# 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 1dtdA 303 5.77e-30 1aye c.56.5.1 33823 1m4lA 307 9.61e-28 c.56.5.1 78604 1h4pA 408 1.13e-02 c.1.8.3 90617 1gox 370 3.26e-02 1gox c.1.4.1 28607 1bn7A 294 3.43e-02 1bn6A c.69.1.8 34677 1m22A 503 5.39e-02 c.117.1.1 78464 1pe1A 267 7.53e-02 c.1.10.4 94591 1h1nA 305 8.20e-02 c.1.8.3 70855 1gq6A 313 8.58e-02 c.42.1.1 70341 1fjgE 162 8.99e-02 1pkp d.14.1.1,d.50.1.2 37553,38789 1jwqA 179 1.50e-01 c.56.5.6 90921 1gqiA 708 1.55e-01 c.1.8.10,d.92.2.2 76279,76280 1g0cA 364 1.61e-01 7a3hA c.1.8.3 60165 1ejdA 419 1.83e-01 1uae d.68.2.2 39576 1t5bA 201 2.50e-01 c.23.5.3 106433 1j1iA 296 2.53e-01 c.69.1.10 83977 1eceA 358 2.70e-01 1eceA c.1.8.3 28813 1b8oA 284 2.97e-01 1b8oA c.56.2.1 33762 1bdmA 327 3.01e-01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1y0yA 353 3.40e-01 1qq9A 284 3.55e-01 1xjo c.56.5.4 33841 1sbyA 254 4.04e-01 1rtqA 299 5.31e-01 c.56.5.4 97819 1of8A 370 5.53e-01 c.1.10.4 92819 1x9iA 302 5.69e-01 1ceo 343 6.28e-01 1ceo c.1.8.3 28808 1yge 839 6.77e-01 1yge a.119.1.1,b.12.1.1 19234,23634 1h7eA 245 7.37e-01 c.68.1.13 60717 1b65A 375 7.45e-01 1b65A d.154.1.1 42020 1xm3A 264 7.95e-01 1ijbA 202 8.04e-01 c.62.1.1 71229 1e0cA 271 8.38e-01 1e0cA c.46.1.2,c.46.1.2 32717,32718 1r5lA 262 8.58e-01 a.5.3.1,c.13.1.1 97099,97100 1brt 277 1.02e+00 1brt c.69.1.12 34699 1j0hA 588 1.12e+00 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1wnaA 131 1.14e+00 1odzA 386 1.14e+00 c.1.8.3 86889 1bqcA 302 1.16e+00 1bqcA c.1.8.3 28831 1dozA 309 1.16e+00 1ak1 c.92.1.1 35592 1t6cA 315 1.17e+00 c.55.1.8,c.55.1.8 106558,106559 1q0rA 298 1.20e+00 c.69.1.28 95508 1fecA 490 1.21e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1e6wA 260 1.46e+00 1e6wA c.2.1.2 59326 1ccwB 483 1.48e+00 1cb7B c.1.19.2 29646 1edg 380 1.64e+00 1edg c.1.8.3 28807 1hynP 379 1.64e+00 1hynP d.112.1.2 61408 1hkhA 279 1.69e+00 c.69.1.12 90628 1rvkA 382 1.86e+00 c.1.11.2,d.54.1.1 97928,97929 1jakA 512 1.97e+00 c.1.8.6,d.92.2.1 66472,66473 1izmA 184 2.40e+00 a.199.1.1 90725 1e4mM 501 2.41e+00 1e70M c.1.8.4 59226 1hyvA 166 2.42e+00 1b9dA c.55.3.2 61424 1gqnA 252 2.44e+00 c.1.10.1 90514 1w96A 554 2.53e+00 1r0mA 375 2.56e+00 c.1.11.2,d.54.1.1 104747,104748 1dcs 311 2.58e+00 1dcs b.82.2.1 28124 1auk 489 2.69e+00 1auk c.76.1.2 35030 1e5rA 290 2.81e+00 1e5rA b.82.2.4 59276 1je0A 236 2.82e+00 c.56.2.1 66581 1r6dA 337 2.95e+00 c.2.1.2 97148 1hyeA 313 3.00e+00 2cmd c.2.1.5,d.162.1.1 61400,61401 1lfwA 470 3.00e+00 c.56.5.4,d.58.19.1 77942,77943 1jjtA 228 3.12e+00 1a7tA d.157.1.1 63139 1jubA 311 3.12e+00 c.1.4.1 90908 1iirA 415 3.31e+00 1iirA c.87.1.5 62453 1n62B 809 3.41e+00 d.41.1.1,d.133.1.1 80092,80093 1e5mA 416 3.58e+00 1dd8A c.95.1.1,c.95.1.1 58973,58974 1ivnA 190 3.61e+00 c.23.10.5 83719 1iyhA 198 3.66e+00 a.45.1.1,c.47.1.5 83790,83791 1fobA 334 3.67e+00 c.1.8.3 83255 1gqeA 365 3.87e+00 e.38.1.1 70351 1yn9A 169 3.89e+00 1a8s 273 3.96e+00 1brt c.69.1.12 34710 1h16A 759 4.19e+00 c.7.1.1 76462 1d8wA 426 4.22e+00 1de5A c.1.15.2 29394 1jbkA 195 4.34e+00 c.37.1.20 71631 1hw6A 278 4.35e+00 1frb c.1.7.1 61296 1dpe 507 4.36e+00 1dpe c.94.1.1 35799 1qddA 144 4.49e+00 1qddA d.169.1.1 42324 1hdcA 253 4.52e+00 1e6wA c.2.1.2 29862 1itxA 419 4.70e+00 c.1.8.5,d.26.3.1 71425,71426 1qlwA 328 4.72e+00 1qlwA c.69.1.15 34722 1uuqA 440 5.18e+00 c.1.8.3 100015 1nlnA 204 5.40e+00 d.3.1.7 91962 1g94A 448 5.44e+00 b.71.1.1,c.1.8.1 65169,65170 1a6q 382 5.45e+00 1a6q a.159.1.1,d.219.1.1 75801,75802 1qo7A 394 5.59e+00 1qo7A c.69.1.11 34697 1h2wA 710 5.68e+00 b.69.7.1,c.69.1.4 76596,76597 1fmcA 255 5.91e+00 1cydA c.2.1.2 29856 1vknA 351 5.94e+00 c.2.1.3,d.81.1.1 108676,108677 1hdiA 413 6.04e+00 16pk c.86.1.1 60964 1vhwA 253 6.14e+00 c.56.2.1 100706 1fx2A 235 6.18e+00 1fx2A d.58.29.1 39430 1x8gA 227 6.21e+00 1hd7A 318 6.40e+00 1bix d.151.1.1 41780 1jw9B 249 6.48e+00 c.111.1.1 67377 1vmeA 410 6.88e+00 c.23.5.1,d.157.1.3 108893,108894 1cg2A 393 6.91e+00 1cg2A c.56.5.4,d.58.19.1 33844,39360 1rwzA 245 6.93e+00 d.131.1.2,d.131.1.2 98005,98006 1mj5A 302 7.00e+00 c.69.1.8 91285 1fxlA 167 7.03e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 1vljA 407 7.11e+00 e.22.1.2 108832 1edqA 540 7.12e+00 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1gjwA 637 7.29e+00 b.71.1.1,c.1.8.1 60582,60583 1j2rA 199 7.32e+00 c.33.1.3 90788 1g57A 217 7.33e+00 1g57A d.115.1.2 60253 16pk 415 7.36e+00 16pk c.86.1.1 35454 1b63A 333 7.36e+00 1b63A d.14.1.3,d.122.1.2 37566,41107 1cjaA 342 7.50e+00 1cjaA d.144.1.3 41708 1vggA 161 7.59e+00 1qhoA 686 7.78e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1j1nA 492 8.17e+00 c.94.1.1 83978 1orvA 728 8.22e+00 b.70.3.1,c.69.1.24 87354,87355 1qnrA 344 8.41e+00 1qnoA c.1.8.3 28834 1dp4A 435 8.53e+00 1dp4A c.93.1.1 35710 1nc5A 373 9.03e+00 a.102.1.6 85548 1ad2 228 9.04e+00 1ad2 e.24.1.1 43353 1es9A 232 9.09e+00 1wab c.23.10.3 31340 1bif 469 9.10e+00 1bif c.37.1.7,c.60.1.4 31961,34003 1gvfA 286 9.33e+00 c.1.10.2 70599 1ea5A 537 9.36e+00 2bce c.69.1.1 34592 1p1jA 533 9.71e+00 c.2.1.3,d.81.1.3 87687,87688 1hc7A 477 9.72e+00 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1htwA 158 9.72e+00 c.37.1.18 71083 1dqaA 467 9.77e+00 1dqaA d.58.20.1,d.179.1.1 39364,42585 1f74A 293 9.78e+00 1nal3 c.1.10.1 29079 1vp8A 201 1.00e+01 1g2oA 268 1.01e+01 1b8oA c.56.2.1 60228 2bhuA 602 1.01e+01 1s3eA 520 1.04e+01 c.3.1.2,d.16.1.5 98426,98427 1xx1A 285 1.05e+01 1chd 203 1.05e+01 1chd c.40.1.1 32478 1ls1A 295 1.07e+01 a.24.13.1,c.37.1.10 78170,78171 1hjsA 332 1.08e+01 c.1.8.3 83492 1nqzA 194 1.08e+01 d.113.1.1 86077 1ec7A 446 1.09e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1i7dA 659 1.11e+01 1d6mA e.10.1.1 61886 1wvgA 359 1.13e+01 1c93A 265 1.13e+01 2ebn c.1.8.5 28998 1yxyA 234 1.13e+01 1qv9A 283 1.14e+01 c.127.1.1 96356 1kolA 398 1.14e+01 b.35.1.2,c.2.1.1 77474,77475 2bjiA 277 1.15e+01 1a76 326 1.16e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1j5xA 342 1.20e+01 c.80.1.1 71591 1rqpA 299 1.20e+01 b.141.1.1,c.132.1.1 97754,97755 1k07A 263 1.23e+01 d.157.1.1 77218 1f6yA 262 1.24e+01 1f6yA c.1.21.2 29673 1h65A 270 1.24e+01 c.37.1.8 65640 1h54A 754 1.26e+01 a.102.1.4,b.30.5.3 60634,60635 1nwwA 149 1.27e+01 d.17.4.8 86306 1dosA 358 1.29e+01 1dosA c.1.10.2 29175 1ex2A 189 1.30e+01 1ex2A c.51.4.2 33225 1zoiA 276 1.31e+01 1a4iA 301 1.31e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1geqA 248 1.31e+01 2tysA c.1.2.4 28589 1v77A 212 1.32e+01 c.6.3.2 108402 1io2A 213 1.32e+01 1ekeA c.55.3.1 62612 1uk8A 282 1.35e+01 c.69.1.10 107907 1mqoA 227 1.35e+01 d.157.1.1 103846 1jtvA 327 1.36e+01 c.2.1.2 84230 1g8mA 593 1.36e+01 1g8mA c.24.1.3,c.97.2.1 60371,60372 1xqoA 256 1.39e+01 1c7gA 456 1.40e+01 c.67.1.2 90415 1e5dA 402 1.40e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1gz2A 142 1.43e+01 d.169.1.1 83392 1alu 186 1.44e+01 1alu a.26.1.1 16826 1imjA 210 1.45e+01 c.69.1.23 71246 1a2zA 220 1.45e+01 1a2zA c.56.4.1 33794 1kkoA 413 1.46e+01 c.1.11.2,d.54.1.1 68675,68676 1im5A 180 1.49e+01 c.33.1.3 66211 1fcdA 401 1.50e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1km4A 247 1.50e+01 c.1.2.3 72740 1ituA 369 1.55e+01 c.1.9.7 71423 1cb0A 283 1.57e+01 1cb0A c.56.2.1 33790 1h3gA 601 1.58e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1ug6A 431 1.58e+01 c.1.8.4 88490 1jmsA 381 1.65e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1jihA 531 1.65e+01 d.240.1.1,e.8.1.7 90374,90375 1lucA 355 1.66e+01 1lucA c.1.16.1 29547 2dpmA 284 1.67e+01 2dpmA c.66.1.28 34246 1ujpA 271 1.67e+01 c.1.2.4 99462 1ad1A 266 1.67e+01 1aj2 c.1.21.1 29668 1ajsA 412 1.70e+01 1ajsA c.67.1.1 34276 1lam 484 1.76e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1eexA 554 1.76e+01 1dioA c.1.19.3 29650 1gl4A 285 1.77e+01 d.22.1.2,g.3.11.5 65286,65287 1gen 218 1.78e+01 1gen b.66.1.1 27536 1ia8A 289 1.79e+01 1ia8A d.144.1.7 62112 1n93X 375 1.80e+01 a.206.1.1 91707 1gu7A 364 1.80e+01 b.35.1.2,c.2.1.1 83321,83322 1f46A 140 1.81e+01 1f46A d.129.4.1 59643 1qgvA 142 1.84e+01 1qgvA c.47.1.8 33056 1r89A 437 1.85e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1iuqA 367 1.88e+01 c.112.1.1 90703 1r29A 127 1.89e+01 d.42.1.1 96856 1qqfA 277 1.89e+01 1c3d a.102.4.4 18875 1cfr 285 1.90e+01 1cfr c.52.1.7 33312 1e4iA 447 1.90e+01 1e70M c.1.8.4 59225 1y4wA 518 1.92e+01 1t4hA 290 2.02e+01 d.144.1.7 106420 1eu3A 210 2.02e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1e7wA 291 2.07e+01 c.2.1.2 59373 1h2bA 359 2.10e+01 b.35.1.2,c.2.1.1 90543,90544 1ji1A 637 2.12e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1hl2A 297 2.16e+01 c.1.10.1 83581 1qsaA 618 2.18e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1b35B 255 2.19e+01 1b35B b.121.4.1 23334 1c7qA 445 2.19e+01 2pgi c.80.1.2 35307 1xfkA 336 2.20e+01 1hyhA 309 2.21e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1pa1A 310 2.22e+01 c.45.1.2 94404 1v0wA 506 2.25e+01 d.136.1.2,d.136.1.2 108220,108221 1cpo 299 2.28e+01 1cpo a.39.3.1,a.39.3.1 17390,17391 1n97A 389 2.30e+01 a.104.1.1 80335 1ehyA 294 2.30e+01 1ehyA c.69.1.11 34693 1hrkA 359 2.31e+01 1hrkA c.92.1.1 61228 1k0fA 277 2.32e+01 c.92.2.2 71974 1a53 247 2.33e+01 1a53 c.1.2.4 28564 1d5tA 433 2.33e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1gwyA 175 2.33e+01 b.97.1.1 83356 1r5yA 386 2.36e+01 c.1.20.1 97134 1el5A 389 2.36e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1c3pA 375 2.37e+01 1c3pA c.42.1.2 32606 1nrzA 164 2.39e+01 c.38.1.1 86131 1xd3A 230 2.40e+01 1fwxA 595 2.44e+01 b.6.1.4,b.69.3.1 60069,60070 1oi0A 124 2.45e+01 c.97.3.1 93045 1fgkA 310 2.47e+01 1fgkA d.144.1.7 41693 1afwA 393 2.51e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 1o7jA 327 2.54e+01 c.88.1.1 81140 1ej6B 1275 2.58e+01 i.7.1.1 45968 1k7cA 233 2.60e+01 c.23.10.4 68267 1euhA 475 2.61e+01 1euhA c.82.1.1 35369 1xkzA 255 2.61e+01 1vhvA 268 2.61e+01 c.90.1.1 100704 1inlA 296 2.69e+01 c.66.1.17 66220 1su8A 636 2.69e+01 e.26.1.2 98999 1y0kA 209 2.72e+01 1b0uA 262 2.75e+01 1b0uA c.37.1.12 32370 1f0kA 364 2.81e+01 1f0kA c.87.1.2 35465 1ayl 541 2.86e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1cxqA 162 2.86e+01 1cxqA c.55.3.2 33621 1dxeA 256 2.88e+01 1dxeA c.1.12.5 29310 1ccr 112 2.92e+01 1ycc a.3.1.1 15877 1m7yA 435 2.98e+01 c.67.1.4 78761 1oewA 329 3.00e+01 b.50.1.2 86924 1eyeA 280 3.02e+01 1aj2 c.1.21.1 29672 1gnxA 479 3.04e+01 c.1.8.4 76241 1oneA 436 3.05e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1iy8A 267 3.08e+01 c.2.1.2 83774 1vd5A 377 3.12e+01 a.102.1.7 108518 1wb4A 297 3.14e+01 1auoA 218 3.15e+01 1auoA c.69.1.14 34716 1hl9A 449 3.24e+01 b.71.1.3,c.1.8.11 90650,90651 1tqhA 247 3.24e+01 c.69.1.29 107225 1mtzA 293 3.25e+01 c.69.1.7 79467 1jq5A 370 3.27e+01 e.22.1.2 67084 1exqA 154 3.35e+01 1b9dA c.55.3.2 33646 1et9A 204 3.39e+01 1an8 b.40.2.2,d.15.6.1 25204,37793 1h1yA 228 3.39e+01 c.1.2.2 76506 1f0xA 571 3.40e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1m65A 245 3.40e+01 c.6.3.1 84847 1hbnB 442 3.42e+01 1mroB a.89.1.1,d.58.31.2 60900,60901 1j3bA 529 3.43e+01 c.91.1.1,c.109.1.1 77071,77072 1cliA 345 3.45e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1t9hA 307 3.48e+01 1f8rA 498 3.52e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 1w4xA 542 3.52e+01 c.3.1.5,c.3.1.5 109171,109172 1f3vA 179 3.60e+01 1f3vA d.58.22.1 39382 1qazA 351 3.62e+01 1qazA a.102.3.1 18848 2pth 193 3.65e+01 2pth c.56.3.1 33793 1gy8A 397 3.67e+01 c.2.1.2 83376 1hruA 188 3.70e+01 1hruA d.115.1.1 40926 1uf5A 303 3.72e+01 d.160.1.2 107808 1brwA 433 3.72e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1h7sA 365 3.79e+01 d.14.1.3,d.122.1.2 65705,65706 1aj2 282 3.82e+01 1aj2 c.1.21.1 29665 1o97C 264 3.87e+01 c.26.2.3 81232 1dzlA 505 3.88e+01 1dzlA b.121.6.1 23586 1jyeA 349 3.91e+01 c.93.1.1 67455 1jae 471 3.95e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1o9gA 250 3.95e+01 c.66.1.29 86692 2mhr 118 3.97e+01 2mhr a.24.4.1 16581 1in0A 163 4.00e+01 d.58.49.1,d.58.49.1 83694,83695 1jhdA 396 4.02e+01 b.122.1.3,c.26.1.5 66712,66713 1o66A 275 4.02e+01 c.1.12.8 92547 1gegA 256 4.10e+01 1ybvA c.2.1.2 29888 1uasA 362 4.12e+01 b.71.1.1,c.1.8.1 88388,88389 1dqwA 267 4.14e+01 1dqwA c.1.2.3 28551 1k2eA 156 4.15e+01 d.113.1.1 72010 1qd1A 325 4.19e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1mixA 206 4.19e+01 a.11.2.1,b.55.1.5 79166,79167 1d3vA 323 4.21e+01 1d3vA c.42.1.1 32559 1ak0 270 4.24e+01 1ak0 a.124.1.2 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