# 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 1eztA 166 8.09e-28 1agrE a.91.1.1 18541 1agrE 205 1.15e-27 1agrE a.91.1.1 18538 1fqiA 147 4.12e-26 1agrE a.91.1.1 18542 2bt2A 161 4.24e-26 1agrH 205 1.33e-25 1agrE a.91.1.1 18539 1dk8A 147 8.75e-23 1agrE a.91.1.1 18548 2a72A 146 6.07e-22 1omwA 689 6.19e-11 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1htjF 210 1.78e-07 1htjF a.91.1.1 61254 1x3kA 152 5.63e-01 1iapA 211 1.33e+00 a.91.1.1 62119 1bf5A 545 2.20e+00 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 2akrA 285 2.76e+00 1ug3A 339 3.46e+00 1wa5B 530 3.77e+00 1y3nA 490 4.24e+00 1lk3A 160 5.40e+00 a.26.1.3 73950 1ymmB 198 7.26e+00 1bx2B 191 7.37e+00 1iakB b.1.1.2,d.19.1.1 21610,38184 1m2dA 110 7.78e+00 c.47.1.11 78476 1eca 136 7.81e+00 1flp a.1.1.2 15209 1cd1A 315 7.83e+00 1cd1A b.1.1.2,d.19.1.1 21579,38155 1m2bA 110 7.84e+00 c.47.1.11 78474 1f37A 110 8.02e+00 1f37A c.47.1.11 33088 1z5lA 285 8.29e+00 1d5mB 192 8.51e+00 1iakB b.1.1.2,d.19.1.1 21618,38192 1uslA 170 9.56e+00 c.121.1.1 99871 1n08A 163 9.59e+00 b.43.5.1 79730 1rhxA 87 1.03e+01 1m2aA 110 1.10e+01 c.47.1.11 78472 1ecd 136 1.14e+01 1flp a.1.1.2 15211 1eco 136 1.15e+01 1flp a.1.1.2 15208 1nu0A 138 1.20e+01 c.55.3.8 92165 1i1iP 681 1.27e+01 1i1iP d.92.1.5 40297 2fqxA 318 1.40e+01 1p99A 295 1.43e+01 c.94.1.1 94384 1eh2 106 1.47e+01 1eh2 a.39.1.6 17339 1yv5A 374 1.47e+01 1ann 318 1.60e+01 1avc a.65.1.1 18151 1k3lA 221 1.61e+01 a.45.1.1,c.47.1.5 77229,77230 1a6aB 187 1.67e+01 1iakB b.1.1.2,d.19.1.1 21616,38190 1k3yA 221 1.91e+01 a.45.1.1,c.47.1.5 77245,77246 1kamA 194 1.91e+01 c.26.1.3 72254 1ubpA 101 1.98e+01 1ubpA d.8.1.1 37353 2a0mA 316 2.04e+01 1yq7A 374 2.16e+01 1qtoA 122 2.18e+01 1bylA d.32.1.2 38494 1lap 488 2.34e+01 1lam c.50.1.1,c.56.5.3 33171,33834 1lam 484 2.35e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1gseA 221 2.37e+01 1pgtA a.45.1.1,c.47.1.5 17667,32961 1ir3A 306 2.41e+01 1fmk d.144.1.7 41702 4ubpA 101 2.42e+01 1ubpA d.8.1.1 37352 2dkaA 544 2.43e+01 1qahA 136 2.44e+01 d.79.1.1 96338 2f94F 350 2.44e+01 1aqdB 198 2.55e+01 1iakB b.1.1.2,d.19.1.1 21586,38160 1dlhB 188 2.59e+01 1iakB b.1.1.2,d.19.1.1 21598,38172 1ngnA 155 2.67e+01 a.96.1.2 85697 1isiA 265 2.72e+01 e.4.1.1 71394 1bllE 488 2.75e+01 1lam c.50.1.1,c.56.5.3 33170,33833 2bvlA 543 2.93e+01 1uk5A 111 2.99e+01 a.7.7.1 99487 1irk 306 2.99e+01 1fmk d.144.1.7 41703 1bk5A 422 3.09e+01 1bk5A a.118.1.1 19130 1zglB 192 3.30e+01 1znbA 232 3.42e+01 1a7tA d.157.1.1 42039 1f60B 94 3.44e+01 1b64 d.58.12.1 39307 1p2fA 220 3.46e+01 a.4.6.1,c.23.1.1 87720,87721 2lisA 136 3.55e+01 1lis a.19.1.1 16405 1ieaB 228 3.62e+01 1iakB b.1.1.2,d.19.1.1 21632,38206 1faaA 124 3.73e+01 1erv c.47.1.1 32738 2c07A 285 3.80e+01 1lis 136 3.84e+01 1lis a.19.1.1 16406 2cr5A 109 3.85e+01 1m5yA 408 4.01e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 2b3yA 888 4.01e+01 1b48A 221 4.05e+01 1pgtA a.45.1.1,c.47.1.5 17703,32997 1b64 91 4.07e+01 1b64 d.58.12.1 39306 1mp9A 198 4.08e+01 d.129.1.1,d.129.1.1 91385,91386 1g7cB 94 4.14e+01 1b64 d.58.12.1 39308 1j6wA 175 4.19e+01 1j98A d.185.1.2 62663 1k8kG 151 4.20e+01 a.118.13.1 68313 1uetA 437 4.27e+01 a.160.1.3,d.218.1.7,d.58.16.2 99272,99273,99274 1xp8A 366 4.27e+01 1zin 217 4.40e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1mnaA 298 4.41e+01 c.69.1.22 79322 1whrA 124 4.47e+01 1qxmA 300 4.50e+01 b.42.2.1,b.42.2.1 96533,96534 2ah5A 210 4.65e+01 1g19A 350 4.76e+01 2reb c.37.1.11,d.48.1.1 32284,38770 2av9A 147 4.80e+01 1yozA 116 4.84e+01 1n7oA 721 4.90e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1qklA 127 4.98e+01 1qklA a.143.1.2 39754 1aow 309 5.03e+01 1avc a.65.1.1 18152 1auiB 169 5.04e+01 1auiB a.39.1.5 17325 1y7jA 53 5.05e+01 1wxiA 275 5.09e+01 1a7tA 232 5.23e+01 1a7tA d.157.1.1 42041 1r89A 437 5.26e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1umdA 367 5.28e+01 c.36.1.11 99599 2a5sA 284 5.28e+01 1bc3 319 5.32e+01 1avc a.65.1.1 18175 1j1nA 492 5.36e+01 c.94.1.1 83978 1vjjA 692 5.39e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1fi4A 416 5.42e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 1v58A 241 5.46e+01 c.47.1.9,d.17.3.1 108371,108372 1vzoA 355 5.48e+01 d.144.1.7 108971 1q77A 138 5.50e+01 c.26.2.4 96023 1y6nL 145 5.51e+01 1q32A 544 5.51e+01 d.136.1.3,d.136.1.3 104507,104508 1bk6A 422 5.69e+01 1bk5A a.118.1.1 19133 2c71A 216 5.71e+01 1repC 251 5.72e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1dxsA 80 5.75e+01 1cokA a.60.1.2 17944 2prd 174 5.81e+01 2prd b.40.5.1 25435 1ubeA 349 5.96e+01 c.37.1.11,d.48.1.1 88412,88413 1wwzA 159 6.09e+01 2g39A 497 6.10e+01 1gwcA 230 6.21e+01 a.45.1.1,c.47.1.5 70660,70661 1v32A 101 6.39e+01 a.42.1.1 100277 2au3A 407 6.40e+01 2bg5A 324 6.52e+01 2fe7A 166 6.54e+01 1emvA 86 6.55e+01 1cei a.28.2.1 16944 1txuA 273 6.59e+01 a.222.1.1 107439 1zip 217 6.73e+01 1zin c.37.1.1,g.41.2.1 31916,45179 2bjqA 345 6.73e+01 1p9aG 290 6.82e+01 c.10.2.7 87990 1xzpB 150 6.82e+01 2bnlA 136 6.85e+01 1fjgJ 105 6.97e+01 1fjfJ d.58.15.1 39330 1g8iA 190 7.01e+01 1rec a.39.1.5 60363 1l9mA 692 7.04e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 73732,73733,73734,73735 1bc1 319 7.09e+01 1avc a.65.1.1 18173 1gwiA 411 7.12e+01 a.104.1.1 76364 1wdeA 294 7.13e+01 1edzA 320 7.15e+01 1ee9A c.2.1.7,c.58.1.2 30287,33935 1d3bB 91 7.20e+01 1d3bB b.38.1.1 24804 1tetL 216 7.22e+01 32c2A b.1.1.1,b.1.1.2 19902,20996 1zetA 388 7.33e+01 1f2tB 148 7.33e+01 1f2tB 1x6mA 196 7.33e+01 1ivnA 190 7.39e+01 c.23.10.5 83719 1ee4A 423 7.39e+01 1ee4A a.118.1.1 19128 1nwwA 149 7.39e+01 d.17.4.8 86306 1kzhA 555 7.40e+01 c.89.1.1 73361 1o5zA 442 7.41e+01 c.59.1.2,c.72.2.2 92530,92531 2g7zA 282 7.42e+01 1dq3A 454 7.50e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1eguA 731 7.97e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1cfzA 162 8.01e+01 1cfzA c.56.1.1 33754 1asyA 490 8.02e+01 1b8aA b.40.4.1,d.104.1.1 25242,40763 1ln1A 214 8.28e+01 d.129.3.2 74038 1u94A 356 8.36e+01 c.37.1.11,d.48.1.1 107743,107744 1tg6A 277 8.40e+01 1btmA 252 8.42e+01 1amk c.1.1.1 28513 1b3rA 431 8.44e+01 1b3rA c.2.1.4,c.23.12.3 30106,31366 1vreA 147 8.48e+01 2hbg a.1.1.2 15017 1sqeA 109 8.50e+01 d.58.4.5 105908 1t6jA 714 8.52e+01 1dozA 309 8.72e+01 1ak1 c.92.1.1 35592 1a40 321 8.74e+01 1ixh c.94.1.1 35767 2beiA 170 8.76e+01 1ilk 151 8.82e+01 2ilk a.26.1.3 16886 1aop 497 8.93e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1jk0B 345 8.94e+01 a.25.1.2 63143