# List of top-scoring protein chains for t06-100-30-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 1.98e-02 1ejeA b.45.1.2 25757 1rz1A 161 1.68e-01 b.45.1.2 98124 1tbd 134 3.47e-01 2tbd d.89.1.1 40240 1a8s 273 1.30e+00 1brt c.69.1.12 34710 1kgsA 225 1.39e+00 a.4.6.1,c.23.1.1 68596,68597 1pjcA 361 1.42e+00 1sayA c.2.1.4,c.23.12.2 30101,31361 1hrhA 136 1.55e+00 1rthA c.55.3.1 33577 1i0rA 169 2.17e+00 1i0rA b.45.1.2 61489 1tp9A 162 2.20e+00 1o2dA 371 2.25e+00 e.22.1.2 86591 2fiqA 420 2.42e+00 1o22A 170 2.57e+00 d.238.1.1 86557 1ukuA 102 2.59e+00 d.58.5.2 99533 1v9fA 325 2.63e+00 d.265.1.3 108448 1vzyA 291 2.64e+00 1ejbA 168 2.75e+00 1rvv1 c.16.1.1 59417 1xfsA 178 3.17e+00 d.129.3.5 109589 1kq3A 376 3.52e+00 e.22.1.2 68790 1y9aA 360 3.76e+00 1p8xA 344 3.78e+00 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1a8q 274 4.10e+00 1brt c.69.1.12 34702 1kfwA 435 4.11e+00 c.1.8.5,d.26.3.1 77376,77377 1mkyA 439 4.33e+00 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1k4mA 213 4.55e+00 c.26.1.3 77258 1w85A 368 4.69e+00 1xvwA 160 5.05e+00 1qlpA 394 5.06e+00 1ovaA e.1.1.1 42628 2fh1A 344 5.07e+00 1wleA 501 5.41e+00 2bzlA 325 5.51e+00 1v4pA 157 5.52e+00 1w0mA 226 5.92e+00 c.1.1.1 109027 1zoiA 276 6.20e+00 1ctqA 166 6.30e+00 1ctqA c.37.1.8 31965 1zrn 232 6.46e+00 1qq5A c.108.1.1 43323 1aky 221 6.56e+00 1zin c.37.1.1,g.41.2.1 31896,45197 1ve2A 235 6.99e+00 1k1eA 180 7.27e+00 c.108.1.5 67995 1nwwA 149 8.75e+00 d.17.4.8 86306 1xgsA 295 8.77e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 1va4A 279 8.83e+00 c.69.1.12 108458 1llfA 534 9.01e+00 c.69.1.17 78094 1fjgP 88 9.19e+00 1emwA d.27.1.1 38444 2evwX 166 9.40e+00 1sfe 180 9.41e+00 1sfe a.4.2.1,c.55.7.1 16073,33748 1r88A 280 9.64e+00 c.69.1.3 97219 2cuaA 135 9.73e+00 2cuaA b.6.1.2 23039 1aisB 200 9.98e+00 1aisB a.74.1.2,a.74.1.2 18384,18385 1zgzA 122 1.02e+01 1dciA 275 1.05e+01 1dciA c.14.1.3 30918 1kewA 361 1.05e+01 c.2.1.2 68544 1jqlB 140 1.09e+01 c.37.1.20 63234 1wyuA 438 1.13e+01 1xzoA 174 1.17e+01 2fliA 220 1.18e+01 1wgsA 133 1.18e+01 1bjt 793 1.20e+01 1bjt e.11.1.1 43249 2pth 193 1.21e+01 2pth c.56.3.1 33793 1wy2A 351 1.24e+01 2arhA 203 1.24e+01 1xt5A 135 1.28e+01 1ujpA 271 1.31e+01 c.1.2.4 99462 1mldA 314 1.31e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1td4A 115 1.36e+01 1hkfA 122 1.38e+01 b.1.1.1 83553 2agkA 260 1.40e+01 1hqkA 154 1.40e+01 c.16.1.1 65902 1qkkA 155 1.41e+01 1dbwA c.23.1.1 31104 1fjgK 129 1.43e+01 1fjfK c.55.4.1 33733 1ei9A 279 1.46e+01 1ei9A c.69.1.13 34713 1zb9A 143 1.47e+01 1v0wA 506 1.53e+01 d.136.1.2,d.136.1.2 108220,108221 1ko3A 230 1.65e+01 d.157.1.1 90974 1nh1A 330 1.69e+01 e.45.1.1 91871 1t95A 240 1.69e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1ta3A 274 1.71e+01 c.1.8.5 106731 2cu6A 103 1.74e+01 1yt5A 258 1.78e+01 1b00A 127 1.79e+01 3chy c.23.1.1 31122 3ullA 132 1.79e+01 3ullA b.40.4.3 25282 1cjcA 460 1.80e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1q0uA 219 1.82e+01 c.37.1.19 95512 1xv2A 237 1.84e+01 1g2iA 166 1.88e+01 1g2iA c.23.16.2 31438 1u8zA 168 1.88e+01 1o8xA 146 1.92e+01 c.47.1.10 86681 1m8jA 181 1.93e+01 c.26.1.3 84875 2cxcA 144 1.96e+01 1ptmA 329 1.97e+01 c.77.1.3 95104 2esrA 177 1.97e+01 1cjxA 357 1.97e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 2ew8A 249 1.98e+01 1luaA 287 2.02e+01 c.2.1.7,c.58.1.4 78216,78217 1o5zA 442 2.02e+01 c.59.1.2,c.72.2.2 92530,92531 1o0yA 260 2.04e+01 c.1.10.1 80756 1ej2A 181 2.04e+01 1f9aA c.26.1.3 59414 1szoA 257 2.07e+01 c.14.1.3 106164 1wcuA 153 2.08e+01 1vr7A 142 2.08e+01 1a73A 163 2.09e+01 1a73A d.4.1.3 37145 2aqjA 538 2.12e+01 1i24A 404 2.14e+01 c.2.1.2 83663 1w41A 101 2.14e+01 1wxcA 281 2.16e+01 2cvjA 180 2.19e+01 1s62A 106 2.30e+01 2cnqA 306 2.34e+01 1ihjA 98 2.35e+01 1pdr b.36.1.1 62382 2ggcA 263 2.35e+01 1obdA 306 2.36e+01 d.143.1.1 86767 1e5pA 151 2.48e+01 1bj7 b.60.1.1 59272 1kid 203 2.49e+01 1derA c.8.5.1 30771 2b49A 287 2.55e+01 1xnzA 264 2.55e+01 1m93B 245 2.62e+01 1xmpA 170 2.70e+01 1kfcA 268 2.73e+01 c.1.2.4 77371 1pfvA 551 2.76e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1x82A 190 2.78e+01 1qy5A 269 2.80e+01 d.122.1.1 96573 1krhA 338 2.81e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 2gm3A 175 2.81e+01 1qsmA 152 2.82e+01 1qsmA d.108.1.1 40808 1ou0A 207 2.84e+01 c.23.17.1 93536 1sdoA 203 2.85e+01 c.52.1.21 98809 1gt1A 159 2.86e+01 b.60.1.1 90515 1t06A 235 2.91e+01 a.118.1.17 106194 1oxxK 353 2.91e+01 b.40.6.3,c.37.1.12 93715,93716 1nu0A 138 2.93e+01 c.55.3.8 92165 2a10A 125 2.94e+01 1yal 218 2.97e+01 1cs8A d.3.1.1 37025 1thfD 253 2.99e+01 1thfD c.1.2.1 28535 1kqfA 1015 3.05e+01 b.52.2.2,c.81.1.1 72871,72872 2bdwA 362 3.07e+01 1vybA 238 3.08e+01 d.151.1.1 108897 1xkyA 301 3.10e+01 1nd4A 264 3.15e+01 d.144.1.6 91815 1w6uA 302 3.23e+01 2d8aA 348 3.24e+01 2btzA 394 3.25e+01 1jftA 340 3.25e+01 a.35.1.5,c.93.1.1 66652,66653 1wlgA 299 3.25e+01 1u02A 239 3.26e+01 c.108.1.15 107538 2g1uA 155 3.26e+01 1qopA 268 3.28e+01 2tysA c.1.2.4 28570 1w0dA 337 3.39e+01 1ybdA 239 3.41e+01 2amlA 373 3.43e+01 1o66A 275 3.43e+01 c.1.12.8 92547 2gp4A 628 3.47e+01 2bv5A 282 3.51e+01 1fp3A 402 3.51e+01 1fp3A a.102.1.3 18842 1bj7 156 3.55e+01 1bj7 b.60.1.1 27113 1x8qA 184 3.56e+01 1pujA 282 3.58e+01 c.37.1.8 88294 1dv0A 47 3.65e+01 1dv0A a.5.2.1 16289 1d3yA 301 3.66e+01 1d3yA e.12.1.1 43252 2beiA 170 3.68e+01 1yfqA 342 3.70e+01 1lqtA 456 3.71e+01 c.3.1.1,c.4.1.1 74198,74199 1wtjA 343 3.72e+01 1dbqA 289 3.78e+01 1qpzA c.93.1.1 35666 1kafA 108 3.83e+01 d.199.1.1 68372 1vl1A 232 3.83e+01 c.124.1.1 108707 1pa1A 310 3.90e+01 c.45.1.2 94404 2glfA 450 3.95e+01 2pia 321 3.97e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1odfA 290 3.98e+01 c.37.1.6 92782 1qipA 183 4.04e+01 1qipA d.32.1.1 38470 1czaN 917 4.05e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1vljA 407 4.08e+01 e.22.1.2 108832 1e12A 253 4.08e+01 1c3wA f.13.1.1 43428 1o97C 264 4.16e+01 c.26.2.3 81232 1vl7A 157 4.17e+01 b.45.1.1 108732 1ww9A 392 4.20e+01 1josA 128 4.23e+01 d.52.7.1 84191 1t0bA 252 4.23e+01 c.23.16.6 106199 1euvB 86 4.24e+01 1a5r d.15.1.1 37598 2ez3A 302 4.27e+01 1gq6A 313 4.32e+01 c.42.1.1 70341 1byi 224 4.35e+01 1byi c.37.1.10 32199 1h5qA 265 4.35e+01 1cydA c.2.1.2 60643 1gwmA 153 4.39e+01 b.18.1.19 83348 2fkkA 206 4.40e+01 1y89A 238 4.41e+01 2g0cA 76 4.46e+01 1gvnB 287 4.50e+01 c.37.1.21 76354 1wzuA 300 4.56e+01 1qo7A 394 4.64e+01 1qo7A c.69.1.11 34697 1ydgA 211 4.76e+01 1mdaH 368 4.82e+01 2bbkH b.69.2.1 27637 2f8lA 344 4.83e+01 1lr0A 129 4.86e+01 d.212.1.1 74213 1a6q 382 4.87e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 2f71A 298 4.90e+01 1iioA 84 4.90e+01 a.39.4.1 66150 2bfwA 200 4.93e+01 1v60A 123 4.99e+01 1t9bA 677 5.01e+01 1jeyB 565 5.03e+01 1jeqB b.131.1.2,c.62.1.4 90372,90373 1oe4A 247 5.04e+01 c.18.1.3 86895 1wdpA 495 5.07e+01 1dkqA 410 5.18e+01 1dklA c.60.1.2 33998 1vj0A 380 5.20e+01 b.35.1.2,c.2.1.1 100786,100787 1kxqE 120 5.23e+01 b.1.1.1 73171 2ga9A 297 5.29e+01 1o6dA 163 5.34e+01 c.116.1.3 92567 1cvrA 435 5.43e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1wv2A 265 5.45e+01 1eazA 125 5.47e+01 b.55.1.1 70113 1qfxA 460 5.50e+01 1qfxA c.60.1.2 33994 1y4hA 188 5.54e+01 1z15A 344 5.62e+01 1qgvA 142 5.62e+01 1qgvA c.47.1.8 33056 1o4vA 183 5.64e+01 c.23.8.1 86628 1w9hA 427 5.68e+01 1dkmA 410 5.72e+01 1dklA c.60.1.2 34000 1fzqA 181 5.74e+01 1hurA c.37.1.8 32060 1m2kA 249 5.75e+01 c.31.1.5 84754 1gesA 450 5.75e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1fnnA 389 5.78e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1gpiA 431 5.83e+01 b.29.1.10 65450 1z8sA 146 5.84e+01 2eu8A 216 5.84e+01 1mjfA 281 5.87e+01 c.66.1.17 79198 1f20A 435 5.89e+01 b.43.4.1,c.25.1.4 64932,64933 1br9 194 5.93e+01 1br9 b.40.3.1 25235 1ej8A 140 5.93e+01 1qupA b.1.8.1 22300 1zd7A 159 5.95e+01 1jr2A 286 5.99e+01 c.113.1.1 67111 1lnsA 763 5.99e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1uhgA 385 6.00e+01 e.1.1.1 88491 1sznA 417 6.03e+01 b.71.1.1,c.1.8.1 106162,106163 1wf3A 301 6.06e+01 1zc3B 113 6.06e+01 2et1A 201 6.11e+01 1ob8A 135 6.15e+01 1vdwA 254 6.18e+01 e.7.1.1 100569 1r6dA 337 6.23e+01 c.2.1.2 97148 1jtvA 327 6.25e+01 c.2.1.2 84230 1jkmB 361 6.30e+01 1jkmA c.69.1.2 34634 2fpoA 202 6.33e+01 1wohA 305 6.44e+01 c.42.1.1 109446 2eryA 172 6.44e+01 1t61A 229 6.44e+01 d.169.1.6,d.169.1.6 106529,106530 1ns5A 155 6.48e+01 c.116.1.3 80705 1zin 217 6.55e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1csn 298 6.62e+01 1csn d.144.1.7 41664 1h1yA 228 6.73e+01 c.1.2.2 76506 1xodA 118 6.77e+01 1vdc 333 6.78e+01 1trb c.3.1.5,c.3.1.5 30545,30546 1k66A 149 6.88e+01 c.23.1.1 90941 1uirA 314 6.90e+01 c.66.1.17 99429 1b93A 152 6.92e+01 1b93A c.24.1.2 31507 1mp8A 281 6.92e+01 d.144.1.7 91384 1ym3A 215 6.92e+01 1nnwA 252 6.96e+01 d.159.1.5 80674 2d28C 149 7.05e+01 1w78A 422 7.09e+01 1hynP 379 7.10e+01 1hynP d.112.1.2 61408 1mv8A 436 7.12e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1xniA 118 7.17e+01 1vjqA 79 7.18e+01 k.43.1.1 100830 1m6pA 152 7.20e+01 1m6pA b.64.1.1 27519 2bneA 241 7.25e+01 1iseA 185 7.33e+01 d.67.3.1 90691 2h2tB 175 7.34e+01 1q7sA 117 7.35e+01 c.131.1.1 96055 1ve0A 134 7.37e+01 1zh2A 121 7.40e+01 1d3gA 367 7.41e+01 1d3gA c.1.4.1 28600 1fi2A 201 7.42e+01 1fi2A b.82.1.2 59845 1wq3A 322 7.51e+01 1d1gA 168 7.54e+01 1d1gA c.71.1.1 34889 1e0bA 68 7.57e+01 1e0bA b.34.13.2 37476 1e19A 314 7.58e+01 1b7bA c.73.1.1 34967 1hyeA 313 7.63e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1ymiA 334 7.65e+01 1rloA 271 7.72e+01 1mjhA 162 7.75e+01 1mjhA c.26.2.4 31639 2fm8A 135 7.75e+01 1a76 326 7.75e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1wteA 272 7.75e+01 1bykA 255 7.79e+01 1bykA c.93.1.1 35706 1tqxA 227 7.79e+01 1kdgA 546 7.83e+01 c.3.1.2,d.16.1.1 77337,77338 1j24A 143 7.85e+01 c.52.1.20 84008 2fkbA 180 7.93e+01 1frb 315 7.97e+01 1frb c.1.7.1 28665 2chgA 226 8.01e+01 1o9gA 250 8.04e+01 c.66.1.29 86692 2iv2X 715 8.06e+01 1vi2A 300 8.10e+01 c.2.1.7,c.58.1.5 100726,100727 1q2yA 140 8.13e+01 d.108.1.1 95655 1zhhB 242 8.14e+01 1nhs 447 8.15e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1u11A 182 8.22e+01 c.23.8.1 107576 1k3xA 262 8.29e+01 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 1yoaA 159 8.29e+01 1in6A 334 8.30e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 2gsfA 373 8.34e+01 1vr8A 142 8.35e+01 1vhvA 268 8.36e+01 c.90.1.1 100704 2c2nA 339 8.40e+01 1i40A 175 8.41e+01 b.40.5.1 66024 2btiA 63 8.42e+01 1d3vA 323 8.49e+01 1d3vA c.42.1.1 32559 1wpoA 256 8.53e+01 1lay b.57.1.1 27012 1iibA 106 8.54e+01 1iibA c.44.2.1 32648 1gnyA 153 8.54e+01 b.18.1.11 65404 1q3eA 207 8.59e+01 b.82.3.2 95669 1xkrA 206 8.69e+01 1x42A 232 8.71e+01 1z41A 338 8.72e+01 1yixA 265 8.73e+01 3pcgA 200 8.73e+01 3pchA b.3.6.1 22647 1cuk 203 8.74e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1w1hA 151 8.83e+01 1nzaA 103 8.83e+01 d.58.5.2 86444 1rp0A 284 8.85e+01 1rybA 212 8.85e+01 c.56.3.1 98098 1sek 378 8.87e+01 1sek e.1.1.1 42675 1dqtA 117 8.95e+01 1ah1 b.1.1.1 20653 1rlmA 271 8.99e+01