# List of top-scoring protein chains for t2k-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 1t3gA 159 8.14e-01 1wdyA 285 1.76e+00 1wmaA 276 2.72e+00 1ash 150 2.94e+00 1ash a.1.1.2 15622 1fe0A 68 3.02e+00 1cc8A d.58.17.1 39345 1wiwA 290 3.22e+00 1t77A 414 3.60e+00 1htjF 210 3.96e+00 1htjF a.91.1.1 61254 1ak2 233 4.32e+00 1zin c.37.1.1,g.41.2.1 31894,45195 1mpyA 307 5.27e+00 1mpyA d.32.1.3,d.32.1.3 38508,38509 1akeA 214 5.94e+00 1zin c.37.1.1,g.41.2.1 31905,45185 1n5dA 288 6.47e+00 c.2.1.2 80030 1hu4A 288 6.47e+00 1hu4A 1nzaA 103 6.61e+00 d.58.5.2 86444 1ugpA 203 7.10e+00 d.149.1.1 107831 2b6cA 220 7.45e+00 1z8sA 146 7.63e+00 1i9zA 347 7.86e+00 1i9yA d.151.1.2 62102 2d4pA 141 7.92e+00 1ireA 204 8.08e+00 d.149.1.1 76769 1s9uA 207 8.17e+00 a.184.1.1 105390 1n40A 396 8.44e+00 a.104.1.1 79977 1b13A 54 8.58e+00 1rb9 g.41.5.1 45227 1s2oA 244 9.26e+00 4rxn 54 9.29e+00 1rb9 g.41.5.1 45226 1pa7A 130 9.40e+00 a.40.1.1 94410 3bamA 213 9.46e+00 1bam c.52.1.3 33288 1acp 77 9.54e+00 1acp a.28.1.1 16931 1i9yA 347 1.01e+01 1i9yA d.151.1.2 62101 1b2jA 54 1.03e+01 1rb9 g.41.5.1 45231 1ek8A 185 1.05e+01 1ek8A d.67.3.1 59444 1vih 71 1.11e+01 1vih d.51.1.1 38807 1m93B 245 1.17e+01 1vig 71 1.20e+01 1vih d.51.1.1 38806 1tzbA 302 1.22e+01 c.80.1.1 107470 1u5mA 73 1.24e+01 5rxn 54 1.27e+01 1rb9 g.41.5.1 45225 1mi1A 414 1.29e+01 a.169.1.1,b.55.1.6 79137,79138 1iro 54 1.40e+01 1rb9 g.41.5.1 45223 1mkeA 152 1.48e+01 b.55.1.4 79231 1y80A 210 1.54e+01 1x9iA 302 1.57e+01 1b2oA 54 1.58e+01 1rb9 g.41.5.1 45233 1fxiA 96 1.59e+01 1awd d.15.4.1 37664 1ukuA 102 1.62e+01 d.58.5.2 99533 1e4yA 214 1.68e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1vqrA 297 1.71e+01 1t8kA 77 1.74e+01 a.28.1.1 106666 1f80D 81 1.77e+01 1acp a.28.1.1 59686 1vh7A 265 1.82e+01 c.1.2.1 100646 1f0cA 305 1.84e+01 1c8oA e.1.1.1 42676 1bq9A 54 1.84e+01 1rb9 g.41.5.1 45238 1gw9A 388 1.89e+01 c.1.15.3 70658 2cw5A 255 1.92e+01 1t8sA 484 1.94e+01 c.56.2.1 106679 3bamB 213 1.98e+01 1bam c.52.1.3 33289 1udxA 416 2.01e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 2bd0A 244 2.05e+01 1brfA 53 2.05e+01 1rb9 g.41.5.1 45236 1yk4A 52 2.07e+01 1mnzA 388 2.12e+01 c.1.15.3 79328 6rxn 46 2.12e+01 1rb9 g.41.5.1 45222 1bq8A 54 2.13e+01 1rb9 g.41.5.1 45237 2bl8A 103 2.15e+01 1i0lA 221 2.16e+01 c.61.1.1 71096 2xis 387 2.18e+01 4xis c.1.15.3 29427 1xis 387 2.19e+01 4xis c.1.15.3 29422 1skz 119 2.21e+01 1skz g.3.15.1,g.3.15.1 44366,44367 4xis 387 2.23e+01 4xis c.1.15.3 29421 1v76A 96 2.24e+01 1ws6A 171 2.26e+01 1yovA 537 2.27e+01 1rdg 53 2.41e+01 1rb9 g.41.5.1 45221 1uuqA 440 2.42e+01 c.1.8.3 100015 2cq2A 114 2.42e+01 1v3wA 173 2.44e+01 b.81.1.5 100291 3xis 387 2.48e+01 4xis c.1.15.3 29423 1fshA 105 2.50e+01 1fshA a.4.5.31 60006 1xodA 118 2.51e+01 2bgkA 278 2.51e+01 2cspA 130 2.52e+01 1bhdA 118 2.59e+01 1bkrA a.40.1.1 17398 1uouA 474 2.59e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1yr1A 119 2.66e+01 1muwA 386 2.67e+01 c.1.15.3 79495 1x79A 98 2.96e+01 1utaA 81 3.01e+01 d.58.52.1 108029 1l0iA 78 3.01e+01 a.28.1.1 77643 1j77A 209 3.06e+01 1j77A a.132.1.2 62674 1idsA 207 3.07e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1g26A 31 3.11e+01 1g26A g.3.16.1 44381 1eaf 243 3.12e+01 1eaf c.43.1.1 32617 1c28A 135 3.13e+01 1c28A b.22.1.1 23857 1v8gA 329 3.18e+01 a.46.2.1,c.27.1.1 100505,100506 1qoyA 318 3.25e+01 1qoyA h.4.4.1 45788 1zin 217 3.28e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1puzA 82 3.30e+01 a.218.1.1 104320 1ql3A 99 3.38e+01 1ycc a.3.1.1 15822 2exnA 136 3.40e+01 1iseA 185 3.50e+01 d.67.3.1 90691 2cbzA 237 3.50e+01 1vfgA 390 3.52e+01 a.173.1.1,d.218.1.4 108570,108571 1vlaA 150 3.53e+01 d.227.1.2 108735 1klpA 115 3.56e+01 a.28.1.1 72721 1s12A 94 3.61e+01 2axyA 73 3.61e+01 1dpb 243 3.64e+01 1eaf c.43.1.1 32618 1bam 213 3.65e+01 1bam c.52.1.3 33285 1tc1A 220 3.68e+01 1tc1A c.61.1.1 34083 2bycA 137 3.71e+01 1vqoN 187 3.72e+01 1kvnA 104 3.73e+01 d.201.1.1 73066 1u7iA 136 3.75e+01 d.32.1.7 107724 1ipiA 123 3.77e+01 c.52.1.18 66255 1jihA 531 3.88e+01 d.240.1.1,e.8.1.7 90374,90375 1zip 217 3.90e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1k7kA 221 4.02e+01 c.51.4.1 72104 1v5aA 28 4.09e+01 1ywzA 175 4.20e+01 1ghc 75 4.26e+01 1hstA a.4.5.13 16142 1w6kA 732 4.28e+01 1thjA 214 4.29e+01 1qreA b.81.1.5 28072 1kqaA 203 4.29e+01 b.81.1.3 72868 1s72N 187 4.30e+01 c.55.4.1 105333 1krrA 203 4.30e+01 b.81.1.3 72899 1u69A 163 4.31e+01 d.32.1.7 107699 1is1A 185 4.36e+01 d.67.3.1 83704 1uc7A 125 4.38e+01 c.47.1.1 99163 1xqaA 113 4.40e+01 1uanA 227 4.44e+01 c.134.1.1 99135 1rrpB 134 4.53e+01 1rrpB b.55.1.3 26995 1nwmX 142 4.55e+01 a.7.8.1 86301 1td6A 306 4.55e+01 1irdB 146 4.64e+01 a.1.1.2 66287 1rfkA 98 4.77e+01 2f6sA 201 4.89e+01 1qagA 226 4.94e+01 1qagA a.40.1.1,a.40.1.1 17400,17401 2azpA 318 4.98e+01 1j2jB 45 5.07e+01 a.7.8.1 84017 1ufzA 83 5.10e+01 a.5.9.1 107821 16vpA 366 5.10e+01 16vpA d.180.1.1 42601 1o57A 291 5.18e+01 a.4.5.40,c.61.1.1 92483,92484 1n13B 113 5.25e+01 1lea 84 5.28e+01 1lea a.4.5.2 16085 1evhA 112 5.31e+01 1evhA b.55.1.4 26997 1c8oA 300 5.31e+01 1c8oA e.1.1.1 42677 1rykA 69 5.34e+01 a.60.11.1 98105 1kq6A 141 5.42e+01 d.189.1.1 91020 1ik9A 213 5.42e+01 b.59.1.1,h.1.11.1 66176,66177 1s7zA 117 5.49e+01 a.159.3.1 98715 2amxA 376 5.61e+01 1axh 37 5.65e+01 1axh g.3.6.2 44109 1ob8A 135 5.73e+01 1fukA 165 5.75e+01 1fukA c.37.1.19 32409 1h5rA 293 5.76e+01 c.68.1.6 65623 1gefA 123 5.76e+01 1gefA c.52.1.18 60465 1ytlA 174 5.78e+01 1y7bA 542 5.90e+01 1pex 207 5.92e+01 1gen b.66.1.1 27540 1o26A 232 5.93e+01 d.207.1.1 86566 1f0lA 535 5.95e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 2b9dA 52 6.00e+01 1g1sA 162 6.02e+01 d.169.1.1,g.3.11.1 65100,65101 1jj2M 186 6.08e+01 1ffkK c.55.4.1 63098 1wdtA 665 6.12e+01 1dxtB 147 6.16e+01 1abwA a.1.1.2 15450 1fo1A 271 6.19e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 8rxnA 52 6.23e+01 1rb9 g.41.5.1 45215 1j7yB 146 6.28e+01 a.1.1.2 66427 1gkxA 388 6.31e+01 a.29.5.1,d.122.1.4 65266,65267 1a01B 146 6.32e+01 1abwA a.1.1.2 15448 1rb9 53 6.47e+01 1rb9 g.41.5.1 45214 1o7kA 131 6.53e+01 d.189.1.1 81144 1tqhA 247 6.76e+01 c.69.1.29 107225 1yj7A 171 6.76e+01 1vjoA 393 6.76e+01 c.67.1.3 100827 2furA 209 6.77e+01 1g3uA 214 6.86e+01 c.37.1.1 65132 1r1dA 247 6.88e+01 c.69.1.29 96813 1tme3 236 6.89e+01 1qqp3 1qreA 247 6.89e+01 1qreA b.81.1.5 28066 1xvqA 175 6.89e+01 2fiyA 309 6.92e+01 1khdA 345 6.94e+01 a.46.2.1,c.27.1.1 77400,77401 1wcwA 261 7.00e+01 1gkzA 388 7.04e+01 a.29.5.1,d.122.1.4 65268,65269 2g03A 194 7.04e+01 1q6hA 224 7.06e+01 d.26.1.1 95975 1babB 146 7.20e+01 1abwA a.1.1.2 15414 1fcqA 350 7.22e+01 c.1.8.9 65006 1ffkN 95 7.35e+01 1ffkN b.34.5.1 24606 1a00B 146 7.36e+01 1abwA a.1.1.2 15469 1qk8A 146 7.37e+01 1ewxA c.47.1.10 33061 1fx2A 235 7.40e+01 1fx2A d.58.29.1 39430 1qwgA 251 7.44e+01 c.1.27.1 96473 1vjrA 271 7.44e+01 c.108.1.14 100832 1kafA 108 7.46e+01 d.199.1.1 68372 1jmoA 480 7.46e+01 e.1.1.1 77138 1zedA 484 7.51e+01 2aaa 484 7.53e+01 7taa b.71.1.1,c.1.8.1 27777,28764 1eteA 134 7.56e+01 1eteA a.26.1.2 16869 1ug1A 92 7.58e+01 b.34.2.1 99360 2aq5A 402 7.59e+01 2fb0A 94 7.60e+01 1esgA 213 7.63e+01 1bam c.52.1.3 33286 1zpwX 90 7.68e+01 1oz9A 150 7.78e+01 d.92.1.15 93808 1ddt 535 7.84e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22379,42241,43384 1gtvA 214 7.86e+01 c.37.1.1 70537 1q9uA 130 7.88e+01 d.129.7.1 96314 1fgkA 310 7.97e+01 1fgkA d.144.1.7 41693 1xaoA 121 8.06e+01 1f0iA 504 8.12e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1mof 55 8.15e+01 1mof h.3.2.1 46324 1feuA 206 8.21e+01 1feuA b.53.1.1 59801 1m65A 245 8.24e+01 c.6.3.1 84847 1aky 221 8.36e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1fhjB 146 8.45e+01 1abwA a.1.1.2 59838 1fmeA 28 8.47e+01 k.12.1.1 59878 1kkcA 221 8.54e+01 a.2.11.1,d.44.1.1 68660,68661 1oh4A 179 8.61e+01 b.18.1.18 92978 2bo9A 308 8.64e+01 1gh9A 71 8.67e+01 1gh9A g.41.6.1 45266 2achA 360 8.70e+01 1c8oA e.1.1.1 42626 1nrzA 164 8.72e+01 c.38.1.1 86131 1vl8A 267 8.81e+01 c.2.1.2 108733 1uzcA 71 8.86e+01 a.159.2.1 100222 1kr4A 125 8.87e+01 d.58.5.2 72889 1vmaA 306 8.88e+01 a.24.13.1,c.37.1.10 108887,108888