# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1.38e-01 1wmaA 276 1.40e-01 1hu4A 288 3.72e-01 1hu4A 1n5dA 288 3.72e-01 c.2.1.2 80030 1sty 150 4.55e-01 1snc b.40.1.1 24812 1snc 149 4.61e-01 1snc b.40.1.1 24813 1regX 122 5.00e-01 1regX d.58.27.1 39406 1ey4A 149 5.58e-01 1snc b.40.1.1 24815 1t77A 414 6.02e-01 9apiA 347 1.13e+00 1ovaA e.1.1.1 42630 2ci1A 275 1.20e+00 1qlpA 394 1.28e+00 1ovaA e.1.1.1 42628 1jokA 149 1.44e+00 1snc b.40.1.1 63214 1f2tA 149 1.96e+00 1f2tA c.37.1.12 32373 2b9dA 52 2.53e+00 1c8oA 300 2.61e+00 1c8oA e.1.1.1 42677 2f9dA 125 2.81e+00 2bgkA 278 2.88e+00 1m4vA 204 3.09e+00 b.40.2.2,d.15.6.1 74459,74460 2bwnA 401 3.29e+00 1f0cA 305 3.65e+00 1c8oA e.1.1.1 42676 1xaoA 121 3.67e+00 2d4pA 141 4.39e+00 1m93B 245 4.60e+00 1us8A 147 4.63e+00 c.37.1.12 99859 2ew8A 249 4.80e+00 1wiwA 290 5.09e+00 1tzbA 302 5.41e+00 c.80.1.1 107470 1x9iA 302 5.43e+00 1tqhA 247 5.59e+00 c.69.1.29 107225 1zo0A 126 5.77e+00 1mpyA 307 5.96e+00 1mpyA d.32.1.3,d.32.1.3 38508,38509 1r1dA 247 6.11e+00 c.69.1.29 96813 1s2oA 244 6.83e+00 2aaa 484 7.30e+00 7taa b.71.1.1,c.1.8.1 27777,28764 1kq6A 141 8.29e+00 d.189.1.1 91020 1oz9A 150 8.56e+00 d.92.1.15 93808 2bd0A 244 8.58e+00 1o7kA 131 9.41e+00 d.189.1.1 81144 1hyt 316 9.64e+00 1hyt d.92.1.2 59005 6tmnE 316 9.64e+00 1hyt d.92.1.2 59071 8tlnE 316 9.64e+00 1hyt d.92.1.2 59075 1ash 150 9.66e+00 1ash a.1.1.2 15622 2tmnE 316 9.68e+00 1hyt d.92.1.2 59055 1keiA 316 9.94e+00 d.92.1.2 77349 1as4A 341 1.01e+01 1sek e.1.1.1 42623 2achA 360 1.01e+01 1c8oA e.1.1.1 42626 1j77A 209 1.08e+01 1j77A a.132.1.2 62674 1u5mA 73 1.10e+01 1c3hA 137 1.18e+01 b.22.1.1 90405 1gd5A 130 1.23e+01 1gd5A d.189.1.1 60439 1ek8A 185 1.33e+01 1ek8A d.67.3.1 59444 1wdyA 285 1.40e+01 2a0fA 310 1.47e+01 1c28A 135 1.51e+01 1c28A b.22.1.1 23857 1vcvA 226 1.52e+01 7taa 478 1.60e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1coaI 64 1.60e+01 2sniI d.40.1.1 38574 1g26A 31 1.66e+01 1g26A g.3.16.1 44381 1fe0A 68 1.79e+01 1cc8A d.58.17.1 39345 1iujA 106 1.80e+01 d.58.4.5 90701 3bamB 213 1.85e+01 1bam c.52.1.3 33289 1gn0A 108 1.88e+01 c.46.1.3 65358 1ws6A 171 1.95e+01 1ksfX 758 1.97e+01 a.174.1.1,c.37.1.20,c.37.1.20 77522,77523,77524 1ocsA 162 1.99e+01 d.189.1.1 92776 1jmaA 290 2.00e+01 b.1.1.1 63177 1g61A 228 2.02e+01 1g61A d.126.1.1 41126 1b2oA 54 2.05e+01 1rb9 g.41.5.1 45233 1z57A 339 2.07e+01 1b2jA 54 2.12e+01 1rb9 g.41.5.1 45231 2c36A 285 2.13e+01 1b13A 54 2.13e+01 1rb9 g.41.5.1 45227 1mtpA 323 2.14e+01 e.1.1.1 85107 1yj7A 171 2.17e+01 1bmv2 374 2.17e+01 1bmv2 1iseA 185 2.17e+01 d.67.3.1 90691 2fnjC 96 2.22e+01 1iro 54 2.27e+01 1rb9 g.41.5.1 45223 1cjcA 460 2.33e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 4rxn 54 2.37e+01 1rb9 g.41.5.1 45226 5rxn 54 2.37e+01 1rb9 g.41.5.1 45225 1bd8 156 2.40e+01 1bd8 d.211.1.1 19157 1at1A 310 2.45e+01 3csuA c.78.1.1,c.78.1.1 35168,35169 1k7kA 221 2.45e+01 c.51.4.1 72104 1z2wA 192 2.47e+01 1n40A 396 2.48e+01 a.104.1.1 79977 1ypcI 64 2.48e+01 2sniI d.40.1.1 38570 1vig 71 2.50e+01 1vih d.51.1.1 38806 2c07A 285 2.50e+01 1l0wA 580 2.51e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1mi1A 414 2.51e+01 a.169.1.1,b.55.1.6 79137,79138 1wxaA 116 2.58e+01 12asA 330 2.66e+01 12asA d.104.1.1 40783 1o57A 291 2.66e+01 a.4.5.40,c.61.1.1 92483,92484 1k8kB 394 2.67e+01 c.55.1.1 68307 1o26A 232 2.73e+01 d.207.1.1 86566 1jae 471 2.74e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1udxA 416 2.89e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1wimA 94 2.97e+01 1f8vA 355 3.00e+01 2bbvA b.121.4.4 23329 1t71A 281 3.02e+01 1ab5A 125 3.08e+01 3chy c.23.1.1 31056 2sns 149 3.13e+01 1snc b.40.1.1 24860 1jmoA 480 3.15e+01 e.1.1.1 77138 1vl8A 267 3.16e+01 c.2.1.2 108733 1gz6A 319 3.17e+01 c.2.1.2 76410 2ca6A 386 3.36e+01 1v5aA 28 3.44e+01 2csgA 424 3.53e+01 1ugpA 203 3.56e+01 d.149.1.1 107831 1wdtA 665 3.58e+01 1ireA 204 3.59e+01 d.149.1.1 76769 3cla 213 3.63e+01 3cla c.43.1.1 32610 1jg7A 351 3.66e+01 1c3jA c.87.1.1 62945 1l4aE 79 3.72e+01 h.1.15.1 73563 1s7kA 182 3.80e+01 1g59A 468 3.82e+01 a.97.1.1,c.26.1.1 60257,60258 1y60A 169 3.87e+01 1w24A 182 3.95e+01 1xg5A 279 4.01e+01 1vih 71 4.12e+01 1vih d.51.1.1 38807 1o4uA 285 4.15e+01 c.1.17.1,d.41.2.1 86624,86625 1snyA 267 4.18e+01 c.2.1.2 105833 1i3zA 103 4.20e+01 d.93.1.1 83667 2a1iA 146 4.22e+01 1ovqA 138 4.31e+01 c.55.3.8 93607 1yk4A 52 4.46e+01 1nzaA 103 4.49e+01 d.58.5.2 86444 1z5nA 242 4.50e+01 1ooeA 236 4.57e+01 c.2.1.2 87196 2d83A 363 4.58e+01 1k3tA 359 4.59e+01 c.2.1.3,d.81.1.1 72022,72023 2bbvA 363 4.60e+01 2bbvA b.121.4.4 23323 1m3sA 186 4.61e+01 c.80.1.3 78573 1xqaA 113 4.71e+01 1fx2A 235 4.71e+01 1fx2A d.58.29.1 39430 1se4 239 4.78e+01 3seb b.40.2.2,d.15.6.1 25187,37776 1jihA 531 4.78e+01 d.240.1.1,e.8.1.7 90374,90375 1lw6I 64 4.79e+01 d.40.1.1 74294 1f2vA 219 4.82e+01 1f2vA c.23.17.1 59627 1gu2A 124 4.95e+01 a.3.1.1 76348 1lb2B 84 4.97e+01 a.60.3.1 77871 1utaA 81 4.97e+01 d.58.52.1 108029 2gzqA 200 4.99e+01 3bamA 213 5.00e+01 1bam c.52.1.3 33288 1zw8A 64 5.13e+01 1jixA 351 5.23e+01 1c3jA c.87.1.1 63081 1ht6A 405 5.24e+01 b.71.1.1,c.1.8.1 83629,83630 1i1hA 219 5.27e+01 1f2vA c.23.17.1 61530 1ve3A 227 5.58e+01 2bduA 297 5.72e+01 1gxrA 337 5.77e+01 b.69.4.1 70722 1diwA 441 5.84e+01 1a8d b.29.1.6,b.42.4.2 24264,25609 2g09A 297 5.85e+01 1g9uA 454 5.87e+01 c.10.2.6 65172 1innA 166 5.88e+01 1j98A d.185.1.2 62608 1b12A 248 5.89e+01 1b12A b.87.1.2 28388 1vjeA 166 5.91e+01 d.185.1.2 100807 1brfA 53 5.94e+01 1rb9 g.41.5.1 45236 1coo 98 5.95e+01 1coo a.60.3.1 17967 1zymA 258 5.96e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1bq8A 54 5.97e+01 1rb9 g.41.5.1 45237 1bq9A 54 5.97e+01 1rb9 g.41.5.1 45238 1eza 259 5.98e+01 1zymA a.60.10.1,c.8.1.2 18113,30708 1jl5A 454 5.99e+01 c.10.2.6 66830 1mnzA 388 6.02e+01 c.1.15.3 79328 6rxn 46 6.07e+01 1rb9 g.41.5.1 45222 1a8d 452 6.23e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 2fb0A 94 6.24e+01 1odeA 122 6.34e+01 d.79.1.2 86846 1lgpA 116 6.38e+01 b.26.1.2 73890 1d0hA 469 6.41e+01 1a8d b.29.1.6,b.42.4.2 24265,25610 2f6sA 201 6.48e+01 2xis 387 6.49e+01 4xis c.1.15.3 29427 1xis 387 6.50e+01 4xis c.1.15.3 29422 4xis 387 6.50e+01 4xis c.1.15.3 29421 1sc3A 178 6.50e+01 c.17.1.1 105416 3xis 387 6.51e+01 4xis c.1.15.3 29423 1gmxA 108 6.56e+01 c.46.1.3 65355 1ob8A 135 6.62e+01 2g03A 194 6.64e+01 1h0hB 214 6.69e+01 d.58.1.5 76437 1hrhA 136 6.75e+01 1rthA c.55.3.1 33577 1yzxA 226 7.02e+01 1ibcA 194 7.15e+01 1pauA c.17.1.1 30997 1c3jA 351 7.15e+01 1c3jA c.87.1.1 35459 1xc3A 302 7.15e+01 1zosA 230 7.16e+01 3eipA 84 7.17e+01 3eipA d.26.2.1 38434 1ufyA 122 7.23e+01 d.79.1.2 88489 2bbvC 363 7.29e+01 2bbvA b.121.4.4 23325 1jsdA 319 7.29e+01 b.19.1.2 63258 1d5mC 239 7.31e+01 3seb b.40.2.2,d.15.6.1 25185,37774 1yr1A 119 7.37e+01 2bgu 351 7.37e+01 1c3jA c.87.1.1 35460 1lssA 140 7.39e+01 c.2.1.9 74246 1n7hA 381 7.48e+01 c.2.1.2 80250 1weyA 104 7.58e+01 2eifA 136 7.58e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1esgA 213 7.75e+01 1bam c.52.1.3 33286 1skz 119 7.81e+01 1skz g.3.15.1,g.3.15.1 44366,44367 1xg8A 111 7.81e+01 1vid 221 7.82e+01 1vid c.66.1.1 34178 2sniI 83 7.85e+01 2sniI d.40.1.1 38573 3seb 238 7.90e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1muwA 386 7.91e+01 c.1.15.3 79495 1aie 31 7.91e+01 1aie a.53.1.1 17829 1jnrA 643 7.95e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 2fjbA 643 8.03e+01 1bam 213 8.03e+01 1bam c.52.1.3 33285 1fshA 105 8.07e+01 1fshA a.4.5.31 60006 1h1dA 221 8.07e+01 c.66.1.1 83452 1y7bA 542 8.12e+01 2axyA 73 8.12e+01 1lea 84 8.18e+01 1lea a.4.5.2 16085 1y7mA 164 8.19e+01 1rdg 53 8.22e+01 1rb9 g.41.5.1 45221 1beg 98 8.23e+01 1bxm a.134.1.1 19620 1bm8 99 8.37e+01 1bm8 d.34.1.1 38528 8atcA 310 8.40e+01 3csuA c.78.1.1,c.78.1.1 35132,35133 1s5aA 150 8.49e+01 d.17.4.10 98525 1acmA 310 8.52e+01 3csuA c.78.1.1,c.78.1.1 35180,35181 1pieA 419 8.54e+01 d.14.1.5,d.58.26.7 94706,94707 1bqyA 234 8.69e+01 5ptp b.47.1.2 26332 1yovA 537 8.70e+01 3csuA 310 8.75e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1ihoA 283 8.77e+01 1ihoA c.26.1.4 62390 1ass 159 8.78e+01 1a6dA c.8.5.2 30818 1i8xA 30 8.86e+01 g.3.16.1 71132 1qa6A 67 8.88e+01 1qa6A a.4.7.1 16240 1ekxA 311 8.95e+01 3csuA c.78.1.1,c.78.1.1 35088,35089