# List of top-scoring protein chains for t06-100-30-o_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 1.95e-17 1ci0A b.45.1.1 25753 1g79A 218 5.61e-17 1ci0A b.45.1.1 25752 1nrgA 261 3.82e-16 b.45.1.1 80694 1ty9A 222 6.92e-14 2fhqA 141 1.15e-13 1rfeA 162 1.28e-13 2fg9A 178 2.26e-12 1vl7A 157 5.55e-12 b.45.1.1 108732 2asfA 137 3.63e-11 2aq6A 147 1.11e-10 1w9aA 147 3.19e-10 2arzA 247 1.11e-09 2furA 209 2.43e-09 1w3oA 216 2.60e-08 1flmA 122 7.23e-07 1axj b.45.1.1 25747 1xhnA 184 8.94e-07 1ejeA 192 6.64e-03 1ejeA b.45.1.2 25757 1pvtA 238 6.24e-02 c.74.1.1 95189 1zzkA 82 1.83e-01 1ko3A 230 2.90e-01 d.157.1.1 90974 2fgtA 417 3.08e-01 1b7yA 350 3.48e-01 1pysA d.104.1.1 40776 1s2wA 295 3.74e-01 c.1.12.7 98407 1goiA 499 4.89e-01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1z4vA 532 4.91e-01 2bgiA 272 6.08e-01 1k8kD 300 7.15e-01 d.198.2.1,d.198.2.1 68309,68310 1uirA 314 7.63e-01 c.66.1.17 99429 1a8d 452 7.72e-01 1a8d b.29.1.6,b.42.4.2 24262,25607 1bj7 156 8.06e-01 1bj7 b.60.1.1 27113 1ta3A 274 9.75e-01 c.1.8.5 106731 1i0rA 169 1.01e+00 1i0rA b.45.1.2 61489 2a1vA 144 1.09e+00 2cfxA 144 1.10e+00 2gukA 120 1.14e+00 1kr4A 125 1.38e+00 d.58.5.2 72889 2c1lA 358 1.38e+00 1oa4A 222 1.51e+00 b.29.1.11 86731 1q1rA 431 1.52e+00 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1ye8A 178 1.53e+00 1q6uA 245 1.56e+00 d.26.1.1 95998 1eluA 390 1.68e+00 1elqA c.67.1.3 34434 1i24A 404 1.68e+00 c.2.1.2 83663 1ftrA 296 1.90e+00 1ftrA d.58.33.1,d.58.33.1 39485,39486 2cveA 191 2.07e+00 1lrzA 426 2.10e+00 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1iejA 332 2.45e+00 1nnt c.94.1.2 62328 2bbeA 108 2.47e+00 2btoA 473 2.54e+00 1w66A 232 2.63e+00 1gvjA 146 2.64e+00 a.4.5.21 90525 1vkbA 161 2.92e+00 d.269.1.1 108643 2czrA 226 3.08e+00 1lfpA 249 3.13e+00 e.39.1.1 73885 1oxxK 353 3.16e+00 b.40.6.3,c.37.1.12 93715,93716 1nrwA 288 3.24e+00 c.108.1.10 86128 1aba 87 3.26e+00 1aba c.47.1.1 32760 1qx4A 274 3.36e+00 b.43.4.2,c.25.1.1 104624,104625 2f15A 96 3.50e+00 1q6hA 224 3.68e+00 d.26.1.1 95975 1x3eA 165 3.73e+00 1q5xA 161 3.73e+00 c.8.7.1 95947 1qsmA 152 3.75e+00 1qsmA d.108.1.1 40808 1jjtA 228 3.83e+00 1a7tA d.157.1.1 63139 1ne9A 335 3.88e+00 d.108.1.4,d.108.1.4 91839,91840 1widA 130 4.05e+00 1gy8A 397 4.07e+00 c.2.1.2 83376 1bywA 110 4.15e+00 1bywA d.110.3.6 40912 1jyhA 157 4.17e+00 d.60.1.3 71956 1twfK 120 4.31e+00 1aisA 182 4.33e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1qyaA 307 4.41e+00 d.21.1.2,d.21.1.2 104653,104654 1gt1A 159 4.58e+00 b.60.1.1 90515 2plc 274 4.67e+00 2plc c.1.18.2 29614 1xw3A 110 4.68e+00 1n9lA 109 4.88e+00 d.110.3.6 85468 1j58A 385 4.99e+00 b.82.1.2 71531 1ukgA 252 5.05e+00 b.29.1.1 99489 1zkkA 167 5.19e+00 2f06A 144 5.22e+00 1vfvA 366 5.24e+00 c.37.1.9 108592 1ojrA 274 5.25e+00 c.74.1.1 93147 1wvqA 167 5.27e+00 1tp9A 162 5.28e+00 1vpjA 192 5.35e+00 1vf8A 377 5.36e+00 2abqA 306 5.37e+00 1vr3A 191 5.40e+00 1o4sA 389 5.41e+00 c.67.1.1 86620 2d37A 176 5.46e+00 1tkeA 224 5.50e+00 1xtzA 264 5.62e+00 1uu1A 335 5.65e+00 c.67.1.1 99993 2bi7A 384 5.76e+00 1wznA 252 5.83e+00 1kk1A 410 5.83e+00 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1sjiA 350 6.02e+00 1gxuA 91 6.09e+00 d.58.10.1 76378 1yoaA 159 6.10e+00 1o54A 277 6.11e+00 c.66.1.13 92482 1bebA 162 6.29e+00 1bebA b.60.1.1 27115 1b8aA 438 6.31e+00 1b8aA b.40.4.1,d.104.1.1 25244,40765 1v6tA 255 6.33e+00 1sbyA 254 6.33e+00 1tuhA 156 6.44e+00 d.17.4.11 107345 1p35A 299 6.46e+00 1p35A b.28.1.1 23925 1g5tA 196 6.47e+00 1g5rA c.37.1.11 32366 1mhnA 59 6.48e+00 b.34.9.1 84964 1zd7A 159 6.56e+00 1a2zA 220 6.56e+00 1a2zA c.56.4.1 33794 1viaA 175 6.61e+00 c.37.1.2 100754 1m40A 263 6.66e+00 e.3.1.1 74437 1rcqA 357 6.67e+00 b.49.2.2,c.1.6.1 104882,104883 2f8lA 344 6.82e+00 1yz1A 174 7.19e+00 2bbsA 290 7.50e+00 1ub9A 100 7.55e+00 a.4.5.28 99159 2dg5B 190 7.56e+00 1wj9A 211 7.56e+00 1yzsA 121 7.60e+00 1vjqA 79 7.69e+00 k.43.1.1 100830 2a46A 238 7.73e+00 1uzmA 247 7.93e+00 1c8uA 285 8.17e+00 1c8uA d.38.1.3,d.38.1.3 38547,38548 1e8cA 498 8.30e+00 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 2fp8A 322 8.30e+00 1x54A 434 8.38e+00 1snzA 344 8.40e+00 b.30.5.4 98930 1txuA 273 8.47e+00 a.222.1.1 107439 1vkkA 154 8.50e+00 d.109.1.2 108669 1rkqA 282 8.65e+00 c.108.1.10 97621 1y08A 323 8.79e+00 1r53A 382 8.81e+00 d.258.1.1 97063 1wsrA 375 8.84e+00 1z4rA 168 9.12e+00 1vqoE 178 9.13e+00 1sdjA 310 9.15e+00 d.21.1.2,d.21.1.2 98807,98808 1wb9A 800 9.17e+00 1v5vA 401 9.29e+00 2aotA 292 9.30e+00 1jfuA 186 9.57e+00 c.47.1.10 62940 2fueA 262 9.58e+00 1oi7A 288 9.59e+00 c.2.1.8,c.23.4.1 87049,87050 3gcb 470 9.70e+00 3gcb d.3.1.1 37032 1i9zA 347 9.98e+00 1i9yA d.151.1.2 62102 1pg4A 652 1.01e+01 e.23.1.1 88067 1h6kZ 98 1.01e+01 d.58.7.1 60686 1p2fA 220 1.03e+01 a.4.6.1,c.23.1.1 87720,87721 2h1rA 299 1.04e+01 2ga9D 469 1.06e+01 1zd0A 150 1.09e+01 1wvhA 134 1.11e+01 2bitX 165 1.12e+01 1r45A 204 1.13e+01 1mdoA 393 1.14e+01 c.67.1.4 79013 1b4bA 71 1.14e+01 1b4aA d.74.2.1 39718 1wosA 364 1.15e+01 b.44.2.1,d.250.1.1 109468,109469 1yn4A 99 1.16e+01 1hmt 132 1.19e+01 1hmt b.60.1.2 27169 1y0hA 105 1.20e+01 1v0wA 506 1.20e+01 d.136.1.2,d.136.1.2 108220,108221 1jc4A 148 1.21e+01 1jc4A d.32.1.4 62863 1vmaA 306 1.22e+01 a.24.13.1,c.37.1.10 108887,108888 1vfrA 218 1.22e+01 1vfrA d.90.1.1 40247 1nv8A 284 1.22e+01 c.66.1.30 86224 1j4aA 333 1.25e+01 c.2.1.4,c.23.12.1 71502,71503 1ct9A 553 1.25e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1jkgA 140 1.25e+01 d.17.4.2 66795 1qmhA 347 1.30e+01 1qmhA c.47.2.1,d.68.2.1 33082,39568 2gnoA 305 1.33e+01 2aebA 322 1.34e+01 1agjA 242 1.34e+01 1agjA b.47.1.1 25827 1ylxA 103 1.34e+01 1rz1A 161 1.34e+01 b.45.1.2 98124 1amuA 563 1.35e+01 1amuA e.23.1.1 43351 1jgsA 138 1.36e+01 a.4.5.28 66683 2cw5A 255 1.36e+01 2b5eA 504 1.36e+01 1jznA 135 1.36e+01 d.169.1.1 84262 2culA 232 1.38e+01 1tr8A 102 1.39e+01 1z0nA 96 1.39e+01 1odkA 235 1.39e+01 c.56.2.1 86863 1tqnA 486 1.40e+01 a.104.1.1 107238 1qd9A 124 1.40e+01 1qu9A d.79.1.1 39758 2df7A 458 1.40e+01 1oz9A 150 1.41e+01 d.92.1.15 93808 1me4A 215 1.41e+01 d.3.1.1 79023 1zhvA 134 1.42e+01 1l3kA 196 1.43e+01 d.58.7.1,d.58.7.1 73539,73540 1xvxA 312 1.44e+01 1vlmA 219 1.45e+01 c.66.1.41 108836 1woyA 500 1.45e+01 1sqwA 188 1.47e+01 1vc1A 110 1.49e+01 c.13.2.1 108493 2f5vA 595 1.49e+01 1rp0A 284 1.51e+01 1rocA 155 1.51e+01 b.1.22.1 97673 1gntA 553 1.51e+01 e.26.1.1 70290 1agqA 135 1.51e+01 1agqA g.17.1.2 44789 2ftrA 108 1.52e+01 1m1hA 248 1.53e+01 b.114.1.1,d.58.42.1 78415,78416 1jb0D 138 1.53e+01 1jb0D d.187.1.1 62823 1ww7A 160 1.54e+01 1sqgA 429 1.56e+01 a.79.1.3,c.66.1.38 105912,105913 1y0eA 223 1.56e+01 1li4A 432 1.56e+01 c.2.1.4,c.23.12.3 84616,84617 1e5mA 416 1.57e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1vi4A 174 1.59e+01 c.8.7.1 100731 1ukuA 102 1.60e+01 d.58.5.2 99533 1cr5A 189 1.60e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1vlbA 907 1.62e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1naqA 112 1.63e+01 d.58.5.2 91761 1gs5A 258 1.63e+01 c.73.1.2 70395 1b2pA 119 1.63e+01 1b2pA b.78.1.1 27998 2ggcA 263 1.63e+01 1aoeA 192 1.65e+01 1aoeA c.71.1.1 34923 1m6yA 301 1.65e+01 a.60.13.1,c.66.1.23 78716,78717 1iwmA 186 1.66e+01 b.125.1.2 83758 1x88A 359 1.67e+01 1m22A 503 1.70e+01 c.117.1.1 78464 2cx1A 187 1.71e+01 1hrnA 337 1.72e+01 1smrA b.50.1.2 26869 1b34B 118 1.72e+01 1b34B b.38.1.1 24797 1y1pA 342 1.73e+01 2bmoA 447 1.73e+01 1kafA 108 1.73e+01 d.199.1.1 68372 1dykA 394 1.74e+01 1dykA b.29.1.4,b.29.1.4 24223,24224 1s5jA 847 1.75e+01 1w8oA 601 1.75e+01 1ex2A 189 1.75e+01 1ex2A c.51.4.2 33225 2bhgA 209 1.79e+01 1iz5A 249 1.80e+01 d.131.1.2,d.131.1.2 83834,83835 1wbiA 129 1.81e+01 1xkzA 255 1.82e+01 1jnyA 435 1.82e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1j7gA 144 1.82e+01 c.110.1.1 84130 2a5hA 416 1.84e+01 1lc5A 364 1.86e+01 c.67.1.1 73827 1prxA 224 1.88e+01 1prxA c.47.1.10 33076 1u3dA 509 1.88e+01 a.99.1.1,c.28.1.1 107638,107639 1dzkA 157 1.88e+01 1obpA b.60.1.1 27096 1tvnA 293 1.89e+01 1gdeA 389 1.90e+01 c.67.1.1 60456 1kbvA 327 1.91e+01 b.6.1.3,b.6.1.3 68395,68396 2fr1A 486 1.92e+01 1rlmA 271 1.92e+01 1ut7A 171 1.94e+01 b.143.1.1 99906 1pmi 440 1.95e+01 1pmi b.82.1.3 28114 1tdhA 364 1.95e+01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1xeuA 263 1.96e+01 4bcl 366 1.96e+01 4bcl b.75.1.1 27968 1vphA 149 1.97e+01 1vjpA 394 1.98e+01 c.2.1.3,d.81.1.3 100828,100829 1r3eA 309 1.98e+01 b.122.1.1,d.265.1.2 96907,96908 1vns 609 1.98e+01 1vns a.111.1.3 19061 1r3dA 264 1.98e+01 1nkqA 259 1.99e+01 d.177.1.1 103862 1btkA 169 2.01e+01 1btkA b.55.1.1 26959 1yfnA 118 2.02e+01 1mkmA 249 2.03e+01 a.4.5.33,d.110.2.2 79242,79243 1a8y 367 2.05e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1v4pA 157 2.07e+01 1q74A 303 2.08e+01 c.134.1.1 96019 1z08A 170 2.08e+01 1vhsA 175 2.11e+01 d.108.1.1 100698 1ri6A 343 2.11e+01 b.69.11.1 97503 2cxcA 144 2.12e+01 1ycdA 243 2.12e+01 2fp4B 395 2.12e+01 1vi2A 300 2.14e+01 c.2.1.7,c.58.1.5 100726,100727 2avtA 378 2.15e+01 2an3A 289 2.17e+01 1k0mA 241 2.19e+01 a.45.1.1,c.47.1.5 67949,67950 1n67A 359 2.20e+01 b.2.3.4,b.2.3.4 85354,85355 1wi6A 88 2.20e+01 1q1oA 98 2.21e+01 d.15.2.2 95596 1gjjA 168 2.21e+01 a.140.1.1,a.140.1.1 83291,83292 1nnvA 110 2.22e+01 d.17.7.1 92012 1iu8A 206 2.23e+01 c.56.4.1 71436 1vpbA 451 2.23e+01 1xnzA 264 2.24e+01 1rypK 198 2.24e+01 d.153.1.4 41879 2g1uA 155 2.25e+01 1b6a 478 2.25e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 2bkrA 212 2.26e+01 1d2fA 390 2.26e+01 1d2fA c.67.1.3 34411 1tbd 134 2.26e+01 2tbd d.89.1.1 40240 1qysA 106 2.28e+01 k.41.1.1 96603 1vqoS 85 2.28e+01 2gp4A 628 2.29e+01 1l7mA 211 2.30e+01 c.108.1.4 73664 2gvkA 317 2.30e+01 2a4vA 159 2.30e+01 1o98A 511 2.32e+01 c.105.1.1,c.76.1.3 86684,86685 1iqrA 420 2.32e+01 a.99.1.1,c.28.1.1 66275,66276 1u9cA 224 2.33e+01 1vggA 161 2.36e+01 1z41A 338 2.36e+01 1vmfA 145 2.39e+01 1w2iA 91 2.41e+01 d.58.10.1 109127 1tlyA 278 2.41e+01 f.4.6.1 107143 1p5dX 463 2.42e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1yndA 165 2.42e+01 1jv1A 505 2.44e+01 c.68.1.5 71892 1z5bA 469 2.44e+01 1ka1A 357 2.44e+01 e.7.1.1 68369 1l6rA 227 2.45e+01 c.108.1.10 77768 2bolA 314 2.47e+01 1n0uA 842 2.47e+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 1e4mM 501 2.48e+01 1e70M c.1.8.4 59226 1z57A 339 2.49e+01 1vmjA 151 2.50e+01 1ee8A 266 2.50e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1xccA 220 2.50e+01 1e5dA 402 2.52e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1nlfA 279 2.52e+01 c.37.1.11 85850 1rylA 167 2.53e+01 d.276.1.1 105124 1wq3A 322 2.53e+01 1zatA 250 2.54e+01 2aexA 346 2.54e+01 2f46A 156 2.56e+01 1xyiA 66 2.56e+01 2bwkA 121 2.57e+01 2ghpA 292 2.58e+01 1f60A 458 2.58e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 2bo9B 222 2.59e+01 1pvmA 184 2.60e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 2fvvA 194 2.60e+01 2bjdA 101 2.63e+01 1jdpA 441 2.63e+01 c.93.1.1 62906 2b0jA 358 2.64e+01 1tzlA 622 2.66e+01 1orc 71 2.69e+01 1orc a.35.1.2 17054 1zxtA 76 2.70e+01 1xdpA 687 2.70e+01 1xg4A 295 2.71e+01 1ihuA 589 2.71e+01 c.37.1.10,c.37.1.10 62394,62395 1otjA 283 2.71e+01 b.82.2.5 93517 1dzfA 215 2.72e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1t5bA 201 2.73e+01 c.23.5.3 106433 1ki9A 192 2.73e+01 c.37.1.1 84404 1tt0A 623 2.74e+01 1xfkA 336 2.74e+01 1mkiA 330 2.74e+01 e.3.1.2 84994 1uteA 313 2.76e+01 1uteA d.159.1.1 42078 1uqtA 482 2.77e+01 c.87.1.6 99794 1t0hB 224 2.79e+01 c.37.1.1 106208 1sqeA 109 2.80e+01 d.58.4.5 105908 1wqwA 235 2.80e+01 1lq9A 112 2.81e+01 d.58.4.3 78129 1b77A 228 2.81e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 2b8nA 429 2.83e+01 2exnA 136 2.84e+01 1j5wA 298 2.85e+01 d.104.1.1 71589 1v7pB 128 2.87e+01 d.169.1.1 108407 1heiA 451 2.88e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1zdzA 302 2.90e+01 1gppA 237 2.92e+01 b.86.1.2 76262 2ew2A 316 2.96e+01 1whi 122 2.98e+01 1whi b.39.1.1 24810 1ox0A 430 2.99e+01 c.95.1.1,c.95.1.1 87495,87496 2be4A 272 3.00e+01 1e9pA 151 3.01e+01 1mfmA b.1.8.1 22215 1e2wA 251 3.02e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1knqA 175 3.03e+01 c.37.1.17 72786 1bo4A 168 3.04e+01 1bo4A d.108.1.1 40798 1zpwX 90 3.06e+01 1vjvA 415 3.08e+01 d.3.1.9 108632 1pbyA 489 3.10e+01 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