# List of top-scoring protein chains for t04-100-30-str2-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 1ejeA 192 2.57e-01 1ejeA b.45.1.2 25757 1tbd 134 1.00e+00 2tbd d.89.1.1 40240 1nt4A 391 1.13e+00 c.60.1.2 92102 1przA 252 1.95e+00 d.265.1.3 95064 1hrhA 136 2.27e+00 1rthA c.55.3.1 33577 1xfsA 178 2.28e+00 d.129.3.5 109589 1kq3A 376 2.38e+00 e.22.1.2 68790 1rz1A 161 2.83e+00 b.45.1.2 98124 1r88A 280 2.84e+00 c.69.1.3 97219 1a8s 273 3.34e+00 1brt c.69.1.12 34710 1zesA 125 4.27e+00 1a8q 274 4.58e+00 1brt c.69.1.12 34702 1evxA 162 4.65e+00 1a73A d.4.1.3 37149 1xvwA 160 4.69e+00 1k1eA 180 5.06e+00 c.108.1.5 67995 1ejbA 168 5.07e+00 1rvv1 c.16.1.1 59417 1y7pA 223 5.33e+00 1kgsA 225 5.36e+00 a.4.6.1,c.23.1.1 68596,68597 1k4mA 213 5.75e+00 c.26.1.3 77258 1mkyA 439 6.00e+00 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 2fiqA 420 6.51e+00 1v9fA 325 6.54e+00 d.265.1.3 108448 1a73A 163 6.72e+00 1a73A d.4.1.3 37145 1bjt 793 6.86e+00 1bjt e.11.1.1 43249 1zoiA 276 6.90e+00 1w85A 368 6.91e+00 1pjcA 361 7.13e+00 1sayA c.2.1.4,c.23.12.2 30101,31361 1dciA 275 7.88e+00 1dciA c.14.1.3 30918 1vzyA 291 8.61e+00 1i0rA 169 8.77e+00 1i0rA b.45.1.2 61489 1i0sA 169 8.77e+00 1i0rA b.45.1.2 61491 1ukuA 102 9.56e+00 d.58.5.2 99533 1o22A 170 9.91e+00 d.238.1.1 86557 1nwwA 149 1.02e+01 d.17.4.8 86306 1wleA 501 1.08e+01 2agkA 260 1.08e+01 1qlpA 394 1.08e+01 1ovaA e.1.1.1 42628 1fjgK 129 1.10e+01 1fjfK c.55.4.1 33733 1tp9A 162 1.10e+01 1xt5A 135 1.15e+01 1o8xA 146 1.24e+01 c.47.1.10 86681 1ko3A 230 1.25e+01 d.157.1.1 90974 1vybA 238 1.27e+01 d.151.1.1 108897 1wxcA 281 1.38e+01 1qy5A 269 1.39e+01 d.122.1.1 96573 1fjgP 88 1.44e+01 1emwA d.27.1.1 38444 2pth 193 1.45e+01 2pth c.56.3.1 33793 2ew8A 249 1.45e+01 2bzlA 325 1.46e+01 1f9aA 168 1.47e+01 1f9aA c.26.1.3 31602 1cleA 534 1.51e+01 1thg c.69.1.17 34771 2evwX 166 1.54e+01 1llfA 534 1.65e+01 c.69.1.17 78094 1o5zA 442 1.72e+01 c.59.1.2,c.72.2.2 92530,92531 1tluA 130 1.74e+01 d.156.1.2 107139 1hkfA 122 1.87e+01 b.1.1.1 83553 1ws6A 171 1.91e+01 1xmpA 170 1.92e+01 1o66A 275 1.95e+01 c.1.12.8 92547 1b00A 127 1.97e+01 3chy c.23.1.1 31122 1vr7A 142 1.99e+01 1o2dA 371 2.05e+01 e.22.1.2 86591 1yfqA 342 2.07e+01 2fliA 220 2.08e+01 1luaA 287 2.14e+01 c.2.1.7,c.58.1.4 78216,78217 1v0wA 506 2.17e+01 d.136.1.2,d.136.1.2 108220,108221 1hqkA 154 2.19e+01 c.16.1.1 65902 1wgsA 133 2.21e+01 1kevA 351 2.25e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1s2kA 206 2.28e+01 b.29.1.20 98389 1ihjA 98 2.29e+01 1pdr b.36.1.1 62382 1dt9A 437 2.31e+01 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1jqlB 140 2.37e+01 c.37.1.20 63234 1w5fA 353 2.42e+01 1qgvA 142 2.55e+01 1qgvA c.47.1.8 33056 1wy2A 351 2.61e+01 1o8uA 257 2.65e+01 c.14.1.3 81194 1wcuA 153 2.65e+01 1y9aA 360 2.70e+01 2gp4A 628 2.71e+01 1f0iA 504 2.74e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1ptmA 329 2.77e+01 c.77.1.3 95104 1td4A 115 2.79e+01 2esrA 177 2.81e+01 1oj7A 408 2.86e+01 e.22.1.2 103971 1ujpA 271 2.86e+01 c.1.2.4 99462 1aky 221 2.90e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1whzA 70 2.96e+01 1p8xA 344 3.02e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1yal 218 3.03e+01 1cs8A d.3.1.1 37025 1kfwA 435 3.03e+01 c.1.8.5,d.26.3.1 77376,77377 1om0A 274 3.06e+01 c.1.8.5 87058 1szoA 257 3.06e+01 c.14.1.3 106164 1vj0A 380 3.08e+01 b.35.1.2,c.2.1.1 100786,100787 1o4vA 183 3.10e+01 c.23.8.1 86628 1cjcA 460 3.11e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1zgzA 122 3.13e+01 1kqfA 1015 3.13e+01 b.52.2.2,c.81.1.1 72871,72872 1w6uA 302 3.14e+01 1a48 306 3.19e+01 1a48 d.143.1.1 41590 1hyuA 521 3.20e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 2fug5 207 3.23e+01 1obdA 306 3.28e+01 d.143.1.1 86767 1qfxA 460 3.29e+01 1qfxA c.60.1.2 33994 1t95A 240 3.33e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 2cnqA 306 3.38e+01 1sfe 180 3.39e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 1q0uA 219 3.45e+01 c.37.1.19 95512 2b0vA 153 3.52e+01 2arhA 203 3.56e+01 1qipA 183 3.58e+01 1qipA d.32.1.1 38470 1nh1A 330 3.58e+01 e.45.1.1 91871 1w0mA 226 3.61e+01 c.1.1.1 109027 2cuaA 135 3.64e+01 2cuaA b.6.1.2 23039 1ctqA 166 3.64e+01 1ctqA c.37.1.8 31965 1qo7A 394 3.68e+01 1qo7A c.69.1.11 34697 3ullA 132 3.70e+01 3ullA b.40.4.3 25282 1iqoA 88 3.83e+01 d.214.1.1 71277 1va4A 279 3.92e+01 c.69.1.12 108458 1pxwA 128 4.00e+01 d.79.3.1 95305 1jqbA 351 4.01e+01 b.35.1.2,c.2.1.1 77151,77152 1ta3A 274 4.01e+01 c.1.8.5 106731 1byi 224 4.16e+01 1byi c.37.1.10 32199 1o97C 264 4.18e+01 c.26.2.3 81232 1qsoA 149 4.19e+01 1qsmA d.108.1.1 40812 1h7mA 102 4.20e+01 d.79.3.1 83485 2aqjA 538 4.23e+01 1w78A 422 4.29e+01 2cu6A 103 4.33e+01 1fp3A 402 4.39e+01 1fp3A a.102.1.3 18842 1xgsA 295 4.45e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1kewA 361 4.48e+01 c.2.1.2 68544 1yixA 265 4.50e+01 1s62A 106 4.51e+01 1kid 203 4.54e+01 1derA c.8.5.1 30771 2a9kA 187 4.58e+01 1tc6A 236 4.61e+01 d.122.1.1 106756 1qrrA 394 4.63e+01 1qrrA c.2.1.2 29824 1gesA 450 4.66e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1cvrA 435 4.67e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1bxkA 355 4.77e+01 1bxkA c.2.1.2 29803 1wtjA 343 4.86e+01 1mldA 314 4.87e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 2madH 373 4.87e+01 2bbkH b.69.2.1 27639 2bv5A 282 4.88e+01 2fh1A 344 4.89e+01 1y4jA 284 4.97e+01 1sxgA 280 5.00e+01 1x8qA 184 5.04e+01 1gq6A 313 5.06e+01 c.42.1.1 70341 1yt5A 258 5.10e+01 2glfA 450 5.11e+01 1ei9A 279 5.14e+01 1ei9A c.69.1.13 34713 1zd7A 159 5.16e+01 1pfvA 551 5.19e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1qkkA 155 5.22e+01 1dbwA c.23.1.1 31104 1bykA 255 5.23e+01 1bykA c.93.1.1 35706 2cvjA 180 5.27e+01 1ej8A 140 5.27e+01 1qupA b.1.8.1 22300 1f4lA 551 5.29e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1ml8A 134 5.29e+01 d.227.1.2 85013 2g1uA 155 5.35e+01 1u11A 182 5.38e+01 c.23.8.1 107576 1a6q 382 5.41e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1kafA 108 5.44e+01 d.199.1.1 68372 1sdoA 203 5.45e+01 c.52.1.21 98809 1jzuA 157 5.47e+01 b.60.1.1 84271 1tc1A 220 5.52e+01 1tc1A c.61.1.1 34083 1p9qC 256 5.58e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1onc 104 5.59e+01 1onc d.5.1.1 37278 1odfA 290 5.60e+01 c.37.1.6 92782 1i24A 404 5.61e+01 c.2.1.2 83663 1nhs 447 5.67e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1pv9A 348 5.70e+01 c.55.2.1,d.127.1.1 95157,95158 1ve2A 235 5.79e+01 1aisB 200 5.80e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1lqtA 456 5.81e+01 c.3.1.1,c.4.1.1 74198,74199 1hn2A 159 5.87e+01 b.60.1.1 65890 1wit 93 5.88e+01 1wit b.1.1.4 21714 2bgzA 299 5.89e+01 1gt1A 159 5.90e+01 b.60.1.1 90515 1pu5A 164 5.94e+01 b.95.1.1 104310 1ou0A 207 5.98e+01 c.23.17.1 93536 1zwxA 301 5.99e+01 1obpA 159 6.02e+01 1obpA b.60.1.1 27092 1zhhB 242 6.06e+01 1wlgA 299 6.16e+01 2cxcA 144 6.19e+01 2d28C 149 6.21e+01 1azpA 66 6.34e+01 1azpA b.34.13.1 37467 1ob8A 135 6.39e+01 3chy 128 6.45e+01 3chy c.23.1.1 31038 1xreA 217 6.48e+01 1qk8A 146 6.53e+01 1ewxA c.47.1.10 33061 1wyuA 438 6.54e+01 1zrn 232 6.55e+01 1qq5A c.108.1.1 43323 1uirA 314 6.57e+01 c.66.1.17 99429 1f20A 435 6.57e+01 b.43.4.1,c.25.1.4 64932,64933 1edzA 320 6.59e+01 1ee9A c.2.1.7,c.58.1.2 30287,33935 1bj7 156 6.61e+01 1bj7 b.60.1.1 27113 1pujA 282 6.62e+01 c.37.1.8 88294 1ydgA 211 6.65e+01 1u4cA 349 6.65e+01 b.69.4.2 107666 2d8aA 348 6.70e+01 1xzoA 174 6.73e+01 1nhp 447 6.76e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1v7oA 165 6.82e+01 d.67.1.2 100480 1q7sA 117 6.87e+01 c.131.1.1 96055 1rcuA 195 7.02e+01 c.129.1.1 97295 1euvB 86 7.16e+01 1a5r d.15.1.1 37598 1xkiA 162 7.18e+01 1b8aA 438 7.20e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1krhA 338 7.24e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1rzrA 332 7.26e+01 1gpiA 431 7.27e+01 b.29.1.10 65450 2cu1A 103 7.31e+01 1frb 315 7.39e+01 1frb c.1.7.1 28665 1iseA 185 7.41e+01 d.67.3.1 90691 1zip 217 7.41e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1uuyA 167 7.46e+01 c.57.1.1 108059 1t7lA 766 7.57e+01 1x1gA 129 7.60e+01 1hyeA 313 7.61e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1ualA 274 7.61e+01 c.116.1.4 88383 1w41A 101 7.62e+01 2cz2A 223 7.65e+01 1ptvA 321 7.66e+01 1pty c.45.1.2 32665 1r5jA 337 7.72e+01 c.77.1.5 97097 2eu9A 355 7.73e+01 1kolA 398 7.75e+01 b.35.1.2,c.2.1.1 77474,77475 1qpoA 284 7.77e+01 1qpoA c.1.17.1,d.41.2.1 29561,38597 1ro7A 259 7.88e+01 c.130.1.1 97667 2as9A 210 8.10e+01 1gvnB 287 8.19e+01 c.37.1.21 76354 1vl7A 157 8.22e+01 b.45.1.1 108732 1dcjA 81 8.28e+01 1dcjA d.68.3.3 59115 1qe5A 266 8.33e+01 1b8oA c.56.2.1 33784 1k66A 149 8.39e+01 c.23.1.1 90941 1hynP 379 8.42e+01 1hynP d.112.1.2 61408 1e3jA 352 8.47e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1mdaH 368 8.47e+01 2bbkH b.69.2.1 27637 2amlA 373 8.48e+01 2pia 321 8.51e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 2gsfA 373 8.59e+01 1e9rA 437 8.61e+01 c.37.1.11 64827 1kl9A 182 8.76e+01 b.40.4.5 72681 1jeyB 565 8.77e+01 1jeqB b.131.1.2,c.62.1.4 90372,90373 1fzqA 181 8.84e+01 1hurA c.37.1.8 32060 1jftA 340 8.90e+01 a.35.1.5,c.93.1.1 66652,66653 1i40A 175 8.99e+01 b.40.5.1 66024