# List of top-scoring protein chains for T0448.t04-w0.5 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.soe.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 1jrlA 190 1.21e-18 c.23.10.5 84205 1ivnA 190 1.25e-18 c.23.10.5 83719 1j00A 190 3.37e-18 c.23.10.5 83854 1yzfA 195 3.41e-18 c.23.10.5 124275 3bzwA 274 2.70e-15 2hsjA 214 2.89e-15 1es9A 232 4.29e-14 1wab c.23.10.3 31340 1wabA 232 4.41e-14 c.23.10.3 31341 1bwrA 233 8.34e-14 c.23.10.3 31344 1bwqA 233 9.91e-14 c.23.10.3 31343 1bwpA 233 1.05e-13 c.23.10.3 31342 1k7cA 233 1.24e-13 c.23.10.4 68267 2q0qA 216 1.42e-13 1vjgA 218 1.48e-13 c.23.10.6 100810 2vptA 215 2.16e-13 1fxwF 229 2.18e-13 c.23.10.3 65058 2q0sA 216 3.92e-13 2o14A 375 4.19e-12 1escA 306 1.01e-09 c.23.10.1 31334 1zmbA 290 8.21e-03 c.23.10.7 125355 2apjA 260 7.48e-02 c.23.10.7 127128 3bmaA 407 5.15e-01 1vbuA 328 9.53e-01 c.1.8.3 119963 2jahA 247 9.80e-01 2g77B 198 2.35e+00 2ohgA 264 3.83e+00 1wcgA 464 3.87e+00 c.1.8.4 120888 1tvnA 293 4.13e+00 c.1.8.3 119360 2gqrA 237 4.14e+00 2ohoA 273 4.74e+00 1z06A 189 5.97e+00 c.37.1.8 124301 2ajrA 331 6.62e+00 c.72.1.1 126892 2yvuA 186 7.72e+00 2hf9A 226 8.35e+00 1akoA 268 9.11e+00 d.151.1.1 41779 1hkhA 279 9.25e+00 c.69.1.12 90628 1txgA 335 9.47e+00 a.100.1.6,c.2.1.6 112775,112776 2e3zA 465 1.13e+01 3c4aA 381 1.13e+01 2ei9A 240 1.17e+01 1oixA 191 1.19e+01 c.37.1.8 118710 1xkqA 280 1.23e+01 c.2.1.2 115417 1b5tA 275 1.25e+01 1b5tA c.1.23.1 29676 1c8m2 252 1.27e+01 1aym2 2hdyA 440 1.28e+01 1aym2 261 1.29e+01 1aym2 1v6yA 324 1.30e+01 c.1.8.3 108401 1fx0A 507 1.36e+01 a.69.1.1,b.49.1.1,c.37.1.11 60080,60081,60082 1d3e2 252 1.42e+01 1ur5A 309 1.42e+01 c.2.1.5,d.162.1.1 99807,99808 1uxgA 309 1.43e+01 c.2.1.5,d.162.1.1 108100,108101 1uxjA 309 1.43e+01 c.2.1.5,d.162.1.1 108112,108113 1uxkA 309 1.44e+01 c.2.1.5,d.162.1.1 108116,108117 2q3hA 201 1.44e+01 1oivA 191 1.54e+01 c.37.1.8 93076 1v9nA 360 1.60e+01 2fmnA 304 1.64e+01 2fcrA 173 1.67e+01 c.23.5.1 31151 2bmwA 304 1.67e+01 b.43.4.2,c.25.1.1 128815,128816 2cksA 306 1.75e+01 2ieyA 195 1.78e+01 1yzkA 184 1.78e+01 c.37.1.8 124281 2z5lA 511 1.78e+01 2dylA 318 1.78e+01 1zp4A 304 1.86e+01 2e7yA 280 1.90e+01 2ckrA 306 1.95e+01 2vccA 891 1.95e+01 1cov2 263 1.97e+01 1aym2 1ag9A 175 1.99e+01 1rcf c.23.5.1 31178 2if0A 200 2.01e+01 2r7aA 256 2.04e+01 1zp3A 304 2.08e+01 2gzdA 173 2.13e+01 c.37.1.8 135901 2o6iA 480 2.17e+01 a.211.1.1 138920 2e4gA 550 2.21e+01 1bmdA 327 2.36e+01 1bmdA c.2.1.5,d.162.1.1 30139,42106 1b5pA 385 2.38e+01 c.67.1.1 90403 5bj3A 385 2.39e+01 c.67.1.1 100871 2eqbA 174 2.43e+01 c.37.1.8 132286 2hv8A 172 2.45e+01 c.37.1.8 136794 1b5oA 385 2.49e+01 c.67.1.1 90401 1wzeA 327 2.53e+01 c.2.1.5,d.162.1.1 121495,121496 5bj4A 385 2.53e+01 c.67.1.1 100875 1j0aA 325 2.54e+01 c.79.1.1 83871 2iezA 220 2.58e+01 1bjwA 382 2.59e+01 1bjwA c.67.1.1 34349 1sm4A 296 2.61e+01 b.43.4.2,c.25.1.1 98913,98914 1bkgA 385 2.63e+01 1bjwA c.67.1.1 34351 2g3iA 313 2.63e+01 2f7sA 217 2.69e+01 c.37.1.8 133104 2cstA 411 2.69e+01 1ajsA c.67.1.1 34273 1yxaA 398 2.71e+01 2f9lA 199 2.76e+01 c.37.1.8 133166 2yyoA 171 2.79e+01 2d7cA 167 2.79e+01 c.37.1.8 131317 1i4eB 258 2.81e+01 1pauA c.17.1.1 61686 1bt3A 345 2.86e+01 1bt3A a.86.1.2 18507 1bdmA 327 2.92e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1j6uA 469 2.97e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 2c2zB 106 2.99e+01 1aatA 411 3.07e+01 c.67.1.1 34275 1gwnA 205 3.15e+01 c.37.1.8 70672 1s8nA 205 3.28e+01 c.23.1.1 105374 1y7tA 327 3.30e+01 c.2.1.5,d.162.1.1 122718,122719 1vrxA 358 3.32e+01 c.1.8.3 120486 1szpA 321 3.33e+01 a.60.4.1,c.37.1.11 106176,106177 1ybfA 268 3.37e+01 c.56.2.1 116609 1dj2A 443 3.41e+01 1adeA c.37.1.10 32237 2j0vA 212 3.46e+01 1r1a2 263 3.48e+01 1aym2 2ocyC 170 3.48e+01 c.37.1.8 139023 2dgaA 565 3.52e+01 1x4mA 94 3.54e+01 d.51.1.1 121695 1g16A 170 3.58e+01 1ctqA c.37.1.8 32022 1u0oC 208 3.58e+01 2onkC 284 3.59e+01 1vcaA 202 3.63e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1qtnB 95 3.64e+01 1pauB 2otnA 308 3.69e+01 1vscA 196 3.78e+01 1vcaA b.1.1.3,b.1.1.4 21651,21687 2atxA 194 3.80e+01 c.37.1.8 127315 3c0iA 351 3.83e+01 2pbrA 195 3.85e+01 2q02A 272 3.87e+01 1pvc2 271 3.89e+01 1aym2 2z43A 324 3.90e+01 2j6eL 234 3.92e+01 2aamA 309 3.96e+01 c.1.8.15 126489 1dqdH 222 4.01e+01 1igtB b.1.1.1,b.1.1.2 20441,21407 1qduB 88 4.09e+01 1pauB 1f9eB 89 4.11e+01 1pauB 2i2wA 212 4.12e+01 1x4tA 92 4.13e+01 a.2.15.1 121698 1ij9A 196 4.13e+01 1vcaA b.1.1.3,b.1.1.4 62482,62483 1e6uA 321 4.16e+01 1bsvA c.2.1.2 29805 2j62A 594 4.19e+01 2cbiA 594 4.19e+01 a.246.1.1,c.1.8.10,d.92.2.3 130179,130180,130181 1uuyA 167 4.20e+01 c.57.1.1 108059 1xfoA 357 4.24e+01 b.49.3.1,c.56.5.4 115265,115266 1uuqA 440 4.25e+01 c.1.8.3 100015 1ofuA 320 4.29e+01 c.32.1.1,d.79.2.1 86972,86973 1tp9A 162 4.35e+01 c.47.1.10 119306 2ntyC 180 4.37e+01 1egzA 291 4.46e+01 7a3hA c.1.8.3 28828 1jjfA 268 4.48e+01 c.69.1.2 66765 1ad1A 266 4.50e+01 1aj2 c.1.21.1 29668 1y0yA 353 4.51e+01 b.49.3.1,c.56.5.4 122514,122515 1w1oA 534 4.55e+01 d.58.32.4,d.145.1.1 109071,109072 1eq2A 310 4.59e+01 1eq2A c.2.1.2 29814 1zvoA 214 4.64e+01 b.1.1.1,b.1.1.2 125710,125711 1bsvA 321 4.67e+01 1bsvA c.2.1.2 29809 2iypA 473 4.67e+01 2iyoA 472 4.67e+01 1o8oA 167 4.68e+01 c.57.1.1 92646 2iz1A 474 4.69e+01 2aseA 178 4.72e+01 c.37.1.8 127252 1cf4A 184 4.78e+01 1eesA c.37.1.8 32075 1jt2A 268 4.79e+01 c.69.1.2 71858 2gcbA 428 4.82e+01 c.59.1.2,c.72.2.2 134975,134976 1eceA 358 4.84e+01 1eceA c.1.8.3 28813 2pajA 492 4.86e+01 1uizA 115 4.87e+01 d.80.1.3 107884 2o2iA 300 4.93e+01 1bqcA 302 5.04e+01 1bqcA c.1.8.3 28831 1gzsA 180 5.07e+01 c.37.1.8 76424 1f0kA 364 5.08e+01 1f0kA c.87.1.2 35465 2e5fA 325 5.13e+01 1jm4B 118 5.15e+01 a.29.2.1 71746 1eesA 178 5.18e+01 1eesA c.37.1.8 32073 2f00A 491 5.21e+01 1ceeA 179 5.23e+01 1ctqA c.37.1.8 32072 1o8qA 167 5.24e+01 c.57.1.1 86669 1gmlA 178 5.25e+01 c.8.5.2 70273 1lnzA 342 5.26e+01 b.117.1.1,c.37.1.8 78112,78113 1jtiA 385 5.26e+01 e.1.1.1 63280 1qgaA 308 5.27e+01 1fnc b.43.4.2,c.25.1.1 25637,31527 1am4D 177 5.29e+01 1ctqA c.37.1.8 32068 1nf3A 195 5.30e+01 c.37.1.8 85594 1rzfL 213 5.31e+01 b.1.1.1,b.1.1.2 98152,98153 1gt6A 269 5.32e+01 c.69.1.17 76342 2cg8A 270 5.38e+01 2gc6A 428 5.50e+01 c.59.1.2,c.72.2.2 134952,134953 1e7sA 321 5.51e+01 1bsvA c.2.1.2 29806 4pbgA 468 5.55e+01 1e70M c.1.8.4 28949 2c2xA 281 5.56e+01 1qg0A 308 5.59e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 2q3uA 383 5.59e+01 d.126.1.6 139809 1u1iA 392 5.59e+01 c.2.1.3,d.81.1.3 107582,107583 1xhlA 297 5.63e+01 c.2.1.2 109591 1uhgA 385 5.64e+01 e.1.1.1 88491 2qvbA 297 5.65e+01 1fpn2 261 5.67e+01 1aym2 1uuxA 163 5.69e+01 c.57.1.1 108058 1w1wA 430 5.72e+01 c.37.1.12 114080 1doaA 191 5.80e+01 1ctqA c.37.1.8 32065 1ydyA 356 5.87e+01 c.1.18.3 123006 1tibA 269 5.92e+01 c.69.1.17 34738 1ki1A 188 5.93e+01 c.37.1.8 72496 1tjyA 316 5.95e+01 c.93.1.1 107062 2gc5A 428 5.96e+01 c.59.1.2,c.72.2.2 134950,134951 1m94A 93 6.01e+01 d.15.1.1 78865 1en2A 89 6.01e+01 1hev g.3.1.1,g.3.1.1 44048,44049 1qfzA 308 6.02e+01 1fnc b.43.4.2,c.25.1.1 25633,31523 2dudA 133 6.05e+01 b.40.4.3 131749 2qrzA 189 6.08e+01 3ullA 132 6.09e+01 3ullA b.40.4.3 25282 2gcaA 428 6.14e+01 c.59.1.2,c.72.2.2 134973,134974 2jfqA 286 6.17e+01 1i1qA 520 6.17e+01 1qdlA d.161.1.1 61543 1eavA 162 6.24e+01 c.57.1.1 64877 1an0A 190 6.29e+01 1ctqA c.37.1.8 32066 1ajeA 194 6.31e+01 c.37.1.8 32071 1bwsA 321 6.32e+01 1bsvA c.2.1.2 29812 1eisA 89 6.39e+01 1hev g.3.1.1,g.3.1.1 44052,44053 2cb0A 333 6.39e+01 1edgA 380 6.39e+01 c.1.8.3 28807 2psfA 310 6.40e+01 1y8tA 324 6.40e+01 b.36.1.4,b.47.1.1 122763,122764 2dfkB 194 6.41e+01 c.37.1.8 131473 2gdgA 114 6.43e+01 d.80.1.3 135015 2pshA 319 6.45e+01 2odbA 192 6.46e+01 2ngrA 191 6.55e+01 1ctqA c.37.1.8 32061 1kvsA 338 6.56e+01 c.2.1.2 29799 1mffA 114 6.62e+01 1dptA d.80.1.3 39859 1he1C 176 6.65e+01 1ctqA c.37.1.8 32003 2dkaA 544 6.66e+01 2fjuA 178 6.67e+01 c.37.1.8 133622 2z5dA 179 6.69e+01 2nz8A 177 6.71e+01 c.37.1.8 138837 1ur1A 378 6.75e+01 c.1.8.3 99804 1udbA 338 6.75e+01 c.2.1.2 29787 1udcA 338 6.77e+01 c.2.1.2 29785 1tycA 319 6.77e+01 c.26.1.1 31568 1kvtA 338 6.78e+01 c.2.1.2 29798 1ltzA 297 6.79e+01 d.178.1.1 74254 1kvrA 338 6.80e+01 c.2.1.2 29793 1ehdA 89 6.81e+01 1hev g.3.1.1,g.3.1.1 44050,44051 1ovaA 385 6.81e+01 1ovaA e.1.1.1 42619 2q8xA 331 6.83e+01 1kvqA 338 6.86e+01 c.2.1.2 29797 1kvuA 338 6.92e+01 c.2.1.2 29794 1a9yA 338 6.95e+01 c.2.1.2 29789 1o8nA 167 6.96e+01 c.57.1.1 86665 1hd2A 161 6.97e+01 c.47.1.10 60962 2olsA 794 7.05e+01 1a9zA 338 7.06e+01 c.2.1.2 29795 1l2tA 235 7.13e+01 c.37.1.12 73514 1a4rA 191 7.14e+01 1ctqA c.37.1.8 32063 2o8nA 265 7.16e+01 1t2eA 322 7.20e+01 c.2.1.5,d.162.1.1 99086,99087 1oopB 261 7.21e+01 1n82A 331 7.24e+01 c.1.8.3 91703 1ihoA 283 7.26e+01 1ihoA c.26.1.4 62390 1oc3A 172 7.28e+01 c.47.1.10 92767 1tybE 319 7.38e+01 2ts1 c.26.1.1 31569 3bfkA 181 7.38e+01 1lrkA 338 7.43e+01 c.2.1.2 74225 2psdA 318 7.45e+01 1i4dD 192 7.46e+01 1ctqA c.37.1.8 61684 1nm3A 241 7.47e+01 c.47.1.1,c.47.1.10 85866,85867 2psjA 319 7.52e+01 1q9yA 906 7.54e+01 c.55.3.5,e.8.1.1 96336,96337 2v9tB 220 7.57e+01 4bjlA 216 7.58e+01 8fabA b.1.1.1,b.1.1.2 20528,21464 2infA 359 7.58e+01 1e5nA 348 7.59e+01 1taxA c.1.8.3 28904 1pcxA 810 7.60e+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 1xysA 347 7.62e+01 c.1.8.3 28903 1tmyA 120 7.65e+01 c.23.1.1 31083 1ujoA 144 7.68e+01 a.40.1.1 107900 2z02A 242 7.68e+01 1bjmA 216 7.69e+01 8fabA b.1.1.1,b.1.1.2 20524,21460 3bwdD 182 7.74e+01 1mh1A 186 7.79e+01 c.37.1.8 32002 1tydE 319 7.83e+01 2ts1 c.26.1.1 31567 1egjL 215 7.89e+01 32c2A b.1.1.1,b.1.1.2 20500,21456 2ekcA 262 7.90e+01 1u83A 276 7.92e+01 c.1.27.1 107732