# 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 1t3gA 159 1.01e+00 1wdyA 285 2.04e+00 1wmaA 276 2.94e+00 1ugpA 203 4.04e+00 d.149.1.1 107831 1fe0A 68 4.42e+00 1cc8A d.58.17.1 39345 1ireA 204 4.60e+00 d.149.1.1 76769 1wiwA 290 4.66e+00 1n40A 396 5.26e+00 a.104.1.1 79977 1htjF 210 5.57e+00 1htjF a.91.1.1 61254 1vig 71 5.73e+00 1vih d.51.1.1 38806 1hu4A 288 6.40e+00 1hu4A 1s9uA 207 6.41e+00 a.184.1.1 105390 1n5dA 288 6.46e+00 c.2.1.2 80030 1i9zA 347 6.71e+00 1i9yA d.151.1.2 62102 1ash 150 7.06e+00 1ash a.1.1.2 15622 1pa7A 130 7.07e+00 a.40.1.1 94410 2b6cA 220 7.50e+00 1t77A 414 7.81e+00 1z8sA 146 8.48e+00 2d4pA 141 8.64e+00 1v76A 96 9.21e+00 1ek8A 185 9.42e+00 1ek8A d.67.3.1 59444 1t8sA 484 9.79e+00 c.56.2.1 106679 1s2oA 244 9.85e+00 1f80D 81 1.01e+01 1acp a.28.1.1 59686 1m93B 245 1.06e+01 1vqrA 297 1.08e+01 2cq2A 114 1.15e+01 2cw5A 255 1.15e+01 3bamA 213 1.17e+01 1bam c.52.1.3 33288 1bhdA 118 1.21e+01 1bkrA a.40.1.1 17398 1y80A 210 1.22e+01 1k7kA 221 1.23e+01 c.51.4.1 72104 1u5mA 73 1.28e+01 2bd0A 244 1.33e+01 1t8kA 77 1.43e+01 a.28.1.1 106666 1nzaA 103 1.47e+01 d.58.5.2 86444 1ukuA 102 1.51e+01 d.58.5.2 99533 1o26A 232 1.67e+01 d.207.1.1 86566 1v8gA 329 1.75e+01 a.46.2.1,c.27.1.1 100505,100506 1iro 54 1.76e+01 1rb9 g.41.5.1 45223 1e4yA 214 1.83e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1tzbA 302 1.93e+01 c.80.1.1 107470 1bq9A 54 1.94e+01 1rb9 g.41.5.1 45238 1uouA 474 1.96e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1f0cA 305 1.98e+01 1c8oA e.1.1.1 42676 1brfA 53 2.09e+01 1rb9 g.41.5.1 45236 1yovA 537 2.11e+01 1i0lA 221 2.12e+01 c.61.1.1 71096 1v3wA 173 2.17e+01 b.81.1.5 100291 1vh7A 265 2.20e+01 c.1.2.1 100646 6rxn 46 2.31e+01 1rb9 g.41.5.1 45222 1zin 217 2.31e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1vqoN 187 2.31e+01 2bl8A 103 2.33e+01 1mi1A 414 2.33e+01 a.169.1.1,b.55.1.6 79137,79138 1vlaA 150 2.36e+01 d.227.1.2 108735 1yk4A 52 2.37e+01 1yr1A 119 2.40e+01 1l0iA 78 2.41e+01 a.28.1.1 77643 4xis 387 2.50e+01 4xis c.1.15.3 29421 1qoyA 318 2.50e+01 1qoyA h.4.4.1 45788 1x9iA 302 2.51e+01 1zip 217 2.56e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1rdg 53 2.57e+01 1rb9 g.41.5.1 45221 1j2jB 45 2.58e+01 a.7.8.1 84017 1s72N 187 2.63e+01 c.55.4.1 105333 1u3nA 162 2.65e+01 1fo1A 271 2.72e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 1skz 119 2.79e+01 1skz g.3.15.1,g.3.15.1 44366,44367 2cspA 130 2.79e+01 1tqhA 247 2.80e+01 c.69.1.29 107225 3xis 387 2.80e+01 4xis c.1.15.3 29423 1uanA 227 2.82e+01 c.134.1.1 99135 1r1dA 247 2.89e+01 c.69.1.29 96813 1ytlA 174 2.93e+01 1muwA 386 3.00e+01 c.1.15.3 79495 1t71A 281 3.04e+01 1xtmA 175 3.08e+01 1s12A 94 3.11e+01 1v5aA 28 3.12e+01 1x79A 98 3.13e+01 1c28A 135 3.20e+01 1c28A b.22.1.1 23857 1jj2M 186 3.21e+01 1ffkK c.55.4.1 63098 1uuqA 440 3.22e+01 c.1.8.3 100015 1o57A 291 3.24e+01 a.4.5.40,c.61.1.1 92483,92484 1utaA 81 3.32e+01 d.58.52.1 108029 1ws6A 171 3.37e+01 1wdtA 665 3.40e+01 1uc7A 125 3.50e+01 c.47.1.1 99163 2kinB 100 3.51e+01 3kinB 1u7iA 136 3.52e+01 d.32.1.7 107724 2axyA 73 3.52e+01 1td6A 306 3.56e+01 1s7zA 117 3.60e+01 a.159.3.1 98715 2b9dA 52 3.64e+01 1gefA 123 3.66e+01 1gefA c.52.1.18 60465 2amxA 376 3.67e+01 1xodA 118 3.73e+01 1j77A 209 3.74e+01 1j77A a.132.1.2 62674 1fmeA 28 3.74e+01 k.12.1.1 59878 1tc1A 220 3.86e+01 1tc1A c.61.1.1 34083 1ywzA 175 3.90e+01 1rykA 69 3.91e+01 a.60.11.1 98105 2f6sA 201 3.91e+01 1q6hA 224 3.91e+01 d.26.1.1 95975 1idsA 207 3.93e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1iseA 185 3.98e+01 d.67.3.1 90691 1vfgA 390 3.99e+01 a.173.1.1,d.218.1.4 108570,108571 2exnA 136 4.02e+01 1xtlA 175 4.11e+01 1poxA 585 4.12e+01 1poxA c.31.1.3,c.36.1.5,c.36.1.9 31731,31793,31794 2cbzA 237 4.14e+01 1puzA 82 4.15e+01 a.218.1.1 104320 1s4iA 175 4.27e+01 1ql3A 99 4.28e+01 1ycc a.3.1.1 15822 1udxA 416 4.34e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1h5rA 293 4.34e+01 c.68.1.6 65623 1vjoA 393 4.40e+01 c.67.1.3 100827 1kq6A 141 4.48e+01 d.189.1.1 91020 1xqaA 113 4.48e+01 2bycA 137 4.50e+01 2furA 209 4.54e+01 2bo9A 308 4.62e+01 1ik9A 213 4.78e+01 b.59.1.1,h.1.11.1 66176,66177 1o7kA 131 4.89e+01 d.189.1.1 81144 1u69A 163 4.93e+01 d.32.1.7 107699 1d1qA 161 4.96e+01 1dg9A c.44.1.1 32642 1gkzA 388 4.97e+01 a.29.5.1,d.122.1.4 65268,65269 1g26A 31 5.03e+01 1g26A g.3.16.1 44381 1ug1A 92 5.06e+01 b.34.2.1 99360 1rfkA 98 5.06e+01 1g1sA 162 5.12e+01 d.169.1.1,g.3.11.1 65100,65101 1m65A 245 5.12e+01 c.6.3.1 84847 1n13B 113 5.15e+01 1xvqA 175 5.19e+01 1qwgA 251 5.21e+01 c.1.27.1 96473 1i5gA 144 5.23e+01 1ewxA c.47.1.10 61784 1w6kA 732 5.26e+01 1bf5A 545 5.26e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1y7bA 542 5.29e+01 1nrzA 164 5.29e+01 c.38.1.1 86131 1thjA 214 5.29e+01 1qreA b.81.1.5 28072 1eteA 134 5.30e+01 1eteA a.26.1.2 16869 1vmaA 306 5.39e+01 a.24.13.1,c.37.1.10 108887,108888 1gtvA 214 5.47e+01 c.37.1.1 70537 1v5mA 136 5.52e+01 b.55.1.1 108379 1zedA 484 5.58e+01 1gh9A 71 5.60e+01 1gh9A g.41.6.1 45266 1axh 37 5.63e+01 1axh g.3.6.2 44109 1eaf 243 5.66e+01 1eaf c.43.1.1 32617 1ob8A 135 5.74e+01 1ufzA 83 5.79e+01 a.5.9.1 107821 1xaoA 121 5.79e+01 1feuA 206 5.83e+01 1feuA b.53.1.1 59801 12asA 330 5.84e+01 12asA d.104.1.1 40783 2azpA 318 5.88e+01 1ig8A 486 5.89e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1fx2A 235 5.92e+01 1fx2A d.58.29.1 39430 2ez9A 603 5.92e+01 1dptA 117 5.92e+01 1dptA d.80.1.3 39862 1lcl 142 5.95e+01 1lcl b.29.1.3 24216 1otgA 125 5.97e+01 1otgA d.80.1.2 39831 1vjrA 271 6.00e+01 c.108.1.14 100832 1hdkA 141 6.00e+01 b.29.1.3 65807 1uzcA 71 6.03e+01 a.159.2.1 100222 1e9lA 377 6.22e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 2g03A 194 6.22e+01 1is1A 185 6.27e+01 d.67.3.1 83704 1yj7A 171 6.37e+01 1ryp2 233 6.45e+01 1ryp2 1vf8A 377 6.45e+01 1bm8 99 6.48e+01 1bm8 d.34.1.1 38528 1fgkA 310 6.55e+01 1fgkA d.144.1.7 41693 1mkeA 152 6.56e+01 b.55.1.4 79231 1jihA 531 6.60e+01 d.240.1.1,e.8.1.7 90374,90375 1vkrA 125 6.61e+01 c.44.2.1 108689 1q6uA 245 6.67e+01 d.26.1.1 95998 1ejxA 100 6.91e+01 d.8.1.1 83182 1wcwA 261 7.10e+01 1ooeA 236 7.20e+01 c.2.1.2 87196 2ctc 307 7.22e+01 1aye c.56.5.1 33802 1nykA 165 7.34e+01 b.33.1.1 86408 1rb9 53 7.39e+01 1rb9 g.41.5.1 45214 1khdA 345 7.52e+01 a.46.2.1,c.27.1.1 77400,77401 1mof 55 7.62e+01 1mof h.3.2.1 46324 2bgkA 278 7.62e+01 1fcqA 350 7.67e+01 c.1.8.9 65006 1semA 58 7.73e+01 1ckaA b.34.2.1 24544 1e94F 449 7.74e+01 1do0A c.37.1.20 32443 1kcnA 22 7.76e+01 k.30.1.2 72301 1mr1C 99 7.96e+01 d.217.1.2 79420 1ew4A 106 8.01e+01 1ew4A d.82.2.1 40023 1ew2A 513 8.02e+01 1b8jA c.76.1.1 59525 16vpA 366 8.07e+01 16vpA d.180.1.1 42601 1jhfA 202 8.07e+01 a.4.5.2,b.87.1.1 63057,63058 2fb0A 94 8.24e+01 1evhA 112 8.39e+01 1evhA b.55.1.4 26997 1l0gA 358 8.39e+01 e.3.1.1 73400 1f5nA 592 8.45e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 2fswA 107 8.54e+01 2fiyA 309 8.54e+01 1nqjA 119 8.65e+01 b.23.2.1 86031 1fukA 165 8.67e+01 1fukA c.37.1.19 32409 1svmA 377 8.79e+01 2b81A 323 8.82e+01 2fa8A 105 8.84e+01 1zpwX 90 8.85e+01 1vrvA 101 8.89e+01 1nthA 458 8.90e+01 c.1.25.1 80730 1f0lA 535 8.92e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382