# 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 1x7oA 287 4.43e-26 1v2xA 194 3.56e-21 c.116.1.1 100274 1zjrA 211 1.35e-19 1mxiA 160 9.32e-17 c.116.1.1 79646 1v6zA 228 3.42e-03 2as0A 396 1.84e-02 1wlsA 328 2.82e-02 1vhyA 257 4.00e-02 b.122.1.2,c.116.1.5 100714,100715 1w8sA 263 6.29e-02 1gc0A 398 6.71e-02 c.67.1.3 70168 1xrtA 467 1.07e-01 1x52A 124 1.17e-01 1zjjA 263 1.19e-01 1z85A 234 1.37e-01 1t9hA 307 1.44e-01 1j2rA 199 1.62e-01 c.33.1.3 90788 1mjfA 281 1.63e-01 c.66.1.17 79198 1qwgA 251 1.68e-01 c.1.27.1 96473 1ihoA 283 1.87e-01 1ihoA c.26.1.4 62390 1bqcA 302 2.21e-01 1bqcA c.1.8.3 28831 1tzjA 338 2.63e-01 1rvgA 305 2.76e-01 c.1.10.2 97920 1zxxA 319 2.78e-01 1ad2 228 3.03e-01 1ad2 e.24.1.1 43353 1xf1A 926 3.16e-01 1j8mF 297 3.60e-01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1wdiA 345 3.80e-01 1vlmA 219 3.97e-01 c.66.1.41 108836 1dcfA 136 4.41e-01 1dcfA c.23.1.2 31124 1g8sA 230 4.60e-01 c.66.1.3 90507 1wznA 252 4.62e-01 1xg4A 295 4.63e-01 1ujpA 271 4.77e-01 c.1.2.4 99462 1pe1A 267 5.40e-01 c.1.10.4 94591 1p7tA 731 5.89e-01 c.1.13.1 94319 1dbiA 280 6.18e-01 1gci c.41.1.1 32543 1iicA 422 6.79e-01 1nmtA d.108.1.2,d.108.1.2 62422,62423 2tpsA 227 7.22e-01 2tpsA c.1.3.1 28591 2akzA 439 7.27e-01 1pwxA 254 7.57e-01 c.2.1.2 95262 1zmtA 254 7.87e-01 1i60A 278 8.14e-01 c.1.15.4 71118 2aifA 135 8.85e-01 1sdsA 117 9.33e-01 d.79.3.1 105439 2bibA 547 9.57e-01 1xbiA 120 9.65e-01 1jflA 228 9.69e-01 c.78.2.1,c.78.2.1 71656,71657 1vl5A 260 9.71e-01 c.66.1.41 108720 1gntA 553 9.85e-01 e.26.1.1 70290 1w5fA 353 1.01e+00 2amxA 376 1.14e+00 1js3A 486 1.17e+00 c.67.1.6 67215 1o69A 394 1.19e+00 c.67.1.4 92560 1wraA 308 1.23e+00 2fdrA 229 1.28e+00 1d2nA 272 1.29e+00 1d2nA c.37.1.20 32428 1zcjA 463 1.33e+00 1uwkA 557 1.37e+00 e.51.1.1 108065 1zd3A 555 1.40e+00 1pii 452 1.52e+00 1pii c.1.2.4,c.1.2.4 28559,28563 2fymA 431 1.58e+00 2dri 271 1.68e+00 2dri c.93.1.1 35637 1zhaA 267 1.76e+00 1lvwA 295 1.85e+00 c.68.1.6 84723 1m65A 245 1.90e+00 c.6.3.1 84847 1pszA 303 1.93e+00 1toaA c.92.2.2 35600 2b0cA 206 2.06e+00 1w41A 101 2.07e+00 1gnlA 544 2.10e+00 e.26.1.1 70287 2fv7A 331 2.12e+00 1swvA 267 2.12e+00 1xklA 273 2.15e+00 2c5uA 375 2.17e+00 1tk9A 188 2.29e+00 c.80.1.3 107082 4pgaA 337 2.33e+00 4pgaA c.88.1.1 35565 1k3rA 268 2.35e+00 b.40.4.10,c.116.1.2 72018,72019 1hdoA 206 2.36e+00 1he2A c.2.1.2 60965 1h05A 146 2.42e+00 c.23.13.1 76433 2ga9D 469 2.65e+00 1a53 247 2.66e+00 1a53 c.1.2.4 28564 1h1yA 228 2.79e+00 c.1.2.2 76506 1o5zA 442 2.97e+00 c.59.1.2,c.72.2.2 92530,92531 2a6hC 1119 3.03e+00 1tzzA 392 3.05e+00 1vmeA 410 3.27e+00 c.23.5.1,d.157.1.3 108893,108894 1o4sA 389 3.28e+00 c.67.1.1 86620 1w7lA 422 3.44e+00 c.67.1.1 109226 1ea7A 310 3.45e+00 c.41.1.1 70086 1n71A 180 3.53e+00 d.108.1.1 85370 1gpmA 525 3.54e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1efpB 252 3.58e+00 1efvB c.26.2.3 31636 1l8nA 679 3.59e+00 c.1.8.10,d.92.2.2 84564,84565 1rdfA 267 3.70e+00 c.108.1.3 104884 1bs0A 384 3.75e+00 1bs0A c.67.1.4 34490 2f6kA 307 3.76e+00 1ek6A 348 3.77e+00 1xel c.2.1.2 29800 1u6eA 335 3.84e+00 1wqaA 455 3.93e+00 1ls1A 295 3.93e+00 a.24.13.1,c.37.1.10 78170,78171 1xq6A 253 3.99e+00 8rucI 123 4.05e+00 1rboC d.73.1.1 39629 1gci 269 4.08e+00 1gci c.41.1.1 32503 1o98A 511 4.17e+00 c.105.1.1,c.76.1.3 86684,86685 1im5A 180 4.19e+00 c.33.1.3 66211 1wxxA 382 4.26e+00 2gtrA 261 4.42e+00 2ge3A 170 4.49e+00 1x3lA 440 4.78e+00 2aotA 292 4.78e+00 1aj2 282 4.80e+00 1aj2 c.1.21.1 29665 1duvG 333 4.87e+00 1othA c.78.1.1,c.78.1.1 35228,35229 1s5aA 150 4.92e+00 d.17.4.10 98525 2fr1A 486 5.00e+00 2aeeA 211 5.21e+00 1gteA 1025 5.22e+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 1rqbA 539 5.30e+00 a.5.7.2,c.1.10.5 105057,105058 1gvfA 286 5.37e+00 c.1.10.2 70599 1twdA 256 5.45e+00 c.1.30.1 107397 2dbqA 334 5.46e+00 1xfkA 336 5.50e+00 1ua7A 422 5.56e+00 b.71.1.1,c.1.8.1 107759,107760 2c6cA 707 5.58e+00 2cw6A 298 5.59e+00 1tqjA 230 5.68e+00 c.1.2.2 107228 1iugA 352 5.75e+00 c.67.1.3 90699 2gp4A 628 5.97e+00 1p3dA 475 6.05e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 4dfrA 159 6.05e+00 1vdrA c.71.1.1 34822 1vkmA 297 6.09e+00 c.138.1.1 108670 1g0cA 364 6.29e+00 7a3hA c.1.8.3 60165 1xyzA 347 6.31e+00 1taxA c.1.8.3 28804 1vhh 162 6.41e+00 1vhh d.65.1.2 39550 1wddS 128 6.59e+00 1v2dA 381 6.65e+00 c.67.1.1 108281 1yqdA 366 6.78e+00 2agaA 190 6.81e+00 1d2fA 390 6.88e+00 1d2fA c.67.1.3 34411 1ub3A 220 6.90e+00 c.1.10.1 88395 2gl5A 410 7.04e+00 1geqA 248 7.12e+00 2tysA c.1.2.4 28589 1gox 370 7.20e+00 1gox c.1.4.1 28607 1nvmA 345 7.38e+00 a.5.7.1,c.1.10.5 86249,86250 1i0dA 332 7.41e+00 1pscA c.1.9.3 61487 1gca 309 7.58e+00 1gca c.93.1.1 35659 2bb3A 221 7.61e+00 1xewY 172 7.61e+00 1wr2A 238 7.77e+00 1j31A 262 7.83e+00 d.160.1.2 90808 1w2xA 758 7.88e+00 c.14.1.4,c.14.1.4 109134,109135 2a3nA 355 7.88e+00 1jeoA 180 7.89e+00 c.80.1.3 66611 1yq2A 1024 7.94e+00 1j5pA 253 8.01e+00 d.81.1.3,c.2.1.3 71577,83092 1vs0A 310 8.01e+00 1s0aA 429 8.02e+00 c.67.1.4 98263 1o66A 275 8.03e+00 c.1.12.8 92547 1vk9A 151 8.07e+00 c.139.1.1 108640 1xtoA 311 8.18e+00 1wkbA 810 8.23e+00 1uu1A 335 8.34e+00 c.67.1.1 99993 1vhsA 175 8.37e+00 d.108.1.1 100698 1zwzA 126 8.43e+00 1mzhA 225 8.50e+00 c.1.10.1 79698 2fi1A 190 8.51e+00 1o7jA 327 8.57e+00 c.88.1.1 81140 1nu5A 370 8.60e+00 c.1.11.2,d.54.1.1 92183,92184 1ep3A 311 8.68e+00 2dorA c.1.4.1 28597 1knwA 425 8.75e+00 b.49.2.3,c.1.6.1 90969,90970 2bkaA 242 9.02e+00 2ah5A 210 9.15e+00 1xm3A 264 9.28e+00 1g38A 393 9.34e+00 2admA c.66.1.27 60235 1cqxA 403 9.39e+00 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1whsB 153 9.42e+00 1whtB 1w0mA 226 9.44e+00 c.1.1.1 109027 1xttA 216 9.60e+00 1nbaA 264 9.61e+00 1nbaA c.33.1.3 31753 2fqxA 318 9.86e+00 1zrn 232 9.86e+00 1qq5A c.108.1.1 43323 1l6sA 323 1.00e+01 c.1.10.3 73627 1uyrA 737 1.00e+01 c.14.1.4,c.14.1.4 100188,100189 1xx1A 285 1.01e+01 1n8yC 608 1.02e+01 c.10.2.5,c.10.2.5,g.3.9.1,g.3.9.1 80314,80315,80316,80317 1to2E 281 1.04e+01 1uf3A 228 1.06e+01 d.159.1.6 99317 1vquA 374 1.11e+01 1t64A 377 1.11e+01 c.42.1.2 106543 1x1zA 252 1.11e+01 2gfhA 260 1.12e+01 1h75A 81 1.12e+01 1h75A c.47.1.1 60716 1r0rE 274 1.13e+01 c.41.1.1 96735 1xvaA 292 1.13e+01 1xvaA c.66.1.5 34183 1u9cA 224 1.14e+01 1r89A 437 1.15e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1vh4A 435 1.16e+01 b.80.6.1 100640 1g61A 228 1.18e+01 1g61A d.126.1.1 41126 1g2oA 268 1.18e+01 1b8oA c.56.2.1 60228 1gd1O 334 1.19e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1ns5A 155 1.20e+01 c.116.1.3 80705 1k77A 260 1.25e+01 c.1.15.5 72096 1eceA 358 1.27e+01 1eceA c.1.8.3 28813 2bycA 137 1.28e+01 1uwvA 433 1.28e+01 b.40.4.12,c.66.1.40 100128,100129 2gkpA 167 1.30e+01 1g5cA 170 1.34e+01 1g5cA c.53.2.1 60264 1g60A 260 1.34e+01 c.66.1.11 70151 1f89A 291 1.36e+01 d.160.1.1 64988 1uxtA 501 1.39e+01 c.82.1.1 108125 1aihA 170 1.41e+01 1aihA d.163.1.1 42149 1z82A 335 1.42e+01 1o6dA 163 1.42e+01 c.116.1.3 92567 1cs0A 1073 1.42e+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 18558,31487,31673,31674,41518,41519 1tc5A 194 1.44e+01 c.110.1.1 106752 1wohA 305 1.44e+01 c.42.1.1 109446 1lw7A 365 1.46e+01 c.26.1.3,c.37.1.1 74295,74296 1vr0A 247 1.48e+01 1ur1A 378 1.49e+01 c.1.8.3 99804 1km4A 247 1.52e+01 c.1.2.3 72740 1pjhA 280 1.53e+01 c.14.1.3 94761 1vkyA 347 1.53e+01 e.53.1.1 108696 2ex4A 241 1.57e+01 1a3c 181 1.58e+01 1a3c c.61.1.1 34095 1nsj 205 1.61e+01 1nsj c.1.2.4 28560 1tg7A 971 1.62e+01 1a9xA 1058 1.62e+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 1v7cA 351 1.62e+01 c.79.1.1 100446 1a8s 273 1.63e+01 1brt c.69.1.12 34710 1xrsA 516 1.65e+01 1qnrA 344 1.67e+01 1qnoA c.1.8.3 28834 1wl8A 189 1.69e+01 2afbA 351 1.69e+01 1dkuA 317 1.69e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1n2eA 300 1.70e+01 c.26.1.4 85268 2anuA 255 1.71e+01 1ekjA 221 1.72e+01 1ekjB c.53.2.1 33364 1fc4A 401 1.73e+01 1bs0A c.67.1.4 59760 1wwkA 307 1.75e+01 1z6nA 167 1.78e+01 1g2qA 187 1.79e+01 c.61.1.1 65117 1tz9A 367 1.80e+01 c.1.15.6 107466 1fjhA 257 1.81e+01 1fjhB c.2.1.2 29870 2b8nA 429 1.81e+01 2gasA 307 1.82e+01 1ct9A 553 1.87e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 2acaA 189 1.88e+01 8dfr 189 1.90e+01 1aoeA c.71.1.1 34895 1thm 279 1.90e+01 1gci c.41.1.1 32544 1sviA 195 1.96e+01 c.37.1.8 106048 1hl2A 297 1.96e+01 c.1.10.1 83581 2gshA 414 1.96e+01 1sazA 381 1.99e+01 1m2kA 249 2.00e+01 c.31.1.5 84754 1t9bA 677 2.00e+01 1zgzA 122 2.01e+01 1l3iA 192 2.02e+01 c.66.1.22 77676 2fliA 220 2.03e+01 1l1qA 186 2.03e+01 c.61.1.1 77653 1fp1D 372 2.04e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1jztA 246 2.06e+01 c.104.1.1 63319 1wkvA 389 2.07e+01 1sheA 103 2.08e+01 d.274.1.1 105551 1kt6A 183 2.09e+01 b.60.1.1 84466 1r2mA 71 2.10e+01 b.138.1.1 96871 2b97A 71 2.10e+01 1hi9A 274 2.10e+01 1hi9A c.99.1.1 61063 2b5gA 171 2.11e+01 1mucA 373 2.11e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 1v7zA 260 2.12e+01 c.125.1.1 100488 1xr4A 509 2.16e+01 2c4nA 250 2.16e+01 1t5oA 351 2.18e+01 c.124.1.5 106459 1xfiA 367 2.18e+01 e.50.1.1 109584 1zu4A 320 2.19e+01 1udc 338 2.21e+01 1xel c.2.1.2 29785 1tx2A 297 2.21e+01 c.1.21.1 107420 1nrzA 164 2.22e+01 c.38.1.1 86131 1neyA 247 2.22e+01 c.1.1.1 80449 1nofA 383 2.23e+01 b.71.1.2,c.1.8.3 92020,92021 2f6uA 234 2.26e+01 1u7pA 164 2.27e+01 1vhqA 232 2.27e+01 c.23.16.2 100696 2g0wA 296 2.32e+01 1nuyA 337 2.33e+01 e.7.1.1 86213 2b69A 343 2.33e+01 2g2cA 167 2.36e+01 1nar 290 2.37e+01 1nar c.1.8.5 28988 2ebn 289 2.40e+01 2ebn c.1.8.5 28990 1mdoA 393 2.40e+01 c.67.1.4 79013 1n7kA 234 2.40e+01 c.1.10.1 85374 1z15A 344 2.41e+01 1hrnA 337 2.42e+01 1smrA b.50.1.2 26869 1ii7A 333 2.45e+01 1ii7A d.159.1.4 62415 1m7bA 184 2.46e+01 c.37.1.8 74572 2bg5A 324 2.46e+01 2d0iA 333 2.46e+01 1t0bA 252 2.47e+01 c.23.16.6 106199 1jg5A 83 2.47e+01 d.205.1.1 66666 2al1A 436 2.47e+01 1o08A 221 2.47e+01 c.108.1.6 86525 1ymqA 261 2.48e+01 1prxA 224 2.50e+01 1prxA c.47.1.10 33076 1tzpA 255 2.52e+01 d.65.1.3 107520 1ve3A 227 2.55e+01 1ituA 369 2.57e+01 c.1.9.7 71423 1jm1A 204 2.57e+01 b.33.1.1 71745 2h00A 254 2.58e+01 1f0yA 302 2.59e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 2f4eA 180 2.61e+01 1o97C 264 2.61e+01 c.26.2.3 81232 1qe5A 266 2.62e+01 1b8oA c.56.2.1 33784 2f2hA 773 2.63e+01 1aoeA 192 2.64e+01 1aoeA c.71.1.1 34923 1wq3A 322 2.66e+01 1vzwA 244 2.66e+01 1m5wA 243 2.69e+01 c.1.24.1 84836 1imjA 210 2.71e+01 c.69.1.23 71246 2f9zC 159 2.72e+01 1xuuA 349 2.75e+01 1usgA 346 2.77e+01 c.93.1.1 99864 1q6oA 216 2.79e+01 c.1.2.3 95986 1ptmA 329 2.82e+01 c.77.1.3 95104 1dyr 206 2.82e+01 1aoeA c.71.1.1 34916 1sjdA 368 2.84e+01 c.1.11.2,d.54.1.1 105632,105633 1ylhA 560 2.85e+01 1y9zA 441 2.87e+01 1nzjA 298 2.88e+01 c.26.1.1 92377 2axiA 115 2.93e+01 1oxkB 134 2.93e+01 c.23.1.1 93691 1hq0A 295 2.94e+01 1hzgA d.194.1.1 61122 1h3fA 432 2.98e+01 c.26.1.1,d.66.1.4 76631,76632 1f6yA 262 2.99e+01 1f6yA c.1.21.2 29673 1jf9A 408 3.02e+01 1c0nA c.67.1.3 62931 1yx1A 264 3.03e+01 1s1pA 331 3.05e+01 c.1.7.1 98350 1y2qA 143 3.08e+01 1gadO 330 3.08e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 1xp8A 366 3.17e+01 1kngA 156 3.21e+01 c.47.1.10 72777 1xm8A 254 3.23e+01 1cbf 285 3.28e+01 1cbf c.90.1.1 35587 2g09A 297 3.29e+01 1oltA 457 3.30e+01 c.1.28.2 93334 1rlhA 173 3.34e+01 d.256.1.1 97646 1vpqA 273 3.34e+01 1vk3A 615 3.35e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1vqoM 195 3.36e+01 1w96A 554 3.37e+01 1xk7A 408 3.44e+01 1h5qA 265 3.45e+01 1cydA c.2.1.2 60643 1ofdA 1520 3.46e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1xhkA 187 3.47e+01 1othA 321 3.49e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1s68A 249 3.50e+01 d.142.2.4 98591 1jkmB 361 3.52e+01 1jkmA c.69.1.2 34634 1vk4A 298 3.52e+01 c.72.1.1 100850 1w1oA 534 3.52e+01 d.58.32.4,d.145.1.1 109071,109072 1ro7A 259 3.52e+01 c.130.1.1 97667 2al2A 436 3.53e+01 1j0dA 341 3.54e+01 c.79.1.1 83902 2gk3A 256 3.55e+01 1vljA 407 3.56e+01 e.22.1.2 108832 2a1iA 146 3.58e+01 2g30A 258 3.59e+01 1j0hA 588 3.61e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1ss4A 153 3.62e+01 d.32.1.6 105976 2jdxA 385 3.65e+01 1jdw d.126.1.2 41139 1ra9 159 3.65e+01 1vdrA c.71.1.1 34820 1p3cA 215 3.67e+01 b.47.1.1 93996 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