# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 1xngA 268 1.66e-01 2ew2A 316 4.53e-01 1xcbA 211 9.60e-01 a.4.5.38,c.2.1.12 109552,109553 2cokA 113 1.92e+00 1qwdA 177 2.10e+00 b.60.1.1 96471 1gpmA 525 2.35e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 2a2pA 129 2.55e+00 1jmmA 377 2.72e+00 b.30.6.1 71749 1iloA 77 2.86e+00 c.47.1.1 66205 1ni5A 433 3.01e+00 c.26.2.5,d.229.1.1 80533,80534 1o4sA 389 3.21e+00 c.67.1.1 86620 2bu3A 254 3.51e+00 1k2yX 463 3.76e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1p5dX 463 4.22e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1k3iA 656 4.26e+00 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1tif 78 4.27e+00 1tif d.15.8.1 37836 1ih8A 271 4.67e+00 2nsyA c.26.2.1 62377 1gof 639 4.69e+00 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1qtnA 164 4.72e+00 1pauA c.17.1.1 30999 1v8hA 107 5.29e+00 1zljA 78 5.77e+00 1u6zA 513 5.88e+00 1wy5A 317 6.00e+00 1xl3C 92 6.48e+00 1pmzA 86 6.52e+00 a.39.1.10 104195 1hq3D 103 7.01e+00 1aoiB a.22.1.1 16464 1tzyD 103 7.01e+00 a.22.1.1 107533 1yezA 68 7.30e+00 1x0pA 143 7.36e+00 1wu7A 434 7.65e+00 1sh0A 510 8.05e+00 e.8.1.4 98876 2b43A 526 8.94e+00 1kqpA 271 9.01e+00 c.26.2.1 72883 1zp7A 206 9.03e+00 1u24A 337 9.15e+00 1dyr 206 9.25e+00 1aoeA c.71.1.1 34916 1kx5B 102 9.42e+00 a.22.1.1 77594 1z2lA 423 9.60e+00 1rznA 205 9.84e+00 1s3cA 141 1.04e+01 1sglA 209 1.06e+01 d.124.1.1 105536 1j9bA 141 1.06e+01 c.47.1.12 66459 1vddA 228 1.08e+01 e.49.1.1 108519 1r26A 125 1.08e+01 c.47.1.1 96847 1lfpA 249 1.08e+01 e.39.1.1 73885 1ru8A 232 1.09e+01 c.26.2.1 97849 1ra0A 430 1.09e+01 2blnA 305 1.09e+01 1bymA 97 1.15e+01 1bi0 b.34.1.2 24458 1k6wA 426 1.15e+01 b.92.1.2,c.1.9.5 68236,68237 1eudB 396 1.16e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 2gcuA 245 1.16e+01 1g0sA 209 1.19e+01 1g0sA d.113.1.1 60187 2axcA 264 1.20e+01 1qydA 313 1.22e+01 c.2.1.2 96583 1t7lA 766 1.30e+01 2cc0A 195 1.36e+01 1mr4A 47 1.38e+01 g.3.7.5 91429 1ass 159 1.40e+01 1a6dA c.8.5.2 30818 2fp4B 395 1.42e+01 2fueA 262 1.43e+01 2cu3A 64 1.44e+01 1ub3A 220 1.47e+01 c.1.10.1 88395 2aotA 292 1.48e+01 1gxuA 91 1.54e+01 d.58.10.1 76378 1vetA 124 1.62e+01 d.110.7.1 108553 1wy2A 351 1.64e+01 1jqeA 292 1.64e+01 c.66.1.19 71789 1wosA 364 1.72e+01 b.44.2.1,d.250.1.1 109468,109469 1ebdC 41 1.72e+01 1ebdC a.9.1.1 16355 1l0bA 229 1.76e+01 c.15.1.3,c.15.1.3 73391,73392 1xewX 182 1.81e+01 2fzsA 193 1.82e+01 1yg6A 193 1.84e+01 1rwsA 77 1.84e+01 d.15.3.2 97991 1zo0A 126 1.96e+01 1xzoA 174 1.98e+01 1d7yA 408 2.06e+01 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1wlyA 333 2.09e+01 1hjrA 158 2.10e+01 1hjrA c.55.3.6 33727 1jenA 267 2.16e+01 1jenA 1vfgA 390 2.17e+01 a.173.1.1,d.218.1.4 108570,108571 1skoA 143 2.19e+01 d.110.7.1 105676 1knmA 130 2.22e+01 b.42.2.1 72781 1hgxA 183 2.25e+01 1tc1A c.61.1.1 34027 1nkqA 259 2.27e+01 d.177.1.1 103862 1zg2A 107 2.30e+01 1g5cA 170 2.31e+01 1g5cA c.53.2.1 60264 1gttA 429 2.34e+01 d.177.1.1,d.177.1.1 70529,70530 1theA 260 2.35e+01 1theB d.3.1.1 37056 1chmA 401 2.38e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 3erk 364 2.38e+01 1hcl d.144.1.7 41654 1tyfA 193 2.40e+01 1tyfA c.14.1.1 30885 1widA 130 2.49e+01 1ok0A 74 2.51e+01 b.5.1.1 93191 1i7oA 429 2.56e+01 1i7oA d.177.1.1,d.177.1.1 61893,61894 1hoe 74 2.57e+01 1hoe b.5.1.1 22833 1ok7A 366 2.60e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 2cmd 312 2.61e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1louA 101 2.62e+01 1ris d.58.14.1 39323 1iyhA 198 2.63e+01 a.45.1.1,c.47.1.5 83790,83791 1o9wA 177 2.64e+01 b.2.3.5 86713 1cdcA 99 2.66e+01 1cdcA b.1.1.1 19746 1efyA 350 2.74e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1w85I 49 2.75e+01 1exrA 148 2.78e+01 1cll a.39.1.5 17299 1lfdA 87 2.78e+01 1lfdA d.15.1.5 37622 1nslA 184 2.80e+01 d.108.1.1 86137 2g5dA 422 2.84e+01 1mmiA 366 2.85e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 2g76A 335 2.89e+01 1gmyA 261 3.02e+01 d.3.1.1 76236 1yruB 74 3.04e+01 1kskA 234 3.12e+01 d.66.1.5,d.265.1.3 72920,90389 1lb2B 84 3.18e+01 a.60.3.1 77871 1ru4A 400 3.18e+01 b.80.1.9 97836 1qmeA 702 3.18e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1p5hA 428 3.19e+01 c.123.1.1 87802 2bcmA 165 3.21e+01 1l1eA 287 3.26e+01 c.66.1.18 73454 1po5A 476 3.30e+01 a.104.1.1 94963 1zud2 66 3.31e+01 1x0vA 354 3.34e+01 1sur 215 3.38e+01 1sur c.26.2.2 31620 1uvzA 119 3.41e+01 1a64A 97 3.44e+01 1cdcA b.1.1.1 19750 1xwyA 264 3.47e+01 2bzsA 236 3.57e+01 1qsgA 265 3.59e+01 1eny c.2.1.2 29935 1jl0A 334 3.59e+01 1jenA d.156.1.1 63155 1wdcC 156 3.61e+01 1wdcC a.39.1.5 17317 1w4vA 119 3.65e+01 1oxsC 353 3.76e+01 b.40.6.3,c.37.1.12 87519,87520 1odkA 235 3.78e+01 c.56.2.1 86863 2a9mL 110 3.79e+01 1oxxK 353 3.81e+01 b.40.6.3,c.37.1.12 93715,93716 1iq4A 179 3.86e+01 1iq4A d.77.1.1 62641 2a7yA 83 3.86e+01 2a6cA 83 3.89e+01 1jbeA 128 3.90e+01 3chy c.23.1.1 62845 1ycoA 279 3.96e+01 1whzA 70 3.97e+01 1y1oA 203 4.04e+01 1rkqA 282 4.07e+01 c.108.1.10 97621 1qo3C 137 4.11e+01 1qo3C d.169.1.1 42350 1xi1A 575 4.13e+01 1tvoA 368 4.16e+01 1st9A 143 4.26e+01 c.47.1.10 98987 1dqeA 137 4.28e+01 1dqeA a.39.2.1 17388 1bb8 71 4.29e+01 2bb8 d.10.1.1 37478 1zczA 464 4.31e+01 1meoA 209 4.36e+01 c.65.1.1 79035 2coeA 120 4.41e+01 1lvwA 295 4.43e+01 c.68.1.6 84723 1m6yA 301 4.43e+01 a.60.13.1,c.66.1.23 78716,78717 1vrmA 325 4.47e+01 1qw1A 121 4.48e+01 1sb2A 133 4.53e+01 2cvdA 198 4.56e+01 1uohA 226 4.60e+01 d.211.1.1 99690 1riqA 465 4.63e+01 a.203.1.1,d.104.1.1 97516,97517 1j8mF 297 4.63e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1o26A 232 4.64e+01 d.207.1.1 86566 2polA 366 4.65e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 1j8yF 297 4.67e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 2d13A 227 4.67e+01 2b9eA 303 4.71e+01 1lgpA 116 4.73e+01 b.26.1.2 73890 1i45A 248 4.77e+01 1amk c.1.1.1 61665 1vgwA 231 4.80e+01 c.68.1.13 100612 1qmpA 130 4.80e+01 1dz3A c.23.1.1 31106 1cqqA 180 4.82e+01 1cqqA b.47.1.4 26422 1neyA 247 4.91e+01 c.1.1.1 80449 1yfsA 465 4.92e+01 2fftA 84 5.00e+01 1rhs 296 5.04e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1jqlB 140 5.08e+01 c.37.1.20 63234 1uroA 367 5.15e+01 1uroA c.1.22.1 29675 1iyxA 432 5.16e+01 c.1.11.1,d.54.1.1 83815,83816 2g6fX 59 5.16e+01 1r3sA 367 5.18e+01 c.1.22.1 96963 2cvlA 124 5.21e+01 1fxoA 293 5.22e+01 1g0rA c.68.1.6 34524 1rq6A 62 5.22e+01 1xauA 122 5.23e+01 1vj7A 393 5.26e+01 a.211.1.1,d.218.1.8 100801,100802 1f3aA 222 5.30e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1w6tA 444 5.34e+01 2gfaA 119 5.35e+01 1kwgA 645 5.48e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1n8fA 350 5.51e+01 c.1.10.4 85397 2ahrA 259 5.52e+01 1eny 268 5.57e+01 1eny c.2.1.2 29910 1s1qA 145 5.61e+01 d.20.1.2 98351 1tzjA 338 5.63e+01 1vjgA 218 5.65e+01 c.23.10.6 100810 1s31A 273 5.65e+01 2ae8A 221 5.65e+01 1vquA 374 5.66e+01 2aorA 223 5.66e+01 1lucB 324 5.74e+01 1lucA c.1.16.1 29548 1q15A 503 5.77e+01 c.26.2.1,d.153.1.1 95538,95539 2a4aA 281 5.79e+01 1zrjA 50 5.82e+01 1d8bA 81 5.87e+01 1d8bA a.60.8.1 18094 1rewC 135 5.88e+01 g.7.1.3 97336 1wr2A 238 5.89e+01 2aq8A 269 5.90e+01 2f9sA 151 5.92e+01 2f9lA 199 5.93e+01 1gg1A 350 5.99e+01 1qr7A c.1.10.4 29187 1ttwA 138 6.00e+01 d.198.1.1 107308 1bx1A 314 6.01e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1ta0A 197 6.01e+01 c.108.1.16 106729 1rz4A 226 6.02e+01 a.4.5.53,a.118.1.18 105131,105132 1dz3A 130 6.03e+01 1dz3A c.23.1.1 31105 2gvhA 288 6.06e+01 1tjyA 316 6.06e+01 c.93.1.1 107062 1bu6O 501 6.10e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1fjgP 88 6.11e+01 1emwA d.27.1.1 38444 1rifA 282 6.12e+01 c.37.1.23 97507 1n4kA 381 6.15e+01 a.118.22.1,b.42.6.1 79992,79993 1ssxA 198 6.18e+01 b.47.1.1 98978 1x1rA 178 6.20e+01 1pjr 724 6.21e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1qhoA 686 6.23e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 2ak5A 64 6.32e+01 1omhA 293 6.32e+01 d.89.1.5 93348 1d1qA 161 6.34e+01 1dg9A c.44.1.1 32642 1iybA 208 6.40e+01 d.124.1.1 90720 1nf8A 207 6.41e+01 c.33.1.3 85630 1kte 105 6.41e+01 1kte c.47.1.1 32771 1imbA 277 6.50e+01 1imbA e.7.1.1 42957 1fmtA 314 6.53e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1sk7A 198 6.65e+01 a.132.1.2 105671 1oeyA 83 6.67e+01 d.15.2.2 92800 1kk8B 139 6.70e+01 a.39.1.5 77430 1z3eB 73 6.70e+01 1h72C 296 6.72e+01 d.14.1.5,d.58.26.1 60712,60713 1atg 231 6.72e+01 1atg c.94.1.1 35834 1m4rA 151 6.73e+01 a.26.1.3 84799 1iv3A 152 6.73e+01 d.79.5.1 76828 1gl0I 35 6.78e+01 g.4.1.1 65271 1wcgA 464 6.86e+01 1f06A 320 6.88e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1k0eA 453 6.94e+01 d.161.1.1 67938 1xfrA 128 6.96e+01 2absA 383 6.97e+01 1apj 74 6.99e+01 1apj g.23.1.1 44899 1xtlA 175 7.00e+01 1qq4A 198 7.00e+01 1qq4A b.47.1.1 25768 2hhmA 276 7.08e+01 1imbA e.7.1.1 42955 1jvnA 555 7.13e+01 c.1.2.1,c.23.16.1 67355,67356 1fnd 314 7.14e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1u8fO 335 7.18e+01 1o4wA 147 7.28e+01 c.120.1.1 86629 1wd5A 208 7.31e+01 1iueA 98 7.34e+01 d.15.4.1 90697 1wmiB 67 7.41e+01 1ut7A 171 7.44e+01 b.143.1.1 99906 1v5xA 203 7.48e+01 c.1.2.4 100377 1xfxO 149 7.52e+01 2b7kA 200 7.61e+01 1gcyA 527 7.65e+01 1jdc b.71.1.1,c.1.8.1 27788,28775 1rfmA 344 7.68e+01 c.122.1.1 97385 1pyaB 228 7.76e+01 1pyaB 1z5yE 149 7.78e+01 1vjoA 393 7.82e+01 c.67.1.3 100827 1t0gA 109 7.82e+01 d.120.1.2 99063 1zk5A 176 7.87e+01 2d28C 149 7.87e+01 1nf9A 207 7.87e+01 c.33.1.3 85631 1pme 380 8.02e+01 1hcl d.144.1.7 41653 2djkA 133 8.07e+01 1ywhA 313 8.10e+01 1f66C 128 8.15e+01 1aoiC a.22.1.1 16442 2aaoA 166 8.16e+01 1uwvA 433 8.27e+01 b.40.4.12,c.66.1.40 100128,100129 1u55A 188 8.37e+01 d.278.1.1 107677 2gu3A 136 8.41e+01 1wdcB 156 8.46e+01 1wdcB a.39.1.5 17302 1zq1C 633 8.47e+01 1befA 181 8.50e+01 1befA b.47.1.3 26419 1rypI 222 8.52e+01 d.153.1.4 41877 1sg0A 230 8.54e+01 2f3nA 76 8.57e+01 1dxsA 80 8.61e+01 1cokA a.60.1.2 17944 1s5jA 847 8.61e+01 1yr4B 35 8.62e+01 1j58A 385 8.64e+01 b.82.1.2 71531 2f91B 35 8.65e+01 1nmeA 146 8.66e+01 c.17.1.1 85874 1wn5A 130 8.71e+01 1p1lA 102 8.73e+01 d.58.5.2 87695 1mbmA 198 8.77e+01 b.47.1.3 78916 1i1kA 309 8.80e+01 1daaA e.17.1.1 61533 1cqmA 101 8.80e+01 1ris d.58.14.1 39321 1dofA 403 8.80e+01 1c3cA a.127.1.1 19429 1wqsA 173 8.82e+01 1yx4A 132 8.86e+01 1wiwA 290 8.92e+01 1f2dA 341 8.98e+01 1f2dA c.79.1.1 35298