# 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 1eztA 166 5.06e-22 1agrE a.91.1.1 18541 1agrE 205 5.59e-22 1agrE a.91.1.1 18538 2bt2A 161 1.45e-21 1agrH 205 4.19e-21 1agrE a.91.1.1 18539 1fqiA 147 5.71e-21 1agrE a.91.1.1 18542 2a72A 146 2.13e-18 1dk8A 147 4.54e-18 1agrE a.91.1.1 18548 1omwA 689 1.21e-09 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1htjF 210 2.67e-07 1htjF a.91.1.1 61254 1iapA 211 2.59e-01 a.91.1.1 62119 1wa5B 530 6.51e-01 1x3kA 152 1.20e+00 2a0mA 316 2.08e+00 1bk5A 422 2.16e+00 1bk5A a.118.1.1 19130 1bk6A 422 2.33e+00 1bk5A a.118.1.1 19133 1ee4A 423 3.96e+00 1ee4A a.118.1.1 19128 1gseA 221 4.56e+00 1pgtA a.45.1.1,c.47.1.5 17667,32961 1wixA 164 4.61e+00 1yozA 116 5.62e+00 1qahA 136 5.65e+00 d.79.1.1 96338 1lk3A 160 6.00e+00 a.26.1.3 73950 1k3lA 221 6.35e+00 a.45.1.1,c.47.1.5 77229,77230 1k3yA 221 7.15e+00 a.45.1.1,c.47.1.5 77245,77246 1ks8A 433 7.25e+00 a.102.1.2 77519 1yv5A 374 7.88e+00 1g7cB 94 8.09e+00 1b64 d.58.12.1 39308 1ofuA 320 8.35e+00 c.32.1.1,d.79.2.1 86972,86973 2dkaA 544 9.55e+00 1ug3A 339 1.00e+01 1f60B 94 1.06e+01 1b64 d.58.12.1 39307 1y3nA 490 1.11e+01 1mnaA 298 1.14e+01 c.69.1.22 79322 1vzoA 355 1.16e+01 d.144.1.7 108971 1ibrB 462 1.18e+01 1qgrA a.118.1.1 19120 1lj2A 110 1.19e+01 h.1.13.2 73926 1znbA 232 1.20e+01 1a7tA d.157.1.1 42039 1a7tA 232 1.25e+01 1a7tA d.157.1.1 42041 1edi 56 1.27e+01 1fc2C a.8.1.1 16349 1yq7A 374 1.30e+01 1eh2 106 1.32e+01 1eh2 a.39.1.6 17339 1bx2B 191 1.35e+01 1iakB b.1.1.2,d.19.1.1 21610,38184 1tidB 119 1.36e+01 c.13.2.1 107000 1uetA 437 1.40e+01 a.160.1.3,d.218.1.7,d.58.16.2 99272,99273,99274 1aow 309 1.48e+01 1avc a.65.1.1 18152 1oniA 137 1.55e+01 d.79.1.1 87144 1b64 91 1.59e+01 1b64 d.58.12.1 39306 1ngnA 155 1.64e+01 a.96.1.2 85697 1pl8A 356 1.75e+01 b.35.1.2,c.2.1.1 94878,94879 1c7qA 445 1.78e+01 2pgi c.80.1.2 35307 1ieaB 228 1.83e+01 1iakB b.1.1.2,d.19.1.1 21632,38206 2beiA 170 1.95e+01 1iwgA 1053 1.99e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 76874,76875,76876,76877,76878,76879,76880,76881 1s96A 219 2.02e+01 c.37.1.1 98740 1e4eA 343 2.16e+01 1iow c.30.1.2,d.142.1.1 59221,59222 1b0zA 445 2.17e+01 2pgi c.80.1.2 35309 2b3yA 888 2.22e+01 2pgi 445 2.23e+01 2pgi c.80.1.2 35308 2fqxA 318 2.31e+01 1v74B 87 2.32e+01 a.24.20.1 100443 1ignA 246 2.35e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 2pflA 759 2.45e+01 1cm5A c.7.1.1 30675 1x6mA 196 2.52e+01 1oyeA 1049 2.54e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1v58A 241 2.62e+01 c.47.1.9,d.17.3.1 108371,108372 1zin 217 2.65e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1ej0A 180 2.70e+01 1ej0A c.66.1.2 34179 2f94F 350 2.76e+01 4ubpA 101 2.77e+01 1ubpA d.8.1.1 37352 1qc7A 101 2.77e+01 1qc7A a.118.14.1 18456 2b43A 526 2.80e+01 1bf5A 545 2.81e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1kzhA 555 2.82e+01 c.89.1.1 73361 1edg 380 2.91e+01 1edg c.1.8.3 28807 2bg5A 324 2.95e+01 1dn1B 267 2.97e+01 1dn1B a.47.2.1 17771 1r89A 437 2.97e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1wljA 189 3.00e+01 2c07A 285 3.18e+01 2d0tA 406 3.23e+01 1bix 287 3.32e+01 1bix d.151.1.1 41781 1qq2A 199 3.34e+01 1qq2A c.47.1.10 33064 1uslA 170 3.35e+01 c.121.1.1 99871 1b48A 221 3.38e+01 1pgtA a.45.1.1,c.47.1.5 17703,32997 1ann 318 3.39e+01 1avc a.65.1.1 18151 1kamA 194 3.48e+01 c.26.1.3 72254 1ubpA 101 3.52e+01 1ubpA d.8.1.1 37353 1bn6A 294 3.53e+01 1bn6A c.69.1.8 34678 3pflA 759 3.55e+01 1cm5A c.7.1.1 30673 1ymmB 198 3.59e+01 1qb7A 236 3.61e+01 1qb7A c.61.1.1 34087 2bx2L 517 3.68e+01 1p2fA 220 3.68e+01 a.4.6.1,c.23.1.1 87720,87721 1n08A 163 3.72e+01 b.43.5.1 79730 1cm5A 759 3.77e+01 1cm5A c.7.1.1 30671 1fehA 574 3.80e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 2fe7A 166 3.83e+01 1m4iA 181 3.83e+01 d.108.1.1 74457 1gwiA 411 3.88e+01 a.104.1.1 76364 1dptA 117 3.97e+01 1dptA d.80.1.3 39862 1bj5 585 3.99e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19369,19370,19371 2a9kB 223 4.06e+01 1eu8A 409 4.08e+01 1eu8A c.94.1.1 59502 1ecfB 504 4.12e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 1sh0A 510 4.18e+01 e.8.1.4 98876 1f6dA 376 4.25e+01 1f6dA c.87.1.3 35467 1sqeA 109 4.31e+01 d.58.4.5 105908 2ah5A 210 4.34e+01 1sxgA 280 4.40e+01 2bmaA 470 4.42e+01 1dxsA 80 4.53e+01 1cokA a.60.1.2 17944 1ha2A 585 4.57e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 60866,60867,60868 2lhb 149 4.61e+01 2fal a.1.1.2 15597 2an9A 207 4.70e+01 1ww8A 439 4.72e+01 1cy9A 264 4.77e+01 1ecl e.10.1.1 43236 1d5mB 192 4.81e+01 1iakB b.1.1.2,d.19.1.1 21618,38192 1vdyA 140 4.82e+01 1bn7A 294 4.86e+01 1bn6A c.69.1.8 34677 1h1yA 228 4.89e+01 c.1.2.2 76506 2akrA 285 4.93e+01 1f3aA 222 5.01e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1uk5A 111 5.04e+01 a.7.7.1 99487 1q32A 544 5.04e+01 d.136.1.3,d.136.1.3 104507,104508 1ykuA 136 5.10e+01 1t6uA 117 5.13e+01 a.24.22.1 106584 1n5uA 585 5.16e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 1j6wA 175 5.18e+01 1j98A d.185.1.2 62663 1fnoA 417 5.23e+01 d.58.19.1,c.56.5.4 70145,75841 1t6jA 714 5.27e+01 1ecfA 504 5.29e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1ay0A 680 5.33e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31823,31824,33100 1z2lA 423 5.36e+01 1trkA 680 5.36e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31803,31804,33090 1uzeA 589 5.38e+01 d.92.1.5 108174 1jroA 462 5.39e+01 a.56.1.1,d.15.4.2,d.87.2.1,d.145.1.3 67137,67138,67139,67140 1qtoA 122 5.44e+01 1bylA d.32.1.2 38494 1vjgA 218 5.46e+01 c.23.10.6 100810 2bxkA 585 5.52e+01 1xhdA 173 5.60e+01 1kwhA 492 5.64e+01 c.94.1.1 68876 3lck 271 5.66e+01 1fmk d.144.1.7 41686 1kx9A 112 5.71e+01 a.118.21.1 77602 1hd7A 318 5.75e+01 1bix d.151.1.1 41780 1v2zA 111 5.75e+01 a.186.1.1 108300 1mwyA 73 5.76e+01 d.58.17.1 79616 1vf1A 229 5.76e+01 1wmaA 276 5.83e+01 1i6lA 328 5.90e+01 c.26.1.1 66041 1i7gA 287 5.95e+01 a.123.1.1 71121 1gpuA 680 5.96e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1vixA 420 5.98e+01 c.56.5.4,d.58.19.1 100777,100778 1h8eA 510 6.02e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1ei1A 391 6.06e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1rxwA 336 6.14e+01 a.60.7.1,c.120.1.2 98059,98060 2b33A 140 6.18e+01 2bjcA 62 6.22e+01 1a6aB 187 6.24e+01 1iakB b.1.1.2,d.19.1.1 21616,38190 1ak1 310 6.25e+01 1ak1 c.92.1.1 35594 1btmA 252 6.32e+01 1amk c.1.1.1 28513 1q1vA 70 6.48e+01 a.159.4.1 104479 1yovA 537 6.48e+01 1e3oC 160 6.51e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1h16A 759 6.52e+01 c.7.1.1 76462 2etvA 346 6.52e+01 2g39A 497 6.59e+01 1lkvX 232 6.60e+01 a.118.14.1 73980 1e79A 510 6.67e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1deeG 54 6.74e+01 1fc2C a.8.1.1 16343 1vorW 173 6.77e+01 1omrA 201 6.77e+01 a.39.1.5 93349 1r26A 125 6.79e+01 c.47.1.1 96847 1l3iA 192 6.87e+01 c.66.1.22 77676 2av9A 147 6.89e+01 1t1uA 639 6.93e+01 1isiA 265 6.95e+01 e.4.1.1 71394 2bjqA 345 6.96e+01 1tkaA 678 7.00e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31815,31816,33096 1eca 136 7.04e+01 1flp a.1.1.2 15209 1ez3A 127 7.09e+01 1dn1B a.47.2.1 17768 1zip 217 7.10e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1mp9A 198 7.19e+01 d.129.1.1,d.129.1.1 91385,91386 1v37A 177 7.19e+01 2azjA 289 7.22e+01 1rec 201 7.25e+01 1rec a.39.1.5 17326 1qpcA 279 7.26e+01 1fgkA d.144.1.7 41685 1i6kA 328 7.34e+01 c.26.1.1 66040 1rhxA 87 7.38e+01 2ganA 190 7.41e+01 2tmkA 216 7.47e+01 3tmkA c.37.1.1 31928 1edzA 320 7.49e+01 1ee9A c.2.1.7,c.58.1.2 30287,33935 1faaA 124 7.52e+01 1erv c.47.1.1 32738 1o86A 589 7.55e+01 d.92.1.5 81177 1s2xA 206 7.59e+01 a.47.3.1 105229 1ezoA 370 7.67e+01 4mbp c.94.1.1 59539 1cx4A 305 7.69e+01 b.82.3.2,b.82.3.2 59099,59100 2cvlA 124 7.69e+01 1ecd 136 7.71e+01 1flp a.1.1.2 15211 2a6hA 315 7.82e+01 2g7zA 282 7.86e+01 1w9gA 104 7.97e+01 2fuvA 549 7.98e+01 1vgvA 384 8.00e+01 c.87.1.3 100608 1o5zA 442 8.05e+01 c.59.1.2,c.72.2.2 92530,92531 1r9jA 673 8.06e+01 1jk0B 345 8.06e+01 a.25.1.2 63143 1ilk 151 8.09e+01 2ilk a.26.1.3 16886 1je0A 236 8.11e+01 c.56.2.1 66581 1j1nA 492 8.13e+01 c.94.1.1 83978 2an3A 289 8.14e+01 1j8bA 112 8.17e+01 d.222.1.1 77101 1ehiA 377 8.26e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1eco 136 8.27e+01 1flp a.1.1.2 15208 1eljA 381 8.33e+01 4mbp c.94.1.1 35791 1cqwA 295 8.34e+01 1b6g c.69.1.8 34679 1b0nA 111 8.39e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 2ilk 160 8.40e+01 2ilk a.26.1.3 16885 1mpxA 615 8.43e+01 b.18.1.13,c.69.1.21 85041,85042 1ntr 124 8.44e+01 1dbwA c.23.1.1 31092 1bmfA 510 8.51e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18281,26446,32326 1rss 151 8.54e+01 1rss a.75.1.1 18392 1sumB 235 8.64e+01 a.7.12.1 106025 1keyA 235 8.64e+01 a.118.16.1 72389 1wvfA 520 8.71e+01 1df3A 162 8.77e+01 1mup b.60.1.1 27134 1ayl 541 8.89e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 2gefA 217 8.93e+01