# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1nxmA 197 3.08e-02 b.82.1.1 86385 1tqzA 133 8.56e-01 1z90A 469 1.69e+00 3nul 130 2.84e+00 3nul d.110.1.1 40891 1yprA 125 2.86e+00 3nul d.110.1.1 40888 1a0k 131 3.55e+00 3nul d.110.1.1 40892 1llnA 262 4.70e+00 d.165.1.1 84625 1prq 125 5.63e+00 3nul d.110.1.1 40883 1lxdA 100 5.72e+00 1lfdA d.15.1.5 37624 1wwrA 171 6.04e+00 1fxzA 476 6.39e+00 b.82.1.2,b.82.1.2 65059,65060 2rgf 97 6.82e+00 1lfdA d.15.1.5 37627 1acf 125 6.92e+00 3nul d.110.1.1 40882 1apa 266 6.95e+00 1qi7A d.165.1.1 42205 1lfdA 87 7.70e+00 1lfdA d.15.1.5 37622 1raxA 115 8.47e+00 1lfdA d.15.1.5 37626 1bqnB 430 8.65e+00 1rthA e.8.1.2 43065 1zq4A 693 9.00e+00 1ps2 60 9.33e+00 2pspA g.16.1.1 44746 4enl 436 9.41e+00 4enl c.1.11.1,d.54.1.1 29202,38846 1cqa 133 9.62e+00 3nul d.110.1.1 40890 1q8bA 105 1.12e+01 d.58.4.6 96201 2cr9A 139 1.12e+01 2ffsA 157 1.16e+01 1eur 365 1.17e+01 1eut b.68.1.1 27607 1dmzA 158 1.23e+01 1qu5A b.26.1.2 23921 2oneA 436 1.24e+01 4enl c.1.11.1,d.54.1.1 29203,38847 1h1iB 350 1.24e+01 b.82.1.5 76470 1h1iC 350 1.25e+01 b.82.1.5 76471 2al2A 436 1.25e+01 1oneA 436 1.25e+01 4enl c.1.11.1,d.54.1.1 29200,38844 2al1A 436 1.25e+01 1fa8A 135 1.27e+01 1qipA d.32.1.1 38486 1juhA 350 1.33e+01 b.82.1.5 71884 1q8fA 313 1.38e+01 c.70.1.1 96203 1xrtA 467 1.39e+01 1h1iD 350 1.40e+01 b.82.1.5 76472 2awaA 390 1.42e+01 1eetB 427 1.42e+01 1rthA e.8.1.2 43079 1o5uA 101 1.45e+01 b.82.1.8 92518 1hcxA 127 1.48e+01 b.109.1.1 65800 1ww9A 392 1.51e+01 1a67 108 1.56e+01 1cewI d.17.1.2 38000 2grrA 161 1.57e+01 1u9aA 160 1.57e+01 1u9aA d.20.1.1 38333 1xfsA 178 1.60e+01 d.129.3.5 109589 1ym0A 238 1.61e+01 1wfyA 104 1.75e+01 1m98A 317 1.82e+01 a.175.1.1,d.17.4.6 78866,78867 2gupA 292 1.88e+01 1f9zA 135 1.90e+01 1qipA d.32.1.1 38484 1h8gA 95 1.92e+01 b.109.1.1 65735 1a3s 160 1.94e+01 1u9aA d.20.1.1 38335 1wcqA 601 2.00e+01 1w8oA 601 2.01e+01 2prf 125 2.01e+01 3nul d.110.1.1 40887 1jsg 114 2.04e+01 1a1x b.63.1.1 27513 1eut 605 2.13e+01 1eut b.1.18.2,b.18.1.1,b.68.1.1 21891,23712,27609 1tq5A 242 2.24e+01 1gvmA 136 2.29e+01 b.109.1.1 70612 1qipA 183 2.34e+01 1qipA d.32.1.1 38470 1u2cA 246 2.39e+01 b.1.6.2,d.272.1.1 107610,107611 2bepA 159 2.43e+01 1pxvA 183 2.45e+01 d.3.1.1 95301 1ark 60 2.47e+01 1bb9 b.34.2.1 24473 1dx5I 118 2.48e+01 1dx5I g.3.11.1,g.3.11.1,g.3.11.1 44302,44303,44304 1eo1A 124 2.48e+01 1eo1A c.55.5.1 33739 1euu 605 2.49e+01 1eut b.1.18.2,b.18.1.1,b.68.1.1 21892,23713,27610 1qz8A 113 2.55e+01 b.140.1.1 96619 1ri6A 343 2.56e+01 b.69.11.1 97503 1y4hA 188 2.63e+01 1gyfA 62 2.78e+01 1gyfA d.76.1.1 39749 1yh6A 179 2.85e+01 1l7jA 347 2.87e+01 b.30.5.4 73660 1cv8 174 3.04e+01 1cv8 d.3.1.1 37089 2apsA 162 3.04e+01 1yaiA b.1.8.1 22298 1icfI 65 3.10e+01 1icfI g.28.1.1 44958 1hmvB 440 3.11e+01 1rthA e.8.1.2 43047 1ue1A 164 3.13e+01 b.40.4.3 99243 2fhfA 1083 3.19e+01 1c1bB 440 3.22e+01 1rthA e.8.1.2 43077 1fvuB 125 3.23e+01 1ixxB d.169.1.1 42346 1y71A 130 3.30e+01 1f6fB 210 3.31e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 2cy2A 174 3.49e+01 1fkoB 440 3.49e+01 1rthA e.8.1.2 43095 1df7A 159 3.50e+01 3dfr c.71.1.1 34885 1zgkA 308 3.62e+01 1u6dX 308 3.64e+01 1i3zA 103 3.68e+01 d.93.1.1 83667 1xtoA 311 3.86e+01 1s72Q 96 4.04e+01 b.34.5.1 105336 1s4bP 674 4.05e+01 d.92.1.5 105252 1vqoQ 96 4.08e+01 1jj2P 95 4.11e+01 1ffkN b.34.5.1 63101 1jf2A 195 4.13e+01 1ej3A a.39.1.5 62930 1rpmA 278 4.14e+01 2shpA c.45.1.2 32679 2as0A 396 4.24e+01 1ak2 233 4.29e+01 1zin c.37.1.1,g.41.2.1 31894,45195 2b7yA 182 4.29e+01 1j1qA 261 4.36e+01 d.165.1.1 90768 1kum 108 4.39e+01 1kum b.3.1.1 22525 2cn3A 737 4.43e+01 1xbfA 140 4.46e+01 d.273.1.1 109538 1dloA 556 4.50e+01 1rthA c.55.3.1,e.8.1.2 33584,43040 1a44 185 4.51e+01 1a44 b.17.1.1 23704 1b7aA 186 4.54e+01 1a44 b.17.1.1 23705 1n7zA 334 4.59e+01 b.127.1.1 85380 2bryA 497 4.60e+01 2bzuA 181 4.71e+01 1zt3A 80 4.76e+01 1gikA 261 4.95e+01 d.165.1.1 90513 1khiA 176 4.97e+01 b.34.5.2,b.40.4.5 77408,77409 1i1iP 681 5.02e+01 1i1iP d.92.1.5 40297 1pot 325 5.02e+01 1pot c.94.1.1 35807 1ne8A 117 5.05e+01 b.34.6.2 80424 1lcyA 325 5.05e+01 b.36.1.4,b.47.1.1 73834,73835 2biiA 424 5.08e+01 1hmpA 217 5.15e+01 1qk3A c.61.1.1 34075 1m1fA 110 5.18e+01 b.34.6.2 78401 1o97C 264 5.20e+01 c.26.2.3 81232 1nszA 347 5.29e+01 b.30.5.4 80724 1ffkN 95 5.35e+01 1ffkN b.34.5.1 24606 1bqnA 558 5.56e+01 1rthA c.55.3.1,e.8.1.2 33599,43064 1ty0A 211 5.60e+01 b.40.2.2,d.15.6.1 107440,107441 1dttA 560 5.64e+01 1rthA c.55.3.1,e.8.1.2 33611,43088 2pia 321 5.67e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1w2lA 99 5.70e+01 1qciA 262 5.74e+01 1qi7A d.165.1.1 42201 1hniB 427 5.77e+01 1rthA e.8.1.2 43045 1npsA 88 5.80e+01 1prs b.11.1.1 23622 1h0hB 214 5.82e+01 d.58.1.5 76437 1mmuA 347 5.84e+01 b.30.5.4 79303 1l7jB 347 5.85e+01 b.30.5.4 73661 2f0aA 98 5.87e+01 1vmeA 410 5.88e+01 c.23.5.1,d.157.1.3 108893,108894 1ac0 108 6.07e+01 1kum b.3.1.1 22526 2bf6A 449 6.19e+01 2d7nA 93 6.22e+01 1qu5A 182 6.27e+01 1qu5A b.26.1.2 23922 1zn6A 227 6.30e+01 1z7gA 217 6.31e+01 2dynA 122 6.36e+01 1dynA b.55.1.1 26957 2cz1A 206 6.49e+01 2ahjA 206 6.56e+01 2ahjA d.149.1.1 41772 2ahjC 206 6.56e+01 2ahjA d.149.1.1 41773 1xygD 359 6.59e+01 2gwdA 449 6.61e+01 1jf0A 195 6.62e+01 1ej3A a.39.1.5 62926 1yovA 537 6.62e+01 1l6oA 95 6.70e+01 b.36.1.1 84534 1opoA 348 6.80e+01 b.121.4.7 87240 1lvmA 229 6.84e+01 b.47.1.3 78243 1wba 175 6.84e+01 1wba b.42.4.1 25591 1qv1A 195 6.84e+01 a.39.1.5 96347 2fqpA 97 6.89e+01 1ufkA 254 6.91e+01 c.66.1.39 99340 1p5zB 263 6.95e+01 c.37.1.1 87815 2cw9A 194 6.96e+01 1fkoA 543 7.00e+01 1rthA c.55.3.1,e.8.1.2 33612,43094 1eysH 259 7.03e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 1s6lA 212 7.04e+01 1ahjA 207 7.05e+01 2ahjA d.149.1.1 41774 1mvfD 82 7.05e+01 b.129.1.1 85143 1el4A 195 7.09e+01 1ej3A a.39.1.5 59453 1a90 108 7.09e+01 1cewI d.17.1.2 38001 1af6A 421 7.22e+01 2mprA f.4.3.2 43772 1ywsA 82 7.26e+01 1b80A 351 7.28e+01 1arv a.93.1.1 18579 1vrtA 560 7.45e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1iuaA 83 7.49e+01 g.35.1.1 71438 1ts9A 102 7.53e+01 2ftwA 521 7.56e+01 1vplA 256 7.84e+01 1j9jA 247 7.85e+01 c.106.1.1 62758 1qy6A 274 7.87e+01 b.47.1.1 96574 1j9lA 247 7.89e+01 c.106.1.1 62762 2akaA 776 8.02e+01 1b85A 351 8.05e+01 1arv a.93.1.1 18581 1ojqA 212 8.13e+01 d.166.1.1 93146 1bngA 110 8.21e+01 1b20A d.1.1.2 36184 1a62 130 8.24e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1mugA 168 8.26e+01 1mugA c.18.1.2 31030 1bh5A 183 8.36e+01 1qipA d.32.1.1 38476 1txkA 498 8.40e+01 b.1.18.2,b.30.5.9 107425,107426 1kyqA 274 8.50e+01 c.2.1.11,e.37.1.1 73281,73282 1mal 421 8.53e+01 2mprA f.4.3.2 43784 2gjdA 157 8.54e+01 1bqhG 129 8.55e+01 1cd8 b.1.1.1 19715 1ift 263 8.59e+01 1mrj d.165.1.1 42211 1dq3A 454 8.72e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1obs 267 8.81e+01 1mrj d.165.1.1 42213 2frnA 278 8.81e+01 1bzyA 217 8.90e+01 1qk3A c.61.1.1 34071