# 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 1vk1A 242 1.13e-02 d.268.1.2 108634 1z5zA 271 2.85e-01 1u5tC 202 3.13e-01 a.4.5.54,a.4.5.54 107688,107689 1xb4A 202 3.30e-01 1z63A 500 3.96e-01 1pd21 199 4.09e-01 1pd21 1z6aA 500 5.01e-01 1taq 832 5.86e-01 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 1o6dA 163 7.94e-01 c.116.1.3 92567 1b4pA 217 1.72e+00 a.45.1.1,c.47.1.5 83158,83159 1xhnA 184 1.78e+00 1ehaA 558 2.20e+00 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21859,27786,28773 1ftt 68 2.27e+00 2hddA a.4.1.1 15997 1iyhA 198 2.67e+00 a.45.1.1,c.47.1.5 83790,83791 1t6t1 118 2.90e+00 1glqA 209 3.66e+00 1pgtA a.45.1.1,c.47.1.5 17588,32882 1qryA 80 3.83e+00 2hddA a.4.1.1 16016 1eh9A 558 4.31e+00 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21858,27785,28772 2c4jA 218 4.42e+00 1kjvB 100 4.56e+00 b.1.1.2 77423 1xw5A 217 5.05e+00 1fiqC 763 5.68e+00 1fiqC d.41.1.1,d.133.1.1 38588,41418 2a0fA 310 6.07e+00 1iuhA 198 6.19e+00 d.61.1.2 83711 2g0wA 296 6.27e+00 2fa8A 105 6.61e+00 2b5lC 222 6.96e+00 1iwmA 186 6.97e+00 b.125.1.2 83758 1dyoA 160 7.49e+00 1dyoA b.18.1.7 23771 1ffkK 186 8.10e+00 1ffkK c.55.4.1 33731 2bf6A 449 8.35e+00 1h6yA 170 8.89e+00 b.18.1.7 70904 1y0vH 146 9.55e+00 1ngr 85 9.72e+00 1ngr a.77.1.2 18422 1dmtA 696 9.93e+00 1dmtA d.92.1.4 40296 1r1hA 696 1.00e+01 d.92.1.4 104756 1bmg 98 1.00e+01 1agdB b.1.1.2 20667 1u46A 291 1.01e+01 d.144.1.7 107656 1s1pA 331 1.08e+01 c.1.7.1 98350 1h1nA 305 1.20e+01 c.1.8.3 70855 1z6bA 154 1.21e+01 1dcuA 357 1.23e+01 1frpA e.7.1.1 42943 1pswA 348 1.29e+01 c.87.1.7 88287 1ky9A 448 1.32e+01 b.36.1.4,b.47.1.1 73198,73199 1j6wA 175 1.34e+01 1j98A d.185.1.2 62663 1qqfA 277 1.39e+01 1c3d a.102.4.4 18875 1spiA 358 1.39e+01 1frpA e.7.1.1 42939 1i60A 278 1.40e+01 c.1.15.4 71118 1cof 143 1.41e+01 1cof d.109.1.2 40860 1vqoN 187 1.45e+01 1ekxA 311 1.45e+01 3csuA c.78.1.1,c.78.1.1 35088,35089 1jj2M 186 1.48e+01 1ffkK c.55.4.1 63098 2byoA 207 1.67e+01 1ky9B 448 1.70e+01 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1yy7A 213 1.83e+01 1rwiA 270 1.91e+01 b.68.9.1 97987 1xfdA 723 1.92e+01 1cfyA 143 1.94e+01 1cof d.109.1.2 40858 1a25A 149 1.96e+01 1rsy b.7.1.2 23197 1ckeA 227 1.97e+01 1ckeA c.37.1.1 31846 1s72N 187 1.98e+01 c.55.4.1 105333 2cuaA 135 2.10e+01 2cuaA b.6.1.2 23039 1hh2P 344 2.12e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 1rw2A 152 2.19e+01 a.118.19.1 97961 1cruA 454 2.20e+01 1c9uA b.68.2.1 27617 2f3yA 148 2.25e+01 1uwsA 489 2.44e+01 c.1.8.4 108073 1at1A 310 2.51e+01 3csuA c.78.1.1,c.78.1.1 35168,35169 1exqA 154 2.62e+01 1b9dA c.55.3.2 33646 2b67A 204 2.62e+01 1q7fA 286 2.62e+01 b.68.9.1 96036 1j9bA 141 2.73e+01 c.47.1.12 66459 1s3cA 141 2.73e+01 1bvoA 175 2.74e+01 1a3qA b.2.5.3 22457 1cby 259 2.76e+01 1cby d.103.1.1 40705 1yy5B 513 2.80e+01 1acmA 310 2.81e+01 3csuA c.78.1.1,c.78.1.1 35180,35181 1wpoA 256 2.83e+01 1lay b.57.1.1 27012 1ex2A 189 2.85e+01 1ex2A c.51.4.2 33225 1ignA 246 3.02e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1t8sA 484 3.10e+01 c.56.2.1 106679 8atcA 310 3.28e+01 3csuA c.78.1.1,c.78.1.1 35132,35133 1rj9A 304 3.30e+01 a.24.13.1,c.37.1.10 97553,97554 1crkA 380 3.39e+01 1qh4A a.83.1.1,d.128.1.2 18458,41193 1rsgA 516 3.42e+01 1mut 129 3.51e+01 1tum d.113.1.1 40921 1wpoB 256 3.52e+01 1lay b.57.1.1 27013 1v58A 241 3.57e+01 c.47.1.9,d.17.3.1 108371,108372 1dgsA 667 3.59e+01 1dgsA a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 1qxrA 189 3.68e+01 b.82.1.7 96552 1d4bA 122 3.70e+01 1d4bA d.15.2.1 37638 1o26A 232 3.80e+01 d.207.1.1 86566 1k7hA 476 3.91e+01 c.76.1.1 72101 1vi2A 300 3.91e+01 c.2.1.7,c.58.1.5 100726,100727 1bg4 302 3.92e+01 1taxA c.1.8.3 28806 1wh0A 134 3.93e+01 2cvdA 198 3.99e+01 1kdoA 227 4.02e+01 c.37.1.1 68478 1cy5A 97 4.13e+01 1cy5A a.77.1.3 18430 1fztA 211 4.21e+01 1qhfA c.60.1.1 60158 1y6zA 263 4.27e+01 2fkcA 247 4.29e+01 1fohA 664 4.31e+01 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 1ynmA 247 4.32e+01 2fdbM 164 4.34e+01 2napA 723 4.36e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1eq6A 189 4.40e+01 1eq6A d.107.1.1 40796 1nw1A 429 4.44e+01 d.144.1.8 86286 1ks9A 291 4.46e+01 a.100.1.7,c.2.1.6 68857,68858 2gp5A 349 4.48e+01 1vrpA 381 4.49e+01 1e58A 249 4.60e+01 1qhfA c.60.1.1 59262 1x82A 190 4.61e+01 1rbp 182 4.73e+01 1aqb b.60.1.1 27085 2fp8A 322 4.76e+01 1qynA 153 4.76e+01 d.33.1.1 96597 1g3qA 237 4.78e+01 1hyqA c.37.1.10 60237 1c4oA 664 4.81e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1npdA 288 4.85e+01 c.2.1.7,c.58.1.5 80681,80682 1bm9A 122 4.90e+01 1bm9A a.4.5.7 16116 1xkpB 124 4.91e+01 1w98B 283 5.00e+01 1bo1A 416 5.05e+01 1bo1A d.143.1.2 41591 1vr0A 247 5.24e+01 1lqbC 162 5.33e+01 b.3.3.1 74186 1wzzA 334 5.36e+01 1w36B 1180 5.44e+01 1e8cA 498 5.44e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1yduA 170 5.44e+01 1kvdB 77 5.50e+01 1kveB 1xfxO 149 5.64e+01 1pdgA 109 5.94e+01 1pdgA g.17.1.1 44748 1cz1A 394 5.95e+01 1cz1A c.1.8.3 28839 1csmA 256 5.98e+01 5csmA a.130.1.2 19495 1jr5A 90 6.03e+01 a.150.1.1 67113 1kveB 77 6.11e+01 1kveB 2g0cA 76 6.20e+01 1pn0A 665 6.30e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1jhsA 188 6.38e+01 d.107.1.1 84172 1b31A 302 6.38e+01 1taxA c.1.8.3 28892 1qvbA 481 6.46e+01 1qvbA c.1.8.4 28983 1vcbC 160 6.48e+01 1vcbC b.3.3.1 22535 1riiA 265 6.49e+01 1c9uA 454 6.53e+01 1c9uA b.68.2.1 27623 1u6rA 380 6.83e+01 1y9kA 157 6.86e+01 1r5lA 262 7.04e+01 a.5.3.1,c.13.1.1 97099,97100 1kpuB 99 7.05e+01 b.1.1.2 84458 2ygsA 92 7.25e+01 1cy5A a.77.1.3 18431 1b47A 304 7.51e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17381,17775,40529 1xyiA 66 7.58e+01 1kq4A 232 7.59e+01 d.207.1.1 68791 1hr6A 475 7.64e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1ndk 155 7.73e+01 1npk d.58.6.1 39118 1jnjA 100 7.89e+01 b.1.1.2 66955 1qbiA 454 7.90e+01 1c9uA b.68.2.1 27619 1rovA 857 8.04e+01 a.119.1.1,b.12.1.1 97674,97675 1rm8A 169 8.06e+01 d.92.1.11 97660 1qb4A 883 8.07e+01 c.1.12.3 74640 3csuA 310 8.07e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1duzB 100 8.10e+01 1agdB b.1.1.2 20671 1t6nA 220 8.13e+01 c.37.1.19 106576 1uehA 253 8.19e+01 c.101.1.1 99259 1ox0A 430 8.21e+01 c.95.1.1,c.95.1.1 87495,87496 1m2oB 190 8.21e+01 c.37.1.8 78485 1f3fA 155 8.29e+01 1npk d.58.6.1 39101 1f5mB 180 8.45e+01 1f5mB d.110.2.1 40896 1mbmA 198 8.56e+01 b.47.1.3 78916 1apxA 249 8.58e+01 1ryc a.93.1.1 18669 17gsA 210 8.60e+01 1pgtA a.45.1.1,c.47.1.5 17524,32818 1jqnA 883 8.70e+01 c.1.12.3 77159 1jp3A 253 8.78e+01 1f75A c.101.1.1 63221 1gesA 450 8.80e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1ao7B 100 8.84e+01 1agdB b.1.1.2 20697 2ghrA 302 8.86e+01 1xnfA 275 8.93e+01 1e1aA 314 8.95e+01 1e1aA b.68.6.1 59155 1wxcA 281 8.99e+01