# 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 1shxA 138 5.03e-24 b.6.1.5 118962 1ikoP 178 1.72e-23 b.6.1.5 71243 2i85A 142 3.78e-23 1kgyE 138 4.74e-23 b.6.1.5 72453 2hleB 138 5.82e-23 b.6.1.5 136565 2f06A 144 4.71e-01 d.58.18.11 132652 d.58.18.11 132653 2qm3A 373 2.19e+00 2ocwA 585 2.43e+00 3cpnA 330 3.13e+00 2iwtB 189 4.67e+00 1avaC 181 4.98e+00 1avaC b.42.4.1 25604 2o96A 178 5.22e+00 1f56A 91 5.24e+00 2cbp b.6.1.1 22896 1cn4A 228 5.46e+00 1eerB b.1.2.1 22027 b.1.2.1 22028 2o95A 187 5.57e+00 1eerB 227 5.57e+00 1eerB b.1.2.1 22011 b.1.2.1 22012 1jb0L 154 5.99e+00 1jb0L f.31.1.1 62829 1sbxA 106 6.74e+00 a.6.1.4 105414 1ebpA 211 8.09e+00 1eerB b.1.2.1 22023 b.1.2.1 22024 2j9cA 119 8.31e+00 2j9dE 119 8.36e+00 1sj1A 66 8.53e+00 d.58.1.4 105595 1ernA 213 8.69e+00 1eerB b.1.2.1 22019 b.1.2.1 22020 2qa9E 185 9.22e+00 1czkA 169 9.23e+00 1rcf c.23.5.1 31186 1mroC 247 9.24e+00 1mroC d.58.31.1 39437 1cznA 169 9.26e+00 1rcf c.23.5.1 31181 1hbnC 248 9.27e+00 1mroC d.58.31.1 60902 1czrA 169 9.28e+00 1rcf c.23.5.1 31187 1sgpE 185 9.33e+00 1qq4A b.47.1.1 25816 1kivA 78 9.50e+00 g.14.1.1 44661 3kivA 79 9.62e+00 g.14.1.1 44660 4kivA 79 9.76e+00 g.14.1.1 44662 2jixB 225 9.92e+00 1d03A 169 9.93e+00 1rcf c.23.5.1 31182 1ebaA 215 9.94e+00 1eerB b.1.2.1 22015 b.1.2.1 22016 1gkpA 458 1.06e+01 b.92.1.3 70231 c.1.9.6 70232 1pk4A 79 1.09e+01 g.14.1.1 44630 2pk4A 80 1.12e+01 g.14.1.1 44631 2qadA 322 1.16e+01 1ws8A 109 1.17e+01 b.6.1.1 114843 1r4cA 110 1.23e+01 d.17.1.2 104793 2z8qA 66 1.24e+01 2b4cG 344 1.28e+01 2hlsA 243 1.31e+01 1v2bA 177 1.31e+01 d.107.1.2 108279 1g96A 120 1.33e+01 1g96A d.17.1.2 60393 1krnA 88 1.34e+01 g.14.1.1 44629 1okjA 251 1.57e+01 c.55.1.9 103998 c.55.1.9 103999 1b06A 210 1.70e+01 1avmA a.2.11.1 15740 d.44.1.1 38737 2c4fL 142 1.70e+01 g.3.11.1 129806 g.3.11.1 129807 g.32.1.1 129808 2a2qL 152 1.73e+01 g.3.11.1 126053 g.3.11.1 126054 g.32.1.1 126055 1u8eA 728 1.73e+01 b.70.3.1 107733 c.69.1.24 107734 1r9mA 733 1.74e+01 b.70.3.1 104870 c.69.1.24 104871 1pfqA 731 1.74e+01 b.70.3.1 88061 c.69.1.24 88062 2g63A 726 1.74e+01 b.70.3.1 134686 c.69.1.24 134687 2bgrA 738 1.74e+01 b.70.3.1 128496 c.69.1.24 128497 2ripA 729 1.74e+01 2oncA 731 1.74e+01 1tk3A 728 1.74e+01 b.70.3.1 107069 c.69.1.24 107070 1r9nA 739 1.74e+01 b.70.3.1 118745 c.69.1.24 118746 3c45A 728 1.74e+01 1wcyA 740 1.76e+01 b.70.3.1 120903 c.69.1.24 120904 2rguA 734 1.76e+01 1a58A 177 1.77e+01 b.62.1.1 27495 3bkjL 252 1.78e+01 1xnaA 183 1.82e+01 1xnaA b.18.1.8 23773 2qt9A 766 1.83e+01 2diqA 110 1.96e+01 b.34.9.1 131531 2i75A 320 1.98e+01 2q5tA 642 2.01e+01 2acaA 189 2.03e+01 d.63.1.2 126545 1xxdC 142 2.11e+01 b.16.1.1 116155 2fp4B 395 2.18e+01 c.23.4.1 133897 d.142.1.4 133898 1eudB 396 2.18e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1ja3A 127 2.19e+01 d.169.1.1 71621 1v30A 124 2.39e+01 d.269.1.1 113496 1r8oA 96 2.48e+01 b.42.4.1 104852 1r8nA 185 2.60e+01 b.42.4.1 104851 2z8vA 335 2.60e+01 1z40A 336 2.61e+01 1s8aA 152 2.66e+01 c.24.1.2 98727 1yymG 313 2.73e+01 d.172.1.1 124232 2jisA 515 2.91e+01 1tqhA 247 2.93e+01 c.69.1.29 107225 1b93A 152 2.98e+01 1b93A c.24.1.2 31507 1nubA 229 3.01e+01 1sra a.39.1.3 17191 g.3.11.3 44330 g.68.1.1 44715 2uzcA 88 3.02e+01 1k0hA 117 3.03e+01 b.106.1.2 71975 1orvA 728 3.06e+01 b.70.3.1 87354 c.69.1.24 87355 1h6rA 236 3.07e+01 d.22.1.1 65683 2d9cA 136 3.12e+01 1wf7A 103 3.17e+01 b.36.1.1 114577 2bx9A 53 3.18e+01 1dytA 133 3.20e+01 7rsa d.5.1.1 37288 1h1hA 134 3.20e+01 d.5.1.1 76468 1ta9A 450 3.29e+01 1bmoA 233 3.29e+01 1sra a.39.1.3 17193 g.3.11.3 44332 g.68.1.1 44717 2ec8A 524 3.30e+01 1f2rI 100 3.31e+01 1c9fA d.15.2.1 37641 1r4mA 529 3.37e+01 c.111.1.2 96999 2qjvA 270 3.38e+01 1tt5A 531 3.38e+01 c.111.1.2 107291 2nvuA 536 3.42e+01 c.111.1.2 138660 1yovA 537 3.42e+01 c.111.1.2 123785 1s89A 152 3.44e+01 c.24.1.2 98721 2uyzA 158 3.46e+01 2g16B 172 3.48e+01 2g3dB 173 3.50e+01 2g2sB 173 3.51e+01 2ze0A 555 3.54e+01 2p4bA 295 3.55e+01 2groA 161 3.57e+01 2grrA 161 3.59e+01 2grnA 161 3.61e+01 d.20.1.1 135568 2v43A 303 3.61e+01 2grqA 161 3.61e+01 2o25C 160 3.61e+01 d.20.1.1 138890 1u9aA 160 3.61e+01 1u9aA d.20.1.1 38333 1kpsA 159 3.62e+01 d.20.1.1 68786 2grpA 161 3.63e+01 1z5sA 158 3.63e+01 d.20.1.1 124491 1cv8A 174 3.79e+01 d.3.1.1 37089 1wqkA 42 3.80e+01 2q3gA 89 3.83e+01 1c7uA 85 3.83e+01 1mnmA d.88.1.1 40238