# 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 2bitX 165 3.60e-23 2cpl 165 4.58e-23 2cpl b.62.1.1 27420 1ihgA 370 5.03e-23 2cpl a.118.8.1,b.62.1.1 62380,62381 1yndA 165 5.41e-23 1a58 177 6.19e-23 2cpl b.62.1.1 27495 1dywA 173 6.56e-23 2cpl b.62.1.1 27505 1awqA 164 7.30e-23 2cpl b.62.1.1 27461 1awsA 164 8.29e-23 2cpl b.62.1.1 27431 1xo7A 166 9.79e-23 1zcxA 178 1.29e-22 2rmcA 182 1.43e-22 2cpl b.62.1.1 27491 1qoiA 177 2.83e-22 2cpl b.62.1.1 27490 2cfeA 162 2.84e-22 1vdnA 162 3.08e-22 1h0pA 182 1.04e-21 b.62.1.1 76450 2a2nA 176 9.67e-21 1zkcA 197 1.32e-20 1xwnA 174 3.33e-20 2b71A 196 8.17e-20 2fu0A 160 1.01e-19 1v9tA 166 2.68e-18 b.62.1.1 108451 1j2aA 166 2.70e-18 b.62.1.1 90779 1lopA 164 1.45e-17 2cpl b.62.1.1 27510 1zx8A 136 4.71e-01 1qwgA 251 1.46e+00 c.1.27.1 96473 1xhnA 184 2.81e+00 2gvkA 317 3.22e+00 2gclA 261 3.53e+00 2cy7A 396 4.59e+00 1xewX 182 5.07e+00 2bf6A 449 5.28e+00 1us5A 314 6.35e+00 c.94.1.1 99856 1kskA 234 7.08e+00 d.66.1.5,d.265.1.3 72920,90389 1gggA 226 7.62e+00 1lst c.94.1.1 35817 1k07A 263 7.81e+00 d.157.1.1 77218 1wchA 315 8.80e+00 1w96A 554 9.22e+00 1ja1A 622 9.67e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1h5rA 293 9.86e+00 c.68.1.6 65623 1wu7A 434 1.03e+01 1yo8A 634 1.08e+01 1mp4A 292 1.12e+01 c.68.1.6 79376 1ntyA 311 1.19e+01 a.87.1.1,b.55.1.1 103873,103874 1zoxA 113 1.20e+01 2gk3A 256 1.20e+01 1wosA 364 1.21e+01 b.44.2.1,d.250.1.1 109468,109469 1rc9A 221 1.22e+01 830cA 168 1.25e+01 1ck7A d.92.1.11 40400 1bdfA 235 1.26e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1fxoA 293 1.27e+01 1g0rA c.68.1.6 34524 1m3iA 471 1.32e+01 f.9.1.1 91178 1vr0A 247 1.33e+01 2bh9A 489 1.33e+01 1pbyA 489 1.36e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1kv9A 668 1.44e+01 a.3.1.6,b.70.1.1 73056,73057 2awdA 323 1.45e+01 2b8mA 117 1.47e+01 1vqvA 306 1.49e+01 1zdrA 164 1.51e+01 1u2zA 433 1.59e+01 c.66.1.31 107626 1wriA 93 1.72e+01 1tllA 688 1.75e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1jmxA 494 1.75e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1lq9A 112 1.78e+01 d.58.4.3 78129 1yoeA 322 1.81e+01 1a70 97 1.89e+01 1awd d.15.4.1 37678 1g7fA 298 1.89e+01 1pty c.45.1.2 60330 1gteA 1025 1.92e+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 1t5rA 284 1.96e+01 f.6.1.1 106465 1khbA 625 1.99e+01 c.91.1.1,c.109.1.1 68606,68607 1g291 372 2.01e+01 1g291 2bvfA 459 2.04e+01 1o7iA 119 2.14e+01 b.40.4.3 86642 1lqtA 456 2.14e+01 c.3.1.1,c.4.1.1 74198,74199 1mdbA 539 2.23e+01 e.23.1.1 79008 1k2fA 190 2.25e+01 b.8.1.2 68054 1oxsC 353 2.30e+01 b.40.6.3,c.37.1.12 87519,87520 1h7wA 1025 2.31e+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 1f0iA 504 2.37e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1i8dA 213 2.37e+01 b.43.4.3,b.43.4.3 61953,61954 2f71A 298 2.40e+01 1k87A 669 2.45e+01 a.176.1.1,c.1.23.2 77286,77287 1vr8A 142 2.45e+01 1zxiB 809 2.51e+01 1pfo 500 2.51e+01 1pfo f.9.1.1 43826 1h4xA 117 2.51e+01 1auz c.13.2.1 60626 1vjhA 122 2.52e+01 d.129.3.1 100811 1qmpA 130 2.53e+01 1dz3A c.23.1.1 31106 2f02A 323 2.55e+01 1oa4A 222 2.56e+01 b.29.1.11 86731 1q8fA 313 2.58e+01 c.70.1.1 96203 1do6A 124 2.59e+01 1do6A b.1.13.1 22361 2b0aA 186 2.64e+01 1v0wA 506 2.66e+01 d.136.1.2,d.136.1.2 108220,108221 1y7mA 164 2.67e+01 1fh0A 221 2.73e+01 1cs8A d.3.1.1 59832 1cr5A 189 2.75e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1eur 365 2.79e+01 1eut b.68.1.1 27607 1oxxK 353 2.85e+01 b.40.6.3,c.37.1.12 93715,93716 3il8 72 2.90e+01 1tvxA d.9.1.1 37356 1wdnA 226 2.91e+01 1lst c.94.1.1 35816 1n62B 809 2.93e+01 d.41.1.1,d.133.1.1 80092,80093 1ttuA 477 2.94e+01 b.1.18.1,b.2.5.8,b.42.7.1 107305,107306,107307 1hp1A 516 2.95e+01 d.114.1.1,d.159.1.2 70976,70977 1ewnA 219 3.10e+01 1bnkA b.46.1.2 25762 1agjA 242 3.11e+01 1agjA b.47.1.1 25827 1e30A 155 3.19e+01 1rcy b.6.1.1 23016 2cba 260 3.21e+01 2cba b.74.1.1 27821 1acf 125 3.21e+01 3nul d.110.1.1 40882 1y7bA 542 3.22e+01 1qlpA 394 3.22e+01 1ovaA e.1.1.1 42628 1pa1A 310 3.25e+01 c.45.1.2 94404 1qj2B 809 3.29e+01 1qj2B 2fpqA 444 3.30e+01 1z7mA 344 3.34e+01 1yo1A 260 3.37e+01 1r64A 481 3.50e+01 b.18.1.20,c.41.1.1 97140,97141 1ve4A 206 3.57e+01 2cb2A 318 3.59e+01 2aqjA 538 3.59e+01 2gefA 217 3.64e+01 1w8oA 601 3.66e+01 1vfjA 116 3.67e+01 1f20A 435 3.71e+01 b.43.4.1,c.25.1.4 64932,64933 2aexA 346 3.71e+01 1vjvA 415 3.74e+01 d.3.1.9 108632 1dz3A 130 3.75e+01 1dz3A c.23.1.1 31105 1m9sA 605 3.85e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1qcsA 211 3.86e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1o04A 500 3.87e+01 c.82.1.1 86508 1q1oA 98 3.93e+01 d.15.2.2 95596 1zx1A 231 3.94e+01 1lugA 259 3.94e+01 b.74.1.1 91127 1cf2O 337 3.95e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 1h6tA 291 4.13e+01 b.1.18.15,c.10.2.1 65686,65687 1e2wA 251 4.23e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1sg0A 230 4.31e+01 1llnA 262 4.33e+01 d.165.1.1 84625 1tl2A 236 4.35e+01 1tl2A b.67.1.1 27541 1mw7A 240 4.39e+01 e.39.1.1 79557 1vk6A 269 4.42e+01 d.113.1.4,d.113.1.4 100851,100852 1r13A 148 4.42e+01 d.169.1.1,h.1.1.1 96782,96783 1zoyA 622 4.48e+01 1tuwA 109 4.57e+01 d.58.4.8 107346 1fr7A 260 4.59e+01 2cba b.74.1.1 27828 1krhA 338 4.64e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 2atpB 115 4.73e+01 1qv9A 283 4.73e+01 c.127.1.1 96356 1q5fA 156 4.79e+01 d.24.1.1 104536 1u69A 163 4.80e+01 d.32.1.7 107699 1ptvA 321 4.81e+01 1pty c.45.1.2 32665 2calA 154 4.82e+01 2azeA 155 4.84e+01 1b77A 228 4.88e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1b7gO 340 4.88e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1m6iA 493 4.90e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1r4wA 226 4.92e+01 c.47.1.13 97050 1sq2N 113 4.94e+01 b.1.1.1 105881 1ush 550 4.96e+01 1ush d.114.1.1,d.159.1.2 40923,42079 1pvc1 301 4.97e+01 1pov1 1c0eA 157 5.03e+01 1dg9A c.44.1.1 32638 1wcqA 601 5.11e+01 1wsrA 375 5.16e+01 1hq0A 295 5.16e+01 1hzgA d.194.1.1 61122 1z4vA 532 5.17e+01 1lzlA 323 5.22e+01 c.69.1.2 78306 1fa8A 135 5.24e+01 1qipA d.32.1.1 38486 1wloA 136 5.24e+01 1s2oA 244 5.25e+01 1dl5A 317 5.25e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1rkiA 102 5.26e+01 1lnsA 763 5.32e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1oalA 151 5.36e+01 b.1.8.1 86739 1y4jA 284 5.41e+01 1pmy 123 5.45e+01 1bqk b.6.1.1 22888 2as9A 210 5.51e+01 2bc2A 227 5.56e+01 1a7tA d.157.1.1 42031 1a8p 258 5.56e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1vi2A 300 5.58e+01 c.2.1.7,c.58.1.5 100726,100727 1esmA 316 5.59e+01 1esmA c.37.1.6 31953 1fiqC 763 5.59e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1r61A 207 5.64e+01 c.8.8.1 97138 1v93A 296 5.75e+01 c.1.23.1 100532 1cot 129 5.80e+01 1ycc a.3.1.1 15899 1frrA 95 5.91e+01 1awd d.15.4.1 37674 1p9bA 442 5.93e+01 c.37.1.10 94385 1uwsA 489 5.98e+01 c.1.8.4 108073 1y89A 238 6.01e+01 1xknA 355 6.01e+01 1kepA 348 6.05e+01 c.2.1.2 68536 1i50C 318 6.11e+01 d.74.3.1,d.181.1.1 61756,61757 1ixkA 315 6.21e+01 c.66.1.38 90716 1z4xA 532 6.30e+01 1wggA 96 6.33e+01 1yzxA 226 6.36e+01 2b7aA 293 6.40e+01 1lylA 504 6.42e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1u0sY 118 6.43e+01 c.23.1.1 107566 1vi9A 299 6.51e+01 c.72.1.5 100750 1befA 181 6.52e+01 1befA b.47.1.3 26419 1tmy 120 6.57e+01 1dbwA c.23.1.1 31083 1mpgA 282 6.61e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1c4rA 182 6.62e+01 1c4rA b.29.1.4 24229 1dkgA 197 6.69e+01 1dkgA b.73.1.1,h.1.9.1 27812,45626 1oc2A 348 6.74e+01 c.2.1.2 92765 1qg3A 195 6.75e+01 1qg3A b.1.2.1,b.1.2.1 21993,21994 1v9nA 360 6.81e+01 2bw2A 140 6.83e+01 1td2A 287 6.83e+01 c.72.1.5 106765 1f9zA 135 6.84e+01 1qipA d.32.1.1 38484 1vqoD 177 6.84e+01 1x7dA 350 6.86e+01 1fjgC 239 6.93e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 1ri7A 171 6.97e+01 a.4.5.32,d.58.4.2 97504,97505 1xtaA 221 7.01e+01 2sli 679 7.02e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1f9mA 112 7.02e+01 1erv c.47.1.1 32736 1wv3A 238 7.06e+01 1jhfA 202 7.22e+01 a.4.5.2,b.87.1.1 63057,63058 1xygD 359 7.22e+01 1x74A 360 7.27e+01 1o26A 232 7.30e+01 d.207.1.1 86566 1faaA 124 7.32e+01 1erv c.47.1.1 32738 2b8nA 429 7.33e+01 1x3lA 440 7.33e+01 1wi6A 88 7.41e+01 2g5dA 422 7.46e+01 1c0pA 363 7.50e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 2bzsA 236 7.52e+01 1qqp2 218 7.56e+01 1qqp2 1vkdA 338 7.69e+01 b.67.2.4 108644 1sgwA 214 7.73e+01 c.37.1.12 105541 1zq9A 285 7.77e+01 1y07A 128 7.82e+01 1w0pA 781 7.83e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1yemA 179 7.84e+01 1nbfD 76 7.92e+01 d.15.1.1 80390 1gqiA 708 7.95e+01 c.1.8.10,d.92.2.2 76279,76280 1aop 497 7.97e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1uc7A 125 7.99e+01 c.47.1.1 99163 1pov1 302 8.00e+01 1pov1 1g8sA 230 8.00e+01 c.66.1.3 90507 1zvnA 99 8.00e+01 2gfoA 396 8.04e+01 1fbnA 230 8.17e+01 1fbnA c.66.1.3 34181 1f39A 101 8.18e+01 1umuA b.87.1.1 28386 1j3kA 280 8.33e+01 c.71.1.1 84070 1ezvB 352 8.34e+01 1ezvB d.185.1.1,d.185.1.1 59543,59544 1jnyA 435 8.35e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1ermA 263 8.36e+01 1btl e.3.1.1 42690 1i39A 225 8.38e+01 1ekeA c.55.3.1 61585 1kb9B 352 8.39e+01 d.185.1.1,d.185.1.1 77313,77314 1g5bA 221 8.44e+01 1g5bA d.159.1.3 60261 1vp4A 425 8.44e+01 1ww9A 392 8.45e+01 1mqoA 227 8.45e+01 d.157.1.1 103846 2bjhA 260 8.45e+01 1vctA 205 8.47e+01 1hfs 160 8.48e+01 1hfc d.92.1.11 40370 1hy7A 173 8.50e+01 d.92.1.11 65957 1mxiA 160 8.57e+01 c.116.1.1 79646 1molA 94 8.58e+01 1molA d.17.1.1 37988 1bw0A 416 8.60e+01 1bw0A c.67.1.1 34385 1gesA 450 8.60e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1u2cA 246 8.68e+01 b.1.6.2,d.272.1.1 107610,107611 2azpA 318 8.69e+01 1wl8A 189 8.76e+01 1tidB 119 8.79e+01 c.13.2.1 107000 1auvA 311 8.79e+01 1auvA c.30.1.5,d.142.1.3 31723,41558 1n8fA 350 8.79e+01 c.1.10.4 85397 1npuA 117 8.80e+01 b.1.1.1 92038 2pii 112 8.81e+01 2pii d.58.5.1 39071 1v6sA 390 8.85e+01 c.86.1.1 100424 2aaa 484 8.86e+01 7taa b.71.1.1,c.1.8.1 27777,28764 1y3jA 77 8.89e+01 1btl 263 8.94e+01 1btl e.3.1.1 42691 1xe7A 203 8.95e+01 1dg9A 157 8.99e+01 1dg9A c.44.1.1 32637