA 211 7.35e+01 c.50.1.2 100703 2d2mC 147 7.37e+01 1zwwA 256 7.38e+01 1a8s 273 7.38e+01 1brt c.69.1.12 34710 1nh1A 330 7.39e+01 e.45.1.1 91871 1wt6A 81 7.46e+01 2c7xA 436 7.55e+01 1jtvA 327 7.57e+01 c.2.1.2 84230 1wy1A 172 7.72e+01 1v58A 241 7.78e+01 c.47.1.9,d.17.3.1 108371,108372 1qksA 567 7.80e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1a7w 69 7.82e+01 1a7w a.22.1.2 16477 1j8bA 112 7.90e+01 d.222.1.1 77101 1x3mA 415 7.93e+01 2bj7A 138 8.02e+01 2pth 193 8.20e+01 2pth c.56.3.1 33793 1r71A 178 8.21e+01 a.4.14.1 104823 1rylA 167 8.22e+01 d.276.1.1 105124 1tzyA 129 8.30e+01 a.22.1.1 107530 1wz3A 96 8.31e+01 2c2nA 339 8.35e+01 2g2dA 193 8.39e+01 1mdbA 539 8.41e+01 e.23.1.1 79008 1r4pA 297 8.41e+01 d.165.1.2 97025 1v7nV 163 8.42e+01 a.26.1.2 100476 1umdB 324 8.42e+01 c.36.1.7,c.48.1.2 99600,99601 2cqsA 842 8.50e+01 2akaB 299 8.56e+01 1hruA 188 8.57e+01 1hruA d.115.1.1 40926 1ywfA 296 8.62e+01 1qb7A 236 8.62e+01 1qb7A c.61.1.1 34087 1vapA 123 8.63e+01 1poa a.133.1.2 19548 2dpiA 420 8.75e+01 1szqA 483 8.75e+01 e.44.1.1 99045 1zejA 293 8.77e+01 1k3rA 268 8.78e+01 b.40.4.10,c.116.1.2 72018,72019 1ojqA 212 8.87e+01 d.166.1.1 93146 1uehA 253 8.93e+01 c.101.1.1 99259 1n46A 258 9.00e+01 a.123.1.1 85315