# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1dhn 121 8.66e-02 1dhn d.96.1.3 40663 2occB 227 2.50e-01 2occB b.6.1.2,f.17.2.1 23027,43519 1usuA 260 2.76e-01 d.14.1.8 99885 1v54B 227 3.59e-01 b.6.1.2,f.17.2.1 100322,100323 1qzgA 187 4.56e-01 b.40.4.3 96643 1khoA 370 4.64e-01 a.124.1.1,b.12.1.3 72489,72490 1zq1A 438 5.83e-01 1hl8A 449 1.08e+00 b.71.1.3,c.1.8.11 90646,90647 2d9rA 104 1.15e+00 1z7gA 217 1.66e+00 1ubpC 570 1.87e+00 1ubpC b.92.1.1,c.1.9.2 28432,29054 4ubpC 570 1.87e+00 1ubpC b.92.1.1,c.1.9.2 28431,29053 1ie7C 570 1.87e+00 1ubpC b.92.1.1,c.1.9.2 62315,62316 1jotA 133 1.93e+00 1jotA 2gzvA 114 2.07e+00 1y14B 171 2.11e+00 1hl9A 449 2.19e+00 b.71.1.3,c.1.8.11 90650,90651 1qk3A 233 2.51e+00 1qk3A c.61.1.1 34031 1u0mA 382 2.53e+00 c.95.1.2,c.95.1.2 107557,107558 1c20A 128 2.73e+00 1c20A a.4.3.1 16079 1m5zA 91 2.84e+00 b.36.1.1 78676 1bib 321 2.86e+00 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 1xxqA 161 2.88e+00 1fr3A 67 3.00e+00 1fr3A b.40.6.1 25436 1dbrA 231 3.04e+00 1qk3A c.61.1.1 34041 1jacA 133 3.07e+00 1jotA 1ts9A 102 3.13e+00 1yavA 159 3.14e+00 1bia 321 3.23e+00 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1jacC 133 3.45e+00 1jotA 1ku8A 133 3.45e+00 1m26A 133 3.45e+00 1crl 534 3.50e+00 1thg c.69.1.17 34765 1hmpA 217 4.07e+00 1qk3A c.61.1.1 34075 1wjnA 97 4.27e+00 2h6lA 146 4.28e+00 1ugxA 133 4.64e+00 1kqqA 139 5.13e+00 a.4.3.1 72885 2basA 431 5.15e+00 1fsgA 233 5.17e+00 1qk3A c.61.1.1 34029 2fb7A 95 5.40e+00 2fwkA 121 5.41e+00 1tc1A 220 5.42e+00 1tc1A c.61.1.1 34083 1qk4A 233 5.85e+00 1qk3A c.61.1.1 34037 1qd6C 240 5.94e+00 1qd5A 1jmxA 494 6.00e+00 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1bzyA 217 6.04e+00 1qk3A c.61.1.1 34071 1ihjA 98 6.36e+00 1pdr b.36.1.1 62382 2bs3A 656 6.60e+00 1qd5A 275 6.63e+00 1qd5A f.4.2.1 43748 1qlaA 656 6.96e+00 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1vj0A 380 7.04e+00 b.35.1.2,c.2.1.1 100786,100787 1s5aA 150 7.22e+00 d.17.4.10 98525 1vrbA 342 7.25e+00 1pc0A 61 8.14e+00 b.137.1.1 94426 1zd7A 159 8.49e+00 1qqcA 773 8.61e+00 1tgoA c.55.3.5,e.8.1.1 33724,43013 1l4zB 136 8.71e+00 d.15.5.1 77704 2aj6A 159 8.90e+00 1xe0A 114 9.16e+00 2a5zA 262 1.00e+01 1yfuA 174 1.05e+01 1wqaA 455 1.10e+01 1z1yA 186 1.11e+01 1c9oA 66 1.14e+01 1mjc b.40.4.5 25325 1l6pA 125 1.16e+01 b.1.17.1 73626 1a63 130 1.17e+01 1a62 a.140.3.1,b.40.4.5 64710,64711 1l2mA 118 1.27e+01 d.89.1.4 77657 1eft 405 1.31e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1jpeA 151 1.31e+01 b.1.17.1 77146 1i81A 83 1.33e+01 1d3bB b.38.1.1 61930 1zp7A 206 1.36e+01 2gu2A 312 1.41e+01 1aipE 405 1.51e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1x74A 360 1.56e+01 1kwiA 101 1.56e+01 d.17.1.3 77564 1dl2A 511 1.56e+01 1dl2A a.102.2.1 18844 2cqsA 842 1.57e+01 1vkkA 154 1.60e+01 d.109.1.2 108669 1fdr 248 1.61e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1u4nA 310 1.61e+01 1smvA 260 1.61e+01 1smvA b.121.4.7 23288 1a0lA 244 1.64e+01 5ptp b.47.1.2 26286 1cleA 534 1.67e+01 1thg c.69.1.17 34771 1v8gA 329 1.67e+01 a.46.2.1,c.27.1.1 100505,100506 1rznA 205 1.68e+01 1kngA 156 1.68e+01 c.47.1.10 72777 1aipA 405 1.79e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1llfA 534 1.79e+01 c.69.1.17 78094 1t3cA 421 1.88e+01 d.92.1.7 106343 2ew0A 192 1.93e+01 1i6pA 220 1.94e+01 1ddzA c.53.2.1 61848 1ha3A 405 1.98e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1exmA 405 2.01e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1h10A 125 2.26e+01 b.55.1.1 83446 1unqA 125 2.26e+01 b.55.1.1 107968 1mgqA 83 2.30e+01 b.38.1.1 79099 1ea0A 1479 2.34e+01 b.80.4.1,c.1.4.1,d.153.1.1 64854,64855,64856 2c78A 405 2.37e+01 1dciA 275 2.63e+01 1dciA c.14.1.3 30918 1xw4X 110 2.72e+01 1gutA 68 2.89e+01 b.40.6.1 65576 1cbf 285 2.95e+01 1cbf c.90.1.1 35587 1aszB 490 2.99e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1a8p 258 3.04e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1ipiA 123 3.09e+01 c.52.1.18 66255 2b30A 301 3.12e+01 1sefA 274 3.17e+01 b.82.1.11 105452 1asyA 490 3.22e+01 1b8aA b.40.4.1,d.104.1.1 25242,40763 1xw3A 110 3.24e+01 1uspA 139 3.25e+01 d.227.1.1 99879 2cbf 234 3.25e+01 1cbf c.90.1.1 35588 1yezA 68 3.30e+01 1tzpA 255 3.33e+01 d.65.1.3 107520 1yo8A 634 3.43e+01 1j6wA 175 3.48e+01 1j98A d.185.1.2 62663 2fcfA 103 3.49e+01 1e3dB 542 3.53e+01 1h2rL e.18.1.1 59189 1reoA 486 3.53e+01 c.3.1.2,d.16.1.5 97325,97326 1llwA 1520 3.66e+01 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 1tgoA 773 3.71e+01 1tgoA c.55.3.5,e.8.1.1 33721,43010 1b6fA 159 3.72e+01 1bv1 d.129.3.1 41316 1cjbA 231 3.74e+01 1qk3A c.61.1.1 34079 1a62 130 3.82e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1awe 130 3.85e+01 1awe b.55.1.1 26968 1yzsA 121 3.86e+01 1vybA 238 3.88e+01 d.151.1.1 108897 1bouB 302 3.91e+01 1bouB c.56.6.1 33859 1vixA 420 3.96e+01 c.56.5.4,d.58.19.1 100777,100778 1d3bB 91 3.97e+01 1d3bB b.38.1.1 24804 2h3lA 103 4.10e+01 1k4gA 386 4.16e+01 c.1.20.1 72054 1a8vA 121 4.18e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1b4uB 302 4.19e+01 1bouB c.56.6.1 33861 1ospH 218 4.20e+01 1igtB b.1.1.1,b.1.1.2 20117,21147 1mfgA 95 4.20e+01 b.36.1.1 79043 1i18A 97 4.21e+01 b.43.4.3 61520 1ltoA 245 4.25e+01 b.47.1.2 84707 1i0lA 221 4.30e+01 c.61.1.1 71096 1dfcA 493 4.32e+01 1dfcA b.42.5.1,b.42.5.1,b.42.5.1,b.42.5.1 25616,25617,25618,25619 1pms 136 4.32e+01 1awe b.55.1.1 26966 1eajA 126 4.37e+01 1f5wA b.1.1.1 59401 1f5wA 126 4.37e+01 1f5wA b.1.1.1 19705 1ca1 370 4.53e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1t3kA 152 4.78e+01 c.46.1.1 106357 2ew2A 316 4.80e+01 1m2eA 135 4.90e+01 c.23.1.5 78478 1dm0A 287 5.09e+01 1dm0A d.165.1.2 42227 1ge8A 249 5.14e+01 1plq d.131.1.2,d.131.1.2 41398,41399 1l5aA 436 5.15e+01 c.43.1.2,c.43.1.2 75923,75924 1ud9A 245 5.21e+01 d.131.1.2,d.131.1.2 107768,107769 1bvsB 203 5.24e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16281,17956,25275 1fd9A 213 5.27e+01 1fd9A d.26.1.1 59771 1o0xA 262 5.55e+01 d.127.1.1 80755 1uwzA 136 5.60e+01 c.97.1.1 108081 1qwrA 319 5.69e+01 b.82.1.3 96491 1b1a 137 5.78e+01 1be1 c.23.6.1 31242 2cwpA 112 5.81e+01 1jtkA 136 5.83e+01 c.97.1.1 71862 2f5yA 91 5.90e+01 1vphA 149 6.08e+01 1aonO 97 6.10e+01 b.35.1.1 24642 1mzeA 351 6.20e+01 b.82.2.6 79694 1fzqA 181 6.22e+01 1hurA c.37.1.8 32060 1njrA 284 6.34e+01 c.50.1.2 103858 1ab9C 97 6.38e+01 5ptp 1vl6A 388 6.43e+01 c.2.1.7,c.58.1.3 108724,108725 1iz5A 249 6.56e+01 d.131.1.2,d.131.1.2 83834,83835 1ux6A 350 6.66e+01 b.29.1.16,g.75.1.1 100145,100146 1qmrA 159 6.75e+01 1bv1 d.129.3.1 41314 1h2kA 349 6.77e+01 b.82.2.6 76572 2f9nA 245 6.96e+01 1kskA 234 6.97e+01 d.66.1.5,d.265.1.3 72920,90389 1iirA 415 7.01e+01 1iirA c.87.1.5 62453 1vmfA 145 7.07e+01 1dmhA 311 7.10e+01 1dmhA b.3.6.1 22633 1r5yA 386 7.11e+01 c.1.20.1 97134 1b34A 119 7.15e+01 1d3bA b.38.1.1 24796 2pcfB 250 7.16e+01 1hcz i.4.1.1 45911 1pxgA 382 7.18e+01 c.1.20.1 95287 1oakA 196 7.27e+01 1auq c.62.1.1 34138 2fdiA 211 7.36e+01 2aacA 177 7.56e+01 2arcA b.82.4.1 28150 1fnsA 196 7.70e+01 1auq c.62.1.1 34136 2bszA 278 7.81e+01 2arcA 164 7.86e+01 2arcA b.82.4.1 28148 2fqxA 318 7.88e+01 1dk4A 252 7.92e+01 1dk4A e.7.1.1 42970 1ndoB 194 7.94e+01 1ndoB d.17.4.4 38121 2arcB 164 7.95e+01 2arcA b.82.4.1 28149 1zesA 125 7.96e+01 1wsrA 375 8.01e+01 1mm4A 170 8.13e+01 f.4.1.2 79294 1olmA 403 8.23e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1pueE 89 8.23e+01 1awcA a.4.5.21 16165 1h0bA 256 8.26e+01 b.29.1.11 83422 1vm8A 534 8.28e+01 1j7vR 214 8.33e+01 b.1.2.1,b.1.2.1 62705,62706 1pud 386 8.40e+01 1pud c.1.20.1 29658 1bu1A 57 8.40e+01 1bbzA b.34.2.1 24499 1vjnA 220 8.47e+01 d.157.1.4 100825 1i6xA 209 8.47e+01 a.4.5.4,b.82.3.2 83673,83674 2fa8A 105 8.55e+01 1g0hA 252 8.56e+01 1dk4A e.7.1.1 60171 1d8cA 723 8.59e+01 1d8cA c.1.13.1 29325 1bv1 159 8.63e+01 1bv1 d.129.3.1 41313 1lqsR 214 8.64e+01 b.1.2.1,b.1.2.1 74194,74195 1ukmB 128 8.71e+01 d.169.1.1 99500 1be1 137 8.87e+01 1be1 c.23.6.1 31237 1v7pB 128 8.93e+01 d.169.1.1 108407 1kv7A 488 8.96e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875