# List of top-scoring protein chains for t06-100-30-bys-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 1u9aA 160 1.20e-01 1u9aA d.20.1.1 38333 2grrA 161 1.89e-01 1xqaA 113 2.49e-01 1swvA 267 3.58e-01 1yirA 408 6.01e-01 1yf2A 425 8.43e-01 1gd8A 118 1.26e+00 d.188.1.1 60445 1s1qA 145 1.33e+00 d.20.1.2 98351 1z8uA 102 1.68e+00 1h2kA 349 1.74e+00 b.82.2.6 76572 1nvvS 481 1.86e+00 a.117.1.1 86279 1sziA 247 2.26e+00 a.24.23.1 106159 1a8y 367 2.33e+00 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1exrA 148 2.42e+00 1cll a.39.1.5 17299 2a3qA 170 2.42e+00 1nepA 130 2.51e+00 b.1.18.7 80440 1v54E 109 3.34e+00 a.118.11.1 100326 1ggzA 148 3.48e+00 a.39.1.5 70176 2fi9A 128 3.68e+00 1wxcB 134 3.92e+00 1w6sB 74 4.12e+00 2ahqA 76 4.38e+00 1jy2O 56 4.58e+00 h.1.8.1 67441 1yf9A 171 4.68e+00 1jsdA 319 4.79e+00 b.19.1.2 63258 1h6dA 433 5.18e+00 c.2.1.3,d.81.1.5 65656,65657 1musA 477 5.28e+00 c.55.3.4 79494 2f3yA 148 5.37e+00 2cglA 489 5.40e+00 1qj4A 257 5.40e+00 1qj4A c.69.1.20 34796 1ov2A 99 5.85e+00 a.13.1.1 93580 2b20A 403 6.05e+00 1aj8A 371 6.12e+00 1aj8A a.103.1.1 18900 1twiA 434 6.15e+00 b.49.2.3,c.1.6.1 107399,107400 1k8rB 110 6.62e+00 d.15.1.5 72180 2aeuA 374 6.78e+00 1z6uA 150 7.10e+00 1zy9A 564 7.57e+00 1z5bA 469 7.73e+00 1yrcA 414 8.25e+00 1k04A 162 8.60e+00 a.24.14.1 67904 1eqfA 280 8.86e+00 1eqfA a.29.2.1,a.29.2.1 16972,16973 2cr9A 139 9.03e+00 1uj8A 77 9.60e+00 2ap1A 327 9.68e+00 1qlwA 328 1.01e+01 1qlwA c.69.1.15 34722 1c7gA 456 1.03e+01 c.67.1.2 90415 1gu7A 364 1.05e+01 b.35.1.2,c.2.1.1 83321,83322 1sk4A 163 1.08e+01 d.118.1.1 105664 1zo0A 126 1.12e+01 1u2eA 289 1.13e+01 2fa8A 105 1.15e+01 2gdnA 267 1.23e+01 2h88C 140 1.24e+01 1akz 223 1.29e+01 3eugA c.18.1.1 31007 1zvaA 77 1.34e+01 1avsA 90 1.35e+01 1cll a.39.1.5 17226 1qksA 567 1.45e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1mijA 152 1.45e+01 a.4.1.1 79150 1lngA 87 1.46e+01 d.201.1.1 74045 1zhcA 76 1.50e+01 1v9mA 323 1.66e+01 f.40.1.1 100543 1kvkA 395 1.68e+01 d.14.1.5,d.58.26.3 73060,73061 2evaA 307 1.73e+01 1opjA 293 1.75e+01 d.144.1.7 87230 2cx1A 187 1.79e+01 8rucI 123 1.80e+01 1rboC d.73.1.1 39629 1a92A 50 1.84e+01 1a92A h.4.6.1 45791 1ufiA 64 1.86e+01 a.30.4.1 99336 1nrjA 158 1.87e+01 d.110.4.4 86124 2ccjA 205 1.87e+01 1vjyA 303 1.88e+01 d.144.1.7 108633 1wg8A 285 1.91e+01 1y44A 320 1.96e+01 1rgyA 360 1.97e+01 e.3.1.1 97456 1b7yA 350 2.02e+01 1pysA d.104.1.1 40776 2cohA 202 2.03e+01 2d81A 318 2.07e+01 2fp7A 54 2.07e+01 1kr4A 125 2.13e+01 d.58.5.2 72889 2f7fA 494 2.17e+01 2fbwC 141 2.18e+01 1qnrA 344 2.20e+01 1qnoA c.1.8.3 28834 1g4iA 123 2.22e+01 1poa a.133.1.2 60241 1jggA 60 2.23e+01 2hddA a.4.1.1 62950 1kveB 77 2.29e+01 1kveB 3nul 130 2.29e+01 3nul d.110.1.1 40891 1u19A 349 2.30e+01 1tdzA 272 2.33e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1sxrA 183 2.33e+01 d.118.1.1 106101 1i5pA 633 2.34e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1vgmA 378 2.38e+01 1z6oM 191 2.45e+01 1fseA 74 2.46e+01 1fseA a.4.6.2 60000 1m32A 366 2.49e+01 c.67.1.3 78508 1vls 146 2.52e+01 1vls a.24.2.1 16532 1yoeA 322 2.53e+01 1uuhA 159 2.62e+01 d.169.1.4 100008 1eg3A 261 2.63e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 2cunA 410 2.65e+01 1wcdJ 441 2.65e+01 1tkeA 224 2.65e+01 1hn4A 131 2.67e+01 a.133.1.2 65893 1n82A 331 2.69e+01 c.1.8.3 91703 1yvhA 329 2.73e+01 1wmhA 89 2.75e+01 1w9cA 321 2.75e+01 1td6A 306 2.76e+01 1hcd 118 2.82e+01 1hce b.42.5.2 25624 2f2lA 167 2.88e+01 1yt3A 375 2.88e+01 1l6pA 125 2.92e+01 b.1.17.1 73626 1z08A 170 2.98e+01 1xawA 140 2.99e+01 1x3lA 440 3.00e+01 1uwcA 261 3.12e+01 c.69.1.17 100101 1gwiA 411 3.13e+01 a.104.1.1 76364 1oxwA 373 3.13e+01 c.19.1.3 87539 1r85A 379 3.14e+01 c.1.8.3 104839 1zwwA 256 3.14e+01 1q1vA 70 3.14e+01 a.159.4.1 104479 2bjkA 516 3.15e+01 1eyvA 156 3.16e+01 1eyvA a.79.1.1 18446 1gqeA 365 3.21e+01 e.38.1.1 70351 2dfkA 402 3.31e+01 1twuA 139 3.43e+01 d.32.1.8 107413 2bc4A 211 3.52e+01 2ga1A 106 3.58e+01 1gvfA 286 3.60e+01 c.1.10.2 70599 1xg8A 111 3.63e+01 1k1fA 72 3.63e+01 a.147.1.1 68007 1hn0A 1021 3.67e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1dj7A 117 3.69e+01 1dj7A g.36.1.1 44997 2g0uA 92 3.72e+01 1uzbA 516 3.79e+01 c.82.1.1 100220 1t44G 147 3.85e+01 d.109.1.1 106395 1p8xA 344 3.87e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1ug0A 88 3.93e+01 a.217.1.1 107822 1t7lA 766 3.99e+01 2ddrA 306 4.01e+01 2fupA 168 4.05e+01 1go4E 100 4.07e+01 h.1.22.1 70296 1wx1A 335 4.07e+01 2a5lA 200 4.15e+01 1m12A 84 4.16e+01 a.64.1.1 84745 1w2xA 758 4.19e+01 c.14.1.4,c.14.1.4 109134,109135 1nrjB 218 4.22e+01 c.37.1.8 86125 1e9rA 437 4.22e+01 c.37.1.11 64827 1pw4A 451 4.33e+01 f.38.1.1 95198 1h1yA 228 4.35e+01 c.1.2.2 76506 1z2lA 423 4.37e+01 1d7mA 101 4.39e+01 1d7mA h.1.10.1 45628 1vknA 351 4.48e+01 c.2.1.3,d.81.1.1 108676,108677 1r0pA 312 4.48e+01 d.144.1.7 96734 1g8iA 190 4.51e+01 1rec a.39.1.5 60363 1r1qA 100 4.54e+01 d.93.1.1 104763 1l6kA 77 4.55e+01 h.6.1.1 77724 4ubpA 101 4.56e+01 1ubpA d.8.1.1 37352 1rdfA 267 4.58e+01 c.108.1.3 104884 1zczA 464 4.59e+01 1s9kD 53 4.59e+01 2et1A 201 4.61e+01 2aegA 268 4.63e+01 1zvkA 358 4.64e+01 1uliB 187 4.68e+01 d.17.4.4 107923 1wvqA 167 4.68e+01 2b8nA 429 4.74e+01 1cg5B 141 4.75e+01 1cg5B a.1.1.2 15585 1jnmA 62 4.77e+01 h.1.3.1 84181 1p5fA 189 4.78e+01 c.23.16.2 94142 1xttA 216 4.79e+01 1fi2A 201 4.84e+01 1fi2A b.82.1.2 59845 2bwfA 77 4.85e+01 2db9A 149 4.87e+01 2fh1A 344 4.89e+01 1uqvA 85 4.90e+01 a.60.1.2 99798 1p1mA 406 4.90e+01 b.92.1.4,c.1.9.9 87696,87697 1s0yB 71 4.92e+01 d.80.1.1 98315 1k4nA 192 4.92e+01 d.32.1.5 72059 1x9iA 302 4.96e+01 1lrzA 426 4.99e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1otsA 465 5.02e+01 f.20.1.1 87415 2f5xA 312 5.05e+01 1ww9A 392 5.08e+01 1zb1A 392 5.13e+01 1n2zA 245 5.14e+01 c.92.2.2 79865 1zjjA 263 5.15e+01 1gtvA 214 5.16e+01 c.37.1.1 70537 1p5zB 263 5.16e+01 c.37.1.1 87815 1zxkA 98 5.22e+01 2sqcA 631 5.22e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1ckmA 330 5.25e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1ujwB 135 5.27e+01 h.4.9.1 99472 1st9A 143 5.36e+01 c.47.1.10 98987 2gsfA 373 5.36e+01 1z21A 112 5.36e+01 2bh8A 101 5.36e+01 1k24A 253 5.38e+01 f.4.4.2 72002 1wddS 128 5.43e+01 1lvfA 110 5.44e+01 a.47.2.1 74280 1w77A 228 5.44e+01 1ydmA 187 5.45e+01 1cjxA 357 5.45e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 2g7uA 257 5.48e+01 1zgdA 312 5.53e+01 1dbfA 127 5.57e+01 2chsA d.79.1.2 39761 1l8dA 112 5.65e+01 h.4.12.1 73687 1ois 223 5.72e+01 1a36A e.15.1.1 43267 1z0wA 207 5.75e+01 1rxdA 159 5.80e+01 1qhxA 178 5.83e+01 1qhsA c.37.1.3 31936 1qazA 351 5.84e+01 1qazA a.102.3.1 18848 1t1gA 364 5.95e+01 c.41.1.2 106246 2lhb 149 5.98e+01 2fal a.1.1.2 15597 1vkwA 218 6.00e+01 d.90.1.2 108695 1jl5A 454 6.03e+01 c.10.2.6 66830 1nmeB 92 6.09e+01 1m3qA 317 6.14e+01 a.96.1.3,d.129.1.2 91184,91185 1xdfA 157 6.15e+01 2c71A 216 6.17e+01 1f2tA 149 6.17e+01 1f2tA c.37.1.12 32373 1vlaA 150 6.18e+01 d.227.1.2 108735 1s4kA 120 6.26e+01 a.35.1.6 105254 1jpzA 473 6.29e+01 a.104.1.1 67069 1bhe 376 6.31e+01 1bhe b.80.1.3 28030 2al6A 375 6.32e+01 1rlmA 271 6.37e+01 1yx1A 264 6.37e+01 1lba 146 6.44e+01 1lba d.118.1.1 41062 1npeA 267 6.44e+01 b.68.5.1 92032 2feaA 236 6.44e+01 1w99A 558 6.48e+01 1h0hA 977 6.49e+01 b.52.2.2,c.81.1.1 76435,76436 2ffsA 157 6.62e+01 1uyrA 737 6.72e+01 c.14.1.4,c.14.1.4 100188,100189 1xqoA 256 6.72e+01 1kshA 186 6.76e+01 c.37.1.8 72914 1jflA 228 6.76e+01 c.78.2.1,c.78.2.1 71656,71657 1uv7A 110 6.86e+01 d.67.4.1 100040 1ail 73 6.89e+01 1ail a.16.1.1 16381 1uvqA 197 6.93e+01 b.1.1.2,d.19.1.1 100062,100063 1nbwA 607 6.95e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1o26A 232 6.96e+01 d.207.1.1 86566 2c5kT 95 7.03e+01 1yp5A 58 7.04e+01 1wqgA 185 7.06e+01 1tjlA 151 7.07e+01 a.2.14.1,g.39.1.13 107027,107028 1bs0A 384 7.08e+01 1bs0A c.67.1.4 34490 1d9cA 121 7.11e+01 1d9cA a.26.1.3 16901 1dekA 241 7.11e+01 1dekA c.37.1.1 31842 1q02A 52 7.13e+01 a.5.2.1 95490 1zkjA 359 7.14e+01 1wgxA 73 7.15e+01 1xubA 298 7.19e+01 2fjlA 150 7.24e+01 1b3uA 588 7.30e+01 1b3uA a.118.1.2 19135 1ecmA 109 7.30e+01 1ecmA a.130.1.1 19492 1ajsA 412 7.33e+01 1ajsA c.67.1.1 34276 1vmeA 410 7.34e+01 c.23.5.1,d.157.1.3 108893,108894 1wijA 140 7.39e+01 1vkkA 154 7.43e+01 d.109.1.2 108669 1yzmA 51 7.45e+01 2fnjB 118 7.53e+01 2bidA 197 7.59e+01 2bidA f.1.4.1 43398 2afdA 88 7.59e+01 1r4pB 70 7.60e+01 b.40.2.1 97026 1sg7A 96 7.61e+01 1euhA 475 7.66e+01 1euhA c.82.1.1 35369 1bf6A 291 7.70e+01 1pscA c.1.9.3 29065 2acvA 463 7.71e+01 1rypA 243 7.73e+01 1pmaA d.153.1.4 41932 1w68A 390 7.74e+01 a.25.1.2 109216 1na6A 404 7.78e+01 b.142.1.1,c.52.1.22 91748,91749 2f46A 156 7.81e+01 1oohA 126 7.81e+01 a.39.2.1 93383 1gmjA 84 7.84e+01 h.4.8.1 65310 1dofA 403 7.85e+01 1c3cA a.127.1.1 19429 1wk2A 121 7.87e+01 1iirA 415 7.92e+01 1iirA c.87.1.5 62453 1yg2A 179 8.03e+01 1eu8A 409 8.03e+01 1eu8A c.94.1.1 59502 1xuqA 212 8.03e+01 1w79A 489 8.13e+01 1ojrA 274 8.14e+01 c.74.1.1 93147 1zd9A 188 8.17e+01 1cruA 454 8.18e+01 1c9uA b.68.2.1 27617 1kafA 108 8.26e+01 d.199.1.1 68372 1jbeA 128 8.32e+01 3chy c.23.1.1 62845 1ufoA 238 8.35e+01 c.69.1.27 99344 1j2mA 99 8.41e+01 a.165.1.1 84018 1z1lA 345 8.41e+01 1ydwA 362 8.45e+01 1p0kA 349 8.46e+01 c.1.4.1 87648 2gwgA 350 8.46e+01 1q5yA 85 8.48e+01 d.58.18.4 95950 1n4xH 120 8.49e+01 b.1.1.1 85324 1o5kA 306 8.55e+01 c.1.10.1 92504 1mkiA 330 8.60e+01 e.3.1.2 84994 2d29A 387 8.62e+01 1g8kA 825 8.66e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1rfyA 102 8.68e+01 1tazA 365 8.68e+01 a.211.1.2 106734 1z0kB 69 8.70e+01 2d4rA 147 8.70e+01 2f9sA 151 8.71e+01 1mngA 203 8.74e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 2cxcA 144 8.77e+01 1wu4A 396 8.78e+01 1r8iA 213 8.79e+01 a.8.7.1 97239 2avdA 219 8.94e+01