# List of top-scoring protein chains for t2k.100-30-str 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.soe.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 3fvyA 728 2.70e-01 2v6kA 214 4.36e-01 3d7eO 505 6.48e-01 1yrbA 262 7.66e-01 c.37.1.10 123915 1xxsA 122 1.15e+00 2j1dG 483 1.16e+00 1y4lA 121 2.67e+00 a.133.1.2 122624 2vdxA 373 2.68e+00 1zeeA 403 2.76e+00 a.266.1.2 124981 1xqoA 256 2.80e+00 a.96.1.6 115853 1vbgA 876 3.42e+00 c.1.12.2 119951 c.8.1.1 119952 d.142.1.5 119953 3iq3A 121 3.68e+00 1tr0A 108 4.19e+00 d.58.4.4 107261 3fd9A 256 4.51e+00 2d29A 387 4.56e+00 a.29.3.1 131157 e.6.1.1 131158 1s8iA 121 4.62e+00 a.133.1.2 98735 3f7cA 200 4.73e+00 2wtgA 159 4.84e+00 2hzgA 401 5.13e+00 2dxnA 274 5.32e+00 d.159.1.11 146605 2r1fA 270 5.91e+00 1u5tA 233 6.33e+00 a.4.5.54 107684 a.4.5.54 107685 1clxA 347 6.77e+00 1taxA c.1.8.3 28899 3clmA 352 6.98e+00 3h46O 506 7.34e+00 1w32A 348 7.51e+00 c.1.8.3 114120 1mn8A 100 7.61e+00 a.61.1.6 79318 3eheA 313 7.83e+00 2g47A 990 7.91e+00 2ahfA 377 7.96e+00 2iksA 293 8.29e+00 1vmbA 140 8.29e+00 d.58.14.1 113672 2b5tI 432 8.30e+00 e.1.1.1 127905 1adjA 421 8.52e+00 1adjA c.51.1.1 33188 d.104.1.1 40737 3hyhA 275 8.55e+00 1vd5A 377 8.65e+00 a.102.1.7 108518 2v95A 371 8.82e+00 3d03A 274 8.84e+00 d.159.1.11 157161 1yuzA 202 8.92e+00 a.25.1.1 124077 g.41.5.1 124078 1h4vB 421 8.92e+00 1adjA c.51.1.1 60624 d.104.1.1 60625 1oglA 283 9.16e+00 a.204.1.1 92922 2pg0A 385 9.28e+00 1dciA 275 9.40e+00 1dciA c.14.1.3 30918 2waoA 341 9.60e+00 2of3A 266 9.68e+00 2whxA 618 9.75e+00 1guxA 218 1.00e+01 1guxA a.74.1.3 18388 1nfkA 325 1.03e+01 1a3qA b.1.18.1 21929 b.2.5.3 22444 3a04A 372 1.03e+01 1lucB 324 1.05e+01 1lucA c.1.16.1 29548 2vtyA 182 1.05e+01 3g7sA 549 1.07e+01 2wabA 341 1.07e+01 2nwbA 400 1.08e+01 2q2jA 121 1.08e+01 1qgrA 876 1.10e+01 1qgrA a.118.1.1 19119 2rccA 346 1.10e+01 1eu8A 409 1.16e+01 1eu8A c.94.1.1 59502 2jlqA 451 1.16e+01 2jfkA 433 1.17e+01 3h3nO 506 1.18e+01 3f75P 106 1.19e+01 6gsvA 217 1.22e+01 1b8xA a.45.1.1 17633 c.47.1.5 32925 2ps2A 371 1.25e+01 2zo9B 274 1.28e+01 d.159.1.11 154714 3kcgI 432 1.31e+01 3b9fI 395 1.33e+01 1uwsA 489 1.35e+01 c.1.8.4 108073 3hhdA 965 1.37e+01 1bedA 181 1.37e+01 c.47.1.13 90330 1wmuA 141 1.40e+01 a.1.1.2 109416 1aquA 297 1.45e+01 1aquA c.37.1.5 31942 1zd1A 284 1.46e+01 1pw4A 451 1.47e+01 f.38.1.1 95198 3es7A 391 1.52e+01 3ledA 392 1.52e+01 1ef1A 294 1.52e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 2idxA 196 1.53e+01 3mddA 385 1.55e+01 3mdeA a.29.3.1 16592 e.6.1.1 42853 2aaxA 275 1.60e+01 1kyhA 276 1.65e+01 c.72.1.4 73222 1mdwA 328 1.66e+01 d.3.1.3 84934 2vjvA 159 1.68e+01 d.58.57.1 153201 1glqA 209 1.74e+01 1pgtA a.45.1.1 17588 c.47.1.5 32882 1r9dA 787 1.75e+01 c.7.1.1 104865 3mdeA 385 1.76e+01 3mdeA a.29.3.1 16594 e.6.1.1 42855 1qfjA 232 1.78e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 3bniA 229 1.86e+01 3ky9A 587 1.89e+01 3flcO 518 1.91e+01 2bv5A 282 1.91e+01 2hw2A 143 1.92e+01 2a6mA 155 1.94e+01 d.58.57.1 126287 2hsbA 126 1.99e+01 3ci3A 194 2.01e+01 2j5bA 348 2.06e+01 1vapA 123 2.07e+01 1poa a.133.1.2 19548 2hbvA 334 2.11e+01 c.1.9.15 136320 2hlyA 207 2.17e+01 d.3.1.19 147310 3euhC 234 2.21e+01 2wvvA 450 2.23e+01 1ivhA 394 2.24e+01 3mdeA a.29.3.1 16608 e.6.1.1 42869 1zx4A 192 2.28e+01 2q8xA 331 2.32e+01 1n82A 331 2.32e+01 c.1.8.3 91703 1zq1C 633 2.32e+01 a.182.1.2 125493 d.74.4.1 125494 d.128.1.5 125495 2olmA 140 2.34e+01 2ah6A 208 2.35e+01 2v57A 190 2.38e+01 1rp3A 239 2.47e+01 a.4.13.1 97678 a.4.13.2 97679 a.177.1.1 97680 2zhzA 183 2.47e+01 2qezA 455 2.48e+01 1rx0A 393 2.49e+01 a.29.3.1 98007 e.6.1.1 98008 2q8uA 336 2.54e+01 3bs4A 260 2.60e+01 2dobA 83 2.63e+01 1phkA 298 2.64e+01 d.144.1.7 41635 2nt8A 223 2.67e+01 2ds2B 72 2.67e+01 1dceB 331 2.67e+01 1dceB a.102.4.3 18872 3dssB 331 2.73e+01 a.102.4.3 157841 1qhlA 227 2.73e+01 1qhlA c.37.1.12 32382 3kd6A 313 2.74e+01 1yx4A 132 2.75e+01 2vywA 148 2.81e+01 3eciA 122 2.83e+01 1ku2A 241 2.83e+01 a.4.13.1 83096 a.177.1.1 83097 1lc5A 364 2.90e+01 c.67.1.1 73827 1j6oA 268 2.91e+01 c.1.9.12 77088 1a91 79 2.97e+01 1a91 1abbA 828 3.00e+01 1a8i c.87.1.4 35536 2dyjA 95 3.01e+01 d.52.7.1 146613 1zy4A 303 3.04e+01 3bblA 287 3.12e+01 2ovrB 445 3.15e+01 a.158.1.1 145735 b.69.4.1 145736 2zq0A 738 3.17e+01 1r5jA 337 3.23e+01 c.77.1.5 97097 1jq4A 98 3.24e+01 d.15.4.2 67083 1i5nA 146 3.24e+01 1i5nA a.24.10.3 61805 2qtwA 124 3.29e+01 2pmwA 126 3.32e+01 3abbA 408 3.32e+01 3ctvA 110 3.35e+01 1elqA 390 3.36e+01 1elqA c.67.1.3 34436 1eluA 390 3.39e+01 1elqA c.67.1.3 34434 1syyA 346 3.40e+01 a.25.1.2 106126 1aqwA 209 3.41e+01 1pgtA a.45.1.1 17517 c.47.1.5 32811 1b4pA 217 3.41e+01 a.45.1.1 83158 c.47.1.5 83159 1wy1A 172 3.43e+01 2w2eA 279 3.45e+01 3brnA 157 3.45e+01 1l6tA 79 3.48e+01 f.17.1.1 73629 2oayA 391 3.55e+01 3i6yA 280 3.55e+01 2ga9D 469 3.56e+01 e.69.1.1 145190 1u14A 172 3.57e+01 c.51.4.3 107579 1hfoA 113 3.58e+01 d.80.1.3 61006 2wm5A 435 3.58e+01 2dkoB 103 3.72e+01 1evsA 187 3.73e+01 1evsA a.26.1.1 16845 1vjyA 303 3.77e+01 d.144.1.7 108633 2ol2A 395 3.78e+01 1fewA 184 3.79e+01 1fewA a.7.4.1 16334 2q83A 346 3.80e+01 3gajA 187 3.90e+01 3fcxA 282 3.95e+01 3ii6X 263 3.95e+01