# List of top-scoring protein chains for t2k-100-30-alpha-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 1qdbA 473 6.65e-01 1qdbA a.138.1.3 19688 1iomA 377 1.64e+00 a.103.1.1 83698 2cunA 410 1.75e+00 2sas 185 2.11e+00 2sas a.39.1.5 17258 1moh 142 2.61e+00 1flp a.1.1.2 15012 1klxA 138 3.20e+00 a.118.18.1 77440 1flp 142 3.50e+00 1flp a.1.1.2 15011 1b0b 142 3.95e+00 2fal a.1.1.2 15010 1k47A 337 6.79e+00 d.14.1.5,d.58.26.4 72040,72041 1rx0A 393 7.13e+00 a.29.3.1,e.6.1.1 98007,98008 1g24A 211 7.90e+00 1g24A d.166.1.1 42270 2a9kB 223 8.03e+00 1knqA 175 9.33e+00 c.37.1.17 72786 1dh3A 55 9.86e+00 1a02J h.1.3.1 45546 1e96B 203 1.03e+01 1e96B a.118.8.1 19211 1tia 279 1.15e+01 3tgl c.69.1.17 34737 1z2iA 358 1.23e+01 1nr6A 473 1.32e+01 a.104.1.1 92085 2bduA 297 1.37e+01 1hh8A 213 1.38e+01 1e96B a.118.8.1 61042 1ytzT 107 1.41e+01 1wm5A 208 1.48e+01 2gnxA 365 1.52e+01 1e9gA 286 1.54e+01 1wgjA b.40.5.1 59393 1yppA 286 1.57e+01 1wgjA b.40.5.1 25407 117eA 286 1.57e+01 1wgjA b.40.5.1 25401 1wgjA 286 1.57e+01 1wgjA b.40.5.1 25397 8prkA 287 1.58e+01 1wgjA b.40.5.1 25395 1e9gB 286 1.59e+01 1wgjA b.40.5.1 59394 1okcA 297 1.61e+01 f.42.1.1 93248 8prkB 287 1.67e+01 1wgjA b.40.5.1 25396 1n6bA 473 1.72e+01 a.104.1.1 85359 1ru3A 732 1.90e+01 e.26.1.3 97835 2g09A 297 2.09e+01 1lj2A 110 2.20e+01 h.1.13.2 73926 1wpuA 147 2.25e+01 1cpt 412 2.26e+01 1cpt a.104.1.1 18968 1a8y 367 2.27e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1qbjA 81 2.32e+01 1qbjA a.4.5.19 16155 1yviA 149 2.34e+01 1sz9A 144 2.40e+01 a.118.9.4 106139 1vj7A 393 2.40e+01 a.211.1.1,d.218.1.8 100801,100802 1p68A 102 2.41e+01 k.8.1.1 94158 1g8pA 350 2.57e+01 1g8pA c.37.1.20 60376 2ezvA 269 2.59e+01 1xvhA 129 2.73e+01 1fzcA 87 2.74e+01 1fzcA h.1.8.1 45590 1guxA 218 2.84e+01 1guxA a.74.1.3 18388 1qspA 165 2.86e+01 1qspA a.24.10.2 16639 1josA 128 2.94e+01 d.52.7.1 84191 2d2sA 235 3.01e+01 1g4uS 383 3.10e+01 1g4uS a.24.11.1,c.45.1.2 16643,32691 1dk0A 188 3.14e+01 1b2vA d.35.1.1 38530 1f3aA 222 3.17e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1ad6 185 3.18e+01 1guxA a.74.1.3 18390 1wmqA 147 3.23e+01 1veaA 148 3.24e+01 d.275.1.1 108529 1b2vA 188 3.26e+01 1b2vA d.35.1.1 38532 1c02A 166 3.29e+01 1qspA a.24.10.2 16633 1pyp 285 3.29e+01 1wgjA b.40.5.1 25409 2cwyA 94 3.30e+01 1b3oA 514 3.33e+01 1ak5 c.1.5.1 28640 1l9lA 74 3.41e+01 a.64.1.1 77827 1or7A 194 3.46e+01 a.4.13.2,a.177.1.1 87332,87333 1eerA 166 3.52e+01 1eerA a.26.1.2 16846 1alvA 173 3.57e+01 1alvA a.39.1.8 17370 1s35A 214 3.58e+01 a.7.1.1,a.7.1.1 98420,98421 1xssA 225 3.58e+01 1uaaA 673 3.58e+01 1pjr c.37.1.19,c.37.1.19 32401,32402 1x1iA 752 3.60e+01 1x3kA 152 3.64e+01 1i1rB 181 3.66e+01 1i1rB a.26.1.1 61548 1dt6A 473 3.73e+01 1dt6A a.104.1.1 18977 1g87A 614 3.80e+01 a.102.1.2,b.2.2.2 83275,83276 2br9A 234 3.86e+01 1qgpA 77 3.89e+01 1qbjA a.4.5.19 16158 1mod 154 3.91e+01 1a6m a.1.1.2 15107 1r6uA 437 3.91e+01 c.26.1.1 97163 1sumB 235 4.00e+01 a.7.12.1 106025 1kfuL 699 4.00e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1eg3A 261 4.03e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1mgn 154 4.12e+01 1a6m a.1.1.2 15097 2spo 154 4.20e+01 1a6m a.1.1.2 15053 2spl 154 4.20e+01 1a6m a.1.1.2 15047 1mlo 154 4.21e+01 1a6m a.1.1.2 15085 1j0mA 752 4.29e+01 a.102.3.2,b.24.1.1,b.30.5.2 83910,83911,83912 1esc 306 4.32e+01 1esc c.23.10.1 31334 2b99A 156 4.33e+01 1bk5A 422 4.36e+01 1bk5A a.118.1.1 19130 1hqoA 258 4.38e+01 1hqoA a.45.1.1,c.47.1.5 17749,33043 1xeeA 91 4.38e+01 1vhnA 318 4.41e+01 c.1.4.1 100693 1a87 321 4.46e+01 1a87 f.1.1.1 43380 1utuA 108 4.50e+01 1a26 361 4.52e+01 1a26 a.41.1.1,d.166.1.2 17412,42274 2d7vA 162 4.54e+01 2bznA 351 4.55e+01 1n08A 163 4.56e+01 b.43.5.1 79730 2mgb 154 4.64e+01 1a6m a.1.1.2 15102 1k0dA 260 4.66e+01 a.45.1.1,c.47.1.5 67930,67931 1wa5B 530 4.76e+01 1t64A 377 4.78e+01 c.42.1.2 106543 1bzpA 153 4.78e+01 1a6m a.1.1.2 15020 1foeA 377 4.81e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 2mgg 154 4.82e+01 1a6m a.1.1.2 15069 1pbjA 125 4.83e+01 d.37.1.1,d.37.1.1 94414,94415 1dkvA 699 4.84e+01 1dkvA 2trcP 217 4.86e+01 1b9yC c.47.1.6 33051 1mll 154 4.92e+01 1a6m a.1.1.2 15057 1g6wA 261 4.95e+01 1hqoA a.45.1.1,c.47.1.5 17751,33045 1cn4C 166 4.96e+01 1eerA a.26.1.2 16847 1gpjA 404 4.98e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2ahrA 259 4.98e+01 1ye8A 178 5.01e+01 1io1A 398 5.05e+01 1io1A e.32.1.1 62611 1ytaA 180 5.05e+01 1ikpA 613 5.06e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1mbd 153 5.09e+01 1a6m a.1.1.2 15033 1fjgI 128 5.09e+01 1fjfI d.14.1.1 37559 1b8bA 605 5.11e+01 1b8bA 1fujA 221 5.18e+01 1a7s b.47.1.2 26349 1f6dA 376 5.26e+01 1f6dA c.87.1.3 35467 1u6zA 513 5.33e+01 1k78A 149 5.44e+01 a.4.1.5,a.4.1.5 68255,68256 1pieA 419 5.47e+01 d.14.1.5,d.58.26.7 94706,94707 1bk6A 422 5.49e+01 1bk5A a.118.1.1 19133 2acjA 66 5.54e+01 1mlg 154 5.55e+01 1a6m a.1.1.2 15104 1sglA 209 5.61e+01 d.124.1.1 105536 1f4qA 165 5.70e+01 1alvA a.39.1.8 17360 1ad3A 452 5.72e+01 1ad3A c.82.1.1 35335 1og6A 298 5.75e+01 c.1.7.1 86984 1mym 154 5.75e+01 1a6m a.1.1.2 15054 2c6qA 351 5.76e+01 1u00A 227 5.78e+01 1bo1A 416 5.98e+01 1bo1A d.143.1.2 41591 1bf5A 545 6.02e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 2d00A 109 6.02e+01 1w27A 714 6.04e+01 2atxA 194 6.15e+01 1ee4A 423 6.17e+01 1ee4A a.118.1.1 19128 1y1xA 191 6.22e+01 103m 154 6.26e+01 1a6m a.1.1.2 15124 169lA 164 6.36e+01 1l92 d.2.1.3 36963 1a6g 151 6.36e+01 1a6m a.1.1.2 15021 1mrzA 293 6.79e+01 b.43.5.1,c.26.1.3 91452,91453 5csmA 256 6.82e+01 5csmA a.130.1.2 19494 192l 164 6.83e+01 1l92 d.2.1.3 36815 1upkA 341 6.89e+01 a.118.1.15 99758 1kfuS 184 6.89e+01 a.39.1.8 68574 1hbxG 157 7.03e+01 1awcA a.4.5.21 60934 1y9qA 192 7.03e+01 2aaxA 275 7.07e+01 195l 164 7.12e+01 1l92 d.2.1.3 36841 2d2mD 145 7.12e+01 102m 154 7.23e+01 1a6m a.1.1.2 15073 1ur3M 319 7.23e+01 c.1.7.1 99806 2fal 147 7.33e+01 2fal a.1.1.2 15150 1mmoG 162 7.33e+01 1mtyG a.23.3.1 16512 1rrmA 386 7.34e+01 e.22.1.2 105081 1hwwA 1015 7.49e+01 a.8.3.1,b.30.5.6,c.6.2.1 83067,83068,83069 1xm9A 457 7.50e+01 1wwzA 159 7.52e+01 1buyA 166 7.58e+01 1eerA a.26.1.2 16848 1efyA 350 7.59e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1b26A 416 7.59e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 1htyA 1015 7.61e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1vgvA 384 7.61e+01 c.87.1.3 100608 1y8qA 346 7.65e+01 1hxkA 1015 7.68e+01 a.8.3.1,b.30.5.6,c.6.2.1 83070,83071,83072 2csbA 519 7.77e+01 1dlwA 116 7.82e+01 1dlyA a.1.1.1 14982 1wdcC 156 7.95e+01 1wdcC a.39.1.5 17317 1bqbA 301 7.95e+01 1hyt d.92.1.2 58962 1feuA 206 7.98e+01 1feuA b.53.1.1 59801 1qwnA 1045 8.04e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1v97A 1332 8.06e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1wmxA 205 8.08e+01 b.18.1.24 109418 1mtyG 162 8.11e+01 1mtyG a.23.3.1 16498 1a6m 151 8.15e+01 1a6m a.1.1.2 15018 1hssA 124 8.21e+01 1bea a.52.1.2 17819 1qr6A 584 8.22e+01 1qr6A c.2.1.7,c.58.1.3 30293,33941 1ab4 477 8.29e+01 1ab4 e.11.1.1 43251 2ffcA 353 8.32e+01 2b7eA 59 8.33e+01 2a11A 242 8.50e+01 2scpA 174 8.50e+01 2scpA a.39.1.5 17256 191l 164 8.58e+01 1l92 d.2.1.3 36826 1xj4A 119 8.61e+01 1v9yA 167 8.61e+01 d.110.3.2 108454 1y8aA 332 8.67e+01 1jae 471 8.67e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1aii 323 8.68e+01 1avc a.65.1.1 18150 1lxyA 409 8.69e+01 d.126.1.4 91154 1b7yA 350 8.69e+01 1pysA d.104.1.1 40776 1qhdA 398 8.70e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1kgsA 225 8.79e+01 a.4.6.1,c.23.1.1 68596,68597 1gln 468 8.81e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1m64A 571 8.90e+01 a.138.1.3,c.3.1.4,d.168.1.1 78683,78684,78685