# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-scores 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 1tbxA 99 4.72e-02 a.4.5.48 106748 1xmaA 145 7.69e-02 2fbiA 142 8.78e-02 1yyvA 131 9.16e-02 1e2xA 243 3.26e-01 1e2xA a.4.5.6,a.78.1.1 16113,18443 1hw1A 239 4.88e-01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1an7A 136 5.08e-01 1seiA d.140.1.1 41465 3rubS 123 5.91e-01 1rboC d.73.1.1 39616 1ub9A 100 7.91e-01 a.4.5.28 99159 1s1fA 406 9.68e-01 2g7uA 257 1.19e+00 1seiA 130 1.45e+00 1seiA d.140.1.1 41463 2d0eA 407 2.07e+00 2d09A 407 2.25e+00 1k61A 60 2.67e+00 a.4.1.1 77270 1jalA 363 2.99e+00 c.37.1.8,d.15.10.2 84138,84139 2g0uA 92 3.05e+00 1i6uA 130 3.22e+00 d.140.1.1 61850 2eshA 118 3.41e+00 1q1hA 110 3.88e+00 a.4.5.41 95580 1okrA 123 4.34e+00 a.4.5.39 93269 1mnmC 87 4.48e+00 1akhB a.4.1.1 15983 2fswA 107 4.76e+00 1z7uA 112 5.33e+00 1wi5A 119 5.36e+00 1k78A 149 5.81e+00 a.4.1.5,a.4.1.5 68255,68256 1sxrA 183 5.81e+00 d.118.1.1 106101 1sfxA 109 5.96e+00 a.4.5.50 105505 1euoA 180 6.06e+00 1np1A b.60.1.1 27163 1lj9A 144 6.10e+00 a.4.5.28 78035 1peeA 180 6.30e+00 b.60.1.1 104126 1wj5A 120 6.72e+00 2b0lA 102 6.86e+00 1jgsA 138 7.31e+00 a.4.5.28 66683 1x79B 112 7.63e+00 1pm1X 180 8.01e+00 b.60.1.1 104189 1o97C 264 8.28e+00 c.26.2.3 81232 1akhB 83 8.33e+00 1akhB a.4.1.1 15985 1f4kA 122 8.38e+00 1bm9A a.4.5.7 59646 2fbhA 146 8.47e+00 1scmA 60 8.60e+00 1wdcA 1dofA 403 9.36e+00 1c3cA a.127.1.1 19429 1r7jA 95 9.75e+00 a.4.5.49 104836 1wdcA 64 9.91e+00 1wdcA 1yrnB 83 1.01e+01 1akhB a.4.1.1 15986 2d1uA 104 1.06e+01 2a2pA 129 1.08e+01 1ir21 140 1.15e+01 1glv 303 1.22e+01 1gsa c.30.1.3,d.142.1.1 31721,41480 2agaA 190 1.26e+01 1gsa 316 1.49e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1fbaA 361 1.49e+01 1fbaA c.1.10.1 29120 1fp2A 352 1.55e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1i1sA 96 1.57e+01 1bjaA a.4.5.9 16124 1jv1A 505 1.62e+01 c.68.1.5 71892 1rboC 123 1.62e+01 1rboC d.73.1.1 39634 1ft9A 222 1.80e+01 1ft9A a.4.5.4,b.82.3.1 16107,28131 1wddS 128 1.83e+01 1gk8I 140 1.85e+01 d.73.1.1 65242 1lyqA 104 1.85e+01 b.1.18.17 78302 1aipC 196 1.91e+01 1tfe a.5.2.2,d.43.1.1 58930,58931 2ganA 190 2.00e+01 1ddf 127 2.00e+01 1ddf a.77.1.2 18423 1lddA 74 2.01e+01 a.4.5.34 73841 1y8oA 419 2.09e+01 1fpxA 352 2.18e+01 1fpxA a.4.5.29,c.66.1.12 59950,59951 1or7C 90 2.20e+01 a.180.1.1 87336 1a9eA 277 2.27e+01 1agdA b.1.1.2,d.19.1.1 20757,38268 1a1mA 278 2.30e+01 1agdA b.1.1.2,d.19.1.1 20753,38266 1a1oA 276 2.31e+01 1agdA b.1.1.2,d.19.1.1 20751,38265 8rucI 123 2.33e+01 1rboC d.73.1.1 39629 1dpuA 99 2.41e+01 1dpuA a.4.5.16 16150 1n91A 108 2.49e+01 d.206.1.1 80326 1bjaA 95 2.50e+01 1bjaA a.4.5.9 16122 1bxlA 181 2.53e+01 1maz f.1.4.1 43396 1z0xA 220 2.61e+01 1mqkL 120 2.69e+01 b.1.1.1 85054 1w2wA 211 2.79e+01 c.124.1.5 109130 1vf5G 37 2.83e+01 f.23.26.1 100587 2a61A 145 2.89e+01 1a1nA 276 2.91e+01 1agdA b.1.1.2,d.19.1.1 20755,38267 1cojA 212 3.01e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1xh3A 276 3.07e+01 1ggwA 140 3.11e+01 1ggwA a.39.1.5 60490 2f2eA 146 3.16e+01 1yzbA 182 3.20e+01 1nozA 388 3.27e+01 1clqA c.55.3.5 33715 1souA 194 3.28e+01 c.124.1.6 105858 1ge8A 249 3.35e+01 1plq d.131.1.2,d.131.1.2 41398,41399 1csbB 205 3.35e+01 1theB 2cohA 202 3.40e+01 1p4xA 250 3.74e+01 a.4.5.28,a.4.5.28 87784,87785 1y4jA 284 3.79e+01 1af3 196 3.80e+01 1maz f.1.4.1 43397 2a10A 125 3.81e+01 1z1dA 103 3.86e+01 1sjdA 368 3.86e+01 c.1.11.2,d.54.1.1 105632,105633 1xmrA 243 4.09e+01 1iz1A 294 4.16e+01 a.4.5.37,c.94.1.1 83823,83824 2g84A 197 4.17e+01 1zip 217 4.18e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1utg 70 4.21e+01 1utg a.101.1.1 18813 2utgA 70 4.25e+01 1utg a.101.1.1 18814 1eqkA 102 4.31e+01 1eqkA d.17.1.2 37998 1mkmA 249 4.38e+01 a.4.5.33,d.110.2.2 79242,79243 1qzmA 94 4.40e+01 c.37.1.20 96651 1iz5A 249 4.43e+01 d.131.1.2,d.131.1.2 83834,83835 1xviA 275 4.45e+01 1bg1A 722 4.46e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1stzA 338 4.47e+01 a.4.5.51,d.110.2.3 106009,106010 1bm9A 122 4.49e+01 1bm9A a.4.5.7 16116 2cq2A 114 4.56e+01 2btzA 394 4.72e+01 1s5lK 37 4.80e+01 2axtK 37 4.80e+01 2c5uA 375 4.84e+01 1zto 37 4.99e+01 1zto j.12.1.1 46146 1b4uB 302 5.17e+01 1bouB c.56.6.1 33861 1pmy 123 5.17e+01 1bqk b.6.1.1 22888 2bibA 547 5.29e+01 1zin 217 5.34e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1mzbA 136 5.42e+01 a.4.5.42 91497 1zyeA 220 5.45e+01 1kn7A 78 5.52e+01 j.12.1.1 84413 1d4bA 122 5.57e+01 1d4bA d.15.2.1 37638 1v1hA 103 5.60e+01 b.83.1.1,h.1.17.1 108243,108244 1hgxA 183 5.60e+01 1tc1A c.61.1.1 34027 1e0lA 37 5.66e+01 1e0lA b.72.1.1 27804 1yg2A 179 5.69e+01 1nal1 297 5.82e+01 1nal3 1u2wA 122 5.83e+01 1fdyA 297 5.86e+01 1nal3 c.1.10.1 29071 1qg0A 308 5.97e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 2ap3A 199 6.03e+01 1zbfA 142 6.04e+01 1nogA 177 6.06e+01 a.25.2.2 85923 1pqxA 91 6.14e+01 d.267.1.1 104296 1yl36 82 6.15e+01 2adoA 196 6.25e+01 1hl2A 297 6.31e+01 c.1.10.1 83581 1nrwA 288 6.32e+01 c.108.1.10 86128 1v30A 124 6.35e+01 1pls 113 6.50e+01 1pls b.55.1.1 26965 1wwiA 148 6.51e+01 1yz1A 174 6.66e+01 1dsvA 31 6.69e+01 1dsvA g.40.1.1 45174 1i1gA 141 6.73e+01 a.4.5.32,d.58.4.2 65982,65983 2aqlA 173 6.74e+01 1fjrA 195 6.86e+01 1fjrA b.102.1.1 59855 1yewA 382 6.94e+01 1maz 221 6.97e+01 1maz f.1.4.1 43393 2cujA 108 7.01e+01 1e68A 70 7.20e+01 1e68A a.64.2.1 18144 1izlK 37 7.21e+01 i.5.1.1 77004 1esc 306 7.34e+01 1esc c.23.10.1 31334 1bib 321 7.35e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 1nal3 297 7.52e+01 1nal3 1q52A 314 7.58e+01 c.14.1.3 95846 1yavA 159 7.63e+01 1tvs 75 7.66e+01 1tvs j.40.1.1 46303 1tmcA 175 7.71e+01 1agdA d.19.1.1 38258 1zm0A 114 7.74e+01 2agtA 319 7.91e+01 1c3yA 108 8.13e+01 1c3yA a.39.2.1 17387 1y88A 199 8.15e+01 1r71A 178 8.16e+01 a.4.14.1 104823 1agdA 276 8.17e+01 1agdA b.1.1.2,d.19.1.1 20741,38260 1rxwA 336 8.23e+01 a.60.7.1,c.120.1.2 98059,98060 1pgjA 478 8.27e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 1bouB 302 8.28e+01 1bouB c.56.6.1 33859 1cz3A 168 8.30e+01 1d1gA c.71.1.1 34891 1e79I 50 8.31e+01 1e79I a.137.8.1 19647 1bba 36 8.32e+01 1bba j.6.1.1 46088 1tzaA 134 8.33e+01 b.1.23.1 107468 1zhvA 134 8.39e+01 1p3jA 217 8.46e+01 c.37.1.1,g.41.2.1 94022,94023 1d1gA 168 8.46e+01 1d1gA c.71.1.1 34889 1lea 84 8.50e+01 1lea a.4.5.2 16085 2bb2 181 8.58e+01 2bb2 b.11.1.1,b.11.1.1 23604,23605 1xriA 151 8.60e+01 1xt5A 135 8.67e+01 2nef 136 8.81e+01 1efnB d.102.1.1 40704 1axj 122 8.85e+01 1axj b.45.1.1 25749 1qhtA 775 8.92e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011