# List of top-scoring protein chains for t06-100-30-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 1fqiA 147 4.77e-24 1agrE a.91.1.1 18542 1dk8A 147 8.41e-21 1agrE a.91.1.1 18548 1iapA 211 4.68e-02 a.91.1.1 62119 1ee4A 423 3.53e-01 1ee4A a.118.1.1 19128 1f60B 94 6.77e-01 1b64 d.58.12.1 39307 1r89A 437 9.43e-01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1k3yA 221 1.15e+00 a.45.1.1,c.47.1.5 77245,77246 1geqA 248 1.16e+00 2tysA c.1.2.4 28589 1eljA 381 1.47e+00 4mbp c.94.1.1 35791 1mnaA 298 2.61e+00 c.69.1.22 79322 1eca 136 2.86e+00 1flp a.1.1.2 15209 1qahA 136 3.24e+00 d.79.1.1 96338 1qc7A 101 3.71e+00 1qc7A a.118.14.1 18456 1a0cA 438 3.77e+00 1a0cA c.1.15.3 29529 1edg 380 3.87e+00 1edg c.1.8.3 28807 1h5uA 842 4.03e+00 1a8i c.87.1.4 60655 1bf5A 545 4.18e+00 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1tr9A 341 4.31e+00 1ks8A 433 4.39e+00 a.102.1.2 77519 1eu8A 409 4.96e+00 1eu8A c.94.1.1 59502 1omrA 201 5.09e+00 a.39.1.5 93349 1v37A 177 5.27e+00 1pu1A 94 5.28e+00 d.266.1.1 104307 1bqbA 301 5.51e+00 1hyt d.92.1.2 58962 1cvrA 435 5.65e+00 1cvrA b.1.18.12,c.17.1.2 21949,31006 1ngnA 155 5.72e+00 a.96.1.2 85697 1ayl 541 6.35e+00 1ayl c.91.1.1,c.109.1.1 64718,64719 1lw7A 365 6.48e+00 c.26.1.3,c.37.1.1 74295,74296 1qmvA 197 6.75e+00 1qq2A c.47.1.10 33066 1t6uA 117 6.80e+00 a.24.22.1 106584 1n08A 163 7.13e+00 b.43.5.1 79730 1sg4A 260 7.43e+00 1qtoA 122 7.85e+00 1bylA d.32.1.2 38494 1h16A 759 8.06e+00 c.7.1.1 76462 1p1mA 406 8.92e+00 b.92.1.4,c.1.9.9 87696,87697 1nxuA 333 9.76e+00 c.122.1.1 86389 1g6hA 257 9.81e+00 1gajA c.37.1.12 60318 2dkaA 544 9.83e+00 1ieaB 228 1.01e+01 1iakB b.1.1.2,d.19.1.1 21632,38206 1rss 151 1.04e+01 1rss a.75.1.1 18392 1t1vA 93 1.04e+01 c.47.1.14 106278 1wehA 171 1.05e+01 1f74A 293 1.06e+01 1nal3 c.1.10.1 29079 1dciA 275 1.13e+01 1dciA c.14.1.3 30918 1pmi 440 1.13e+01 1pmi b.82.1.3 28114 1t6nA 220 1.14e+01 c.37.1.19 106576 1w0hA 204 1.17e+01 1es5A 262 1.21e+01 1skf e.3.1.1 42679 1hx0A 496 1.28e+01 b.71.1.1,c.1.8.1 61346,61347 1gtmA 419 1.33e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1vljA 407 1.35e+01 e.22.1.2 108832 1r4vA 171 1.41e+01 a.197.1.1 97049 1rlr 761 1.45e+01 1rlr a.98.1.1,c.7.1.2 18753,30679 1j8bA 112 1.47e+01 d.222.1.1 77101 1mp9A 198 1.48e+01 d.129.1.1,d.129.1.1 91385,91386 1lopA 164 1.49e+01 2cpl b.62.1.1 27510 1i6lA 328 1.49e+01 c.26.1.1 66041 1m4iA 181 1.50e+01 d.108.1.1 74457 1p99A 295 1.53e+01 c.94.1.1 94384 1f2tB 148 1.62e+01 1f2tB 1ez3A 127 1.65e+01 1dn1B a.47.2.1 17768 1dxsA 80 1.67e+01 1cokA a.60.1.2 17944 1a7tA 232 1.74e+01 1a7tA d.157.1.1 42041 2ilk 160 1.76e+01 2ilk a.26.1.3 16885 1gqnA 252 1.77e+01 c.1.10.1 90514 1dv1A 449 1.78e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1ps1A 337 1.80e+01 1ps1A a.128.1.4 19450 1ej0A 180 1.82e+01 1ej0A c.66.1.2 34179 1h7sA 365 1.82e+01 d.14.1.3,d.122.1.2 65705,65706 1smd 496 1.83e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1dd9A 338 1.88e+01 1dd9A e.13.1.1 43254 1d2nA 272 1.89e+01 1d2nA c.37.1.20 32428 1xrkA 124 1.99e+01 1r9kA 172 2.05e+01 a.168.1.1 104869 1ju2A 536 2.10e+01 c.3.1.2,d.16.1.1 77169,77170 1m1nB 522 2.11e+01 c.92.2.3 78418 1nz0A 118 2.12e+01 d.14.1.2 86433 1je0A 236 2.18e+01 c.56.2.1 66581 1tqhA 247 2.19e+01 c.69.1.29 107225 1s6cA 183 2.20e+01 a.39.1.5 98594 1e5dA 402 2.21e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1lvwA 295 2.23e+01 c.68.1.6 84723 1k66A 149 2.28e+01 c.23.1.1 90941 1tqgA 105 2.30e+01 a.24.10.3 107224 1g8iA 190 2.31e+01 1rec a.39.1.5 60363 1pmnA 364 2.38e+01 d.144.1.7 94907 1ng6A 148 2.44e+01 a.182.1.1 85670 1n8vA 112 2.50e+01 a.118.21.1 85457 1sc6A 404 2.51e+01 1qgiA 259 2.56e+01 1qgiA d.2.1.7 37001 1qsdA 106 2.58e+01 1qsdA a.7.5.1 16335 1bn7A 294 2.61e+01 1bn6A c.69.1.8 34677 1r9jA 673 2.64e+01 1xocA 520 2.65e+01 1lwdA 413 2.67e+01 c.77.1.1 78265 1q1vA 70 2.67e+01 a.159.4.1 104479 1k47A 337 2.71e+01 d.14.1.5,d.58.26.4 72040,72041 1qrvA 73 2.75e+01 1cktA a.21.1.1 16425 1px5A 349 2.80e+01 a.160.1.2,d.218.1.6 95277,95278 1bdfA 235 2.85e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1lucB 324 2.87e+01 1lucA c.1.16.1 29548 1evyA 366 2.92e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1h0hB 214 2.96e+01 d.58.1.5 76437 1dptA 117 2.97e+01 1dptA d.80.1.3 39862 1q32A 544 3.00e+01 d.136.1.3,d.136.1.3 104507,104508 1o5zA 442 3.00e+01 c.59.1.2,c.72.2.2 92530,92531 1sh0A 510 3.01e+01 e.8.1.4 98876 1dxeA 256 3.02e+01 1dxeA c.1.12.5 29310 1no5A 114 3.13e+01 d.218.1.5 92014 1muwA 386 3.15e+01 c.1.15.3 79495 1srqA 341 3.18e+01 e.55.1.1 105967 1s5aA 150 3.22e+01 d.17.4.10 98525 1e3oC 160 3.25e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1bkjA 240 3.25e+01 1bkjA d.90.1.1 40243 1or4A 178 3.28e+01 a.1.1.2 93447 1eerB 227 3.28e+01 1eerB b.1.2.1,b.1.2.1 22011,22012 1yo3A 102 3.29e+01 1zin 217 3.30e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1g7sA 594 3.30e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1jubA 311 3.33e+01 c.1.4.1 90908 1hl2A 297 3.34e+01 c.1.10.1 83581 1ne9A 335 3.37e+01 d.108.1.4,d.108.1.4 91839,91840 1qb7A 236 3.40e+01 1qb7A c.61.1.1 34087 1t3qC 288 3.43e+01 d.87.2.1,d.145.1.3 106371,106372 1cpcA 162 3.45e+01 1cpcA a.1.1.3 15643 1pytA 94 3.48e+01 1pytA d.58.3.1 39064 1dmlA 319 3.53e+01 1dmlA d.131.1.2,d.131.1.2 41380,41381 1a6q 382 3.55e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1rxwA 336 3.55e+01 a.60.7.1,c.120.1.2 98059,98060 1s96A 219 3.58e+01 c.37.1.1 98740 1tuwA 109 3.59e+01 d.58.4.8 107346 1thg 544 3.66e+01 1thg c.69.1.17 34763 1sviA 195 3.71e+01 c.37.1.8 106048 1m5q1 130 3.73e+01 1rvgA 305 3.76e+01 c.1.10.2 97920 1i2sA 282 3.77e+01 e.3.1.1 71104 1swvA 267 3.79e+01 1wmaA 276 3.81e+01 1rdfA 267 3.82e+01 c.108.1.3 104884 1fr2B 134 3.86e+01 d.4.1.1 83257 1qr0A 228 3.88e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1s2xA 206 3.89e+01 a.47.3.1 105229 1idrA 136 3.89e+01 1dlyA a.1.1.1 62301 1m2kA 249 3.97e+01 c.31.1.5 84754 4ubpA 101 3.97e+01 1ubpA d.8.1.1 37352 1g5hA 454 3.98e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1iseA 185 4.02e+01 d.67.3.1 90691 1v58A 241 4.03e+01 c.47.1.9,d.17.3.1 108371,108372 1t7lA 766 4.07e+01 1bco 327 4.07e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1nh8A 304 4.16e+01 c.94.1.1,d.58.5.3 80507,80508 1nmeA 146 4.20e+01 c.17.1.1 85874 1qusA 322 4.21e+01 1ltm d.2.1.6 36991 1jq5A 370 4.26e+01 e.22.1.2 67084 1aop 497 4.27e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1khbA 625 4.30e+01 c.91.1.1,c.109.1.1 68606,68607 1dvkA 173 4.32e+01 1dvkA a.72.1.1 18319 1gtkA 313 4.44e+01 c.94.1.1,d.50.2.1 76346,76347 1oaa 259 4.48e+01 1oaa c.2.1.2 29829 1v2zA 111 4.51e+01 a.186.1.1 108300 1a8y 367 4.58e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1m98A 317 4.61e+01 a.175.1.1,d.17.4.6 78866,78867 1goiA 499 4.61e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1r1tA 122 4.63e+01 a.4.5.5 104769 1faaA 124 4.65e+01 1erv c.47.1.1 32738 1g2nA 264 4.67e+01 1lbd a.123.1.1 60227 1mg7A 417 4.72e+01 d.14.1.6,d.58.26.6 84954,84955 1r6fA 310 4.76e+01 e.46.1.1 97149 1o69A 394 4.80e+01 c.67.1.4 92560 1mrzA 293 4.81e+01 b.43.5.1,c.26.1.3 91452,91453 1sqeA 109 4.82e+01 d.58.4.5 105908 1syyA 346 4.82e+01 a.25.1.2 106126 1rqjA 299 4.86e+01 a.128.1.1 97744 1n5uA 585 4.87e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 1orrA 347 4.88e+01 c.2.1.2 93460 1ii7A 333 4.92e+01 1ii7A d.159.1.4 62415 1r0pA 312 4.96e+01 d.144.1.7 96734 1ogsA 497 5.01e+01 b.71.1.2,c.1.8.3 86997,86998 1s2wA 295 5.07e+01 c.1.12.7 98407 1guzA 310 5.12e+01 c.2.1.5,d.162.1.1 65586,65587 1rz2A 254 5.17e+01 b.100.1.1 105130 1b0nA 111 5.18e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1t94A 459 5.18e+01 d.240.1.1,e.8.1.7 106701,106702 1qh8B 519 5.20e+01 1qguB c.92.2.3 35634 1ignA 246 5.24e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1yqhA 109 5.24e+01 1j1nA 492 5.26e+01 c.94.1.1 83978 1rhcA 330 5.32e+01 c.1.16.3 97468 1mkiA 330 5.38e+01 e.3.1.2 84994 1mun 225 5.41e+01 1mun a.96.1.2 18744 1d0qA 103 5.42e+01 1d0qA g.41.3.2 45208 1it2A 146 5.43e+01 a.1.1.2 66365 1vl1A 232 5.51e+01 c.124.1.1 108707 1oi0A 124 5.56e+01 c.97.3.1 93045 2gf9A 189 5.57e+01 1m2xA 223 5.58e+01 d.157.1.1 84764 1h1yA 228 5.58e+01 c.1.2.2 76506 1ja1A 622 5.69e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1edt 271 5.73e+01 2ebn c.1.8.5 28993 1na6A 404 5.76e+01 b.142.1.1,c.52.1.22 91748,91749 2gefA 217 5.81e+01 1ygtA 111 5.82e+01 1cjcA 460 5.83e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1g8mA 593 5.83e+01 1g8mA c.24.1.3,c.97.2.1 60371,60372 1pieA 419 5.84e+01 d.14.1.5,d.58.26.7 94706,94707 1mtyB 384 5.87e+01 1mtyB a.25.1.2 16740 1j1jA 240 5.91e+01 a.118.16.1 90762 1j6wA 175 6.06e+01 1j98A d.185.1.2 62663 1m1hA 248 6.11e+01 b.114.1.1,d.58.42.1 78415,78416 1tadA 324 6.11e+01 1cipA a.66.1.1,c.37.1.8 18194,32077 1w2yA 229 6.17e+01 a.204.1.1 109140 1dc1A 323 6.19e+01 1dc1A c.52.1.11 33321 1pmzA 86 6.27e+01 a.39.1.10 104195 1rxyA 253 6.34e+01 c.56.2.1 98065 1qpcA 279 6.38e+01 1fgkA d.144.1.7 41685 1p4oA 322 6.40e+01 d.144.1.7 87775 1ikpA 613 6.41e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1k38A 254 6.58e+01 e.3.1.1 84303 1dceA 567 6.69e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1psyA 125 6.76e+01 a.52.1.3 95081 1p2fA 220 6.85e+01 a.4.6.1,c.23.1.1 87720,87721 1oshA 232 6.92e+01 a.123.1.1 93496 1u84A 90 6.93e+01 1gg4A 452 6.95e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 2lisA 136 6.96e+01 1lis a.19.1.1 16405 1o97C 264 6.97e+01 c.26.2.3 81232 1wy2A 351 7.14e+01 1o1xA 155 7.14e+01 c.121.1.1 86553 1q77A 138 7.18e+01 c.26.2.4 96023 1qf5A 431 7.21e+01 1adeA c.37.1.10 32212 1obdA 306 7.24e+01 d.143.1.1 86767 2ck3A 510 7.38e+01 1lf7A 182 7.44e+01 b.60.1.1 73878 1qo7A 394 7.48e+01 1qo7A c.69.1.11 34697 1dpe 507 7.55e+01 1dpe c.94.1.1 35799 1t95A 240 7.56e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1hlb 158 7.56e+01 1hlb a.1.1.2 15625 1cfzA 162 7.59e+01 1cfzA c.56.1.1 33754 1g94A 448 7.63e+01 b.71.1.1,c.1.8.1 65169,65170 1kamA 194 7.64e+01 c.26.1.3 72254 1oksA 56 7.65e+01 a.8.5.1 93271 1sziA 247 7.66e+01 a.24.23.1 106159 1itbB 315 7.67e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 1aa7A 158 7.70e+01 1aa7A a.95.1.1 18741 1fpoA 171 7.71e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1iioA 84 7.72e+01 a.39.4.1 66150 1gqzA 274 7.78e+01 d.21.1.1,d.21.1.1 83311,83312 1h6gA 256 7.83e+01 1h6gA a.24.9.1,a.24.9.1 60669,60670 2gkeA 274 7.86e+01 1d3bB 91 7.88e+01 1d3bB b.38.1.1 24804 1kkhA 317 7.89e+01 d.14.1.5,d.58.26.3 72645,72646 1vfjA 116 7.90e+01 1sw5A 275 7.93e+01 c.94.1.1 106069 1n1fA 159 7.94e+01 a.26.1.3 79803 1kjqA 391 7.97e+01 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1g24A 211 8.13e+01 1g24A d.166.1.1 42270 1oe1A 336 8.13e+01 b.6.1.3,b.6.1.3 86891,86892 1e6yC 247 8.16e+01 1mroC d.58.31.1 39441 1jv1A 505 8.20e+01 c.68.1.5 71892 1jae 471 8.22e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1qqrA 138 8.25e+01 1bmlC d.15.5.1 37721 1dtdA 303 8.28e+01 1aye c.56.5.1 33823 1h9oA 112 8.39e+01 1qadA d.93.1.1 60837 1ntyA 311 8.51e+01 a.87.1.1,b.55.1.1 103873,103874 1nlnA 204 8.57e+01 d.3.1.7 91962 1ffyA 917 8.58e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1jf3A 147 8.59e+01 a.1.1.2 71642 3sdhA 146 8.63e+01 3sdhA a.1.1.2 14984 1bg2 325 8.76e+01 1bg2 c.37.1.9 32189 1nbuA 119 8.77e+01 d.96.1.3 91767 1li4A 432 8.77e+01 c.2.1.4,c.23.12.3 84616,84617 1mw9X 592 8.80e+01 e.10.1.1 91480 1h97A 147 8.82e+01 1h97A a.1.1.2 60812 1ct9A 553 8.86e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1a3aA 148 8.88e+01 1a3aA d.112.1.1 40917 1t46A 313 8.90e+01 d.144.1.7 106397 1rh9A 373 8.92e+01 1jixA 351 8.99e+01 1c3jA c.87.1.1 63081 1irdB 146 9.00e+01 a.1.1.2 66287