# 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.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 1d0nA 729 5.17e-01 1d0nA d.109.1.1 40834 d.109.1.1 40835 d.109.1.1 40836 d.109.1.1 40837 d.109.1.1 40838 d.109.1.1 40839 1jk7A 323 7.05e-01 1auiA d.159.1.3 63144 6prcH 258 1.15e+00 6prcH b.41.1.1 25457 f.23.10.1 43436 1dxrH 258 1.49e+00 6prcH b.41.1.1 25456 f.23.10.1 43433 1fjmA 330 1.69e+00 1auiA d.159.1.3 42082 1f28A 297 2.31e+00 1bkpA d.117.1.1 59608 1cx8B 639 3.93e+00 1cx8B a.48.2.1 17783 c.8.4.1 30764 c.56.5.5 33852 1bqhG 129 4.94e+00 1cd8 b.1.1.1 19715 1aim 215 5.03e+00 1cs8A d.3.1.1 37044 1gqpA 221 5.07e+00 b.18.1.9 70372 1azsA 220 5.23e+00 1azsA d.58.29.1 39416 1khbA 625 5.52e+00 c.91.1.1 68606 c.109.1.1 68607 1dgjA 907 5.92e+00 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 1ciy 590 6.07e+00 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1ksiB 642 6.39e+00 1ksiB b.30.2.1 24409 d.17.2.1 38045 d.17.2.1 38046 1ej6A 1289 6.58e+00 i.7.1.1 45967 1ehkB 168 6.68e+00 2cuaA b.6.1.2 23041 f.17.2.1 43625 1itkA 731 6.71e+00 a.93.1.3 71417 a.93.1.3 71418 1culA 217 7.03e+00 1azsA d.58.29.1 39417 1qvcA 145 7.53e+00 3ullA b.40.4.3 25284 1je0A 236 8.05e+00 c.56.2.1 66581 2rmpA 361 8.33e+00 2rmpA b.50.1.2 26825 1spuB 727 8.43e+00 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 1gctA 245 8.54e+00 5ptp b.47.1.2 26021 1e2tA 284 8.68e+00 1e2tA d.3.1.5 37121 3aprE 325 8.86e+00 2er7E b.50.1.2 26820 1cjtA 217 8.94e+00 1azsA d.58.29.1 39419 1cxlA 686 9.03e+00 1cxlA b.1.18.2 21829 b.3.1.1 22498 b.71.1.1 27736 c.1.8.1 28723 1jmxA 494 9.11e+00 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 2sqcA 631 9.28e+00 2sqcA a.102.4.2 18854 a.102.4.2 18855 1cx8A 639 9.36e+00 1cx8B a.48.2.1 17782 c.8.4.1 30763 c.56.5.5 33851 1ksiA 642 9.46e+00 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1k6dA 220 9.61e+00 c.63.1.2 72082 1f2aA 215 1.01e+01 1cs8A d.3.1.1 37040 1kawA 135 1.02e+01 3ullA b.40.4.3 25288 1sqc 631 1.04e+01 2sqcA a.102.4.2 18858 a.102.4.2 18859 1qovH 260 1.04e+01 6prcH b.41.1.1 25464 f.23.10.1 43457 2apr 325 1.08e+01 2er7E b.50.1.2 26819 1de4C 640 1.12e+01 1cx8B a.48.2.1 17779 c.8.4.1 30760 c.56.5.5 33848 1d3cA 686 1.14e+01 1cxlA b.1.18.2 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1jjuB 337 1.15e+01 b.69.2.2 66779 1vhrA 184 1.18e+01 1vhrA c.45.1.1 32651 1eysH 259 1.21e+01 6prcH b.41.1.1 25484 f.23.10.1 43517 1k42A 168 1.30e+01 b.18.1.14 72032 2bbkH 355 1.33e+01 2bbkH b.69.2.1 27634 1qoiA 177 1.37e+01 2cpl b.62.1.1 27490 1soxA 466 1.51e+01 1soxA b.1.18.6 21947 d.120.1.1 41090 d.176.1.1 42563 1eaf 243 1.55e+01 1eaf c.43.1.1 32617 1k4mA 213 1.58e+01 c.26.1.3 77258 1eu1A 780 1.58e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1oacA 727 1.58e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1ktbA 405 1.58e+01 b.71.1.1 72960 c.1.8.1 72961 1qh4A 380 1.69e+01 1qh4A a.83.1.1 18462 d.128.1.2 41197 1d6zA 727 1.90e+01 1oacA b.30.2.1 24394 d.17.2.1 38015 d.17.2.1 38016 d.82.1.1 40007 1f00I 282 1.91e+01 1f00I b.1.14.1 22368 b.1.14.1 22369 d.169.1.3 42439 1gg6B 131 2.03e+01 5ptp 1jr3E 334 2.03e+01 a.80.1.1 63253 c.37.1.20 63254 2asi 360 2.05e+01 2rmpA b.50.1.2 26824 1m56B 264 2.06e+01 b.6.1.2 74472 f.17.2.1 74473 2eifA 136 2.12e+01 1bkb b.34.5.2 24607 b.40.4.5 25339 1d4bA 122 2.26e+01 1d4bA d.15.2.1 37638 1k32A 1045 2.27e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1et0A 269 2.29e+01 1et0A e.17.1.1 43289 1l9mA 692 2.34e+01 b.1.18.9 73732 b.1.5.1 73733 b.1.5.1 73734 d.3.1.4 73735 1tx4B 178 2.34e+01 1ctqA c.37.1.8 32045 1aqjA 421 2.71e+01 2admA c.66.1.10 34242 1f0lA 535 2.86e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 2dhqA 146 2.99e+01 2dhqA c.23.13.1 31382 1lrzA 426 3.02e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1dpb 243 3.15e+01 1eaf c.43.1.1 32618 1j9qA 341 3.16e+01 1nif b.6.1.3 62765 b.6.1.3 62766 1et7A 341 3.18e+01 1nif b.6.1.3 23070 b.6.1.3 23071 1a5t 334 3.23e+01 1a5t a.80.1.1 18450 c.37.1.20 32423 1h05A 146 3.24e+01 c.23.13.1 76433 1avk 638 3.28e+01 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1tdj 514 3.30e+01 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1dpgA 485 3.34e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1pmi 440 3.34e+01 1pmi b.82.1.3 28114 1dim 381 3.38e+01 3sil b.68.1.1 27544 1goiA 499 3.45e+01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1b43A 340 3.59e+01 1a76 a.60.7.1 18092 c.53.1.2 33362 1ek8A 185 3.67e+01 1ek8A d.67.3.1 59444 1e6pA 499 3.72e+01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1e15A 499 3.73e+01 1e15A b.72.2.1 27810 c.1.8.5 29006 d.26.3.1 38440 1as8A 343 3.82e+01 1nif b.6.1.3 23074 b.6.1.3 23075 2azaA 129 3.99e+01 1nwpA b.6.1.1 22901