# List of top-scoring protein chains for t04-100-30-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 1bu8A 452 1.21e+00 1gpl b.12.1.2 23647 c.69.1.19 34795 1h6hA 143 1.31e+00 d.189.1.1 65681 1gpl 432 1.59e+00 1gpl b.12.1.2 23645 c.69.1.19 34793 1vavA 222 1.60e+00 1ikpA 613 2.07e+00 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1ex0A 731 2.70e+00 1who 96 2.84e+00 1who b.7.3.1 23215 1o91A 178 2.90e+00 1s1dA 331 3.33e+00 1lcl 142 3.53e+00 1lcl b.29.1.3 24216 1hdkA 141 4.60e+00 b.29.1.3 65807 1qksA 567 4.73e+00 1qksA a.3.1.2 15951 b.70.2.1 27710 1epwA 1290 5.25e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1m1hA 248 5.41e+00 b.114.1.1 78415 d.58.42.1 78416 1i9gA 280 5.52e+00 c.66.1.13 62090 1j1tA 233 6.73e+00 1p7tA 731 7.03e+00 1rovA 857 7.33e+00 1noa 113 7.56e+00 2mcm b.1.7.1 22208 1ha3A 405 7.92e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1of4A 179 7.99e+00 b.18.1.18 86932 1hq0A 295 8.28e+00 1hzgA d.194.1.1 61122 1o7kA 131 9.05e+00 d.189.1.1 81144 1lla 628 9.25e+00 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.18.3 21861 1p3dA 475 9.32e+00 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1psuA 140 9.35e+00 d.38.1.5 88285 1oh4A 179 9.43e+00 1r6wA 322 9.43e+00 1rvkA 382 9.71e+00 1vcbC 160 9.83e+00 1vcbC b.3.3.1 22535 1befA 181 9.96e+00 1befA b.47.1.3 26419 1pjxA 314 1.01e+01 1e1aA 314 1.04e+01 1e1aA b.68.6.1 59155 1dv1A 449 1.06e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1jb9A 316 1.08e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1o0iA 138 1.09e+01 d.38.1.5 86532 1j5wA 298 1.12e+01 d.104.1.1 71589 1jb7A 495 1.17e+01 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1i5pA 633 1.21e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1eybA 471 1.25e+01 1ey2A b.82.1.4 28115 1crzA 403 1.26e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1qfhA 212 1.26e+01 1qfhA b.1.18.10 21893 b.1.18.10 21894 5croA 66 1.34e+01 1orc a.35.1.2 17044 1gv3A 248 1.35e+01 a.2.11.1 70585 d.44.1.1 70586 1fhuA 320 1.36e+01 1fhuA c.1.11.2 29234 d.54.1.1 38878 1hw7A 255 1.37e+01 1i7fA d.193.1.1 61297 1fjgK 129 1.39e+01 1fjfK c.55.4.1 33733 1opy 131 1.40e+01 1opy d.17.4.3 38113 1iscA 192 1.41e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1umhA 184 1.44e+01 1dmmA 131 1.46e+01 1opy d.17.4.3 38114 1evuA 731 1.46e+01 1f13A b.1.18.9 21883 b.1.5.1 22175 b.1.5.1 22176 d.3.1.4 37113 1i0cA 60 1.49e+01 1aojA b.34.2.1 61485 1ms9A 648 1.50e+01 b.29.1.15 85088 b.68.1.1 85089 1a12A 413 1.53e+01 1a12A b.69.5.1 27663 2madH 373 1.54e+01 2bbkH b.69.2.1 27639 1c1lA 136 1.58e+01 1c1lA b.29.1.3 24219 1pbyB 337 1.58e+01 1lktA 104 1.60e+01 1lktA b.90.1.1 28398 1yge 839 1.62e+01 1yge a.119.1.1 19234 b.12.1.1 23634 1qmvA 197 1.64e+01 1qq2A c.47.1.10 33066 1ftrA 296 1.66e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1kq6A 141 1.68e+01 1pbyA 489 1.69e+01 1aun 208 1.72e+01 1thv b.25.1.1 23900 1lm8V 160 1.73e+01 b.3.3.1 74035 1ckaA 57 1.78e+01 1ckaA b.34.2.1 24459 1gk9B 557 1.83e+01 1jguH 217 1.84e+01 b.1.1.1 66688 b.1.1.2 66689 1jv4A 162 1.90e+01 b.60.1.1 67343 1fw9A 164 1.92e+01 1fw9A d.190.1.1 60059 1lj5A 379 1.93e+01 e.1.1.1 73928 1ouwA 152 1.94e+01 1qpxA 218 2.01e+01 1qpxA b.1.11.1 22318 b.7.2.1 23200 1exmA 405 2.06e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1hlrA 907 2.09e+01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1alo 907 2.11e+01 1alo 1oh0A 131 2.19e+01 d.17.4.3 87004 1acx 108 2.19e+01 2mcm b.1.7.1 22211 2bbkH 355 2.21e+01 2bbkH b.69.2.1 27634 1cr5A 189 2.22e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1k07A 263 2.23e+01 d.157.1.1 77218 1oxdA 227 2.27e+01 1ca1 370 2.28e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1i07A 60 2.28e+01 1aojA b.34.2.1 61477 1e3aB 560 2.29e+01 1ajqB 1is3A 135 2.31e+01 b.29.1.3 76773 1iwmA 186 2.33e+01 b.125.1.2 83758 1a78A 134 2.39e+01 1c1lA b.29.1.3 24212 1f6fB 210 2.41e+01 1axiB b.1.2.1 22033 b.1.2.1 22034 1ii7A 333 2.51e+01 1ii7A d.159.1.4 62415 1h3nA 878 2.52e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1h09A 338 2.55e+01 b.109.1.1 83420 c.1.8.8 83421 1he7A 126 2.59e+01 1wwcA b.1.1.4 60970 1ocsA 162 2.61e+01 1j48A 110 2.64e+01 b.1.7.1 84112 1ollA 188 2.65e+01 2mspA 126 2.68e+01 1mspA b.1.11.2 22335 1d8cA 723 2.69e+01 1d8cA c.1.13.1 29325 1qniA 581 2.72e+01 1qniA b.6.1.4 23042 b.69.3.1 27642 1pgs 314 2.72e+01 1pgs b.121.1.1 23653 b.121.1.1 23654 1suuA 312 2.77e+01 1n1tA 641 2.78e+01 b.29.1.15 79821 b.68.1.1 79822 1fyhB 229 2.79e+01 1jrhI b.1.2.1 22055 b.1.2.1 22056 1wkt 88 2.81e+01 1wkt b.11.1.2 23630 1qouA 181 2.85e+01 1qouA b.17.1.1 23707 1nofA 383 2.86e+01 1ap6A 198 2.87e+01 1avmA a.2.11.1 15746 d.44.1.1 38705 1n0nA 199 2.87e+01 a.2.11.1 79750 d.44.1.1 79751 1pl4A 198 2.92e+01 1kypA 237 2.93e+01 d.22.1.1 73280 1go2A 304 2.94e+01 b.43.4.2 76243 c.25.1.1 76244 1lw3A 657 3.00e+01 1faaA 124 3.00e+01 1erv c.47.1.1 32738 1q4uA 151 3.02e+01 1aw7A 194 3.04e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1que 303 3.04e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1l0qA 391 3.05e+01 b.1.3.1 77644 b.69.2.3 77645 1nepA 130 3.07e+01 b.1.18.7 80440 1gu3A 149 3.21e+01 b.18.1.14 76350 1h9sA 140 3.23e+01 1b9mA b.40.6.2 60843 b.40.6.2 60844 1rqwA 207 3.23e+01 1gsmA 210 3.28e+01 b.1.1.4 65535 b.1.1.4 65536 1lo7A 141 3.29e+01 d.38.1.1 74144 1bs4A 168 3.33e+01 1bs4A d.167.1.1 42287 2tnfA 156 3.34e+01 2tnfA b.22.1.1 23880 1ogiA 303 3.42e+01 1obpA 159 3.44e+01 1obpA b.60.1.1 27092 1cx1A 153 3.54e+01 1ulo b.18.1.14 23770 1gr3A 160 3.58e+01 b.22.1.1 65476 1n8jA 186 3.60e+01 c.47.1.10 85401 1hn2A 159 3.61e+01 b.60.1.1 65890 1gt1A 159 3.61e+01 1uyrA 737 3.62e+01 1lqtA 456 3.73e+01 c.3.1.1 74198 c.4.1.1 74199 1jmcA 246 3.74e+01 1jmcA b.40.4.3 25300 b.40.4.3 25301 1bvqA 141 3.76e+01 1bvqA d.38.1.1 38542 1j0hA 588 3.79e+01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 8fabA 212 3.81e+01 8fabA b.1.1.1 19772 b.1.1.2 20882 1e5pA 151 3.82e+01 1bj7 b.60.1.1 59272 1tl2A 236 3.87e+01 1tl2A b.67.1.1 27541 1kwnA 207 3.88e+01 b.25.1.1 77568 1thv 207 3.90e+01 1thv b.25.1.1 23904 3tss 194 3.90e+01 1aw7A b.40.2.2 25160 d.15.6.1 37749 1vj2A 126 3.97e+01 1pj5A 830 3.98e+01