# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1zq9A 285 3.90e-23 1i4wA 353 1.81e-01 c.66.1.24 66028 1b2vA 188 1.02e+00 1b2vA d.35.1.1 38532 1vb3A 428 1.35e+00 1a3aC 148 1.61e+00 1a3aA d.112.1.1 40919 1cfpA 92 1.64e+00 1b4cA a.39.1.2 17172 1a3aA 148 1.81e+00 1a3aA d.112.1.1 40917 1i58A 189 1.99e+00 1b3qA d.122.1.3 61773 1mvwC 147 2.24e+00 i.15.1.1 79525 1o1fC 147 2.24e+00 i.15.1.1 80997 1ap4 89 2.33e+00 1ncx a.39.1.5 17253 1yadA 221 2.44e+00 1m65A 245 2.47e+00 c.6.3.1 84847 1aj4 161 2.53e+00 1ncx a.39.1.5 17244 1q0sA 259 2.56e+00 c.66.1.28 95509 2ax3A 502 2.63e+00 1w7jB 151 2.99e+00 2jdxA 385 3.34e+00 1jdw d.126.1.2 41139 1b4cA 92 3.40e+00 1b4cA a.39.1.2 17169 1p35A 299 3.41e+00 1p35A b.28.1.1 23925 1dk0A 188 3.85e+00 1b2vA d.35.1.1 38530 1yf3A 259 4.26e+00 1avsA 90 4.90e+00 1cll a.39.1.5 17226 1zac 90 5.03e+00 1ncx a.39.1.5 17236 2a0kA 161 5.56e+00 2f2tA 161 5.66e+00 1fsgA 233 5.92e+00 1qk3A c.61.1.1 34029 1jdw 423 5.98e+00 1jdw d.126.1.2 41129 1mho 88 6.63e+00 1b4cA a.39.1.2 17171 2fh5A 185 6.65e+00 1psrA 100 7.03e+00 1psrA a.39.1.2 17180 2f62A 161 7.27e+00 1k9dA 679 7.77e+00 c.1.8.10,d.92.2.2 77292,77293 2furA 209 8.15e+00 1womA 271 8.28e+00 1h8dH 260 8.62e+00 5ptp 1qk4A 233 8.71e+00 1qk3A c.61.1.1 34037 1p57B 255 9.34e+00 b.47.1.2 94126 1l8nA 679 9.37e+00 c.1.8.10,d.92.2.2 84564,84565 1f0jA 377 9.87e+00 1f0jA a.211.1.2 19346 1r6jA 82 1.11e+01 b.36.1.1 97151 1dbrA 231 1.12e+01 1qk3A c.61.1.1 34041 1b3jA 274 1.16e+01 1agdA b.1.1.2,d.19.1.1 20855,38319 1ncx 162 1.18e+01 1ncx a.39.1.5 17222 1qk3A 233 1.21e+01 1qk3A c.61.1.1 34031 1exrA 148 1.28e+01 1cll a.39.1.5 17299 1top 162 1.30e+01 1ncx a.39.1.5 17223 2ch4A 320 1.33e+01 1kijA 390 1.33e+01 d.14.1.3,d.122.1.2 72514,72515 1hlvA 131 1.36e+01 a.4.1.7,a.4.1.7 65854,65855 1nteA 82 1.38e+01 b.36.1.1 86163 1osa 148 1.46e+01 1cll a.39.1.5 17300 1a2xA 159 1.55e+01 1ncx a.39.1.5 17251 1wekA 217 1.61e+01 1ak8 76 1.62e+01 1cll a.39.1.5 17281 1fs1B 141 1.76e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1tn4 159 1.78e+01 1ncx a.39.1.5 17248 1a4pA 96 1.82e+01 1b4cA a.39.1.2 17176 1u04A 771 2.07e+01 b.34.14.1,c.55.3.10 107539,107540 1tud 62 2.12e+01 1tud b.34.2.1 24489 3cln 148 2.14e+01 1cll a.39.1.5 17286 1uwoA 92 2.20e+01 4icb a.39.1.2 17174 1g2bA 62 2.21e+01 1tud b.34.2.1 24488 1pvgA 418 2.23e+01 d.14.1.3,d.122.1.2 95161,95162 1cll 148 2.26e+01 1cll a.39.1.5 17263 1b9yC 246 2.31e+01 1b9yC c.47.1.6 33052 1zd3A 555 2.42e+01 1mqvA 125 2.50e+01 a.24.3.2 79415 1b3qA 379 2.56e+01 1b3qA a.30.2.1,b.40.7.1,d.122.1.3 16993,25454,41112 1k75A 434 2.63e+01 c.82.1.2 68253 1xx1A 285 2.69e+01 1pwt 61 2.74e+01 1tud b.34.2.1 24490 1z77A 200 2.79e+01 1wrvA 308 2.85e+01 1g2hA 61 2.94e+01 1g2hA a.4.1.12 60224 1lqc 56 2.97e+01 1pru a.35.1.5 17109 1jalA 363 3.01e+01 c.37.1.8,d.15.10.2 84138,84139 1ngnA 155 3.19e+01 a.96.1.2 85697 1mgtA 174 3.23e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1vj5A 555 3.26e+01 c.108.1.2,c.69.1.11 100799,100800 1a41 234 3.27e+01 1a41 d.163.1.2 42174 1cyi 90 3.35e+01 1ctj a.3.1.1 15804 1fp1D 372 3.35e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1xaa 345 3.36e+01 1cnzA c.77.1.1 35033 1tvlA 454 3.39e+01 c.1.16.4 107366 1cyj 90 3.42e+01 1ctj a.3.1.1 15805 1r89A 437 3.47e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1dq3A 454 3.48e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 2be4A 272 3.50e+01 1mwyA 73 3.50e+01 d.58.17.1 79616 1y8oA 419 3.52e+01 1a2s 89 3.53e+01 1ctj a.3.1.1 15800 1h6oA 204 3.66e+01 a.146.1.1 60689 1q7eA 428 3.68e+01 c.123.1.1 96035 2arzA 247 3.71e+01 1uetA 437 3.73e+01 a.160.1.3,d.218.1.7,d.58.16.2 99272,99273,99274 1r5zA 323 3.81e+01 f.40.1.1 97135 1ipd 345 3.81e+01 1cnzA c.77.1.1 35038 2bzgA 232 3.83e+01 1cjbA 231 3.86e+01 1qk3A c.61.1.1 34079 1qndA 123 3.91e+01 1qndA d.106.1.1 40794 1dr8B 344 4.02e+01 1cnzA c.77.1.1 35052 1ahtH 259 4.05e+01 5ptp 1e8aA 91 4.16e+01 1b4cA a.39.1.2 17188 1zk8A 183 4.17e+01 1nxuA 333 4.17e+01 c.122.1.1 86389 1hlrA 907 4.19e+01 1elvA 333 4.20e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1vlbA 907 4.30e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 2astA 159 4.36e+01 1ecrA 309 4.38e+01 1ecrA e.2.1.1 42678 1ahr 146 4.39e+01 1cll a.39.1.5 17287 1g6hA 257 4.45e+01 1gajA c.37.1.12 60318 1dg9A 157 4.62e+01 1dg9A c.44.1.1 32637 1shg 62 4.73e+01 1ckaA b.34.2.1 24493 1ggzA 148 4.81e+01 a.39.1.5 70176 1h0hB 214 4.83e+01 d.58.1.5 76437 1k8kG 151 4.87e+01 a.118.13.1 68313 1cwwA 102 4.87e+01 1cy5A a.77.1.3 18434 1fyvA 161 4.91e+01 1fyvA c.23.2.1 31127 1c44A 123 4.94e+01 1qndA d.106.1.1 40795 1mtyD 512 4.97e+01 1mhyD a.25.1.2 16742 1t64A 377 4.98e+01 c.42.1.2 106543 2as9A 210 5.05e+01 2occH 85 5.06e+01 2occH a.51.1.1 17796 1b00A 127 5.14e+01 3chy c.23.1.1 31122 1gajA 257 5.21e+01 1gajA c.37.1.12 60416 1a3yA 149 5.21e+01 1obpA b.60.1.1 27110 2f3yA 148 5.24e+01 1v8cA 168 5.41e+01 d.15.3.1,d.129.5.1 100495,100496 1ctj 89 5.47e+01 1ctj a.3.1.1 15798 1fp2A 352 5.49e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1byrA 155 5.52e+01 1byrA d.136.1.1 41450 1cpt 412 5.57e+01 1cpt a.104.1.1 18968 1ym0A 238 5.59e+01 1jy5A 212 5.61e+01 d.124.1.1 71940 1mxmA 254 5.63e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1jkmA 358 5.64e+01 1jkmA c.69.1.2 34633 1ew3A 159 5.68e+01 1mup b.60.1.1 27114 1z15A 344 5.70e+01 2ez6A 221 5.70e+01 1df3A 162 5.76e+01 1mup b.60.1.1 27134 2gf6A 135 5.78e+01 2b7eA 59 5.78e+01 1phr 157 5.79e+01 1dg9A c.44.1.1 32635 1f5mA 180 5.86e+01 1f5mB d.110.2.1 40895 1dugA 234 5.87e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1dzkA 157 5.89e+01 1obpA b.60.1.1 27096 1b9xC 246 6.01e+01 1b9yC c.47.1.6 33053 1ygtA 111 6.08e+01 1n99A 166 6.16e+01 b.36.1.1,b.36.1.1 85459,85460 1mmoD 512 6.18e+01 1mhyD a.25.1.2 16770 1hqvA 191 6.20e+01 1hqvA a.39.1.8 61160 1c0eA 157 6.24e+01 1dg9A c.44.1.1 32638 2ccmA 191 6.30e+01 1q5dA 419 6.33e+01 a.104.1.1 95891 1kaeA 434 6.42e+01 c.82.1.2 72247 1qy1A 174 6.47e+01 b.60.1.1 96568 1keaA 221 6.52e+01 a.96.1.2 68491 1pvmA 184 6.58e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1ifyA 49 6.60e+01 a.5.2.1 71207 1fpxA 352 6.68e+01 1fpxA a.4.5.29,c.66.1.12 59950,59951 1dp7P 76 6.69e+01 1dp7P a.4.5.20 16159 1mioB 458 6.70e+01 1qguB c.92.2.3 35602 1wh8A 111 6.84e+01 1cm7A 363 6.92e+01 1cnzA c.77.1.1 35063 1gm6A 175 7.12e+01 b.60.1.1 70272 2bjcA 62 7.25e+01 1zcoA 262 7.28e+01 2fg1A 158 7.29e+01 1x4tA 92 7.47e+01 1l1jA 239 7.47e+01 b.47.1.1 84516 1n9dA 199 7.49e+01 a.26.1.1 85464 1ksfX 758 7.55e+01 a.174.1.1,c.37.1.20,c.37.1.20 77522,77523,77524 1cy5A 97 7.65e+01 1cy5A a.77.1.3 18430 2f06A 144 7.66e+01 2f4mA 295 7.68e+01 1ab6A 125 7.75e+01 3chy c.23.1.1 31054 1xo5A 183 7.77e+01 1lvmA 229 7.77e+01 b.47.1.3 78243 1zjkA 403 7.77e+01 1v9mA 323 7.81e+01 f.40.1.1 100543 1zndA 174 8.03e+01 1ohuA 175 8.05e+01 f.1.4.1 93029 1xizA 159 8.10e+01 8kme2 259 8.20e+01 1ucyE 1oj7A 408 8.22e+01 e.22.1.2 103971 1irxA 523 8.26e+01 a.97.1.2,c.26.1.1 71378,71379 2gd9A 189 8.27e+01 1ymmB 198 8.28e+01 1gks 78 8.28e+01 1cc5 a.3.1.1 15909 1hr6A 475 8.39e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1mvwB 145 8.47e+01 i.15.1.1 79524 1vgyA 393 8.48e+01 c.56.5.4,d.58.19.1 100620,100621 1bjnA 360 8.55e+01 1bjnA c.67.1.4 34469 1afrA 345 8.63e+01 1afrA a.25.1.2 16805 1wwiA 148 8.75e+01 2fq4A 192 8.77e+01 2afcA 168 8.81e+01 2ygsA 92 8.83e+01 1cy5A a.77.1.3 18431 1v54H 85 8.92e+01 a.51.1.1 100329