# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1a58 177 6.52e-22 2cpl b.62.1.1 27495 1awsA 164 2.12e-21 2cpl b.62.1.1 27431 2cpl 165 2.32e-21 2cpl b.62.1.1 27420 1xo7A 166 2.72e-21 2bitX 165 2.85e-21 1awqA 164 2.88e-21 2cpl b.62.1.1 27461 1dywA 173 3.34e-21 2cpl b.62.1.1 27505 1yndA 165 3.46e-21 2rmcA 182 5.88e-21 2cpl b.62.1.1 27491 2cfeA 162 7.47e-21 1zcxA 178 9.54e-21 1qoiA 177 1.02e-20 2cpl b.62.1.1 27490 1ihgA 370 1.43e-20 2cpl a.118.8.1,b.62.1.1 62380,62381 1vdnA 162 2.28e-20 2a2nA 176 5.15e-20 1h0pA 182 8.22e-20 b.62.1.1 76450 1zkcA 197 1.94e-19 1xwnA 174 8.66e-19 2fu0A 160 1.09e-18 2b71A 196 1.63e-18 1j2aA 166 2.65e-17 b.62.1.1 90779 1v9tA 166 5.20e-17 b.62.1.1 108451 1lopA 164 6.27e-16 2cpl b.62.1.1 27510 1zx8A 136 7.57e-01 1zoxA 113 1.16e+00 1sxvA 172 2.83e+00 2b25A 336 4.67e+00 1mdbA 539 4.74e+00 e.23.1.1 79008 1gggA 226 5.79e+00 1lst c.94.1.1 35817 1i8dA 213 5.92e+00 b.43.4.3,b.43.4.3 61953,61954 1uscA 178 6.02e+00 b.45.1.2 99860 1pbyA 489 6.03e+00 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 1nbfA 353 6.31e+00 d.3.1.9 80387 1wu7A 434 6.71e+00 2b8mA 117 8.85e+00 1pmi 440 9.43e+00 1pmi b.82.1.3 28114 1bqk 124 9.44e+00 1bqk b.6.1.1 22889 1gmiA 136 1.02e+01 b.7.1.1 65309 1pmy 123 1.09e+01 1bqk b.6.1.1 22888 1vr8A 142 1.13e+01 1kskA 234 1.16e+01 d.66.1.5,d.265.1.3 72920,90389 1nb8A 353 1.23e+01 d.3.1.9 80385 1zlqA 502 1.34e+01 1zq4A 693 1.35e+01 1b1cA 181 1.38e+01 1amoA c.23.5.2 31212 2aexA 346 1.39e+01 1gteA 1025 1.43e+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 2gefA 217 1.49e+01 1vioA 243 1.53e+01 d.265.1.3,d.66.1.5 100762,100763 1paz 123 1.53e+01 1bqk b.6.1.1 22878 1x74A 360 1.55e+01 1uovA 159 1.58e+01 b.7.1.2 107974 1mixA 206 1.63e+01 a.11.2.1,b.55.1.5 79166,79167 2gk3A 256 1.64e+01 2gfoA 396 1.73e+01 1xgsA 295 1.74e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1nslA 184 1.79e+01 d.108.1.1 86137 1bdfA 235 1.84e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1wsrA 375 1.87e+01 1uowA 159 1.92e+01 b.7.1.2 107975 2bf6A 449 1.92e+01 1svb 395 2.33e+01 1svb b.1.18.4,f.10.1.1 21814,43827 1ja1A 622 2.45e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1agjA 242 2.47e+01 1agjA b.47.1.1 25827 1f1zA 273 2.61e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1tjxA 159 2.66e+01 1h7wA 1025 2.73e+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 1sczA 233 2.79e+01 c.43.1.1 98802 1m2oA 768 2.98e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1o94A 729 3.05e+01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 2bibA 547 3.05e+01 1xn9A 101 3.18e+01 1tueA 212 3.20e+01 c.37.1.20 107323 1dar 691 3.26e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1ej8A 140 3.26e+01 1qupA b.1.8.1 22300 1w15A 153 3.28e+01 b.7.1.2 109041 1b35A 260 3.28e+01 1b35A b.121.4.1 23333 2aynA 404 3.32e+01 1wdnA 226 3.44e+01 1lst c.94.1.1 35816 1em2A 229 3.46e+01 1em2A d.129.3.2 41321 1k12A 158 3.46e+01 b.18.1.15 71978 1yymG 313 3.49e+01 1wosA 364 3.61e+01 b.44.2.1,d.250.1.1 109468,109469 2a8eA 220 3.65e+01 1nbwB 117 3.69e+01 c.51.3.2 80396 1l3aA 228 3.72e+01 d.18.1.2 73531 2fk9A 157 3.79e+01 1jc4A 148 3.81e+01 1jc4A d.32.1.4 62863 1uiuA 502 3.87e+01 c.94.1.1 99434 1k0iA 394 3.92e+01 c.3.1.2,d.16.1.2 67942,67943 2arzA 247 3.92e+01 1k8kD 300 3.95e+01 d.198.2.1,d.198.2.1 68309,68310 1aisA 182 4.10e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 2coeA 120 4.11e+01 1yy5B 513 4.25e+01 1kzlA 208 4.31e+01 b.43.4.3,b.43.4.3 77635,77636 1m1hA 248 4.33e+01 b.114.1.1,d.58.42.1 78415,78416 1szoA 257 4.39e+01 c.14.1.3 106164 1o8uA 257 4.40e+01 c.14.1.3 81194 1t6gC 184 4.56e+01 b.29.1.11 106569 1xfsA 178 4.62e+01 d.129.3.5 109589 1sq2N 113 4.63e+01 b.1.1.1 105881 1qw9A 502 4.66e+01 b.71.1.2,c.1.8.3 96466,96467 1op4A 159 4.69e+01 b.1.6.1 93397 1wvqA 167 4.74e+01 1h1aA 191 4.77e+01 b.29.1.11 83450 3tdt 274 4.79e+01 3tdt b.81.1.2 28053 1xipA 388 4.80e+01 1fr7A 260 4.80e+01 2cba b.74.1.1 27828 1igrA 478 4.84e+01 1igrA c.10.2.5,c.10.2.5,g.3.9.1 30877,30878,44188 1n0lA 224 4.96e+01 b.1.11.1,b.7.2.1 79744,79745 2g30A 258 4.97e+01 1xb2B 291 4.98e+01 1dfmA 223 5.02e+01 1d2iA c.52.1.5 33295 1ydxA 406 5.04e+01 2cba 260 5.11e+01 2cba b.74.1.1 27821 1ycoA 279 5.13e+01 1pswA 348 5.14e+01 c.87.1.7 88287 1qmpA 130 5.21e+01 1dz3A c.23.1.1 31106 1q67A 231 5.24e+01 b.55.1.7 95960 1n13B 113 5.31e+01 1jmxA 494 5.31e+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 1ywlA 96 5.38e+01 1npuA 117 5.43e+01 b.1.1.1 92038 1t0fA 276 5.44e+01 1auvA 311 5.49e+01 1auvA c.30.1.5,d.142.1.3 31723,41558 1xedA 117 5.49e+01 2fxqA 264 5.50e+01 1lugA 259 5.59e+01 b.74.1.1 91127 1dl5A 317 5.63e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1xe7A 203 5.67e+01 2ezvA 269 5.68e+01 1lq9A 112 5.69e+01 d.58.4.3 78129 1wvhA 134 5.76e+01 1dz3A 130 5.79e+01 1dz3A c.23.1.1 31105 1hqsA 423 5.85e+01 1iso c.77.1.1 61154 1yo1A 260 5.95e+01 1fjsA 234 6.03e+01 1ucyE b.47.1.2 26336 1ntyA 311 6.05e+01 a.87.1.1,b.55.1.1 103873,103874 1yoeA 322 6.07e+01 2b49A 287 6.08e+01 1r64A 481 6.15e+01 b.18.1.20,c.41.1.1 97140,97141 1t9hA 307 6.24e+01 1wv3A 238 6.28e+01 1dnlA 199 6.28e+01 1ci0A b.45.1.1 25753 1zkoA 136 6.29e+01 1mp9A 198 6.35e+01 d.129.1.1,d.129.1.1 91385,91386 1hcb 260 6.37e+01 2cba b.74.1.1 27814 2bj0A 203 6.38e+01 1j5wA 298 6.38e+01 d.104.1.1 71589 1fa8A 135 6.39e+01 1qipA d.32.1.1 38486 1c0eA 157 6.44e+01 1dg9A c.44.1.1 32638 1k8kC 372 6.67e+01 b.69.4.1 68308 1p63A 144 6.69e+01 b.42.1.1 94153 1y89A 238 6.76e+01 2shpA 525 6.80e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 2f0cA 191 6.88e+01 2adzA 178 6.91e+01 1juvA 193 6.98e+01 c.71.1.1 90912 1k68A 140 7.03e+01 c.23.1.1 90943 1qpxA 218 7.06e+01 1qpxA b.1.11.1,b.7.2.1 22318,23200 1isiA 265 7.10e+01 e.4.1.1 71394 1rg8A 146 7.11e+01 1tu5A 746 7.14e+01 1qqp2 218 7.16e+01 1qqp2 1xnkA 196 7.16e+01 1dzkA 157 7.17e+01 1obpA b.60.1.1 27096 1g2lA 235 7.25e+01 b.47.1.2 65112 1bebA 162 7.26e+01 1bebA b.60.1.1 27115 1f9zA 135 7.32e+01 1qipA d.32.1.1 38484 1wchA 315 7.32e+01 1w2xA 758 7.37e+01 c.14.1.4,c.14.1.4 109134,109135 1t4wA 196 7.41e+01 b.2.5.2 106427 1djnA 729 7.46e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28612,30313,30598 1fh0A 221 7.49e+01 1cs8A d.3.1.1 59832 1g291 372 7.56e+01 1g291 1fvuB 125 7.61e+01 1ixxB d.169.1.1 42346 2fdiA 211 7.61e+01 1dg9A 157 7.66e+01 1dg9A c.44.1.1 32637 1xyn 178 7.67e+01 1axkA b.29.1.11 24322 1i7oA 429 7.73e+01 1i7oA d.177.1.1,d.177.1.1 61893,61894 1djqA 729 7.75e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1ri5A 298 7.77e+01 c.66.1.34 97502 1rsgA 516 7.78e+01 1q7zA 566 7.83e+01 c.1.21.2,c.1.26.1 96090,96091 1c3hA 137 7.84e+01 b.22.1.1 90405 1t5rA 284 7.97e+01 f.6.1.1 106465 1vr0A 247 8.07e+01 1vlaA 150 8.12e+01 d.227.1.2 108735 1vgjA 184 8.14e+01 1q5qA 259 8.15e+01 d.153.1.4 95904 2asuB 234 8.17e+01 1w96A 554 8.20e+01 1rsy 152 8.24e+01 1rsy b.7.1.2 23192 1q8fA 313 8.24e+01 c.70.1.1 96203 2cb2A 318 8.29e+01 1sheA 103 8.33e+01 d.274.1.1 105551 1vk6A 269 8.38e+01 d.113.1.4,d.113.1.4 100851,100852 2cy5A 140 8.40e+01 1ii7A 333 8.42e+01 1ii7A d.159.1.4 62415 1kuuA 202 8.46e+01 d.153.2.1 73019 1aq0A 306 8.47e+01 1aq0A c.1.8.3 28842 2foyA 260 8.56e+01 2tmdA 729 8.60e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 2awkA 228 8.75e+01 1ema 236 8.76e+01 1ema d.22.1.1 38339 2ew0A 192 8.80e+01 1oa4A 222 8.81e+01 b.29.1.11 86731 1m6iA 493 8.89e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1srqA 341 8.91e+01 e.55.1.1 105967 1lqpA 135 8.93e+01 d.32.1.2 78151