# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 2fcfA 103 1.17e-15 2fe5A 94 2.14e-15 1be9A 119 2.64e-15 1pdr b.36.1.1 24774 1tp5A 119 3.33e-15 1g9oA 91 3.77e-15 1pdr b.36.1.1 60400 1qavA 90 4.14e-15 1qauA b.36.1.1 24777 1ihjA 98 3.69e-14 1pdr b.36.1.1 62382 1n7eA 97 1.46e-13 b.36.1.1 91691 2f0aA 98 2.02e-13 1n7fA 97 2.05e-13 b.36.1.1 91692 1l6oA 95 2.39e-13 b.36.1.1 84534 1mfgA 95 4.20e-13 b.36.1.1 79043 1q3oA 109 5.92e-13 b.36.1.1 95700 1qauA 112 7.33e-13 1qauA b.36.1.1 24779 1wf7A 103 1.15e-12 1v5lA 103 1.35e-12 b.36.1.1 108378 1kwaA 88 4.92e-12 1kwaA b.36.1.1 24772 1nf3C 128 6.36e-12 b.36.1.1 85596 2f5yA 91 2.61e-11 1r6jA 82 8.43e-11 b.36.1.1 97151 1nteA 82 1.18e-10 b.36.1.1 86163 1fc6A 388 7.89e-07 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 8.45e-06 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 1.10e-05 1sotA 320 4.59e-04 b.36.1.4,b.47.1.1 105852,105853 1y8tA 324 7.71e-03 1a6f 119 2.76e-01 1a6f d.14.1.2 37564 1db3A 372 3.25e-01 1db3A c.2.1.2 29813 2bh4X 134 9.79e-01 1vpqA 273 1.15e+00 1cot 129 1.33e+00 1ycc a.3.1.1 15899 1x6vA 630 2.09e+00 2a6tA 271 2.34e+00 1cliA 345 2.54e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1lw6I 64 2.87e+00 d.40.1.1 74294 1l3iA 192 3.02e+00 c.66.1.22 77676 1reqB 637 3.40e+00 1reqB c.1.19.1,c.23.6.1 29621,31248 1to2I 64 4.07e+00 1zn8A 180 4.17e+00 2d4pA 141 4.48e+00 1rz2A 254 4.61e+00 b.100.1.1 105130 1fm0E 150 4.67e+00 1fmaE d.41.5.1 38629 1o6dA 163 4.74e+00 c.116.1.3 92567 1p99A 295 4.85e+00 c.94.1.1 94384 1cq3A 233 4.97e+00 1cq3A b.27.1.1 23923 2bw3A 534 5.16e+00 2bsyA 278 5.49e+00 1ad3A 452 5.53e+00 1ad3A c.82.1.1 35335 1xv5A 401 5.56e+00 1jhfA 202 5.96e+00 a.4.5.2,b.87.1.1 63057,63058 1cruA 454 6.29e+00 1c9uA b.68.2.1 27617 2cw8A 537 6.62e+00 1sw5A 275 7.80e+00 c.94.1.1 106069 1sw5B 275 7.92e+00 c.94.1.1 106070 2f7fA 494 8.32e+00 1yjmA 110 8.92e+00 1uc2A 481 9.26e+00 d.261.1.1 99161 1ujqA 305 9.95e+00 c.1.12.7 99463 1oxxK 353 1.16e+01 b.40.6.3,c.37.1.12 93715,93716 1vj0A 380 1.18e+01 b.35.1.2,c.2.1.1 100786,100787 1oroA 213 1.19e+01 1opr c.61.1.1 34093 2brfA 110 1.25e+01 2oatA 439 1.40e+01 2dkb c.67.1.4 34452 1y0bA 197 1.41e+01 2byjA 439 1.44e+01 1wkvA 389 1.45e+01 1t3qB 788 1.47e+01 d.41.1.1,d.133.1.1 106369,106370 1diiC 80 1.48e+01 1diiC a.3.1.1 15925 1opr 213 1.51e+01 1opr c.61.1.1 34091 1xewY 172 1.53e+01 2axcA 264 1.57e+01 1oxsC 353 1.59e+01 b.40.6.3,c.37.1.12 87519,87520 1l1dA 152 1.60e+01 b.88.1.3 73452 1vdmA 153 1.70e+01 1wveC 80 1.74e+01 2cc0A 195 1.75e+01 1mkmA 249 1.75e+01 a.4.5.33,d.110.2.2 79242,79243 1k4iA 233 1.81e+01 d.115.1.2 72056 1ujxA 119 1.85e+01 b.26.1.2 99473 1kk1A 410 1.88e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1csh 435 1.88e+01 1csh a.103.1.1 18880 1jjtA 228 1.98e+01 1a7tA d.157.1.1 63139 1uh5A 329 2.04e+01 c.2.1.2 107840 1js8A 394 2.06e+01 a.86.1.1,b.112.1.1 67219,67220 1zhvA 134 2.12e+01 1lh0A 213 2.24e+01 c.61.1.1 73896 1d3cA 686 2.25e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1rypH 205 2.33e+01 d.153.1.4 41876 1ypcI 64 2.39e+01 2sniI d.40.1.1 38570 1r62A 160 2.40e+01 d.122.1.3 104816 1g7sA 594 2.41e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1bw3 125 2.43e+01 1bw4 b.52.1.2 26899 1hssA 124 2.46e+01 1bea a.52.1.2 17819 1fxlA 167 2.51e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1dg6A 191 2.52e+01 1d4vB b.22.1.1 23883 2bylA 439 2.55e+01 1viuA 203 2.55e+01 d.113.1.1 100771 1z5yE 149 2.59e+01 1l0lB 439 2.62e+01 d.185.1.1,d.185.1.1 84484,84485 1idk 359 2.64e+01 1qcxA b.80.1.2 28025 1oc7A 364 2.71e+01 c.6.1.1 86794 1t6t1 118 2.75e+01 1o63A 219 2.77e+01 c.94.1.1 92540 1qo0D 196 2.79e+01 1qo0D c.23.1.3 31125 2b4aA 138 2.80e+01 1mzbA 136 2.80e+01 a.4.5.42 91497 1r13A 148 2.99e+01 d.169.1.1,h.1.1.1 96782,96783 3tmkA 216 2.99e+01 3tmkA c.37.1.1 31920 1zpwX 90 3.01e+01 1sflA 238 3.02e+01 1xrsA 516 3.07e+01 2bvwA 362 3.08e+01 1bvwA c.6.1.1 30666 1koe 172 3.13e+01 1koe d.169.1.5 42448 1o57A 291 3.24e+01 a.4.5.40,c.61.1.1 92483,92484 1hr6B 443 3.27e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1ppjB 439 3.31e+01 d.185.1.1,d.185.1.1 104254,104255 2atvA 196 3.38e+01 1t9iA 163 3.43e+01 1w30A 201 3.44e+01 1kw4A 89 3.46e+01 a.60.1.2 73077 1oatA 439 3.52e+01 2dkb c.67.1.4 34461 1ko7A 314 3.53e+01 c.98.2.1,c.91.1.2 72797,72798 1vekA 84 3.54e+01 1h3gA 601 3.54e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1h6kA 757 3.59e+01 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 1eyqA 222 3.59e+01 1eypA d.36.1.1 38534 1r6xA 395 3.79e+01 b.122.1.3,c.26.1.5 97167,97168 1rkbA 173 3.81e+01 1avaC 181 3.85e+01 1avaC b.42.4.1 25604 1m3uA 264 3.85e+01 c.1.12.8 84784 1nmeA 146 3.87e+01 c.17.1.1 85874 1jvwA 167 3.90e+01 d.26.1.1 71907 1m6yA 301 3.91e+01 a.60.13.1,c.66.1.23 78716,78717 2rslA 140 4.00e+01 2rslA c.53.1.1 33345 1n0qA 93 4.03e+01 k.37.1.1 79754 1qveA 126 4.16e+01 d.24.1.1 104594 1r0vA 305 4.17e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1i5pA 633 4.26e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1z1dA 103 4.28e+01 1bx4A 345 4.30e+01 1bx4A c.72.1.1 34935 1broA 277 4.37e+01 1brt c.69.1.12 34700 1qqgA 264 4.43e+01 1qqgA b.55.1.2,b.55.1.2 26987,26988 1dpuA 99 4.51e+01 1dpuA a.4.5.16 16150 1vlaA 150 4.53e+01 d.227.1.2 108735 1dxrH 258 4.56e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1yz7A 188 4.57e+01 1evlA 401 4.63e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1lvaA 258 4.70e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1s4iA 175 4.71e+01 1unkA 87 4.75e+01 1cei a.28.2.1 16935 1udc 338 4.79e+01 1xel c.2.1.2 29785 1f9aA 168 4.98e+01 1f9aA c.26.1.3 31602 2f51A 118 4.98e+01 1eu1A 780 4.99e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1sfjA 238 5.00e+01 2bhoA 130 5.01e+01 1brt 277 5.04e+01 1brt c.69.1.12 34699 1xtlA 175 5.05e+01 1unlD 208 5.06e+01 1g6oA 330 5.16e+01 1g6oA c.37.1.11 32430 1yzxA 226 5.22e+01 1h05A 146 5.25e+01 c.23.13.1 76433 2c9wA 169 5.27e+01 2bshA 125 5.28e+01 1yljA 263 5.34e+01 1ml8A 134 5.37e+01 d.227.1.2 85013 1wqsA 173 5.39e+01 1xel 338 5.44e+01 1xel c.2.1.2 29786 1xtmA 175 5.53e+01 1pueE 89 5.55e+01 1awcA a.4.5.21 16165 1dvoA 152 5.58e+01 1dvoA a.136.1.1 19623 1a8l 226 5.61e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1uslA 170 5.63e+01 c.121.1.1 99871 1gjjA 168 5.63e+01 a.140.1.1,a.140.1.1 83291,83292 1fyxA 149 5.69e+01 1fyvA c.23.2.1 31128 1wxxA 382 5.71e+01 1bxeA 113 5.73e+01 1bxeA d.55.1.1 38898 2c2nA 339 5.79e+01 1xewX 182 5.86e+01 1io0A 185 5.90e+01 c.10.1.1 76753 1fvrA 327 5.94e+01 d.144.1.7 60047 1yi9A 309 6.04e+01 1z8gA 372 6.15e+01 1yg9A 330 6.17e+01 1vqqA 646 6.21e+01 1qcxA 359 6.24e+01 1qcxA b.80.1.2 28028 1f60A 458 6.31e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1xhdA 173 6.36e+01 1ek6A 348 6.38e+01 1xel c.2.1.2 29800 1phm 310 6.39e+01 1phm b.121.1.2,b.121.1.2 59015,59016 1ypvA 313 6.39e+01 1yeyA 444 6.47e+01 1umzA 278 6.55e+01 b.29.1.2 99639 1uzcA 71 6.56e+01 a.159.2.1 100222 1shwA 138 6.60e+01 b.6.1.5 105562 1quqA 129 6.61e+01 1quqA b.40.4.3 25303 1nz0A 118 6.64e+01 d.14.1.2 86433 1tm0A 350 6.65e+01 d.21.1.3 107147 1i4jA 110 6.68e+01 d.55.1.1 76734 1h2vC 771 6.69e+01 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 1yzyA 413 6.72e+01 2bsjA 133 6.74e+01 1qzzA 374 6.74e+01 a.4.5.29,c.66.1.12 96719,96720 1u6bA 98 6.80e+01 d.58.7.1 107703 1kcxA 518 6.80e+01 b.92.1.3,c.1.9.6 90953,90954 1irsA 112 6.92e+01 1qqgA b.55.1.2 26991 1zckA 154 7.00e+01 1a79A 171 7.01e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1ww7A 160 7.01e+01 1k4mA 213 7.03e+01 c.26.1.3 77258 1aky 221 7.09e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1nu4A 97 7.11e+01 d.58.7.1 80731 1rrmA 386 7.23e+01 e.22.1.2 105081 1rss 151 7.26e+01 1rss a.75.1.1 18392 1qhlA 227 7.28e+01 1qhlA c.37.1.12 32382 2c5qA 240 7.30e+01 1kqqA 139 7.41e+01 a.4.3.1 72885 1mjhA 162 7.47e+01 1mjhA c.26.2.4 31639 1cei 94 7.55e+01 1cei a.28.2.1 16939 1wdiA 345 7.61e+01 2bkfA 87 7.61e+01 1g3qA 237 7.64e+01 1hyqA c.37.1.10 60237 1ikoP 178 7.77e+01 b.6.1.5 71243 1mq7A 154 7.83e+01 b.85.4.1 79404 1shxA 138 7.87e+01 1fo8A 343 7.93e+01 1foaA c.68.1.10 59927 1kk8B 139 7.95e+01 a.39.1.5 77430 1zuoA 186 7.97e+01 1j08A 226 8.00e+01 c.47.1.2,c.47.1.2 83855,83856 1l7bA 92 8.03e+01 c.15.1.2 91053 2cmd 312 8.05e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1zavA 180 8.05e+01 1ifyA 49 8.07e+01 a.5.2.1 71207 1wvqA 167 8.13e+01 1hvyA 288 8.25e+01 1bkpA d.117.1.1 41049 1mb3A 124 8.29e+01 c.23.1.1 78907 1tif 78 8.30e+01 1tif d.15.8.1 37836 1dkuA 317 8.33e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1syyA 346 8.34e+01 a.25.1.2 106126 1kssA 571 8.36e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1zxxA 319 8.38e+01 1zh1A 163 8.40e+01 1r61A 207 8.44e+01 c.8.8.1 97138 1urnA 97 8.55e+01 1urnA d.58.7.1 39153 1x24A 180 8.56e+01 1wmaA 276 8.71e+01 1iysA 262 8.72e+01 e.3.1.1 90723 2dhqA 146 8.77e+01 2dhqA c.23.13.1 31382 1jjeA 222 8.80e+01 1a7tA d.157.1.1 63117 4uagA 437 8.84e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1t9xA 1049 8.88e+01 1mvoA 136 8.89e+01 c.23.1.1 79513 1ppfE 218 8.95e+01 1a7s b.47.1.2 26234