# List of top-scoring protein chains for T0281.t04-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.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 1gefA 123 2.27e-01 1gefA c.52.1.18 60465 1gc5A 467 1.29e+00 1gc5A c.72.1.3 60429 1l2lA 457 3.23e+00 c.72.1.3 77656 1ozaA 371 3.87e+00 1uewA 114 4.44e+00 b.36.1.1 -3752 1lngA 87 4.50e+00 d.201.1.1 74045 1reuA 103 6.12e+00 g.17.1.2 -12602 1ax4A 467 6.55e+00 1ax4A c.67.1.2 34391 1nt9D 221 6.72e+00 i.8.1.1 86154 1kg0C 136 6.91e+00 d.169.1.1 72445 1c1dB 355 7.11e+00 1bw9A c.2.1.7 30271 c.58.1.1 33919 1bxgB 356 7.16e+00 1bw9A c.2.1.7 30277 c.58.1.1 33925 1c1xB 355 7.17e+00 1bw9A c.2.1.7 30273 c.58.1.1 33921 1bw9B 356 7.19e+00 1bw9A c.2.1.7 30275 c.58.1.1 33923 1bxgA 356 7.19e+00 1bw9A c.2.1.7 30276 c.58.1.1 33924 1f02T 66 7.31e+00 1f02T j.67.1.1 46360 1c1dA 355 7.52e+00 1bw9A c.2.1.7 30270 c.58.1.1 33918 1c1xA 355 7.58e+00 1bw9A c.2.1.7 30272 c.58.1.1 33920 1bw9A 356 7.61e+00 1bw9A c.2.1.7 30274 c.58.1.1 33922 1kl1A 419 7.76e+00 c.67.1.4 72663 1hnnA 282 7.84e+00 c.66.1.15 65895 1o7dC 159 8.02e+00 b.30.5.6 86640 1pqvD 221 8.50e+00 i.8.1.1 -13193 1tiqA 180 9.11e+00 1dv0A 47 9.38e+00 1dv0A a.5.2.1 16289 1c3gA 170 9.69e+00 1c3gA b.4.1.1 22831 b.4.1.1 22832 1f4iA 45 9.89e+00 1dv0A a.5.2.1 16288 1r44A 202 1.08e+01 1e2rA 567 1.09e+01 1qksA a.3.1.2 15953 b.70.2.1 27712 1qksA 567 1.09e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1rewA 114 1.11e+01 g.17.1.2 -12600 1es7A 116 1.12e+01 2tgi g.17.1.2 44786 1kclA 686 1.22e+01 b.1.18.2 68445 b.3.1.1 68446 b.71.1.1 68447 c.1.8.1 68448 1myt 146 1.24e+01 1a6m a.1.1.2 15207 1qlcA 95 1.46e+01 1qauA b.36.1.1 24776 1mzbA 136 1.49e+01 unknown_sccs -266 1tbxA 99 1.51e+01 1l9aA 87 1.79e+01 d.201.1.1 73710 1d3cA 686 1.84e+01 1cxlA b.1.18.2 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1peeA 180 1.84e+01 1dtuA 686 1.84e+01 1cxlA b.1.18.2 21840 b.3.1.1 22509 b.71.1.1 27747 c.1.8.1 28734 1cgv 686 1.84e+01 1cxlA b.1.18.2 21820 b.3.1.1 22489 b.71.1.1 27727 c.1.8.1 28714 1cgw 686 1.84e+01 1cxlA b.1.18.2 21822 b.3.1.1 22491 b.71.1.1 27729 c.1.8.1 28716 1cdg 686 1.85e+01 1cxlA b.1.18.2 21816 b.3.1.1 22485 b.71.1.1 27723 c.1.8.1 28710 1tcmA 686 1.85e+01 1cxlA b.1.18.2 21833 b.3.1.1 22502 b.71.1.1 27740 c.1.8.1 28727 1cgy 686 1.85e+01 1cxlA b.1.18.2 21823 b.3.1.1 22492 b.71.1.1 27730 c.1.8.1 28717 1cgx 686 1.86e+01 1cxlA b.1.18.2 21832 b.3.1.1 22501 b.71.1.1 27739 c.1.8.1 28726 1q45A 391 1.89e+01 c.1.4.1 -5199 1o6wA 75 2.00e+01 b.72.1.1 81103 b.72.1.1 81104 1g5hA 454 2.00e+01 1g5hA c.51.1.1 60270 d.104.1.1 60271 1nthA 458 2.01e+01 c.1.25.1 80730 1kckA 686 2.02e+01 b.1.18.2 68441 b.3.1.1 68442 b.71.1.1 68443 c.1.8.1 68444 1eo5A 686 2.03e+01 1cxlA b.1.18.2 21828 b.3.1.1 22497 b.71.1.1 27735 c.1.8.1 28722 1ot2A 686 2.04e+01 b.1.18.2 87396 b.3.1.1 87397 b.71.1.1 87398 c.1.8.1 87399 1ot1A 686 2.04e+01 b.1.18.2 87392 b.3.1.1 87393 b.71.1.1 87394 c.1.8.1 87395 1cxlA 686 2.04e+01 1cxlA b.1.18.2 21829 b.3.1.1 22498 b.71.1.1 27736 c.1.8.1 28723 1kzfA 230 2.09e+01 d.108.1.3 73354 1oqyA 368 2.17e+01 a.5.2.1 -347 a.5.2.1 -348 unknown_sccs -1004 d.15.1.1 -9134 1hj5A 567 2.19e+01 1qksA a.3.1.2 15927 b.70.2.1 27684 1gq1A 567 2.19e+01 a.3.1.2 76264 b.70.2.1 76265 1rvgA 305 2.33e+01 c.1.10.2 -5500 1nwcA 371 2.36e+01 c.2.1.3 -5883 d.81.1.1 -10466 1ub0A 258 2.37e+01 c.72.1.2 88394 1jgqS 91 2.41e+01 i.1.1.1 63012 1s1hE 149 2.44e+01 1ps8A 371 2.46e+01 1nwhA 371 2.46e+01 c.2.1.3 -5885 d.81.1.1 -10468 1pu2A 371 2.50e+01 1fjgP 88 2.53e+01 1emwA d.27.1.1 38444 1n4tA 219 2.57e+01 unknown_sccs -10234 1q2xA 371 2.58e+01 1pj9A 686 2.71e+01 b.1.18.2 -2713 b.3.1.1 -2914 b.71.1.1 -4638 c.1.8.1 -5262 1oz7B 123 2.77e+01 d.169.1.1 -11634 1jxhA 288 2.94e+01 c.72.1.2 67415 1nh8A 304 2.94e+01 c.94.1.1 80507 d.58.5.3 80508 1qh5A 260 2.99e+01 1qh5A d.157.1.2 42057 1pr3A 371 3.04e+01 1latA 82 3.05e+01 2nllB g.39.1.2 45122 1ka9H 200 3.08e+01 c.23.16.1 77308 1q1hA 110 3.09e+01 unknown_sccs -262 1p4dA 330 3.20e+01 unknown_sccs -10522 1vj1A 363 3.23e+01 b.35.1.2 -3728 c.2.1.1 -5752 1imuA 107 3.26e+01 d.204.1.1 66218 1pm1X 180 3.43e+01 1flmA 122 3.45e+01 1axj b.45.1.1 25747 1pnsP 83 3.51e+01 i.1.1.1 88183 1qz9A 416 3.56e+01 c.67.1.3 -8180