# List of top-scoring protein chains for t2k.w0.5 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 1qgjA 300 3.33e-01 1bgp a.93.1.1 18691 1t1iA 364 4.80e-01 c.41.1.2 106248 1gt91 357 5.10e-01 1t1gA 364 6.26e-01 c.41.1.2 106246 1kufA 203 6.33e-01 d.92.1.9 73007 1bgpA 309 6.40e-01 a.93.1.1 18690 1t1eA 552 6.60e-01 c.41.1.2 106244 d.58.3.2 106245 1gx2A 309 8.19e-01 a.93.1.1 83360 1gw2A 308 8.40e-01 a.93.1.1 83341 1gwuA 309 8.49e-01 a.93.1.1 83351 1gwoA 309 8.53e-01 a.93.1.1 83349 2atjA 308 8.64e-01 1bgp a.93.1.1 18675 1hchA 306 8.65e-01 a.93.1.1 70965 1gwtA 309 8.66e-01 a.93.1.1 83350 7atjA 308 8.68e-01 1bgp a.93.1.1 18673 1w4wA 323 8.92e-01 a.93.1.1 120640 1x3cA 73 9.83e-01 g.37.1.1 121660 1pa2A 306 1.02e+00 1bgp a.93.1.1 18693 4atjA 309 1.13e+00 a.93.1.1 81266 1kugA 203 1.60e+00 d.92.1.9 73008 1nwvA 129 1.60e+00 g.18.1.1 86304 g.18.1.1 86305 2q7zA 1931 1.88e+00 1kzmA 308 1.91e+00 a.93.1.1 77637 1zvjA 364 2.21e+00 1sioA 364 2.21e+00 c.41.1.2 98888 1wniA 201 2.95e+00 d.92.1.9 109435 2dyuA 334 3.24e+00 1m11R 243 3.40e+00 i.6.1.1 74366 1cvrA 435 3.77e+00 1cvrA b.1.18.12 21949 c.17.1.2 31006 1ok3A 254 4.00e+00 g.18.1.1 93208 g.18.1.1 93209 g.18.1.1 93210 g.18.1.1 93211 1zvkA 358 4.37e+00 1siuA 364 4.46e+00 c.41.1.2 98891 2c8iE 316 4.85e+00 g.18.1.1 130105 g.18.1.1 130106 g.18.1.1 130107 g.18.1.1 130108 1upnE 129 5.08e+00 g.18.1.1 99764 g.18.1.1 99765 1h03P 125 5.56e+00 g.18.1.1 83411 g.18.1.1 83412 1h2pP 125 6.52e+00 g.18.1.1 83466 g.18.1.1 83467 1qtyT 101 6.75e+00 1fltX b.1.1.4 21769 1rv6X 100 6.83e+00 b.1.1.4 97914 1fltX 95 6.92e+00 1fltX b.1.1.4 21765 1rzjC 185 7.29e+00 b.1.1.1 98198 b.1.1.3 98199 3cd4A 182 7.41e+00 b.1.1.1 19720 b.1.1.3 21659 2ny1B 184 7.42e+00 b.1.1.1 138764 b.1.1.3 138765 2qadB 181 7.46e+00 1cdyA 178 7.48e+00 b.1.1.1 19719 b.1.1.3 21658 1cdhA 178 7.54e+00 b.1.1.1 19722 b.1.1.3 21661 1cdiA 179 7.56e+00 b.1.1.1 19727 b.1.1.3 21666 1cduA 178 7.77e+00 b.1.1.1 19723 b.1.1.3 21662 2cpzA 115 9.56e+00 d.58.7.1 130710 1lxjA 104 9.74e+00 d.58.48.1 84736 1danT 80 9.80e+00 1boy b.1.2.1 21953 1tibA 269 1.05e+01 c.69.1.17 34738 1gt6A 269 1.05e+01 c.69.1.17 76342 2jqmA 112 1.09e+01 2gyaG 139 1.10e+01 2qamI 141 1.10e+01 1vs6I 142 1.11e+01 1ufgA 151 1.29e+01 b.1.16.1 107814 2c4fT 75 1.36e+01 1j0tA 78 1.36e+01 a.163.1.1 77051 2pd0A 223 1.40e+01 3cbnA 151 1.41e+01 2z4dA 96 1.41e+01 1sddB 647 1.41e+01 b.6.1.3 105433 b.6.1.3 105434 b.18.1.2 105435 b.18.1.2 105436 1v02E 565 1.62e+01 c.1.8.4 108198 1wadA 112 1.68e+01 a.138.1.1 19658 2hqhE 25 1.72e+01 1vk1A 242 1.77e+01 d.268.1.2 108634 1wj2A 78 1.79e+01 g.79.1.1 114689 1xf1A 926 1.82e+01 1dt2A 245 1.87e+01 b.47.1.1 76138 1yeeL 219 1.91e+01 32c2A b.1.1.1 20156 b.1.1.2 21186 2genA 197 1.95e+01 a.4.1.9 135062 a.121.1.1 135063 1a34A 159 2.00e+01 1a34A b.121.7.1 23286 1g3qA 237 2.03e+01 1hyqA c.37.1.10 60237 1qn0A 112 2.04e+01 3cyr a.138.1.1 19659 1a4eA 488 2.08e+01 1cf9A e.5.1.1 42806 2pnqA 467 2.18e+01 2gysA 419 2.19e+01 b.1.2.1 135865 b.1.2.1 135866 b.1.2.1 135867 b.1.2.1 135868 1st8A 543 2.19e+01 1y33I 64 2.23e+01 1fhfA 304 2.24e+01 1bgp a.93.1.1 18687 2aezA 543 2.28e+01 2e5vA 472 2.31e+01 1h04P 125 2.37e+01 g.18.1.1 83415 g.18.1.1 83416 3bxjA 483 2.45e+01 1oaaA 259 2.51e+01 c.2.1.2 29829 1sepA 261 2.52e+01 c.2.1.2 29830 1zrnA 232 2.55e+01 c.108.1.1 43323 2f96A 224 2.60e+01 c.55.3.5 133153 1j2qA 237 2.63e+01 d.153.1.4 84029 1l1oC 181 2.69e+01 b.40.4.3 73480 2p0aA 344 2.69e+01 1judA 232 2.70e+01 c.108.1.1 43325 2d7vA 162 2.71e+01 3bbnD 201 2.82e+01 2hu9A 130 2.83e+01 1z02A 446 2.83e+01 1yedA 219 2.86e+01 32c2A b.1.1.1 20150 b.1.1.2 21180 2pzoE 42 2.89e+01 2q5tA 642 2.92e+01 1to2I 64 2.97e+01 d.40.1.1 112596 1r5jA 337 2.97e+01 c.77.1.5 97097 1azzA 226 2.98e+01 5ptp b.47.1.2 26072 1yejL 219 3.12e+01 8fabA b.1.1.1 20140 b.1.1.2 21170 1ifrA 121 3.12e+01 b.1.16.1 71203 1ivtA 122 3.12e+01 b.1.16.1 71443 2e2lA 334 3.14e+01 1pfzA 380 3.18e+01 1smrA b.50.1.2 26881 1tm5I 64 3.27e+01 d.40.1.1 112516 1ro5A 201 3.30e+01 d.108.1.3 105023 2hffB 232 3.31e+01 b.1.1.1 136379 b.1.1.2 136380 1lf2A 331 3.33e+01 b.50.1.2 77914 1tf6A 190 3.33e+01 1tf6A g.37.1.1 45060 g.37.1.1 45061 g.37.1.1 45062 g.37.1.1 45063 g.37.1.1 45064 g.37.1.1 45065 1v03A 565 3.39e+01 c.1.8.4 108200 1xdhA 331 3.40e+01 b.50.1.2 121870 2pftA 571 3.45e+01 2igxA 329 3.50e+01 b.50.1.2 137404 2cfxA 144 3.52e+01 a.4.5.32 130395 d.58.4.2 130396 2gibA 103 3.52e+01 d.254.1.2 135225 1wioA 363 3.56e+01 1cdy b.1.1.1 19728 b.1.1.1 19729 b.1.1.3 21667 b.1.1.3 21668 1ft9A 222 3.61e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 1b3cA 64 3.62e+01 1aho g.3.7.1 44121 1o2dA 371 3.62e+01 e.22.1.2 86591 1xiwB 79 3.66e+01 b.1.1.4 115368 1g652 196 3.67e+01 1vhdA 371 3.67e+01 e.22.1.2 100667 2cjrA 128 3.68e+01 1gmzA 122 3.73e+01 a.133.1.2 65356 1i7nA 309 3.78e+01 c.30.1.5 83681 d.142.1.3 83682 2bjuA 453 3.80e+01 b.50.1.2 128633 1v02A 565 3.82e+01 c.1.8.4 108194 2a4aA 281 3.85e+01 c.1.10.1 126150 1z6zA 282 3.90e+01 c.2.1.2 124575 2v36A 376 3.92e+01 1jdqA 98 3.98e+01 d.68.3.3 66559