# List of top-scoring protein chains for t06-100-30-n_notor2-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 1dnlA 199 6.80e-13 1ci0A b.45.1.1 25753 1g79A 218 7.70e-13 1ci0A b.45.1.1 25752 1nrgA 261 2.25e-11 b.45.1.1 80694 1ty9A 222 7.03e-10 1rfeA 162 1.39e-08 2fhqA 141 2.06e-07 2asfA 137 6.05e-07 2arzA 247 1.39e-06 1vl7A 157 3.65e-06 b.45.1.1 108732 2aq6A 147 4.79e-06 1w9aA 147 8.52e-06 2fg9A 178 8.90e-06 2furA 209 1.53e-04 1xhnA 184 4.35e-04 1w3oA 216 5.67e-03 1flmA 122 1.64e-02 1axj b.45.1.1 25747 1k32A 1045 1.60e-01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 2a6hC 1119 4.20e-01 1ejeA 192 8.37e-01 1ejeA b.45.1.2 25757 1iwmA 186 8.79e-01 b.125.1.2 83758 2fp4B 395 8.84e-01 1nbwA 607 9.83e-01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1pvtA 238 1.07e+00 c.74.1.1 95189 1w99A 558 1.55e+00 1uwvA 433 2.11e+00 b.40.4.12,c.66.1.40 100128,100129 1ojrA 274 2.22e+00 c.74.1.1 93147 2h1tA 188 2.28e+00 1l8aA 886 2.34e+00 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 2fafA 608 2.58e+00 2fflA 756 2.68e+00 1e7uA 961 3.26e+00 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1yfsA 465 3.46e+00 1wkbA 810 3.57e+00 1hjsA 332 4.14e+00 c.1.8.3 83492 1tr8A 102 4.24e+00 1ykdA 398 4.29e+00 1vs0A 310 4.43e+00 1fy7A 278 4.44e+00 1fy7A d.108.1.1 40817 1kwmA 402 4.69e+00 c.56.5.1,d.58.3.1 73079,73080 1nqkA 381 4.76e+00 c.1.16.4 92050 1twfA 1733 4.90e+00 1bvoA 175 5.05e+00 1a3qA b.2.5.3 22457 1wsrA 375 5.09e+00 1b63A 333 5.39e+00 1b63A d.14.1.3,d.122.1.2 37566,41107 1mjfA 281 5.87e+00 c.66.1.17 79198 1ecfA 504 6.42e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1tf5A 844 6.46e+00 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1yqdA 366 6.48e+00 1clc 639 6.67e+00 1clc a.102.1.2,b.1.18.2 18835,21872 1ru3A 732 6.81e+00 e.26.1.3 97835 1z5bA 469 7.01e+00 1ooyA 481 7.08e+00 c.124.1.3,c.124.1.2 93388,93389 1yloA 348 7.18e+00 1r64A 481 7.32e+00 b.18.1.20,c.41.1.1 97140,97141 2bjfA 329 7.45e+00 2ebn 289 7.69e+00 2ebn c.1.8.5 28990 2nlrA 234 7.95e+00 2nlrA b.29.1.11 24344 1pbyB 337 8.01e+00 b.69.2.2 94422 2g50A 530 8.40e+00 1c7sA 858 8.51e+00 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1ct9A 553 8.76e+00 1ct9A c.26.2.1,d.153.1.1 31616,41834 1pc3A 350 8.92e+00 c.94.1.1 104102 1ve6A 582 9.11e+00 1orvA 728 9.26e+00 b.70.3.1,c.69.1.24 87354,87355 1vqqA 646 9.37e+00 1y0zA 330 9.43e+00 1k0wA 231 9.74e+00 c.74.1.1 77220 1rlmA 271 1.00e+01 1z0nA 96 1.02e+01 1zd7A 159 1.06e+01 1x7yA 400 1.06e+01 1jetA 517 1.08e+01 1jevA c.94.1.1 35718 1rypB 250 1.10e+01 1rypB d.153.1.4 41933 1yr2A 741 1.15e+01 1h2wA 710 1.15e+01 b.69.7.1,c.69.1.4 76596,76597 1zkpA 268 1.19e+01 1o54A 277 1.20e+01 c.66.1.13 92482 1w2xA 758 1.25e+01 c.14.1.4,c.14.1.4 109134,109135 1fehA 574 1.25e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1qh5A 260 1.30e+01 1qh5A d.157.1.2 42057 1gd1O 334 1.30e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1vpbA 451 1.34e+01 1dpe 507 1.34e+01 1dpe c.94.1.1 35799 1zvkA 358 1.35e+01 1mnaA 298 1.38e+01 c.69.1.22 79322 1n0uA 842 1.38e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1xffA 240 1.39e+01 d.153.1.1 109580 2cw5A 255 1.40e+01 1pixA 587 1.41e+01 c.14.1.4 94708 2gjgA 248 1.42e+01 1g8aA 227 1.48e+01 c.66.1.3 90506 1oewA 329 1.49e+01 b.50.1.2 86924 1b8aA 438 1.52e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1g9gA 629 1.56e+01 a.102.1.2 83279 1vp4A 425 1.57e+01 1msk 331 1.57e+01 1msk d.173.1.1 42495 1vrtA 560 1.59e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1xkyA 301 1.59e+01 1bgvA 449 1.64e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1eejA 216 1.67e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1pxzA 346 1.71e+01 1vjpA 394 1.73e+01 c.2.1.3,d.81.1.3 100828,100829 1zy9A 564 1.77e+01 2cwxA 430 1.84e+01 2g84A 197 1.85e+01 1e4cP 215 1.85e+01 2fua c.74.1.1 34969 2ex0A 399 1.88e+01 1jv1A 505 1.89e+01 c.68.1.5 71892 1xr4A 509 1.92e+01 1nhs 447 1.92e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1mucA 373 1.92e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 1xt8A 292 1.92e+01 2cw8A 537 1.93e+01 1wnyA 186 1.94e+01 2a97A 439 1.97e+01 1oa4A 222 1.98e+01 b.29.1.11 86731 2bw0A 329 2.01e+01 1oi0A 124 2.01e+01 c.97.3.1 93045 1nd4A 264 2.01e+01 d.144.1.6 91815 1czfA 362 2.07e+01 1czfA b.80.1.3 28031 1e8cA 498 2.07e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1zk7A 467 2.09e+01 2bklA 695 2.09e+01 1a7tA 232 2.12e+01 1a7tA d.157.1.1 42041 2au3A 407 2.12e+01 1ockA 412 2.13e+01 c.117.1.1 86802 1mrg 263 2.13e+01 1mrj d.165.1.1 42183 1x0cA 549 2.16e+01 1rypI 222 2.17e+01 d.153.1.4 41877 2ganA 190 2.17e+01 1l0qA 391 2.18e+01 b.1.3.1,b.69.2.3 77644,77645 1cs0A 1073 2.18e+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 1w1oA 534 2.19e+01 d.58.32.4,d.145.1.1 109071,109072 1p2zA 968 2.19e+01 b.121.2.2,b.121.2.2 93962,93963 1p80A 753 2.20e+01 c.23.16.3,e.5.1.1 94337,94338 1udzA 182 2.24e+01 b.51.1.1 99239 1p4oA 322 2.29e+01 d.144.1.7 87775 2amdA 311 2.30e+01 1v0eA 666 2.31e+01 2bjbA 462 2.31e+01 1x6vA 630 2.33e+01 1rm6A 769 2.34e+01 1mdoA 393 2.37e+01 c.67.1.4 79013 1lf7A 182 2.38e+01 b.60.1.1 73878 1q15A 503 2.40e+01 c.26.2.1,d.153.1.1 95538,95539 1widA 130 2.43e+01 1jjtA 228 2.44e+01 1a7tA d.157.1.1 63139 2f15A 96 2.44e+01 1qvzA 237 2.46e+01 c.23.16.2 96453 1zlqA 502 2.48e+01 1bf2 750 2.49e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1avbA 226 2.50e+01 1led b.29.1.1 24158 1wucA 250 2.50e+01 1azo 232 2.54e+01 1azo c.52.1.14 33329 1whsA 255 2.55e+01 1ivyA c.69.1.5 34649 1h72C 296 2.61e+01 d.14.1.5,d.58.26.1 60712,60713 1f5nA 592 2.65e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1ikpA 613 2.67e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1nrwA 288 2.68e+01 c.108.1.10 86128 1q5xA 161 2.71e+01 c.8.7.1 95947 1wy2A 351 2.74e+01 2c0hA 353 2.76e+01 1n82A 331 2.80e+01 c.1.8.3 91703 1f0xA 571 2.81e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1o12A 376 2.81e+01 b.92.1.5,c.1.9.10 80758,80759 1uu3A 310 2.83e+01 d.144.1.7 99999 1p9bA 442 2.84e+01 c.37.1.10 94385 2h88A 621 2.84e+01 2bbeA 108 2.85e+01 1vq0A 302 2.88e+01 2bgiA 272 2.90e+01 2cbzA 237 2.96e+01 1q7fA 286 2.98e+01 b.68.9.1 96036 1ixcA 294 2.99e+01 a.4.5.37,c.94.1.1 83764,83765 1gefA 123 3.02e+01 1gefA c.52.1.18 60465 2f06A 144 3.06e+01 2c5uA 375 3.07e+01 1d8wA 426 3.08e+01 1de5A c.1.15.2 29394 1l5aA 436 3.09e+01 c.43.1.2,c.43.1.2 75923,75924 1xnkA 196 3.10e+01 1vheA 373 3.12e+01 b.49.3.1,c.56.5.4 100669,100670 1h3nA 878 3.12e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1ta8A 332 3.13e+01 1bupA 386 3.14e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 2al1A 436 3.15e+01 2fbwA 621 3.17e+01 1nuyA 337 3.18e+01 e.7.1.1 86213 1ig8A 486 3.19e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 2c6cA 707 3.20e+01 1d3vA 323 3.21e+01 1d3vA c.42.1.1 32559 1iugA 352 3.23e+01 c.67.1.3 90699 1rypF 233 3.24e+01 1rypF d.153.1.4 41937 1ykjA 394 3.31e+01 1vhoA 346 3.33e+01 b.49.3.1,c.56.5.4 100694,100695 1yb2A 275 3.39e+01 1i0rA 169 3.39e+01 1i0rA b.45.1.2 61489 2h0bA 184 3.39e+01 1ywnA 316 3.40e+01 1vc1A 110 3.42e+01 c.13.2.1 108493 1ybiA 288 3.42e+01 1vj0A 380 3.43e+01 b.35.1.2,c.2.1.1 100786,100787 2f69A 261 3.43e+01 3cox 507 3.44e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1llnA 262 3.44e+01 d.165.1.1 84625 1bf6A 291 3.46e+01 1pscA c.1.9.3 29065 1k2xB 143 3.52e+01 1yge 839 3.53e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1am2 199 3.55e+01 1am2 b.86.1.2 28381 1khbA 625 3.57e+01 c.91.1.1,c.109.1.1 68606,68607 1rypK 198 3.58e+01 d.153.1.4 41879 1w66A 232 3.59e+01 1flcA 432 3.67e+01 1flcA b.19.1.3,c.23.10.2 23837,31337 1j3bA 529 3.67e+01 c.91.1.1,c.109.1.1 77071,77072 1uthA 315 3.69e+01 c.94.1.1 108032 1k0iA 394 3.72e+01 c.3.1.2,d.16.1.2 67942,67943 1epfA 191 3.77e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1wkyA 464 3.78e+01 1qh4A 380 3.80e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1ta0A 197 3.80e+01 c.108.1.16 106729 2al3A 90 3.81e+01 2gs8A 317 3.82e+01 2glfA 450 3.90e+01 2fsjA 346 3.94e+01 1obfO 335 4.02e+01 c.2.1.3,d.81.1.1 86768,86769 1ogoX 574 4.03e+01 b.133.1.1,b.80.1.10 92925,92926 2cwsA 237 4.13e+01 1jc4A 148 4.14e+01 1jc4A d.32.1.4 62863 2dexX 671 4.15e+01 1gu7A 364 4.16e+01 b.35.1.2,c.2.1.1 83321,83322 1s4iA 175 4.19e+01 1n7zA 334 4.19e+01 b.127.1.1 85380 1sy7A 715 4.22e+01 1ia9A 280 4.25e+01 1ia9A d.144.1.5 62113 1x3lA 440 4.29e+01 1sc6A 404 4.29e+01 2chnA 716 4.31e+01 1v4pA 157 4.34e+01 1n1tA 641 4.39e+01 b.29.1.15,b.68.1.1 79821,79822 1fgkA 310 4.40e+01 1fgkA d.144.1.7 41693 1krhA 338 4.44e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1onwA 390 4.52e+01 b.92.1.7,c.1.9.13 87172,87173 1l0wA 580 4.52e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1lycA 343 4.56e+01 a.93.1.1 74344 2culA 232 4.56e+01 1yzyA 413 4.56e+01 1tkeA 224 4.59e+01 1vb3A 428 4.61e+01 1cjcA 460 4.63e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1udc 338 4.72e+01 1xel c.2.1.2 29785 1g87A 614 4.72e+01 a.102.1.2,b.2.2.2 83275,83276 1avaC 181 4.76e+01 1avaC b.42.4.1 25604 4uagA 437 4.78e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1e9pA 151 4.79e+01 1mfmA b.1.8.1 22215 2b8nA 429 4.84e+01 1e1oA 504 4.86e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1kjlA 146 4.86e+01 1fmjA 351 4.88e+01 c.37.1.5 59879 1zdyA 307 4.90e+01 1eyqA 222 4.92e+01 1eypA d.36.1.1 38534 1h12A 405 4.92e+01 a.102.1.2 83447 1yeyA 444 5.02e+01 1mveA 243 5.06e+01 b.29.1.2 85140 1zr6A 503 5.07e+01 1n67A 359 5.10e+01 b.2.3.4,b.2.3.4 85354,85355 1e6yA 569 5.20e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 1y8qA 346 5.26e+01 1uirA 314 5.29e+01 c.66.1.17 99429 1rsgA 516 5.30e+01 1n6aA 259 5.36e+01 b.76.2.1,b.85.7.1 80121,80122 1qg3A 195 5.37e+01 1qg3A b.1.2.1,b.1.2.1 21993,21994 1vknA 351 5.38e+01 c.2.1.3,d.81.1.1 108676,108677 1sf8A 126 5.38e+01 d.271.1.1 105472 2fhfA 1083 5.42e+01 1zdzA 302 5.44e+01 1acc 735 5.51e+01 1acc f.11.1.1 43828 1lrzA 426 5.55e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1n9lA 109 5.69e+01 d.110.3.6 85468 1mpxA 615 5.71e+01 b.18.1.13,c.69.1.21 85041,85042 1r9dA 787 5.71e+01 c.7.1.1 104865 2b0tA 738 5.72e+01 2dg5B 190 5.73e+01 1vplA 256 5.76e+01 2bgcA 238 5.79e+01 1y08A 323 5.84e+01 1y0yA 353 5.84e+01 1zdnA 158 5.89e+01 1ryp1 222 5.94e+01 1ryp1 1a34A 159 5.95e+01 1a34A b.121.7.1 23286 1hnjA 317 5.96e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1ukgA 252 6.02e+01 b.29.1.1 99489 1q2bA 434 6.02e+01 b.29.1.10 95624 1q0eA 152 6.06e+01 b.1.8.1 95504 1t3yA 141 6.10e+01 1ryaA 160 6.10e+01 d.113.1.5 105122 2g76A 335 6.11e+01 1ht6A 405 6.12e+01 b.71.1.1,c.1.8.1 83629,83630 2f6uA 234 6.14e+01 1vyrA 364 6.14e+01 c.1.4.1 108906 2fneA 117 6.16e+01 1p5dX 463 6.16e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1oc2A 348 6.16e+01 c.2.1.2 92765 1yfqA 342 6.16e+01 1r0pA 312 6.20e+01 d.144.1.7 96734 1zghA 260 6.22e+01 2b61A 377 6.23e+01 1kwfA 363 6.24e+01 a.102.1.2 73078 1gtmA 419 6.27e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1gegA 256 6.29e+01 1ybvA c.2.1.2 29888 1vkdA 338 6.33e+01 b.67.2.4 108644 1wthD 391 6.34e+01 1sc3A 178 6.35e+01 c.17.1.1 105416 1rv9A 259 6.39e+01 d.194.1.2 105105 1g57A 217 6.42e+01 1g57A d.115.1.2 60253 1t7rA 269 6.43e+01 a.123.1.1 106635 1vclA 432 6.46e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1d3yA 301 6.47e+01 1d3yA e.12.1.1 43252 1k2eA 156 6.48e+01 d.113.1.1 72010 2eu9A 355 6.48e+01 1ju2A 536 6.53e+01 c.3.1.2,d.16.1.1 77169,77170 2dg5A 366 6.54e+01 2c0rA 362 6.57e+01 1pjr 724 6.61e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1cyx 205 6.62e+01 1cyx b.6.1.2 23023 2bkxA 242 6.65e+01 2acaA 189 6.72e+01 1wb4A 297 6.77e+01 2bbsA 290 6.86e+01 1i39A 225 6.87e+01 1ekeA c.55.3.1 61585 2bsxA 253 6.93e+01 1suwA 249 6.93e+01 e.52.1.1 106027 1pmhX 185 6.94e+01 b.18.1.18 104193 1puiA 210 7.00e+01 c.37.1.8 88292 1n2sA 299 7.02e+01 c.2.1.2 79857 2cqsA 842 7.03e+01 1mldA 314 7.08e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1ko3A 230 7.09e+01 d.157.1.1 90974 1h5uA 842 7.09e+01 1a8i c.87.1.4 60655 1zuoA 186 7.09e+01 1b9hA 388 7.12e+01 1b9hA c.67.1.4 34488 1xtmA 175 7.14e+01 1j1nA 492 7.16e+01 c.94.1.1 83978 1ewkA 490 7.16e+01 1ewkA c.93.1.1 35712 1m7vA 363 7.17e+01 d.174.1.1 78748 2ggcA 263 7.19e+01 1edqA 540 7.22e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1iyeA 309 7.22e+01 e.17.1.1 83786 1rc6A 261 7.27e+01 b.82.1.11 97287 1nrlA 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