# 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 1dnlA 199 2.82e-17 1ci0A b.45.1.1 25753 1g79A 218 3.24e-17 1ci0A b.45.1.1 25752 1nrgA 261 1.25e-16 b.45.1.1 80694 1ty9A 222 9.05e-15 2fhqA 141 2.15e-14 1rfeA 162 2.57e-14 2fg9A 178 1.53e-12 1vl7A 157 2.90e-12 b.45.1.1 108732 2asfA 137 5.43e-12 2aq6A 147 8.43e-12 1w9aA 147 2.64e-11 2arzA 247 1.56e-10 2furA 209 2.37e-09 1w3oA 216 4.71e-08 1flmA 122 1.93e-07 1axj b.45.1.1 25747 1xhnA 184 4.36e-07 1ejeA 192 1.51e-04 1ejeA b.45.1.2 25757 1n9lA 109 2.86e-02 d.110.3.6 85468 2bgiA 272 3.37e-02 1uirA 314 4.52e-02 c.66.1.17 99429 1ko3A 230 1.33e-01 d.157.1.1 90974 1ylnA 252 1.59e-01 1xfsA 178 1.82e-01 d.129.3.5 109589 1pg4A 652 2.06e-01 e.23.1.1 88067 1goiA 499 2.11e-01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1wlgA 299 2.19e-01 1s2wA 295 2.34e-01 c.1.12.7 98407 1bywA 110 2.42e-01 1bywA d.110.3.6 40912 1lrzA 426 2.56e-01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1y08A 323 2.75e-01 1z4rA 168 3.03e-01 1ne9A 335 3.08e-01 d.108.1.4,d.108.1.4 91839,91840 2cfxA 144 4.62e-01 1i0rA 169 4.64e-01 1i0rA b.45.1.2 61489 2d37A 176 5.67e-01 2cxcA 144 5.88e-01 1ta3A 274 5.96e-01 c.1.8.5 106731 2bbkH 355 7.07e-01 2bbkH b.69.2.1 27634 1b7yA 350 8.37e-01 1pysA d.104.1.1 40776 1bj7 156 8.45e-01 1bj7 b.60.1.1 27113 1tuhA 156 9.10e-01 d.17.4.11 107345 1iwmA 186 9.23e-01 b.125.1.2 83758 2gukA 120 9.43e-01 2cxvA 219 9.47e-01 2bi7A 384 9.96e-01 1iejA 332 9.96e-01 1nnt c.94.1.2 62328 1i24A 404 1.04e+00 c.2.1.2 83663 1gt1A 159 1.06e+00 b.60.1.1 90515 1bo4A 168 1.08e+00 1bo4A d.108.1.1 40798 1ww7A 160 1.18e+00 1pvmA 184 1.18e+00 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1pjxA 314 1.23e+00 b.68.6.1 104167 1wj9A 211 1.33e+00 1knqA 175 1.44e+00 c.37.1.17 72786 1widA 130 1.44e+00 2fp8A 322 1.45e+00 1q6uA 245 1.67e+00 d.26.1.1 95998 1w8oA 601 1.68e+00 1wsrA 375 1.68e+00 1yoaA 159 1.71e+00 1ri6A 343 1.71e+00 b.69.11.1 97503 1pfsA 78 1.73e+00 1pfsA b.40.4.7 25391 2fgtA 417 1.84e+00 1kopA 223 1.91e+00 2cba b.74.1.1 27966 1so7A 382 1.96e+00 1vetA 124 1.98e+00 d.110.7.1 108553 1gvjA 146 1.98e+00 a.4.5.21 90525 1zzkA 82 2.02e+00 1agjA 242 2.04e+00 1agjA b.47.1.1 25827 2gjgA 248 2.08e+00 1vr4A 103 2.09e+00 2dg5B 190 2.12e+00 2c1lA 358 2.12e+00 1zd7A 159 2.13e+00 1wocA 103 2.17e+00 1k8kD 300 2.21e+00 d.198.2.1,d.198.2.1 68309,68310 1ihuA 589 2.23e+00 c.37.1.10,c.37.1.10 62394,62395 2ghsA 326 2.26e+00 1vpmA 169 2.27e+00 2ashA 381 2.28e+00 1gzcA 239 2.28e+00 b.29.1.1 70803 1j58A 385 2.35e+00 b.82.1.2 71531 1orc 71 2.36e+00 1orc a.35.1.2 17054 1rz1A 161 2.40e+00 b.45.1.2 98124 1vbvA 105 2.50e+00 1uzxA 169 2.56e+00 d.20.1.2 100238 1al3 324 2.57e+00 1al3 c.94.1.1 35835 1i1qA 520 2.61e+00 1qdlA d.161.1.1 61543 1bebA 162 2.68e+00 1bebA b.60.1.1 27115 1qx4A 274 2.76e+00 b.43.4.2,c.25.1.1 104624,104625 1mdbA 539 2.77e+00 e.23.1.1 79008 2f5vA 595 2.79e+00 1kb0A 677 2.83e+00 a.3.1.6,b.70.1.1 68378,68379 1l0qA 391 2.86e+00 b.1.3.1,b.69.2.3 77644,77645 1y0yA 353 2.87e+00 1jc4A 148 2.90e+00 1jc4A d.32.1.4 62863 2a1vA 144 2.90e+00 1vkkA 154 2.92e+00 d.109.1.2 108669 1twfK 120 3.08e+00 1pvtA 238 3.22e+00 c.74.1.1 95189 1b25A 619 3.40e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 1u69A 163 3.45e+00 d.32.1.7 107699 1me4A 215 3.50e+00 d.3.1.1 79023 2agyA 361 3.51e+00 1gvp 87 3.61e+00 1gvp b.40.4.7 25369 2d1sA 548 3.63e+00 1q6hA 224 3.66e+00 d.26.1.1 95975 1jofA 365 3.66e+00 b.69.10.1 71775 1s4iA 175 3.67e+00 1vfrA 218 3.67e+00 1vfrA d.90.1.1 40247 2bbeA 108 3.68e+00 1h2bA 359 3.78e+00 b.35.1.2,c.2.1.1 90543,90544 1z5bA 469 3.79e+00 1x8qA 184 3.82e+00 1clc 639 3.85e+00 1clc a.102.1.2,b.1.18.2 18835,21872 2bvfA 459 3.95e+00 1qftA 175 3.96e+00 1qftA b.60.1.1 27151 1tzlA 622 3.98e+00 1rlhA 173 4.02e+00 d.256.1.1 97646 1ukgA 252 4.03e+00 b.29.1.1 99489 2fswA 107 4.10e+00 2gu3A 136 4.11e+00 1ew4A 106 4.19e+00 1ew4A d.82.2.1 40023 1uzmA 247 4.22e+00 1c8uA 285 4.23e+00 1c8uA d.38.1.3,d.38.1.3 38547,38548 1wmhB 86 4.24e+00 2gdzA 267 4.26e+00 1gp0A 143 4.30e+00 b.64.1.1 70300 2arpA 116 4.31e+00 1oz9A 150 4.35e+00 d.92.1.15 93808 1tt0A 623 4.40e+00 1rwiA 270 4.49e+00 b.68.9.1 97987 1who 96 4.54e+00 1who b.7.3.1 23215 1a8d 452 4.55e+00 1a8d b.29.1.6,b.42.4.2 24262,25607 1y0hA 105 4.81e+00 1ga6A 372 4.84e+00 1ga1A c.41.1.2 32556 2d93A 134 4.93e+00 1vi2A 300 4.98e+00 c.2.1.7,c.58.1.5 100726,100727 1vpjA 192 5.00e+00 2czrA 226 5.07e+00 1lf7A 182 5.13e+00 b.60.1.1 73878 2f06A 144 5.17e+00 1wb9A 800 5.28e+00 1p35A 299 5.34e+00 1p35A b.28.1.1 23925 2gw6A 123 5.35e+00 1xffA 240 5.36e+00 d.153.1.1 109580 1m6yA 301 5.41e+00 a.60.13.1,c.66.1.23 78716,78717 1kw3B 292 5.45e+00 d.32.1.3,d.32.1.3 77549,77550 2bcjB 340 5.45e+00 1r45A 204 5.55e+00 1e6wA 260 5.64e+00 1e6wA c.2.1.2 59326 1crzA 403 5.64e+00 1crzA b.68.4.1,c.51.2.1 27629,33211 1w6sA 599 5.66e+00 1xtmA 175 5.66e+00 1o98A 511 5.67e+00 c.105.1.1,c.76.1.3 86684,86685 1whzA 70 5.71e+00 1twuA 139 5.72e+00 d.32.1.8 107413 2gnqA 336 5.76e+00 1vggA 161 5.80e+00 1js3A 486 5.83e+00 c.67.1.6 67215 1qksA 567 5.88e+00 1qksA a.3.1.2,b.70.2.1 15951,27710 1g57A 217 5.90e+00 1g57A d.115.1.2 60253 1mkmA 249 5.92e+00 a.4.5.33,d.110.2.2 79242,79243 1b8aA 438 5.95e+00 1b8aA b.40.4.1,d.104.1.1 25244,40765 1o97D 320 6.07e+00 c.26.2.3,c.31.1.2 81233,81234 1y7rA 133 6.13e+00 1i9zA 347 6.21e+00 1i9yA d.151.1.2 62102 2atpB 115 6.23e+00 1sbyA 254 6.24e+00 1u60A 310 6.33e+00 e.3.1.2 107692 1g5tA 196 6.35e+00 1g5rA c.37.1.11 32366 1v04A 355 6.35e+00 b.68.6.2 100240 1h0hA 977 6.38e+00 b.52.2.2,c.81.1.1 76435,76436 2fueA 262 6.45e+00 1uv4A 293 6.45e+00 1z41A 338 6.58e+00 1q5xA 161 6.60e+00 c.8.7.1 95947 1sqwA 188 6.64e+00 1umkA 275 6.73e+00 1sq9A 397 6.77e+00 b.69.4.1 105889 1wq3A 322 6.84e+00 1wbiA 129 6.91e+00 2a5hA 416 7.01e+00 1r0vA 305 7.01e+00 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1tp6A 128 7.03e+00 d.17.4.12 107184 1cbs 137 7.12e+00 1hmt b.60.1.2 27201 1jdpA 441 7.30e+00 c.93.1.1 62906 2cw8A 537 7.32e+00 1gpeA 587 7.37e+00 1gpeA c.3.1.2,d.16.1.1 30387,37951 1l3kA 196 7.43e+00 d.58.7.1,d.58.7.1 73539,73540 1io1A 398 7.56e+00 1io1A e.32.1.1 62611 1jnyA 435 7.59e+00 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1o5uA 101 7.65e+00 b.82.1.8 92518 1njhA 119 7.66e+00 b.128.1.1 85787 1wosA 364 7.69e+00 b.44.2.1,d.250.1.1 109468,109469 1wznA 252 7.75e+00 1h6kZ 98 7.78e+00 d.58.7.1 60686 1nrwA 288 7.82e+00 c.108.1.10 86128 1ftrA 296 7.87e+00 1ftrA d.58.33.1,d.58.33.1 39485,39486 1m4uA 206 7.89e+00 g.17.1.7 78625 1ju2A 536 7.90e+00 c.3.1.2,d.16.1.1 77169,77170 2bpqA 373 7.93e+00 1aba 87 7.94e+00 1aba c.47.1.1 32760 4fiv 113 8.04e+00 1fmb b.50.1.1 26762 1jfuA 186 8.05e+00 c.47.1.10 62940 1ukuA 102 8.05e+00 d.58.5.2 99533 2fi9A 128 8.06e+00 1kr4A 125 8.09e+00 d.58.5.2 72889 2ew2A 316 8.10e+00 1nr0A 611 8.21e+00 b.69.4.1,b.69.4.1 86078,86079 1w4sA 174 8.26e+00 1lkdA 297 8.28e+00 d.32.1.3,d.32.1.3 78059,78060 2gnxA 365 8.30e+00 2cwzA 141 8.34e+00 1n0uA 842 8.43e+00 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 1vkbA 161 8.47e+00 d.269.1.1 108643 1ijqA 316 8.48e+00 1ijqA b.68.5.1,g.3.11.1 62506,62507 1ihgA 370 8.54e+00 2cpl a.118.8.1,b.62.1.1 62380,62381 1pmi 440 8.59e+00 1pmi b.82.1.3 28114 1z4vA 532 8.60e+00 1c7nA 399 8.78e+00 1d2fA c.67.1.3 34413 1vkdA 338 8.86e+00 b.67.2.4 108644 1q1oA 98 8.89e+00 d.15.2.2 95596 1epfA 191 8.91e+00 2ncm b.1.1.4,b.1.1.4 21694,21695 1xedA 117 8.92e+00 1eaxA 241 8.92e+00 b.47.1.2 64889 1zx5A 300 8.94e+00 1luqA 127 9.01e+00 b.61.1.1 91128 1vpkA 378 9.04e+00 1b34B 118 9.09e+00 1b34B b.38.1.1 24797 1j27A 102 9.21e+00 d.58.50.1 90778 2essA 248 9.21e+00 1k8kC 372 9.24e+00 b.69.4.1 68308 1x89A 178 9.31e+00 1sqiA 393 9.31e+00 d.32.1.3,d.32.1.3 105914,105915 2d0oA 610 9.36e+00 1rocA 155 9.39e+00 b.1.22.1 97673 1qwdA 177 9.39e+00 b.60.1.1 96471 1fjgK 129 9.45e+00 1fjfK c.55.4.1 33733 1tig 94 9.49e+00 1tig d.68.1.1 39566 2c2xA 281 9.53e+00 2bneA 241 9.53e+00 1yc7A 124 9.57e+00 2a9sA 171 9.60e+00 1w96A 554 9.62e+00 1xknA 355 9.68e+00 1fp2A 352 9.69e+00 1fpxA a.4.5.29,c.66.1.12 59941,59942 1vmfA 145 9.70e+00 1yz1A 174 9.70e+00 2fauA 341 9.94e+00 1h2eA 207 9.99e+00 c.60.1.1 70857 1v6tA 255 1.00e+01 1gheA 177 1.01e+01 d.108.1.1 76222 1uldA 150 1.02e+01 b.29.1.3 99545 1nls 237 1.03e+01 1nls b.29.1.1 23928 1lfpA 249 1.04e+01 e.39.1.1 73885 1lcyA 325 1.04e+01 b.36.1.4,b.47.1.1 73834,73835 1xtzA 264 1.04e+01 1q7fA 286 1.04e+01 b.68.9.1 96036 1vi4A 174 1.04e+01 c.8.7.1 100731 2ewcA 126 1.04e+01 1vhsA 175 1.05e+01 d.108.1.1 100698 2ftrA 108 1.05e+01 1aohA 147 1.05e+01 1aohA b.2.2.2 22401 1vg0A 650 1.05e+01 c.3.1.3,d.16.1.6 108596,108597 1kt6A 183 1.05e+01 b.60.1.1 84466 1wvqA 167 1.06e+01 2g1uA 155 1.06e+01 1b2pA 119 1.07e+01 1b2pA b.78.1.1 27998 1vlbA 907 1.07e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1at0 145 1.07e+01 1at0 b.86.1.1 28374 1z02A 446 1.07e+01 1gotB 340 1.08e+01 1tbgA b.69.4.1 27648 1cruA 454 1.08e+01 1c9uA b.68.2.1 27617 1agqA 135 1.08e+01 1agqA g.17.1.2 44789 1hg8A 349 1.09e+01 b.80.1.3 65830 1ewnA 219 1.12e+01 1bnkA b.46.1.2 25762 2aebA 322 1.12e+01 1lk5A 229 1.12e+01 c.124.1.4,d.58.40.1 73960,73961 1ywmA 200 1.13e+01 1vh5A 148 1.14e+01 d.38.1.5 100642 1n5nA 180 1.14e+01 d.167.1.1 85336 1zpsA 138 1.15e+01 1wmhA 89 1.15e+01 1wn5A 130 1.15e+01 1oapA 109 1.15e+01 d.79.7.1 92706 1jmxB 349 1.15e+01 b.69.2.2 66906 1yt3A 375 1.16e+01 1qsmA 152 1.16e+01 1qsmA d.108.1.1 40808 1euhA 475 1.16e+01 1euhA c.82.1.1 35369 2gdnA 267 1.16e+01 1xd5A 112 1.16e+01 2bf5A 98 1.16e+01 1hw7A 255 1.18e+01 1i7fA d.193.1.1 61297 1ddwA 120 1.18e+01 1evhA b.55.1.4 27001 1prxA 224 1.19e+01 1prxA c.47.1.10 33076 1vjqA 79 1.20e+01 k.43.1.1 100830 1cjxA 357 1.20e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1z52A 470 1.20e+01 1ye8A 178 1.21e+01 1x0pA 143 1.21e+01 2oatA 439 1.24e+01 2dkb c.67.1.4 34452 1w44A 331 1.24e+01 1n71A 180 1.26e+01 d.108.1.1 85370 2bitX 165 1.26e+01 1gxuA 91 1.26e+01 d.58.10.1 76378 2cviA 83 1.26e+01 1f7lA 121 1.27e+01 1f7lA d.150.1.2 59666 1lq9A 112 1.27e+01 d.58.4.3 78129 1yndA 165 1.27e+01 2f69A 261 1.28e+01 1e5pA 151 1.29e+01 1bj7 b.60.1.1 59272 1vpbA 451 1.30e+01 2b95A 106 1.30e+01 2bc4A 211 1.30e+01 1uscA 178 1.31e+01 b.45.1.2 99860 1rylA 167 1.33e+01 d.276.1.1 105124 2c2aA 258 1.33e+01 1sqsA 242 1.33e+01 c.23.5.5 98968 1iqrA 420 1.34e+01 a.99.1.1,c.28.1.1 66275,66276 1s5jA 847 1.35e+01 1pii 452 1.35e+01 1pii c.1.2.4,c.1.2.4 28559,28563 2a8jA 420 1.36e+01 1xe7A 203 1.36e+01 2bv5A 282 1.36e+01 2bkrA 212 1.37e+01 1b4bA 71 1.37e+01 1b4aA d.74.2.1 39718 1kqfA 1015 1.38e+01 b.52.2.2,c.81.1.1 72871,72872 1uesA 191 1.38e+01 a.2.11.1,d.44.1.1 107798,107799 2fb5A 205 1.39e+01 1mhnA 59 1.42e+01 b.34.9.1 84964 2cw5A 255 1.42e+01 2bc4B 211 1.43e+01 2gkeA 274 1.43e+01 1qmeA 702 1.43e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 2fnuA 375 1.43e+01 1gppA 237 1.45e+01 b.86.1.2 76262 1pbyB 337 1.45e+01 b.69.2.2 94422 1wg8A 285 1.45e+01 1gjwA 637 1.45e+01 b.71.1.1,c.1.8.1 60582,60583 1rg9A 383 1.46e+01 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 1f1uA 323 1.46e+01 d.32.1.3,d.32.1.3 83200,83201 1tfzA 424 1.46e+01 d.32.1.3,d.32.1.3 106886,106887 1kngA 156 1.47e+01 c.47.1.10 72777 1z0nA 96 1.48e+01 1v0wA 506 1.49e+01 d.136.1.2,d.136.1.2 108220,108221 1qauA 112 1.49e+01 1qauA b.36.1.1 24779 2b0jA 358 1.50e+01 1xg4A 295 1.50e+01 1p4kA 295 1.51e+01 d.153.1.5 87772 1m4jA 142 1.51e+01 d.109.1.2 78602 1oa4A 222 1.52e+01 b.29.1.11 86731 1k3iA 656 1.53e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1rg8A 146 1.53e+01 1eluA 390 1.54e+01 1elqA c.67.1.3 34434 1qd9A 124 1.54e+01 1qu9A d.79.1.1 39758 1r3dA 264 1.54e+01 1wdjA 187 1.57e+01 2f46A 156 1.58e+01 1u9tA 354 1.58e+01 1bxoA 323 1.58e+01 2er7E b.50.1.2 26805 1p2hA 571 1.59e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1r5mA 425 1.59e+01 2fy7A 287 1.60e+01 2anuA 255 1.61e+01 1mqeA 207 1.62e+01 d.113.1.1 91394 1xfkA 336 1.65e+01 2bgcA 238 1.66e+01 2axoA 270 1.66e+01 1e4fT 419 1.66e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1o59A 355 1.67e+01 b.18.1.22,b.18.1.22 92495,92496 1y0eA 223 1.67e+01 1u6eA 335 1.68e+01 1kllA 130 1.70e+01 d.32.1.2 72720 1qipA 183 1.70e+01 1qipA d.32.1.1 38470 1e2wA 251 1.70e+01 1hcz 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