# List of top-scoring protein chains for t06-100-30-n_sep-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 2b99A 156 1.22e-02 1fobA 334 2.02e-02 c.1.8.3 83255 1z47A 355 2.92e-02 1l2tA 235 5.35e-02 c.37.1.12 73514 1jf8A 131 5.55e-02 c.44.1.1 66621 1vyrA 364 7.03e-02 c.1.4.1 108906 1jmvA 141 9.60e-02 c.26.2.4 66897 1c9kA 180 1.38e-01 1c9kB c.37.1.11 32363 1bupA 386 1.42e-01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1mb3A 124 1.69e-01 c.23.1.1 78907 2cqnA 77 2.04e-01 1tmy 120 2.17e-01 1dbwA c.23.1.1 31083 2anuA 255 2.71e-01 1u0sY 118 3.28e-01 c.23.1.1 107566 1srrA 124 4.37e-01 1dz3A c.23.1.1 31110 1xyzA 347 4.40e-01 1taxA c.1.8.3 28804 1z2lA 423 4.96e-01 1zy9A 564 5.22e-01 1v02A 565 5.29e-01 c.1.8.4 108194 1r2qA 170 5.68e-01 c.37.1.8 96874 1w5fA 353 5.83e-01 1qwgA 251 6.23e-01 c.1.27.1 96473 1ek0A 170 6.26e-01 1ctqA c.37.1.8 32076 1bg4 302 6.37e-01 1taxA c.1.8.3 28806 1b0uA 262 6.90e-01 1b0uA c.37.1.12 32370 1ypfA 336 6.92e-01 1u94A 356 7.67e-01 c.37.1.11,d.48.1.1 107743,107744 1vp8A 201 8.61e-01 1h54A 754 9.04e-01 a.102.1.4,b.30.5.3 60634,60635 1gheA 177 9.17e-01 d.108.1.1 76222 1e6uA 321 9.24e-01 1bsvA c.2.1.2 29805 1cnzA 363 9.32e-01 1cnzA c.77.1.1 35061 1vpqA 273 9.51e-01 1w44A 331 9.53e-01 1g6hA 257 1.03e+00 1gajA c.37.1.12 60318 1m8jA 181 1.06e+00 c.26.1.3 84875 1sg4A 260 1.11e+00 2gqrA 237 1.11e+00 1vf8A 377 1.12e+00 1vjoA 393 1.13e+00 c.67.1.3 100827 1z41A 338 1.16e+00 1k77A 260 1.19e+00 c.1.15.5 72096 1ej2A 181 1.20e+00 1f9aA c.26.1.3 59414 1h3fA 432 1.30e+00 c.26.1.1,d.66.1.4 76631,76632 1umdA 367 1.34e+00 c.36.1.11 99599 1dozA 309 1.48e+00 1ak1 c.92.1.1 35592 1m3uA 264 1.48e+00 c.1.12.8 84784 1r4pB 70 1.48e+00 b.40.2.1 97026 1q6oA 216 1.49e+00 c.1.2.3 95986 1t46A 313 1.49e+00 d.144.1.7 106397 1orrA 347 1.50e+00 c.2.1.2 93460 2ftxB 64 1.62e+00 1wb0A 445 1.83e+00 1j31A 262 1.83e+00 d.160.1.2 90808 1oxxK 353 1.84e+00 b.40.6.3,c.37.1.12 93715,93716 1vplA 256 1.84e+00 1s0aA 429 1.95e+00 c.67.1.4 98263 1k66A 149 2.01e+00 c.23.1.1 90941 1kutA 230 2.12e+00 d.143.1.1 73017 1n2sA 299 2.12e+00 c.2.1.2 79857 1hjsA 332 2.12e+00 c.1.8.3 83492 1g291 372 2.17e+00 1g291 2b61A 377 2.30e+00 7odcA 424 2.31e+00 7odcA b.49.2.3,c.1.6.1 26488,28650 1pm3A 78 2.48e+00 b.41.1.2 94889 1yd7A 395 2.51e+00 2c31A 568 2.52e+00 1i1wA 303 2.52e+00 c.1.8.3 76732 1n82A 331 2.54e+00 c.1.8.3 91703 1rhcA 330 2.57e+00 c.1.16.3 97468 1t0fA 276 2.58e+00 1w78A 422 2.69e+00 1mvoA 136 2.90e+00 c.23.1.1 79513 1z4eA 153 2.91e+00 1f28A 297 2.93e+00 1bkpA d.117.1.1 59608 1vk9A 151 3.01e+00 c.139.1.1 108640 2azpA 318 3.04e+00 1s57A 153 3.04e+00 1lfkA 398 3.05e+00 a.104.1.1 77926 1meoA 209 3.06e+00 c.65.1.1 79035 1ewkA 490 3.07e+00 1ewkA c.93.1.1 35712 1wolA 122 3.08e+00 1es9A 232 3.17e+00 1wab c.23.10.3 31340 1ur1A 378 3.37e+00 c.1.8.3 99804 2gshA 414 3.41e+00 1s8nA 205 3.43e+00 c.23.1.1 105374 1y8aA 332 3.61e+00 1tx2A 297 3.61e+00 c.1.21.1 107420 1tqhA 247 3.65e+00 c.69.1.29 107225 1zhhB 242 3.75e+00 1jflA 228 3.79e+00 c.78.2.1,c.78.2.1 71656,71657 1ta3B 303 3.96e+00 c.1.8.3 106732 1ccwA 137 3.97e+00 1be1 c.23.6.1 31238 1ispA 181 4.08e+00 c.69.1.18 76778 1z3eA 132 4.13e+00 2a84A 300 4.14e+00 1e19A 314 4.20e+00 1b7bA c.73.1.1 34967 1vhuA 211 4.21e+00 c.50.1.2 100703 1fmcA 255 4.21e+00 1cydA c.2.1.2 29856 1g0cA 364 4.21e+00 7a3hA c.1.8.3 60165 1gmlA 178 4.22e+00 c.8.5.2 70273 1wzzA 334 4.34e+00 1wy5A 317 4.51e+00 1t8tA 271 4.51e+00 c.37.1.5 106685 1ezwA 349 4.58e+00 1ezwA c.1.16.3 29558 1vc3B 97 4.72e+00 2czdA 208 4.90e+00 1u2eA 289 4.91e+00 2f5gA 133 5.06e+00 1eiwA 111 5.06e+00 1eiwA c.23.3.1 31130 1qc7A 101 5.15e+00 1qc7A a.118.14.1 18456 1z5yE 149 5.17e+00 2cxxA 190 5.29e+00 1g5aA 628 5.30e+00 b.71.1.1,c.1.8.1 65152,65153 1yrbA 262 5.36e+00 1wywA 230 5.54e+00 1i60A 278 5.59e+00 c.1.15.4 71118 1n2eA 300 5.68e+00 c.26.1.4 85268 2c07A 285 5.98e+00 1hp1A 516 5.98e+00 d.114.1.1,d.159.1.2 70976,70977 2cvjA 180 6.00e+00 2cy5A 140 6.19e+00 1fh9A 312 6.24e+00 1taxA c.1.8.3 28913 1w5rA 278 6.25e+00 1v4vA 376 6.27e+00 c.87.1.3 100313 2a6aA 218 6.33e+00 1nhkL 144 6.36e+00 1npk d.58.6.1 39142 2axyA 73 6.39e+00 1twfH 146 6.42e+00 1qg3A 195 6.58e+00 1qg3A b.1.2.1,b.1.2.1 21993,21994 1y8tA 324 6.59e+00 1ve4A 206 6.65e+00 1vbuA 328 6.68e+00 1wstA 417 6.76e+00 1fmtA 314 6.79e+00 1fmtA b.46.1.1,c.65.1.1 25758,34174 1pj5A 830 6.80e+00 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 2ey4C 82 7.03e+00 1pvdA 537 7.09e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1w2xA 758 7.10e+00 c.14.1.4,c.14.1.4 109134,109135 1zjjA 263 7.12e+00 1v71A 323 7.19e+00 1s98A 107 7.25e+00 b.124.1.1 105377 1w8sA 263 7.32e+00 1eyeA 280 7.37e+00 1aj2 c.1.21.1 29672 1j5sA 463 7.61e+00 c.1.9.8 71580 1xb4A 202 7.83e+00 1gegA 256 7.83e+00 1ybvA c.2.1.2 29888 1y80A 210 7.85e+00 1rxdA 159 8.06e+00 1jcfA 344 8.09e+00 c.55.1.1,c.55.1.1 62878,62879 1r85A 379 8.18e+00 c.1.8.3 104839 1h5qA 265 8.22e+00 1cydA c.2.1.2 60643 2bbsA 290 8.23e+00 1hziA 129 8.34e+00 1rcb a.26.1.2 61449 2cbiA 594 8.41e+00 1zfjA 491 8.43e+00 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1r0rE 274 8.48e+00 c.41.1.1 96735 1ig3A 263 8.60e+00 1ig3A b.82.6.1,c.100.1.1 62358,62359 1jysA 242 8.71e+00 c.56.2.1 77216 2a67A 167 8.72e+00 1wqaA 455 8.75e+00 1ne9A 335 8.81e+00 d.108.1.4,d.108.1.4 91839,91840 1n7kA 234 8.83e+00 c.1.10.1 85374 1vjpA 394 8.84e+00 c.2.1.3,d.81.1.3 100828,100829 1wovA 250 9.06e+00 2f9sA 151 9.42e+00 1spxA 278 9.46e+00 c.2.1.2 98958 1cr1A 296 9.93e+00 1cr1A c.37.1.11 32286 1st9A 143 9.94e+00 c.47.1.10 98987 2cc6A 68 1.01e+01 2d48A 129 1.03e+01 1u4gA 301 1.04e+01 d.92.1.2 107670 1lt8A 406 1.04e+01 c.1.26.1 78186 1ybdA 239 1.05e+01 1zgdA 312 1.05e+01 1wwuA 99 1.06e+01 1nar 290 1.07e+01 1nar c.1.8.5 28988 1hqz1 141 1.09e+01 2ethA 154 1.11e+01 1b6g 310 1.12e+01 1b6g c.69.1.8 34661 1edqA 540 1.13e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 2bm8A 236 1.14e+01 2tpsA 227 1.17e+01 2tpsA c.1.3.1 28591 1me8A 503 1.17e+01 c.1.5.1 79028 1ve3A 227 1.17e+01 1pcxA 810 1.17e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1kblA 873 1.17e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 2cw5A 255 1.18e+01 1ww8A 439 1.18e+01 1x1rA 178 1.19e+01 1hl9A 449 1.20e+01 b.71.1.3,c.1.8.11 90650,90651 2ge3A 170 1.20e+01 1lv7A 257 1.21e+01 c.37.1.20 78232 1r8gA 372 1.21e+01 d.128.1.3 104845 2fp8A 322 1.22e+01 1bykA 255 1.22e+01 1bykA c.93.1.1 35706 1kptA 105 1.23e+01 1kptA d.70.1.1 39588 2b5dX 528 1.23e+01 1pvmA 184 1.23e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 2essA 248 1.24e+01 1thm 279 1.24e+01 1gci c.41.1.1 32544 1on0A 158 1.25e+01 d.108.1.1 87095 1g8sA 230 1.25e+01 c.66.1.3 90507 1lam 484 1.25e+01 1lam c.50.1.1,c.56.5.3 33166,33829 2b20A 403 1.26e+01 1gvnA 90 1.28e+01 a.8.2.1 76353 1q45A 391 1.29e+01 c.1.4.1 95780 1i39A 225 1.33e+01 1ekeA c.55.3.1 61585 1rkuA 206 1.34e+01 c.108.1.11 97627 1xubA 298 1.35e+01 1ys7A 233 1.35e+01 1wehA 171 1.37e+01 1n0wA 243 1.38e+01 c.37.1.11 79772 2g76A 335 1.39e+01 1o66A 275 1.41e+01 c.1.12.8 92547 1wmhA 89 1.42e+01 1o20A 427 1.42e+01 c.82.1.1 86556 1rvgA 305 1.43e+01 c.1.10.2 97920 1vp2A 208 1.48e+01 1ef8A 261 1.49e+01 1ef8A c.14.1.3 30921 1wudA 89 1.51e+01 1gsa 316 1.52e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1hc7A 477 1.53e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1v33A 366 1.54e+01 d.264.1.1 100278 1zuhA 168 1.54e+01 1tzjA 338 1.54e+01 1kqpA 271 1.55e+01 c.26.2.1 72883 1xfiA 367 1.56e+01 e.50.1.1 109584 2fiuA 99 1.59e+01 1qo2A 241 1.60e+01 1qo2A c.1.2.1 28533 1q74A 303 1.61e+01 c.134.1.1 96019 1yavA 159 1.61e+01 1uh5A 329 1.66e+01 c.2.1.2 107840 1zgzA 122 1.66e+01 1gvfA 286 1.67e+01 c.1.10.2 70599 1ydwA 362 1.68e+01 2d28C 149 1.68e+01 1th0A 226 1.68e+01 d.3.1.7 106903 1m9xC 146 1.69e+01 a.73.1.1 84907 1nxuA 333 1.69e+01 c.122.1.1 86389 1gx3A 284 1.69e+01 d.3.1.5 70678 1o4vA 183 1.69e+01 c.23.8.1 86628 1nu7D 282 1.70e+01 a.8.6.1,a.8.6.1 92191,92192 2gkeA 274 1.70e+01 1yb3A 175 1.72e+01 1svfB 38 1.74e+01 1svfB h.3.2.1 45764 1svdA 473 1.75e+01 1oi7A 288 1.77e+01 c.2.1.8,c.23.4.1 87049,87050 1y1oA 203 1.78e+01 1o8vA 134 1.78e+01 b.60.1.2 86680 1xi3A 215 1.80e+01 c.1.3.1 109601 2bpqA 373 1.80e+01 1nrzA 164 1.81e+01 c.38.1.1 86131 2fafA 608 1.81e+01 1gqzA 274 1.83e+01 d.21.1.1,d.21.1.1 83311,83312 1eciA 37 1.83e+01 1eciA a.33.1.1 16999 1wosA 364 1.86e+01 b.44.2.1,d.250.1.1 109468,109469 1vkmA 297 1.86e+01 c.138.1.1 108670 1q0rA 298 1.86e+01 c.69.1.28 95508 1zp4A 304 1.87e+01 1dz3A 130 1.89e+01 1dz3A c.23.1.1 31105 1ayoA 130 1.90e+01 1ayoA b.2.4.1 22431 1p1jA 533 1.94e+01 c.2.1.3,d.81.1.3 87687,87688 1svdM 110 1.94e+01 1q35A 320 1.97e+01 c.94.1.1 95661 1ltzA 297 1.97e+01 d.178.1.1 74254 2fbiA 142 1.98e+01 1e4mM 501 2.00e+01 1e70M c.1.8.4 59226 2b0tA 738 2.00e+01 1v60A 123 2.01e+01 1wdpA 495 2.01e+01 1wr2A 238 2.01e+01 1uqtA 482 2.03e+01 c.87.1.6 99794 1uluA 261 2.06e+01 1ve1A 304 2.06e+01 1lkdA 297 2.10e+01 d.32.1.3,d.32.1.3 78059,78060 1njhA 119 2.11e+01 b.128.1.1 85787 2d69A 430 2.11e+01 2dchX 216 2.12e+01 2carA 196 2.13e+01 2bce 581 2.14e+01 2bce c.69.1.1 34625 1uyrA 737 2.17e+01 c.14.1.4,c.14.1.4 100188,100189 1vkhA 273 2.17e+01 c.69.1.32 108662 1eziA 228 2.18e+01 1eyrA c.68.1.13 34512 1zh2A 121 2.18e+01 1lvwA 295 2.19e+01 c.68.1.6 84723 2fyxA 143 2.21e+01 1yfnA 118 2.23e+01 1k1eA 180 2.23e+01 c.108.1.5 67995 1hd7A 318 2.26e+01 1bix d.151.1.1 41780 1vhcA 224 2.27e+01 c.1.10.1 100661 1yqyA 523 2.27e+01 1yd9A 193 2.28e+01 1y9uA 323 2.29e+01 1j8mF 297 2.35e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1djrD 103 2.35e+01 3chbD b.40.2.1 24865 1kjnA 157 2.36e+01 c.115.1.1 72614 2bbhA 269 2.38e+01 1hd2A 161 2.38e+01 c.47.1.10 60962 1m0kA 262 2.38e+01 f.13.1.1 78344 1tif 78 2.42e+01 1tif d.15.8.1 37836 1z0jA 170 2.44e+01 1ekqA 272 2.46e+01 1c3qA c.72.1.2 34941 1geeA 261 2.46e+01 c.2.1.2 90509 1k8kC 372 2.48e+01 b.69.4.1 68308 1te2A 226 2.48e+01 c.108.1.6 106792 1xjjA 644 2.48e+01 1wg8A 285 2.49e+01 1gqnA 252 2.49e+01 c.1.10.1 90514 1xkrA 206 2.52e+01 1vdmA 153 2.53e+01 2f5yA 91 2.54e+01 1vhxA 150 2.54e+01 c.55.3.8 100712 1x8dA 104 2.55e+01 2cwkA 160 2.58e+01 1gw5S 142 2.58e+01 d.110.4.2 70633 1ymqA 261 2.59e+01 1syyA 346 2.62e+01 a.25.1.2 106126 2av4A 162 2.63e+01 1ekeA 230 2.64e+01 1ekeA c.55.3.1 33572 1wvhA 134 2.64e+01 1v5eA 590 2.65e+01 1jykA 254 2.66e+01 c.68.1.13 67458 1qe5A 266 2.68e+01 1b8oA c.56.2.1 33784 1npeA 267 2.68e+01 b.68.5.1 92032 1f0yA 302 2.68e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1fjhA 257 2.69e+01 1fjhB c.2.1.2 29870 1f0kA 364 2.70e+01 1f0kA c.87.1.2 35465 1odzA 386 2.73e+01 c.1.8.3 86889 1ftrA 296 2.73e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1vjxA 157 2.73e+01 a.25.1.1 100837 1ei6A 406 2.76e+01 c.76.1.4 90443 1z15A 344 2.76e+01 1pkoA 139 2.76e+01 b.1.1.1 88147 1amx 180 2.77e+01 1amx b.2.3.1 22410 1v58A 241 2.77e+01 c.47.1.9,d.17.3.1 108371,108372 2bzlA 325 2.78e+01 1twdA 256 2.78e+01 c.1.30.1 107397 1ur4A 399 2.79e+01 2bswA 146 2.79e+01 1dkiA 371 2.79e+01 1dkiA d.3.1.1 37090 2c4nA 250 2.79e+01 1v72A 356 2.80e+01 2cwxA 430 2.82e+01 1gca 309 2.84e+01 1gca c.93.1.1 35659 1izcA 339 2.88e+01 c.1.12.5 83838 1x9dA 538 2.89e+01 1xdpA 687 2.91e+01 2aa4A 289 2.92e+01 1mdbA 539 2.92e+01 e.23.1.1 79008 1wt4A 73 2.93e+01 2fxqA 264 2.95e+01 1usgA 346 2.96e+01 c.93.1.1 99864 1lhpA 312 2.96e+01 c.72.1.5 77960 2gzxA 265 2.96e+01 1o5kA 306 2.97e+01 c.1.10.1 92504 1q6zA 528 2.98e+01 1lnsA 763 2.99e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1xdyA 298 3.00e+01 1ua4A 455 3.01e+01 c.72.1.3 99128 2chnA 716 3.03e+01 1yvoA 172 3.03e+01 1qgvA 142 3.04e+01 1qgvA c.47.1.8 33056 2ffcA 353 3.06e+01 1us5A 314 3.06e+01 c.94.1.1 99856 1uehA 253 3.06e+01 c.101.1.1 99259 1wzlA 585 3.08e+01 2ceyA 306 3.08e+01 1q8cA 151 3.10e+01 a.79.1.2 96202 1weyA 104 3.10e+01 1xewX 182 3.10e+01 1kjkA 64 3.10e+01 d.10.1.4 72613 1iukA 140 3.11e+01 c.2.1.8 83712 1y10A 407 3.11e+01 1t7rA 269 3.12e+01 a.123.1.1 106635 2fepA 289 3.14e+01 2fz4A 237 3.15e+01 1d2nA 272 3.17e+01 1d2nA c.37.1.20 32428 2choA 716 3.18e+01 1q77A 138 3.19e+01 c.26.2.4 96023 1kyhA 276 3.20e+01 c.72.1.4 73222 2b81A 323 3.20e+01 1xg5A 279 3.21e+01 1ka2A 499 3.23e+01 d.92.1.5 77305 1yn9A 169 3.24e+01 1jmsA 381 3.25e+01 a.60.6.1,a.60.12.1,d.218.1.2 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