# 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 1v6tA 255 2.58e-03 1w5qA 337 1.65e-02 1mi3A 322 1.69e-02 c.1.7.1 91274 2b0jA 358 2.08e-02 2c71A 216 2.74e-02 1j8fA 323 3.73e-02 1j8fA c.31.1.5 62738 1yc5A 246 5.30e-02 1zxxA 319 5.60e-02 1zowA 313 1.10e-01 1ny1A 240 1.27e-01 c.6.2.3 86395 1u5tA 233 1.54e-01 a.4.5.54,a.4.5.54 107684,107685 1qwkA 317 1.60e-01 c.1.7.1 96482 1vixA 420 1.61e-01 c.56.5.4,d.58.19.1 100777,100778 1x7oA 287 1.68e-01 1eluA 390 1.80e-01 1elqA c.67.1.3 34434 1ls1A 295 2.16e-01 a.24.13.1,c.37.1.10 78170,78171 1wstA 417 2.29e-01 2c2xA 281 2.41e-01 1xvaA 292 2.46e-01 1xvaA c.66.1.5 34183 1sjdA 368 2.60e-01 c.1.11.2,d.54.1.1 105632,105633 1x9iA 302 2.60e-01 1q1aA 289 2.66e-01 c.31.1.5 95561 1nqkA 381 3.56e-01 c.1.16.4 92050 1imjA 210 3.80e-01 c.69.1.23 71246 1ituA 369 3.82e-01 c.1.9.7 71423 1us0A 316 4.65e-01 c.1.7.1 99850 1xm8A 254 5.24e-01 1jmvA 141 7.11e-01 c.26.2.4 66897 1s1pA 331 7.38e-01 c.1.7.1 98350 1yzfA 195 7.41e-01 1bykA 255 8.08e-01 1bykA c.93.1.1 35706 1jqnA 883 8.15e-01 c.1.12.3 77159 2gjlA 328 8.42e-01 1xmxA 385 8.56e-01 1gcyA 527 8.65e-01 1jdc b.71.1.1,c.1.8.1 27788,28775 1wd5A 208 9.06e-01 1pvvA 315 9.32e-01 c.78.1.1,c.78.1.1 95190,95191 1j8mF 297 9.87e-01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1h3gA 601 1.01e+00 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1ffyA 917 1.08e+00 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1o60A 292 1.13e+00 c.1.10.4 92532 2cbuA 468 1.14e+00 1cqxA 403 1.15e+00 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 2fp4B 395 1.17e+00 1e19A 314 1.25e+00 1b7bA c.73.1.1 34967 1j96A 323 1.31e+00 c.1.7.1 71616 1gvfA 286 1.32e+00 c.1.10.2 70599 1pe1A 267 1.40e+00 c.1.10.4 94591 2anuA 255 1.42e+00 1frb 315 1.44e+00 1frb c.1.7.1 28665 1uc2A 481 1.45e+00 d.261.1.1 99161 1ktbA 405 1.54e+00 b.71.1.1,c.1.8.1 72960,72961 1ec7A 446 1.57e+00 1bqg c.1.11.2,d.54.1.1 29218,38862 1zhaA 267 1.58e+00 1i7dA 659 1.59e+00 1d6mA e.10.1.1 61886 1zzmA 259 1.62e+00 1jdc 429 1.62e+00 1jdc b.71.1.1,c.1.8.1 27789,28776 1vpqA 273 1.63e+00 1y0yA 353 1.67e+00 2cc0A 195 1.75e+00 2bjbA 462 1.89e+00 2c1iA 431 1.89e+00 2b99A 156 2.05e+00 1w8sA 263 2.09e+00 1fmtA 314 2.12e+00 1fmtA b.46.1.1,c.65.1.1 25758,34174 1rxdA 159 2.18e+00 1rr7A 129 2.20e+00 a.4.1.14 105075 1wraA 308 2.21e+00 1qw9A 502 2.28e+00 b.71.1.2,c.1.8.3 96466,96467 1zgdA 312 2.30e+00 1e4iA 447 2.34e+00 1e70M c.1.8.4 59225 2bmaA 470 2.36e+00 1xw8A 252 2.37e+00 1kqqA 139 2.38e+00 a.4.3.1 72885 1km4A 247 2.47e+00 c.1.2.3 72740 2f1kA 279 2.54e+00 1ujcA 161 2.54e+00 1y97A 238 2.67e+00 1yxyA 234 2.97e+00 3grs 478 2.98e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 2f8lA 344 3.17e+00 1o98A 511 3.19e+00 c.105.1.1,c.76.1.3 86684,86685 1ltqA 301 3.19e+00 c.108.1.9,c.37.1.1 78208,78209 1wcgA 464 3.19e+00 2dkaA 544 3.24e+00 2oatA 439 3.24e+00 2dkb c.67.1.4 34452 1z41A 338 3.39e+00 1pyfA 312 3.40e+00 c.1.7.1 95334 1nv8A 284 3.55e+00 c.66.1.30 86224 1oltA 457 3.56e+00 c.1.28.2 93334 2ah5A 210 3.70e+00 1eceA 358 3.71e+00 1eceA c.1.8.3 28813 1w96A 554 3.76e+00 1x1zA 252 3.92e+00 1ycdA 243 3.95e+00 1sffA 426 3.98e+00 c.67.1.4 105482 1s2oA 244 4.02e+00 1p0kA 349 4.04e+00 c.1.4.1 87648 2bj7A 138 4.14e+00 1eyeA 280 4.15e+00 1aj2 c.1.21.1 29672 1o08A 221 4.19e+00 c.108.1.6 86525 1u2zA 433 4.33e+00 c.66.1.31 107626 1vp4A 425 4.35e+00 1yx1A 264 4.43e+00 1rlmA 271 4.53e+00 1d2fA 390 4.57e+00 1d2fA c.67.1.3 34411 2czdA 208 4.59e+00 1vheA 373 4.64e+00 b.49.3.1,c.56.5.4 100669,100670 1xrtA 467 4.65e+00 1j1iA 296 4.67e+00 c.69.1.10 83977 1epuA 591 4.76e+00 1dn1A e.25.1.1 43358 1uasA 362 4.82e+00 b.71.1.1,c.1.8.1 88388,88389 1tzjA 338 4.97e+00 2citA 282 5.12e+00 1iuqA 367 5.16e+00 c.112.1.1 90703 1hw6A 278 5.17e+00 1frb c.1.7.1 61296 2aioA 269 5.29e+00 1wnyA 186 5.30e+00 1n7kA 234 5.31e+00 c.1.10.1 85374 1b5pA 385 5.39e+00 c.67.1.1 90403 2b61A 377 5.41e+00 1udzA 182 5.43e+00 b.51.1.1 99239 4eugA 229 5.46e+00 3eugA c.18.1.1 31019 1rloA 271 5.48e+00 1lw7A 365 5.60e+00 c.26.1.3,c.37.1.1 74295,74296 1vcoA 550 5.71e+00 c.23.16.1,c.37.1.10 108508,108509 1r9dA 787 5.84e+00 c.7.1.1 104865 1gca 309 5.90e+00 1gca c.93.1.1 35659 1u7pA 164 5.91e+00 1f7uA 607 6.06e+00 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1tzpA 255 6.07e+00 d.65.1.3 107520 1jae 471 6.08e+00 1smd b.71.1.1,c.1.8.1 27773,28760 1epxA 370 6.12e+00 1fbaA c.1.10.1 29150 1mgtA 174 6.13e+00 1mgtA a.4.2.1,c.55.7.1 16078,33753 1a53 247 6.13e+00 1a53 c.1.2.4 28564 1vmeA 410 6.16e+00 c.23.5.1,d.157.1.3 108893,108894 1wr2A 238 6.27e+00 2cybA 323 6.28e+00 2bogX 286 6.28e+00 2b4yA 271 6.38e+00 1ypfA 336 6.42e+00 1iibA 106 6.45e+00 1iibA c.44.2.1 32648 7taa 478 6.52e+00 7taa b.71.1.1,c.1.8.1 27778,28765 1g24A 211 6.57e+00 1g24A d.166.1.1 42270 1hx0A 496 6.73e+00 b.71.1.1,c.1.8.1 61346,61347 1vp8A 201 6.74e+00 1gai 472 6.79e+00 1ayx a.102.1.1 18819 1gteA 1025 6.88e+00 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 1th0A 226 6.95e+00 d.3.1.7 106903 1o20A 427 6.99e+00 c.82.1.1 86556 1l8aA 886 7.02e+00 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 3kvt 115 7.04e+00 1t1dA d.42.1.2 38642 1nffA 260 7.21e+00 c.2.1.2 80457 1m7yA 435 7.24e+00 c.67.1.4 78761 1smd 496 7.41e+00 1smd b.71.1.1,c.1.8.1 27768,28755 2d13A 227 7.43e+00 1oheA 348 7.45e+00 c.45.1.1,c.45.1.1 87013,87014 1yq2A 1024 7.59e+00 1zchA 255 7.81e+00 1tueA 212 7.88e+00 c.37.1.20 107323 1a4iA 301 8.03e+00 1a4iA c.2.1.7,c.58.1.2 30278,33926 1guqA 348 8.24e+00 1guqA d.13.1.2,d.13.1.2 37522,37523 2go7A 207 8.25e+00 1cb0A 283 8.46e+00 1cb0A c.56.2.1 33790 1hbnA 549 8.48e+00 1mroA a.89.1.1,d.58.31.2 60898,60899 1w85A 368 8.52e+00 1qhoA 686 8.54e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1rkqA 282 8.68e+00 c.108.1.10 97621 1v37A 177 8.74e+00 1h21A 247 8.81e+00 a.138.1.3 76510 1m2kA 249 8.81e+00 c.31.1.5 84754 1ox0A 430 8.95e+00 c.95.1.1,c.95.1.1 87495,87496 1efvA 315 8.99e+00 1efvA c.26.2.3,c.31.1.2 31633,31728 1xfkA 336 9.06e+00 2cw8A 537 9.24e+00 1qazA 351 9.34e+00 1qazA a.102.3.1 18848 1lh0A 213 9.35e+00 c.61.1.1 73896 1kwmA 402 9.37e+00 c.56.5.1,d.58.3.1 73079,73080 1gveA 327 9.40e+00 c.1.7.1 70597 1wkbA 810 9.43e+00 1pv1A 299 9.76e+00 1xg5A 279 9.76e+00 12asA 330 9.81e+00 12asA d.104.1.1 40783 1vj1A 363 1.03e+01 b.35.1.2,c.2.1.1 100794,100795 1m2xA 223 1.03e+01 d.157.1.1 84764 1vl2A 421 1.04e+01 c.26.2.1,d.210.1.1 108708,108709 1nowA 507 1.05e+01 c.1.8.6,d.92.2.1 85936,85937 1m6sA 347 1.05e+01 c.67.1.1 78701 1zk4A 251 1.07e+01 1xccA 220 1.08e+01 1ua4A 455 1.08e+01 c.72.1.3 99128 1i88A 389 1.10e+01 c.95.1.2,c.95.1.2 66070,66071 1b35A 260 1.10e+01 1b35A b.121.4.1 23333 1hdcA 253 1.10e+01 1e6wA c.2.1.2 29862 2gqrA 237 1.13e+01 1drw 273 1.14e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1t9bA 677 1.14e+01 1rqbA 539 1.16e+01 a.5.7.2,c.1.10.5 105057,105058 1iirA 415 1.20e+01 1iirA c.87.1.5 62453 2au3A 407 1.20e+01 1gs5A 258 1.21e+01 c.73.1.2 70395 1g57A 217 1.22e+01 1g57A d.115.1.2 60253 1cydA 244 1.24e+01 1cydA c.2.1.2 29825 1bli 483 1.25e+01 1bli b.71.1.1,c.1.8.1 27715,28702 1vk3A 615 1.26e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1b5eA 246 1.27e+01 1b5eA d.117.1.1 41056 1twdA 256 1.28e+01 c.1.30.1 107397 1q7lB 88 1.29e+01 1vhcA 224 1.31e+01 c.1.10.1 100661 1muwA 386 1.33e+01 c.1.15.3 79495 1ignA 246 1.34e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1lt8A 406 1.34e+01 c.1.26.1 78186 1geeA 261 1.35e+01 c.2.1.2 90509 1dpgA 485 1.38e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 7odcA 424 1.39e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1nq6A 302 1.40e+01 c.1.8.3 92046 1o0yA 260 1.40e+01 c.1.10.1 80756 1rh9A 373 1.41e+01 1ht6A 405 1.41e+01 b.71.1.1,c.1.8.1 83629,83630 1e7lA 157 1.41e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 2audA 257 1.42e+01 1wzuA 300 1.43e+01 2hvm 273 1.43e+01 1cnv c.1.8.5 28985 2g8yA 385 1.45e+01 7aatA 401 1.45e+01 1ajsA c.67.1.1 34250 1nfp 228 1.46e+01 1nfp c.1.16.2 29555 1xs1A 193 1.47e+01 1ii7A 333 1.49e+01 1ii7A d.159.1.4 62415 1qstA 160 1.50e+01 1yghA d.108.1.1 40804 1gsoA 431 1.50e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1sc6A 404 1.50e+01 1ngr 85 1.51e+01 1ngr a.77.1.2 18422 1r6wA 322 1.54e+01 c.1.11.2,d.54.1.1 97165,97166 2bhuA 602 1.55e+01 1vb3A 428 1.55e+01 5eau 548 1.56e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1wznA 252 1.57e+01 1b7yA 350 1.59e+01 1pysA d.104.1.1 40776 1ei6A 406 1.59e+01 c.76.1.4 90443 1vqvA 306 1.59e+01 4tmkA 213 1.60e+01 5tmpA c.37.1.1 31930 1v73A 342 1.60e+01 1v02A 565 1.62e+01 c.1.8.4 108194 1uok 558 1.62e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1c96A 753 1.63e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1ub3A 220 1.65e+01 c.1.10.1 88395 4pgaA 337 1.67e+01 4pgaA c.88.1.1 35565 1me8A 503 1.69e+01 c.1.5.1 79028 1jykA 254 1.69e+01 c.68.1.13 67458 1z2nX 324 1.71e+01 1jqlB 140 1.72e+01 c.37.1.20 63234 1kwgA 645 1.72e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1u3dA 509 1.73e+01 a.99.1.1,c.28.1.1 107638,107639 1k87A 669 1.74e+01 a.176.1.1,c.1.23.2 77286,77287 2ak3A 226 1.76e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1yyaA 250 1.77e+01 1fvpA 231 1.78e+01 1nfp c.1.16.2 29556 1x0rA 249 1.79e+01 1qh5A 260 1.79e+01 1qh5A d.157.1.2 42057 1u55A 188 1.80e+01 d.278.1.1 107677 1v7zA 260 1.83e+01 c.125.1.1 100488 1zemA 262 1.85e+01 2f6kA 307 1.86e+01 1tg7A 971 1.86e+01 2f46A 156 1.87e+01 7a3hA 303 1.89e+01 7a3hA c.1.8.3 28817 1kaeA 434 1.89e+01 c.82.1.2 72247 1wdtA 665 1.91e+01 1f1eA 154 1.95e+01 a.22.1.2 64927 1a8q 274 1.97e+01 1brt c.69.1.12 34702 2fbwB 252 1.98e+01 1knwA 425 1.98e+01 b.49.2.3,c.1.6.1 90969,90970 1ob8A 135 1.99e+01 1vflA 356 2.00e+01 1l0bA 229 2.01e+01 c.15.1.3,c.15.1.3 73391,73392 1ve2A 235 2.05e+01 2booA 247 2.06e+01 2bibA 547 2.07e+01 1ez0A 510 2.08e+01 1eyyA c.82.1.1 35385 1rybA 212 2.08e+01 c.56.3.1 98098 1pixA 587 2.11e+01 c.14.1.4 94708 1i0dA 332 2.11e+01 1pscA c.1.9.3 61487 2bw0A 329 2.12e+01 1ozhA 566 2.13e+01 c.31.1.3,c.36.1.5,c.36.1.9 93833,93834,93835 1t0bA 252 2.15e+01 c.23.16.6 106199 1ta3B 303 2.17e+01 c.1.8.3 106732 1ugpA 203 2.17e+01 d.149.1.1 107831 1v72A 356 2.17e+01 1edt 271 2.20e+01 2ebn c.1.8.5 28993 1hruA 188 2.20e+01 1hruA d.115.1.1 40926 1p32A 209 2.22e+01 1p32A d.25.1.1 38379 1y44A 320 2.23e+01 1z7aA 308 2.26e+01 1x42A 232 2.29e+01 1yqgA 263 2.29e+01 2d5cA 263 2.30e+01 1yx0A 159 2.32e+01 1nvmB 312 2.34e+01 c.2.1.3,d.81.1.1 86251,86252 1tt7A 330 2.35e+01 1bd0A 388 2.36e+01 1bd0A b.49.2.2,c.1.6.1 26480,28642 1tazA 365 2.37e+01 a.211.1.2 106734 1l7dA 384 2.38e+01 c.2.1.4,c.23.12.2 77774,77775 1l6wA 220 2.46e+01 c.1.10.1 73632 1nytA 271 2.46e+01 c.2.1.7,c.58.1.5 86417,86418 1vh4A 435 2.48e+01 b.80.6.1 100640 1uehA 253 2.48e+01 c.101.1.1 99259 1cnt1 187 2.50e+01 1cnt3 1gjwA 637 2.50e+01 b.71.1.1,c.1.8.1 60582,60583 2f5xA 312 2.51e+01 1tjxA 159 2.52e+01 1wdnA 226 2.53e+01 1lst c.94.1.1 35816 1i7kA 179 2.57e+01 1u9aA d.20.1.1 61889 1h1dA 221 2.57e+01 c.66.1.1 83452 1w0mA 226 2.58e+01 c.1.1.1 109027 1l6rA 227 2.58e+01 c.108.1.10 77768 1zaiA 363 2.58e+01 1f06A 320 2.58e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 2abqA 306 2.59e+01 1xb4A 202 2.60e+01 1j5sA 463 2.60e+01 c.1.9.8 71580 2f5gA 133 2.60e+01 1f0yA 302 2.61e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1fh9A 312 2.63e+01 1taxA c.1.8.3 28913 1ro7A 259 2.63e+01 c.130.1.1 97667 1f7cA 231 2.65e+01 1f7cA a.116.1.1 19107 1pfvA 551 2.67e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1n9lA 109 2.67e+01 d.110.3.6 85468 1x6vA 630 2.70e+01 1d7uA 433 2.72e+01 2dkb c.67.1.4 34439 1lfpA 249 2.77e+01 e.39.1.1 73885 1e6yA 569 2.78e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 1es5A 262 2.78e+01 1skf e.3.1.1 42679 1t71A 281 2.80e+01 1rd5A 262 2.80e+01 1g3qA 237 2.81e+01 1hyqA c.37.1.10 60237 1csh 435 2.81e+01 1csh a.103.1.1 18880 1tksA 204 2.82e+01 d.115.1.2 107114 1o4sA 389 2.83e+01 c.67.1.1 86620 1yxcA 292 2.84e+01 1hh1A 143 2.84e+01 1gefA c.52.1.18 61036 1m3uA 264 2.86e+01 c.1.12.8 84784 1jg1A 235 2.87e+01 c.66.1.7 66661 2cwxA 430 2.90e+01 1vl4A 447 2.91e+01 d.283.1.1 108718 1x6mA 196 2.93e+01 1e5kA 201 2.93e+01 1fr9A c.68.1.8 34578 1d3cA 686 2.94e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1cliA 345 2.95e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 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8.81e+01 2fs2A 151 8.83e+01 1m4tA 392 8.85e+01 c.95.1.1,c.95.1.1 78617,78618 1ug6A 431 8.85e+01 c.1.8.4 88490 1y0kA 209 8.86e+01 1ig8A 486 8.88e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 2fo3A 125 8.89e+01 1vefA 395 8.94e+01 3proC 166 8.96e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1xuuA 349 9.00e+01