# List of top-scoring protein chains for t2k-100-30-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 1kekA 1231 1.77e+00 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 2napA 723 2.16e+00 2napA b.52.2.2,c.81.1.1 26926,35334 2c3mA 1231 2.46e+00 1b0pA 1231 2.60e+00 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 1p3wA 404 3.38e+00 c.67.1.3 87752 1d6aB 262 3.94e+00 1qi7A d.165.1.1 42198 1qciA 262 4.44e+00 1qi7A d.165.1.1 42201 1sgjA 284 4.62e+00 c.1.12.5 105535 1t3qB 788 5.40e+00 d.41.1.1,d.133.1.1 106369,106370 1vhnA 318 5.48e+00 c.1.4.1 100693 1sqrA 95 5.82e+00 1lkzA 219 5.98e+00 c.124.1.4,d.58.40.1 73991,73992 1ks2A 219 6.48e+00 c.124.1.4,d.58.40.1 72908,72909 1nuyA 337 6.91e+00 e.7.1.1 86213 1oe8A 211 7.05e+00 a.45.1.1,c.47.1.5 86905,86906 1kz8A 337 7.40e+00 e.7.1.1 77633 1fpkA 335 8.01e+00 1frpA e.7.1.1 42930 1frpA 335 8.13e+00 1frpA e.7.1.1 42875 1k6aA 303 8.74e+00 c.1.8.3 72081 1rdzA 337 8.93e+00 1frpA e.7.1.1 42882 2c1cA 312 9.00e+00 5fbpA 335 9.01e+00 1frpA e.7.1.1 42873 2bnjA 303 9.60e+00 1dbiA 280 1.07e+01 1gci c.41.1.1 32543 1ye8A 178 1.07e+01 1nijA 318 1.18e+01 c.37.1.10,d.237.1.1 85741,85742 1gokA 303 1.19e+01 c.1.8.3 65420 1wucA 250 1.34e+01 1taxA 302 1.41e+01 1taxA 1xa0A 328 1.41e+01 1de5A 426 1.45e+01 1de5A c.1.15.2 29402 1uk8A 282 1.71e+01 c.69.1.10 107907 2f2lA 167 1.73e+01 1jmsA 381 1.74e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1jjiA 311 1.76e+01 c.69.1.2 66766 1bmv1 198 1.78e+01 1bmv1 1de6A 426 1.83e+01 1de5A c.1.15.2 29398 1i1wA 303 1.83e+01 c.1.8.3 76732 1v8aA 265 1.88e+01 c.72.1.2 100494 1nnlA 225 1.89e+01 c.108.1.4 85906 1kuuA 202 1.90e+01 d.153.2.1 73019 1a7qH 116 1.96e+01 1gc1H b.1.1.1 19955 1b31A 302 2.00e+01 1taxA c.1.8.3 28892 1c3qA 272 2.06e+01 1c3qA c.72.1.2 34948 1uirA 314 2.09e+01 c.66.1.17 99429 1vdwA 254 2.10e+01 e.7.1.1 100569 1nmoA 247 2.22e+01 c.135.1.1 91980 1lnzA 342 2.24e+01 b.117.1.1,c.37.1.8 78112,78113 1n9lA 109 2.29e+01 d.110.3.6 85468 1iupA 282 2.31e+01 c.69.1.10 76815 1yf2A 425 2.38e+01 1kdgA 546 2.47e+01 c.3.1.2,d.16.1.1 77337,77338 1uq5A 263 2.50e+01 d.165.1.1 99778 2ae0X 345 2.50e+01 1lbvA 252 2.53e+01 e.7.1.1 73813 1kbjA 412 2.58e+01 c.1.4.1 72280 2cxxA 190 2.62e+01 1wzzA 334 2.72e+01 1fkx 349 2.73e+01 1a4mA c.1.9.1 29018 1g5bA 221 2.81e+01 1g5bA d.159.1.3 60261 2d4qA 257 2.86e+01 1q5dA 419 2.89e+01 a.104.1.1 95891 1vr0A 247 2.94e+01 1a4mA 349 3.05e+01 1a4mA c.1.9.1 29014 1bg4 302 3.08e+01 1taxA c.1.8.3 28806 1zbsA 291 3.09e+01 1jeyA 609 3.16e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1h2bA 359 3.18e+01 b.35.1.2,c.2.1.1 90543,90544 1r6lA 239 3.23e+01 d.14.1.4,d.101.1.1 97153,97154 1pgl1 185 3.25e+01 1ekqA 272 3.44e+01 1c3qA c.72.1.2 34941 1bavA 309 3.53e+01 1aye c.56.5.1 33806 1h7mA 102 3.57e+01 d.79.3.1 83485 1cv2A 296 3.62e+01 1bn6A c.69.1.8 34680 1obs 267 3.66e+01 1mrj d.165.1.1 42213 1z2kA 109 3.68e+01 1qcwA 410 3.73e+01 1gox c.1.4.1 28622 1fcbA 511 3.73e+01 1gox c.1.4.1,d.120.1.1 28620,41087 1jd5A 124 3.79e+01 g.52.1.1 66544 1mj5A 302 3.84e+01 c.69.1.8 91285 2gaeA 346 3.96e+01 1w41A 101 3.99e+01 1cf7B 95 4.10e+01 1cf7B a.4.5.17 16152 1add 349 4.13e+01 1a4mA c.1.9.1 29020 1d8wA 426 4.25e+01 1de5A c.1.15.2 29394 1k77A 260 4.31e+01 c.1.15.5 72096 1a3aA 148 4.31e+01 1a3aA d.112.1.1 40917 1ltdA 506 4.32e+01 1gox c.1.4.1,d.120.1.1 28618,41086 1q7sA 117 4.37e+01 c.131.1.1 96055 1oen 540 4.41e+01 1ayl c.91.1.1,c.109.1.1 64750,64751 2biiA 424 4.46e+01 1iz7A 295 4.47e+01 c.69.1.8 76982 1q6zA 528 4.60e+01 1m4lA 307 4.65e+01 c.56.5.1 78604 1cqwA 295 4.73e+01 1b6g c.69.1.8 34679 3cbh 365 4.76e+01 1bvwA c.6.1.1 30665 1z7lA 276 4.84e+01 1spiA 358 4.87e+01 1frpA e.7.1.1 42939 1ift 263 4.88e+01 1mrj d.165.1.1 42211 1qjwA 365 4.89e+01 1bvwA c.6.1.1 30657 2booA 247 4.90e+01 1sxgA 280 4.99e+01 1oz9A 150 5.07e+01 d.92.1.15 93808 1bn6A 294 5.22e+01 1bn6A c.69.1.8 34678 1dcuA 357 5.24e+01 1frpA e.7.1.1 42943 1bn7A 294 5.28e+01 1bn6A c.69.1.8 34677 1j0hA 588 5.28e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 6cpa 307 5.32e+01 1aye c.56.5.1 33816 2akaB 299 5.33e+01 1jeqA 609 5.36e+01 1jeqA a.140.2.1,b.131.1.1,c.62.1.3 64748,90366,90367 1q6oA 216 5.48e+01 c.1.2.3 95986 1a3aC 148 5.53e+01 1a3aA d.112.1.1 40919 1n0uA 842 5.55e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 2ctb 307 5.55e+01 1aye c.56.5.1 33803 1zd0A 150 5.70e+01 1vfaB 116 5.86e+01 1gc1H b.1.1.1 19929 1q5xA 161 5.87e+01 c.8.7.1 95947 6gsvA 217 5.90e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1tux 301 5.97e+01 1taxA c.1.8.3 28907 1g0hA 252 5.97e+01 1dk4A e.7.1.1 60171 1womA 271 5.99e+01 1mx4A 168 6.02e+01 d.211.1.1 79640 1vdmA 153 6.03e+01 1grvB 182 6.07e+01 c.61.1.1 76322 1a2yB 116 6.16e+01 1gc1H b.1.1.1 19927 1yme 309 6.17e+01 1aye c.56.5.1 33804 1i9yA 347 6.22e+01 1i9yA d.151.1.2 62101 1ef1A 294 6.30e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1ihbA 162 6.33e+01 1bd8 d.211.1.1 19161 1zx5A 300 6.44e+01 1bdg 451 6.48e+01 1qhaA c.55.1.3,c.55.1.3 33461,33462 1u7nA 336 6.55e+01 c.77.1.4 107726 1xtzA 264 6.62e+01 1c4xA 285 6.75e+01 1c4xA c.69.1.10 34684 1vj1A 363 6.81e+01 b.35.1.2,c.2.1.1 100794,100795 1xpkC 388 6.93e+01 1v58A 241 6.93e+01 c.47.1.9,d.17.3.1 108371,108372 1y5mA 276 6.95e+01 1y37A 304 7.25e+01 1i9zA 347 7.33e+01 1i9yA d.151.1.2 62102 1v3wA 173 7.34e+01 b.81.1.5 100291 1utyA 187 7.36e+01 b.147.1.1 108036 2ctc 307 7.39e+01 1aye c.56.5.1 33802 1nfdA 203 7.50e+01 1tcrA b.1.1.1,b.1.1.2 20612,21550 1o58A 303 7.58e+01 c.79.1.1 92491 2a9gA 418 7.70e+01 1yu2A 381 7.73e+01 2c0cA 362 7.78e+01 1xseA 295 7.78e+01 1zn8A 180 7.81e+01 1tzzA 392 7.81e+01 1fmcA 255 7.87e+01 1cydA c.2.1.2 29856 1q47A 495 7.97e+01 b.69.12.1 104532 1dk4A 252 7.99e+01 1dk4A e.7.1.1 42970 1rxxA 421 8.04e+01 d.126.1.4 98061 1fdlH 218 8.08e+01 1igtB b.1.1.1,b.1.1.2 19961,21021 1xpmA 396 8.13e+01 1c8bA 371 8.21e+01 1c8bA c.56.1.2 59082 1v04A 355 8.29e+01 b.68.6.2 100240 1h70A 255 8.44e+01 1h70A d.126.1.3 60711 1vlmA 219 8.51e+01 c.66.1.41 108836 1j3bA 529 8.52e+01 c.91.1.1,c.109.1.1 77071,77072 1rzrA 332 8.55e+01 1tvzA 388 8.57e+01 c.95.1.2,c.95.1.2 107367,107368 1llwA 1520 8.58e+01 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 1dfmA 223 8.61e+01 1d2iA c.52.1.5 33295 3seb 238 8.64e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1g7jB 116 8.69e+01 1f3rB b.1.1.1 19933 1hr6B 443 8.73e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1lnwA 147 8.80e+01 a.4.5.28 78104 1pqhA 143 8.81e+01 b.52.2.1 95017 1fc4A 401 8.84e+01 1bs0A c.67.1.4 59760 1t3kA 152 8.89e+01 c.46.1.1 106357 1cyw 205 8.89e+01 1cyx b.6.1.2 23024 1cb2A 365 8.96e+01 1bvwA c.6.1.1 30661