# List of top-scoring protein chains for t2k-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.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 2jz5A 91 3.92e-15 1u55A 188 2.98e-01 d.278.1.1 107677 1skoB 130 6.25e-01 d.110.7.1 105677 2cz8A 69 8.32e-01 1vetB 125 1.12e+00 d.110.7.1 108554 1klqA 197 1.86e+00 d.135.1.1 68689 2obdA 476 2.30e+00 2vfxA 206 2.47e+00 2gcoA 201 2.48e+00 1kmqA 184 2.52e+00 c.37.1.8 84412 2cy7A 396 2.63e+00 2qx2A 344 2.95e+00 1tx4B 178 3.25e+00 1ctqA c.37.1.8 32045 1go4A 205 4.13e+00 d.135.1.1 70292 2yweA 600 5.10e+00 2bjdA 101 5.24e+00 3b4tA 262 5.65e+00 1gydB 315 5.71e+00 b.67.2.1 70751 2rb9A 334 5.72e+00 1gyhA 318 5.78e+00 b.67.2.1 70757 1zq1C 633 6.06e+00 a.182.1.2,d.74.4.1,d.128.1.5 125493,125494,125495 1wr2A 238 6.27e+00 2yxyA 115 6.60e+00 1in0A 163 6.72e+00 d.58.49.1,d.58.49.1 83694,83695 1a6zA 275 6.72e+00 1agdA b.1.1.2,d.19.1.1 20781,38280 2gpyA 233 6.95e+00 1dujA 187 7.11e+00 1dujA d.135.1.1 41449 1p5dX 463 7.75e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1o6gA 710 7.87e+00 b.69.7.1,c.69.1.4 81087,81088 1y7rA 133 7.91e+00 d.108.1.1 122716 2z0dA 357 8.28e+00 1k2yX 463 8.32e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 3bevA 274 8.34e+00 1n3yA 198 8.45e+00 c.62.1.1 79976 1zg2A 107 8.88e+00 2dy0A 190 9.34e+00 1e8nA 710 9.47e+00 1qfmA b.69.7.1,c.69.1.4 27675,34643 2fb6A 117 1.04e+01 1kjvA 284 1.18e+01 b.1.1.2,d.19.1.1 77421,77422 2g0qA 173 1.21e+01 2jyaA 106 1.25e+01 1y0bA 197 1.30e+01 c.61.1.1 122476 2ftrA 108 1.40e+01 d.58.4.15 134077 1faaA 124 1.47e+01 1erv c.47.1.1 32738 2j0vA 212 1.51e+01 2fjlA 150 1.52e+01 b.55.1.1 133611 2b5eA 504 1.58e+01 c.47.1.2,c.47.1.2,c.47.1.2,c.47.1.2 127888,127889,127890,127891 1agdA 276 1.61e+01 1agdA b.1.1.2,d.19.1.1 20741,38260 2cstA 411 1.62e+01 1ajsA c.67.1.1 34273 3b8mA 280 1.70e+01 2cdnA 201 1.72e+01 c.37.1.1 130289 1dq3A 454 1.79e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1zb9A 143 1.79e+01 2fipA 115 1.83e+01 1fnoA 417 1.83e+01 d.58.19.1,c.56.5.4 70145,75841 2burB 241 1.87e+01 b.3.6.1 129228 1f9mA 112 1.88e+01 1erv c.47.1.1 32736 1gqeA 365 1.91e+01 e.38.1.1 70351 1b24A 188 1.91e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 2pptA 155 2.01e+01 2qikA 285 2.11e+01 1pvgA 418 2.12e+01 d.14.1.3,d.122.1.2 95161,95162 1vq2A 193 2.16e+01 c.97.1.2 114004 1f45B 197 2.27e+01 1f45B a.26.1.1 59642 1r6lA 239 2.28e+01 d.14.1.4,d.101.1.1 97153,97154 1qzrA 418 2.28e+01 d.14.1.3,d.122.1.2 96659,96660 2v5iA 559 2.29e+01 1p1lA 102 2.30e+01 d.58.5.2 87695 2z1uA 343 2.32e+01 1jjhA 86 2.40e+01 2bopA d.58.8.1 63119 2buwB 241 2.50e+01 2z1eA 342 2.54e+01 1omp 370 2.65e+01 4mbp 3pcgM 238 2.66e+01 3pchM b.3.6.1 22742 1pcaA 95 2.68e+01 d.58.3.1 39063 2hyxA 352 2.71e+01 1pjqA 457 2.83e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 3bwdD 182 2.83e+01 1drw 273 2.83e+01 1drw 1drwA 273 2.83e+01 c.2.1.3,d.81.1.3 30057,39972 1w4vA 119 2.90e+01 2i39A 137 2.93e+01 1udsA 255 3.00e+01 d.14.1.4,d.101.1.1 99219,99220 1bvyF 191 3.01e+01 1bvyF c.23.5.1 31207 1h6vA 499 3.01e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 2fltA 149 3.15e+01 2dtcA 126 3.30e+01 1p3dA 475 3.39e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2g7zA 282 3.42e+01 1a1oA 276 3.45e+01 1agdA b.1.1.2,d.19.1.1 20751,38265 2ys1A 113 3.46e+01 1laxA 370 3.50e+01 c.94.1.1 84576 1zpwX 90 3.60e+01 d.58.58.1 125478 1b3tA 147 3.67e+01 1b3tA d.58.8.1 39228 1avwB 171 3.75e+01 1wba b.42.4.1 25599 1yycA 174 3.77e+01 2ek0A 90 3.77e+01 2aehA 369 3.93e+01 a.11.2.1,b.55.1.5,d.15.1.4 126625,126626,126627 2hbjA 410 3.97e+01 a.60.8.4,c.55.3.5 136311,136312 1a1nA 276 4.07e+01 1agdA b.1.1.2,d.19.1.1 20755,38267 1oyc 400 4.11e+01 1oyc 1oycA 400 4.11e+01 c.1.4.1 28603 2if1A 126 4.13e+01 d.64.1.1 39547 2al6A 375 4.14e+01 a.11.2.1,b.55.1.5,d.15.1.4 126966,126967,126968 1we0A 187 4.15e+01 c.47.1.10 120930 1wdkC 390 4.23e+01 c.95.1.1,c.95.1.1 109258,109259 1t7vA 278 4.27e+01 b.1.1.2,d.19.1.1 112302,112303 1aisA 182 4.28e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 2av1A 275 4.29e+01 b.1.1.2,d.19.1.1 127349,127350 1uw4A 91 4.32e+01 d.58.7.4 100071 2opaA 61 4.34e+01 2rfqA 394 4.42e+01 2pu9C 111 4.44e+01 2id1A 130 4.47e+01 1l1qA 186 4.50e+01 c.61.1.1 77653 1xkzA 255 4.50e+01 e.3.1.1 115426 1d3uA 181 4.53e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 2hq4A 161 4.57e+01 2dtjA 178 4.61e+01 2omdA 154 4.62e+01 3bs6A 280 4.62e+01 2g3bA 208 4.68e+01 a.4.1.9,a.121.1.1 134558,134559 3cedA 98 4.70e+01 1tr0A 108 4.77e+01 d.58.4.4 107261 2uubJ 105 4.79e+01 d.58.15.1 139941 2yvsA 219 4.79e+01 1k5nA 276 4.81e+01 b.1.1.2,d.19.1.1 77266,77267 2ikkA 173 4.84e+01 2bvpA 276 4.86e+01 b.1.1.2,d.19.1.1 129291,129292 1vixA 420 4.87e+01 c.56.5.4,d.58.19.1 100777,100778 2jhpA 644 4.89e+01 1h2xA 710 4.95e+01 b.69.7.1,c.69.1.4 76598,76599 1xh3A 276 4.96e+01 b.1.1.2,d.19.1.1 115287,115288 1h2wA 710 4.96e+01 b.69.7.1,c.69.1.4 76596,76597 3bwaA 276 4.96e+01 1a9eA 277 4.98e+01 1agdA b.1.1.2,d.19.1.1 20757,38268 1i4fA 275 4.99e+01 1agdA b.1.1.2,d.19.1.1 61687,61688 3blcA 330 5.03e+01 1ftrA 296 5.07e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1qgvA 142 5.11e+01 1qgvA c.47.1.8 33056 2o09A 189 5.16e+01 2iqhA 499 5.18e+01 2jh1A 246 5.20e+01 2h30A 164 5.21e+01 2yx1A 336 5.22e+01 1pczA 191 5.29e+01 1ytbA d.129.1.1,d.129.1.1 41292,41293 1hsbA 270 5.32e+01 1agdA b.1.1.2,d.19.1.1 20736,38257 4mbp 370 5.40e+01 4mbp 1w0dA 337 5.43e+01 c.77.1.1 114060 1atzA 189 5.49e+01 1atzA c.62.1.1 34132 1m5sA 297 5.51e+01 d.58.33.1,d.58.33.1 74511,74512 1r9wA 145 5.54e+01 d.89.1.2 97264 2a9gA 418 5.59e+01 d.126.1.4 126435 2bopA 85 5.72e+01 2bopA d.58.8.1 39217 1azvA 153 5.73e+01 1mfmA b.1.8.1 22247 1nw2A 105 5.75e+01 c.47.1.1 92215 2g2kA 170 5.78e+01 2hytA 197 5.80e+01 3fruA 269 5.87e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 1qfmA 710 5.90e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 1ttwA 138 5.90e+01 d.198.1.1 107308 3c5oA 157 5.92e+01 1r62A 160 5.98e+01 d.122.1.3 104816 2fy6A 143 6.00e+01 c.47.1.10 134344 1a1mA 278 6.02e+01 1agdA b.1.1.2,d.19.1.1 20753,38266 1nb9A 147 6.03e+01 b.43.5.1 85515 1u5rA 348 6.17e+01 d.144.1.7 113050 1cg2A 393 6.20e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1fi8A 228 6.24e+01 5ptp b.47.1.2 26374 2dkhA 639 6.30e+01 1mp8A 281 6.31e+01 d.144.1.7 91384 2asfA 137 6.33e+01 b.45.1.1 127253 1irsA 112 6.34e+01 1qqgA b.55.1.2 26991 1c9bB 180 6.37e+01 1ytbA d.129.1.1,d.129.1.1 41216,41217 1raxA 115 6.41e+01 1lfdA d.15.1.5 37626 2o18A 340 6.41e+01 2ar9A 278 6.43e+01 1l0oA 150 6.46e+01 d.122.1.3 73403 1kf6A 602 6.63e+01 a.7.3.1,c.3.1.4,d.168.1.1 72394,72395,72396 1fjcA 96 6.65e+01 1fjcA d.58.7.1 39212 1k8kA 418 6.66e+01 c.55.1.1,c.55.1.1 68305,68306 1tz0A 114 6.74e+01 d.58.4.5 107463 1nswA 105 6.87e+01 c.47.1.1 92097 1v04A 355 6.89e+01 b.68.6.2 100240 1wteA 272 6.90e+01 c.52.1.29 114876 1e25A 282 6.94e+01 1e25A e.3.1.1 42731 1hqcA 324 6.98e+01 1hqcA a.4.5.11,c.37.1.20 16127,32424 2av7A 275 7.00e+01 b.1.1.2,d.19.1.1 127359,127360 2ptfA 233 7.05e+01 1ao3A 187 7.07e+01 1atzA c.62.1.1 34134 1y23A 145 7.08e+01 d.13.1.1 116394 2ob5A 153 7.10e+01 1anf 370 7.14e+01 4mbp 1anfA 370 7.14e+01 c.94.1.1 35776 1yb3A 175 7.15e+01 d.296.1.2 122869 1mfmA 153 7.34e+01 1mfmA b.1.8.1 22246 2z5bA 151 7.35e+01 2pvpA 367 7.38e+01 1a0p 290 7.39e+01 1a0p 1a0pA 290 7.39e+01 a.60.9.1,d.163.1.1 18105,42165 2abyA 146 7.39e+01 3bjoA 103 7.42e+01 1t3lA 337 7.51e+01 b.34.2.1,c.37.1.1 106358,106359 2sak 121 7.64e+01 2sak 2sakA 121 7.64e+01 d.15.5.1 37711 1pzsA 208 7.67e+01 b.1.8.1 104397 1rm4A 337 7.72e+01 c.2.1.3,d.81.1.1 105000,105001 1wdvA 152 7.75e+01 d.116.1.1 114539 2oojA 141 7.90e+01 2g6yA 217 7.90e+01 1r7lA 110 7.97e+01 d.277.1.1 104837