# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1wqaA 455 2.54e-01 1pjcA 361 1.81e+00 1sayA c.2.1.4,c.23.12.2 30101,31361 1eudA 311 2.13e+00 2scuA c.2.1.8,c.23.4.1 30312,31140 1w1wA 430 3.22e+00 1i5gA 144 3.45e+00 1ewxA c.47.1.10 61784 1lxjA 104 3.52e+00 d.58.48.1 84736 2fcr 173 3.74e+00 1rcf c.23.5.1 31151 1yq7A 374 3.92e+00 1yv5A 374 4.28e+00 1xn7A 78 4.29e+00 2arhA 203 5.26e+00 1wuiS 267 5.29e+00 1a6q 382 5.56e+00 1a6q a.159.1.1,d.219.1.1 75801,75802 1ea9C 583 5.82e+00 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 1fjgP 88 5.96e+00 1emwA d.27.1.1 38444 1h2rS 267 6.53e+00 2frvA e.19.1.1 43310 1wy0A 342 6.63e+00 2bj7A 138 6.71e+00 1lddA 74 7.07e+00 a.4.5.34 73841 1ubkS 267 7.23e+00 e.19.1.1 88423 2f94F 350 8.11e+00 1e3dA 266 8.55e+00 2frvA e.19.1.1 59188 1i3cA 149 9.95e+00 c.23.1.1 71112 1nvmB 312 9.99e+00 c.2.1.3,d.81.1.1 86251,86252 1klo 162 1.01e+01 1klo g.3.11.2,g.3.11.2,g.3.11.2 44326,44327,44328 1elvA 333 1.08e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1ju2A 536 1.10e+01 c.3.1.2,d.16.1.1 77169,77170 1k2fA 190 1.10e+01 b.8.1.2 68054 1giqA 413 1.11e+01 d.166.1.1,d.166.1.1 76224,76225 1upaA 573 1.12e+01 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 1vid 221 1.16e+01 1vid c.66.1.1 34178 1hu4A 288 1.19e+01 1hu4A 1bazA 53 1.20e+01 1bazA a.43.1.1 17421 1n5dA 288 1.22e+01 c.2.1.2 80030 1gteA 1025 1.23e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1hbq 183 1.29e+01 1aqb b.60.1.1 27078 1h1dA 221 1.30e+01 c.66.1.1 83452 1aqb 183 1.30e+01 1aqb b.60.1.1 27084 1h7wA 1025 1.31e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1jhfA 202 1.31e+01 a.4.5.2,b.87.1.1 63057,63058 1o51A 114 1.32e+01 d.58.5.4 92480 1bjt 793 1.39e+01 1bjt e.11.1.1 43249 2b99A 156 1.40e+01 1pswA 348 1.41e+01 c.87.1.7 88287 1xknA 355 1.47e+01 1kt6A 183 1.47e+01 b.60.1.1 84466 1xq6A 253 1.50e+01 1vi9A 299 1.69e+01 c.72.1.5 100750 1r88A 280 1.74e+01 c.69.1.3 97219 2cpgA 45 1.81e+01 2cpgA a.43.1.3 17455 1oj7A 408 1.81e+01 e.22.1.2 103971 1uby 367 1.91e+01 1uby a.128.1.1 19435 1ukuA 102 1.91e+01 d.58.5.2 99533 1srvA 145 1.91e+01 1derA c.8.5.1 30817 1p4xA 250 1.92e+01 a.4.5.28,a.4.5.28 87784,87785 1xc3A 302 1.99e+01 1ynfA 458 2.09e+01 1ru3A 732 2.16e+01 e.26.1.3 97835 1uv7A 110 2.21e+01 d.67.4.1 100040 2aeuA 374 2.23e+01 1t6cA 315 2.25e+01 c.55.1.8,c.55.1.8 106558,106559 1oe4A 247 2.25e+01 c.18.1.3 86895 1avqA 228 2.25e+01 1avqA c.52.1.13 33326 1othA 321 2.33e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1xt5A 135 2.36e+01 1aqzA 149 2.37e+01 1aqzA d.1.1.3 36238 1xx6A 191 2.37e+01 1pvvA 315 2.37e+01 c.78.1.1,c.78.1.1 95190,95191 2cbiA 594 2.37e+01 1f35A 162 2.45e+01 1f35A b.94.1.1 59628 1rfmA 344 2.48e+01 c.122.1.1 97385 1yemA 179 2.52e+01 1xt8A 292 2.58e+01 1vj0A 380 2.63e+01 b.35.1.2,c.2.1.1 100786,100787 1auiB 169 2.69e+01 1auiB a.39.1.5 17325 1pjqA 457 2.72e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1k3xA 262 2.80e+01 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 1z3eB 73 2.94e+01 1ji7A 89 2.99e+01 a.60.1.1 71682 1noyA 388 3.00e+01 1clqA c.55.3.5 33713 1vjeA 166 3.11e+01 d.185.1.2 100807 1bkdS 439 3.13e+01 1bkdS a.117.1.1 19111 1yj7A 171 3.20e+01 1k4mA 213 3.23e+01 c.26.1.3 77258 2fq4A 192 3.28e+01 1lvaA 258 3.40e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1v7pC 200 3.44e+01 c.62.1.1 108408 2fu2A 102 3.45e+01 2cuaA 135 3.47e+01 2cuaA b.6.1.2 23039 1xyzA 347 3.57e+01 1taxA c.1.8.3 28804 1yseA 141 3.61e+01 1innA 166 3.67e+01 1j98A d.185.1.2 62608 1ni9A 338 3.74e+01 e.7.1.2 85739 1uf2A 1019 3.78e+01 e.28.1.2 99289 1td2A 287 3.79e+01 c.72.1.5 106765 2bjcA 62 3.80e+01 1qwrA 319 3.81e+01 b.82.1.3 96491 1fsz 372 3.82e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 6mhtA 327 3.82e+01 6mhtA c.66.1.26 34226 1tw4A 125 3.84e+01 1gvnA 90 3.86e+01 a.8.2.1 76353 1yovA 537 3.91e+01 1wdaA 670 3.96e+01 b.2.9.1,b.6.1.6,d.126.1.5 109243,109244,109245 1babB 146 4.04e+01 1abwA a.1.1.2 15414 1k66A 149 4.05e+01 c.23.1.1 90941 2aeeA 211 4.09e+01 1ub9A 100 4.16e+01 a.4.5.28 99159 1rzsA 61 4.18e+01 a.35.1.2 105139 1xmaA 145 4.25e+01 1rzuA 485 4.25e+01 c.87.1.8 105140 1pru 56 4.35e+01 1pru a.35.1.5 17104 1i05A 180 4.37e+01 1mup b.60.1.1 27130 1pueE 89 4.48e+01 1awcA a.4.5.21 16165 1ztdA 133 4.49e+01 1ka2A 499 4.53e+01 d.92.1.5 77305 2a6sA 84 4.55e+01 2cyeA 133 4.60e+01 1irdB 146 4.61e+01 a.1.1.2 66287 1souA 194 4.66e+01 c.124.1.6 105858 3csuA 310 4.67e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1k68A 140 4.71e+01 c.23.1.1 90943 1wohA 305 4.71e+01 c.42.1.1 109446 1nthA 458 4.71e+01 c.1.25.1 80730 1w44A 331 4.72e+01 1jipA 403 4.79e+01 a.104.1.1 66748 1y02A 120 4.82e+01 1t2bA 397 4.83e+01 1ie9A 259 4.86e+01 1db1A a.123.1.1 62318 2c7pA 327 4.91e+01 1vhwA 253 4.96e+01 c.56.2.1 100706 1vd5A 377 4.97e+01 a.102.1.7 108518 1q3iA 214 4.98e+01 d.220.1.1 104524 2gtsA 86 5.07e+01 1q18A 332 5.08e+01 c.55.1.7,c.55.1.7 104470,104471 1nkgA 508 5.19e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1zin 217 5.20e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1j2zA 270 5.21e+01 b.81.1.1 90805 1i06A 180 5.22e+01 1mup b.60.1.1 27131 1a9xA 1058 5.28e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1euhA 475 5.30e+01 1euhA c.82.1.1 35369 1fmcA 255 5.33e+01 1cydA c.2.1.2 29856 1ml8A 134 5.44e+01 d.227.1.2 85013 1jv4A 162 5.48e+01 b.60.1.1 67343 2gsq 202 5.63e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 2gsaA 432 5.63e+01 2gsaA c.67.1.4 34446 1u1hA 765 5.63e+01 c.1.22.2,c.1.22.2 107580,107581 1zip 217 5.64e+01 1zin c.37.1.1,g.41.2.1 31916,45179 2biiA 424 5.64e+01 2cunA 410 5.65e+01 1g1eB 89 5.67e+01 1g1eB a.59.1.1 17931 1qo7A 394 5.71e+01 1qo7A c.69.1.11 34697 1iupA 282 5.74e+01 c.69.1.10 76815 1oaoC 729 5.76e+01 e.26.1.3 86746 1zc6A 305 5.82e+01 1qs1A 462 5.85e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 2bx2L 517 5.90e+01 1z5oA 242 5.92e+01 2aa1A 144 5.94e+01 1phk 298 5.94e+01 1cdkA d.144.1.7 41635 2f51A 118 5.97e+01 1uk8A 282 5.98e+01 c.69.1.10 107907 1adjA 421 6.02e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1xmkA 79 6.03e+01 1db1A 259 6.04e+01 1db1A a.123.1.1 19329 1xszA 356 6.10e+01 1e9rA 437 6.15e+01 c.37.1.11 64827 1a0i 348 6.17e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1iq8A 582 6.28e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1q1vA 70 6.30e+01 a.159.4.1 104479 1h3nA 878 6.31e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 2b3yA 888 6.32e+01 2es9A 115 6.39e+01 2dexX 671 6.41e+01 1nvvS 481 6.41e+01 a.117.1.1 86279 2f31A 233 6.42e+01 1txdA 385 6.56e+01 a.87.1.1,b.55.1.1 107422,107423 1b4pA 217 6.58e+01 a.45.1.1,c.47.1.5 83158,83159 1lngA 87 6.94e+01 d.201.1.1 74045 1wmiA 90 7.00e+01 1g3qA 237 7.08e+01 1hyqA c.37.1.10 60237 1sj1A 66 7.08e+01 d.58.1.4 105595 1ecpA 238 7.11e+01 1ecpA c.56.2.1 33775 2bh1A 250 7.16e+01 1dekA 241 7.17e+01 1dekA c.37.1.1 31842 1iwhB 146 7.29e+01 a.1.1.2 76883 1q1hA 110 7.31e+01 a.4.5.41 95580 2ajrA 331 7.39e+01 1zjcA 418 7.43e+01 1l8aA 886 7.43e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1b8dA 164 7.45e+01 1cpcA a.1.1.3 15665 1vbiA 344 7.47e+01 1io7A 368 7.49e+01 1f4tA a.104.1.1 18971 1o8uA 257 7.53e+01 c.14.1.3 81194 1i3dA 146 7.54e+01 a.1.1.2 61587 1ivyA 452 7.56e+01 1ivyA c.69.1.5 34654 1czaN 917 7.57e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 2bjiA 277 7.61e+01 1viaA 175 7.67e+01 c.37.1.2 100754 1mlo 154 7.69e+01 1a6m a.1.1.2 15085 1j0hA 588 7.78e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 2an1A 292 7.84e+01 2mgg 154 7.92e+01 1a6m a.1.1.2 15069 1h4vB 421 7.93e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1o5iA 249 7.94e+01 c.2.1.2 92499 1wmaA 276 7.97e+01 2hhmA 276 7.98e+01 1imbA e.7.1.1 42955 2awiA 317 8.03e+01 1u1jA 765 8.05e+01 c.1.22.2,c.1.22.2 107590,107591 1em9A 154 8.06e+01 1d1dA a.73.1.1 18333 1yhpA 212 8.10e+01 2cfxA 144 8.12e+01 2fulA 178 8.12e+01 2fm8A 135 8.16e+01 1mym 154 8.16e+01 1a6m a.1.1.2 15054 1kid 203 8.28e+01 1derA c.8.5.1 30771 1qy1A 174 8.35e+01 b.60.1.1 96568 1q79A 514 8.38e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 2fsqA 243 8.40e+01 1sz2A 332 8.45e+01 1z5nA 242 8.52e+01 1mod 154 8.55e+01 1a6m a.1.1.2 15107 2fswA 107 8.57e+01 1l6sA 323 8.57e+01 c.1.10.3 73627 1v0wA 506 8.57e+01 d.136.1.2,d.136.1.2 108220,108221 1kqqA 139 8.64e+01 a.4.3.1 72885 1qy6A 274 8.67e+01 b.47.1.1 96574 1yzvA 204 8.67e+01 1zndA 174 8.68e+01 1odkA 235 8.69e+01 c.56.2.1 86863 1xw5A 217 8.74e+01 1mlg 154 8.74e+01 1a6m a.1.1.2 15104 103m 154 8.75e+01 1a6m a.1.1.2 15124 1rp4A 389 8.80e+01 a.227.1.1 105027 1ng4A 390 8.87e+01 c.3.1.2,d.16.1.3 85666,85667 1vdwA 254 8.90e+01 e.7.1.1 100569 1ez0A 510 8.92e+01 1eyyA c.82.1.1 35385 1p0hA 318 8.95e+01 d.108.1.1 93866 1jmtA 104 8.95e+01 d.58.7.3 63180 1mll 154 8.98e+01 1a6m a.1.1.2 15057