# List of top-scoring protein chains for t2k-100-30-str2 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 1bbhA 131 2.47e-01 1bbhA a.24.3.2 16546 1qrqA 325 4.71e-01 1qrqA c.1.7.1 28667 1jb9A 316 5.12e-01 1fnc b.43.4.2 62840 c.25.1.1 62841 3adk 195 5.49e-01 1zin c.37.1.1 31885 1exbA 332 6.49e-01 1qrqA c.1.7.1 28666 1hl2A 297 7.20e-01 c.1.10.1 83581 1gnwA 211 7.50e-01 1gnwA a.45.1.1 17727 c.47.1.5 33021 1lvhA 221 1.25e+00 c.108.1.6 74282 1e7lA 157 1.53e+00 1en7A a.140.4.1 64728 d.4.1.5 64729 1unnC 115 2.09e+00 1us7B 265 2.22e+00 1rboC 123 2.24e+00 1rboC d.73.1.1 39634 1mpgA 282 2.55e+00 1mpgA a.96.1.3 18747 d.129.1.2 41296 8rucI 123 2.58e+00 1rboC d.73.1.1 39629 1heiA 451 2.66e+00 1heiA c.37.1.14 32463 c.37.1.14 32464 1d3uB 201 2.67e+00 1aisB a.74.1.2 18386 a.74.1.2 18387 1qrrA 394 2.72e+00 1qrrA c.2.1.2 29824 1i24A 404 2.75e+00 c.2.1.2 83663 1o08A 221 2.90e+00 c.108.1.6 86525 1nal1 297 3.04e+00 1nal3 1bdg 451 3.22e+00 1qhaA c.55.1.3 33461 c.55.1.3 33462 1ur3M 319 3.38e+00 8ohm 435 3.45e+00 1heiA c.37.1.14 32469 c.37.1.14 32470 2cpgA 45 3.47e+00 2cpgA a.43.1.2 17455 1nal3 297 3.63e+00 1nal3 1fdyA 297 4.12e+00 1nal3 c.1.10.1 29071 1kr5A 226 4.25e+00 c.66.1.7 68847 1i1nA 226 4.34e+00 c.66.1.7 71102 1uaaA 673 4.36e+00 1pjr c.37.1.19 32401 c.37.1.19 32402 1og6A 298 4.77e+00 c.1.7.1 86984 1ec5A 50 4.94e+00 1ec5A k.8.1.1 46421 1ukz 203 5.58e+00 1zin c.37.1.1 31840 1o59A 355 5.86e+00 1iw8A 231 6.33e+00 a.111.1.1 76866 1k7kA 221 6.49e+00 c.51.4.1 72104 1fnoA 417 6.54e+00 c.56.5.4 75841 d.58.19.1 70145 1jb3A 131 6.61e+00 1jc7A b.40.3.2 62833 1cunA 213 6.93e+00 1cunA a.7.1.1 16313 a.7.1.1 16314 1ei5A 520 8.73e+00 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1hkvA 453 9.54e+00 b.49.2.3 83559 c.1.6.1 83560 1gxlA 213 9.80e+00 d.215.1.1 70713 1p9vA 310 1.05e+01 d.21.1.2 88007 d.21.1.2 88008 1sdjA 310 1.05e+01 3bct 457 1.06e+01 3bct a.118.1.1 19112 1h0hB 214 1.14e+01 d.58.1.5 76437 1m32A 366 1.16e+01 c.67.1.3 78508 1en7A 157 1.21e+01 1en7A a.140.4.1 64733 d.4.1.5 64734 2wsyB 396 1.30e+01 2tysB c.79.1.1 35288 1as4A 341 1.30e+01 1sek e.1.1.1 42623 1v5sA 126 1.30e+01 1qyaA 307 1.35e+01 1eb6A 177 1.39e+01 d.92.1.12 64895 1gxjA 186 1.41e+01 d.215.1.1 70707 1p1lA 102 1.45e+01 d.58.5.2 87695 1oq9A 363 1.47e+01 a.25.1.2 87257 3minC 491 1.54e+01 1qguA c.92.2.3 35607 1vi9A 299 1.56e+01 1gz2A 142 1.56e+01 d.169.1.1 83392 3thiA 371 1.57e+01 2thiA c.94.1.1 35792 2tysB 397 1.58e+01 2tysB c.79.1.1 35272 1d2tA 231 1.60e+01 1d2tA a.111.1.1 19052 1g2qA 187 1.63e+01 c.61.1.1 65117 1mv8A 436 1.71e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 3nodB 423 1.75e+01 1nseA d.174.1.1 42513 1auiB 169 1.82e+01 1auiB a.39.1.5 17325 6prcM 323 1.83e+01 6prcM f.26.1.1 43435 1dxrM 323 1.83e+01 6prcM f.26.1.1 43432 1rtwA 220 1.91e+01 1aa2 108 2.01e+01 1bkrA a.40.1.1 17395 1qbkB 890 2.01e+01 1qbkB a.118.1.1 19127 1afrA 345 2.06e+01 1afrA a.25.1.2 16805 1aisB 200 2.19e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1bksB 397 2.23e+01 2tysB c.79.1.1 35285 2a0b 125 2.24e+01 2a0b a.24.10.1 16630 1a0cA 438 2.24e+01 1a0cA c.1.15.3 29529 1m6jA 261 2.27e+01 c.1.1.1 78693 1fr0A 125 2.28e+01 2a0b a.24.10.1 59996 1k6dA 220 2.33e+01 c.63.1.2 72082 1vk0A 206 2.40e+01 1qpsA 261 2.43e+01 1ckqA c.52.1.1 33234 1pq1B 33 2.47e+01 1ufoA 238 2.53e+01 1bg6 359 2.65e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1bkrA 109 2.72e+01 1bkrA a.40.1.1 17394 2thiA 379 2.76e+01 2thiA c.94.1.1 35794 1fbtA 190 2.77e+01 1bif c.60.1.4 34004 1afoA 40 2.80e+01 1afoA j.35.1.1 46257 1i7wA 538 2.80e+01 3bct a.118.1.1 61909 1jm0A 50 2.83e+01 k.8.1.1 66870 1etpA 190 2.86e+01 1etpA a.3.1.4 15962 a.3.1.4 15963 1h8lA 380 2.89e+01 b.3.2.1 65737 c.56.5.1 65738 1hy3A 294 2.90e+01 c.37.1.5 71090 1g3jA 532 2.93e+01 3bct a.118.1.1 19114 1qwdA 177 2.96e+01 1oakA 196 2.99e+01 1auq c.62.1.1 34138 1q77A 138 3.00e+01 1jdhA 529 3.03e+01 a.118.1.1 66549 1gpb 842 3.13e+01 1a8i c.87.1.4 35478 1d9nA 75 3.19e+01 1d9nA d.10.1.3 37486 1hdlA 55 3.21e+01 g.57.1.1 65808 3crd 100 3.24e+01 3crd a.77.1.3 18429 1gr2A 279 3.29e+01 1gr2A c.94.1.1 35825 1kum 108 3.30e+01 1kum b.3.1.1 22525 1c0nA 406 3.30e+01 1c0nA c.67.1.3 34433 1m5dA 263 3.44e+01 c.94.1.1 78641 1g2hA 61 3.44e+01 1g2hA a.4.1.10 60224 1rh5A 436 3.49e+01 1gk8I 140 3.53e+01 d.73.1.1 65242 2nllB 103 3.55e+01 2nllB g.39.1.2 45115 1mqdA 261 3.55e+01 c.94.1.1 85049 1a8i 842 3.59e+01 1a8i c.87.1.4 35490 1axdA 209 3.61e+01 1gnwA a.45.1.1 17730 c.47.1.5 33024 1mqiA 263 3.66e+01 1m70A 190 3.77e+01 1c8kA 842 3.80e+01 1a8i c.87.1.4 35491 1m5eA 263 3.91e+01 c.94.1.1 78642 1iv8A 720 3.92e+01 b.71.1.1 76842 c.1.8.1 76843 1adjA 421 3.94e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 1jc7A 131 3.95e+01 1jc7A b.40.3.2 62873