# List of top-scoring protein chains for t04-100-30-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 1rlyA 60 1.12e+00 g.41.3.1 104988 1vqoZ 83 1.31e+00 2a8jA 420 1.39e+00 2cklA 108 1.52e+00 1bc8C 93 1.53e+00 1awcA a.4.5.21 16168 1wd2A 60 1.72e+00 g.44.1.1 109232 2gatA 66 1.76e+00 1gatA g.39.1.1 45102 2a1rA 430 1.98e+00 2a8mA 420 2.17e+00 1s72Z 73 2.23e+00 g.41.8.1 105345 1n9dA 199 2.33e+00 a.26.1.1 85464 1dl6A 58 2.34e+00 1dl6A g.41.3.1 45207 2ct7A 86 2.42e+00 1w0uA 55 3.68e+00 1ypvA 313 4.20e+00 2a20A 62 4.31e+00 2fqpA 97 4.58e+00 2glfA 450 4.71e+00 1wggA 96 4.85e+00 1so2A 420 5.34e+00 a.211.1.2 98936 1lm5A 214 5.55e+00 d.211.2.1 74029 2c30A 321 5.57e+00 1ur6B 52 6.00e+00 g.44.1.1 99812 1wjvA 79 6.59e+00 1e53A 59 6.68e+00 1e53A g.49.1.2 45356 1pkhA 204 7.30e+00 b.85.4.1 94832 2cjsC 62 7.36e+00 1hvyA 288 7.99e+00 1bkpA d.117.1.1 41049 2gpiA 91 8.06e+00 2ac3A 316 8.74e+00 1owxA 121 9.69e+00 d.58.7.1 87494 1tr9A 341 9.84e+00 1vckA 115 9.99e+00 1z1zA 131 1.01e+01 1qqqA 264 1.02e+01 1bkpA d.117.1.1 40931 1lv3A 68 1.02e+01 g.39.1.9 78231 1vd4A 62 1.05e+01 2bwfA 77 1.07e+01 1vq0A 302 1.08e+01 1mr1C 99 1.14e+01 d.217.1.2 79420 1hn6A 110 1.16e+01 g.61.1.1 76721 2g2kA 170 1.17e+01 1evfA 264 1.18e+01 1bkpA d.117.1.1 40932 2ac5A 316 1.18e+01 1fiqB 350 1.22e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 1y88A 199 1.24e+01 1ku1A 230 1.26e+01 a.118.3.1 72996 2g8mA 264 1.27e+01 1woyA 500 1.37e+01 1vk6A 269 1.38e+01 d.113.1.4,d.113.1.4 100851,100852 2d1uA 104 1.42e+01 1oapA 109 1.42e+01 d.79.7.1 92706 1rfs 139 1.44e+01 1rfs b.33.1.1 24434 1jj2Y 73 1.46e+01 1ffkW g.41.8.1 63110 1v87A 114 1.51e+01 g.44.1.1 108422 1z60A 59 1.55e+01 1yk4A 52 1.58e+01 1dl0A 37 1.59e+01 1dl0A g.3.6.2 44112 2g8oA 264 1.63e+01 1dv1A 449 1.75e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1zy1B 197 1.75e+01 1lpbA 95 1.77e+01 1lpbA g.3.10.1,g.3.10.1 44189,44190 1ejxA 100 1.84e+01 d.8.1.1 83182 2axiA 115 1.99e+01 1iro 54 2.05e+01 1rb9 g.41.5.1 45223 1s7bA 110 2.18e+01 f.39.1.1 98634 1w8kA 447 2.19e+01 1hyuA 521 2.19e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1pm6A 72 2.24e+01 a.6.1.7 94894 1zoyC 140 2.27e+01 1zxzA 197 2.29e+01 1rb9 53 2.30e+01 1rb9 g.41.5.1 45214 1fsoA 139 2.36e+01 1rhoA b.1.18.8 60007 1ijgA 309 2.55e+01 1fouA e.27.1.1 62493 1ka8A 100 2.68e+01 a.4.5.20 72241 1xd3A 230 2.69e+01 1llmC 88 2.74e+01 g.37.1.1,g.37.1.1 91059,91060 1a8h 500 2.75e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1uliA 460 2.78e+01 b.33.1.2,d.129.3.3 107921,107922 1i50L 70 3.04e+01 g.41.9.2 61766 1m1qA 91 3.08e+01 a.138.1.3 74419 1kmtA 141 3.15e+01 b.1.18.8 77442 830cA 168 3.16e+01 1ck7A d.92.1.11 40400 2c1xA 456 3.22e+01 1f3uB 171 3.26e+01 1f3uB b.65.1.1 27525 1uch 230 3.42e+01 1uch d.3.1.6 37129 2a7oA 112 3.47e+01 1tw6A 133 3.47e+01 1jy2P 48 3.48e+01 h.1.8.1 67442 1l1oC 181 3.57e+01 b.40.4.3 73480 1s5lK 37 3.58e+01 2axtK 37 3.58e+01 1twfL 70 3.62e+01 2tct 207 3.66e+01 2tct a.4.1.9,a.121.1.1 16063,19240 1ufzA 83 3.67e+01 a.5.9.1 107821 1nekC 129 3.69e+01 f.21.2.2 80431 1ln1A 214 3.75e+01 d.129.3.2 74038 2aw2B 108 3.82e+01 1d0qA 103 3.89e+01 1d0qA g.41.3.2 45208 1yb3A 175 3.91e+01 1a6i 217 3.91e+01 2tct a.4.1.9,a.121.1.1 16066,19243 1l8dA 112 3.93e+01 h.4.12.1 73687 1v32A 101 4.00e+01 a.42.1.1 100277 1fl2A 310 4.08e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1ee8A 266 4.08e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1t4fM 110 4.10e+01 2avyM 117 4.18e+01 1wgeA 83 4.25e+01 1wfeA 86 4.34e+01 1ptq 50 4.35e+01 1ptq g.49.1.1 45349 1o9iA 266 4.45e+01 a.25.1.3 92671 2bx9A 53 4.54e+01 1i76A 163 4.68e+01 1hfc d.92.1.11 61877 1ycdA 243 4.72e+01 1j58A 385 4.80e+01 b.82.1.2 71531 2avuE 192 4.81e+01 2fe5A 94 4.89e+01 1xakA 83 4.89e+01 1z6uA 150 4.90e+01 3pmgA 561 4.90e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1ywzA 175 4.96e+01 1kveA 63 4.98e+01 1kveA d.70.1.2 39590 1jkvA 266 5.06e+01 a.25.1.3 71719 1rdg 53 5.13e+01 1rb9 g.41.5.1 45221 2fvhA 120 5.15e+01 1ayoA 130 5.21e+01 1ayoA b.2.4.1 22431 1a1iA 90 5.26e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 44998,44999,45000 1y9wA 140 5.35e+01 2eifA 136 5.37e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1oxnA 140 5.37e+01 g.52.1.1 93704 1tg6A 277 5.39e+01 1aayA 90 5.43e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45001,45002,45003 1e0eA 55 5.53e+01 1wjcA a.4.10.1 59147 2a8lA 420 5.65e+01 1s9rA 410 5.68e+01 d.126.1.4 98758 1lkoA 191 5.70e+01 a.25.1.1,g.41.5.1 78063,78064 1hcnA 92 5.70e+01 1hcnA g.17.1.4 44809 1nal1 297 5.71e+01 1nal3 1xg1A 67 5.73e+01 1w27A 714 5.86e+01 1josA 128 5.86e+01 d.52.7.1 84191 2boqA 331 5.88e+01 1yc5A 246 5.96e+01 1je8A 82 6.12e+01 a.4.6.2 77108 1ryt 190 6.16e+01 1ryt a.25.1.1,g.41.5.1 16646,45245 1t1jA 125 6.25e+01 c.137.1.1 106249 1b71A 191 6.40e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 1vziA 126 6.60e+01 b.1.13.1,g.41.5.2 108967,108968 1hl2A 297 6.70e+01 c.1.10.1 83581 1rh6A 55 6.89e+01 a.6.1.7 104935 1qa7A 217 6.91e+01 1havA b.47.1.4 26425 1g2fC 90 7.00e+01 k.12.1.1 60222 1qbjA 81 7.15e+01 1qbjA a.4.5.19 16155 1yviA 149 7.17e+01 1a78A 134 7.19e+01 1c1lA b.29.1.3 24212 1g73C 121 7.40e+01 1g3fA g.52.1.1 45375 1m0gA 30 7.48e+01 g.46.1.1 84743 1qxfA 66 7.53e+01 g.41.8.4 96527 1u79A 129 7.60e+01 d.26.1.1 107714 1qpaA 345 7.79e+01 1arv a.93.1.1 18585 1odhA 174 7.84e+01 d.239.1.1 86850 1oflA 481 7.89e+01 b.80.1.4 103934 1yvoA 172 7.89e+01 2ftrA 108 7.99e+01 1moxC 50 8.04e+01 g.3.11.1 91380 1fipA 98 8.09e+01 1fipA a.4.1.12 18980 1cewI 108 8.09e+01 1cewI d.17.1.2 37999 2bl1A 172 8.11e+01 1zsqA 528 8.15e+01 1lvfA 110 8.23e+01 a.47.2.1 74280 1exkA 79 8.29e+01 1exkA g.54.1.1 45384 1eziA 228 8.33e+01 1eyrA c.68.1.13 34512 1yovA 537 8.34e+01 1lbjA 22 8.54e+01 j.6.1.1 77874 1afp 51 8.55e+01 1afp g.26.1.1 44947 1vggA 161 8.59e+01 2bmoA 447 8.67e+01 1ww9A 392 8.72e+01 1jbbA 153 8.88e+01 1u9aA d.20.1.1 62842 2dg5B 190 8.97e+01