# List of top-scoring protein chains for t06-100-30-stride-ebghtl-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 1fgkA 310 6.67e-48 1fgkA d.144.1.7 41693 1p4oA 322 9.17e-48 d.144.1.7 87775 1gz8A 299 3.68e-46 d.144.1.7 83405 2evaA 307 5.42e-45 1rdqE 350 7.47e-45 d.144.1.7 97314 1ia8A 289 2.32e-42 1ia8A d.144.1.7 62112 1t4hA 290 1.41e-41 d.144.1.7 106420 1j1bA 420 1.62e-39 d.144.1.7 90758 2bikB 313 2.10e-39 1z57A 339 1.66e-38 1csn 298 2.66e-31 1csn d.144.1.7 41664 1e7uA 961 1.79e-04 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1e8yA 966 2.59e-03 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1b8aA 438 4.05e-01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1hzdA 272 4.15e-01 c.14.1.3 65969 1i2sA 282 6.86e-01 e.3.1.1 71104 1e8aA 91 7.15e-01 1b4cA a.39.1.2 17188 1cjcA 460 8.03e-01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1je0A 236 8.92e-01 c.56.2.1 66581 1cjaA 342 1.22e+00 1cjaA d.144.1.3 41708 1n4wA 504 1.34e+00 c.3.1.2,d.16.1.1 91676,91677 1hzoA 271 1.37e+00 e.3.1.1 71092 1gw5S 142 1.62e+00 d.110.4.2 70633 1m40A 263 1.70e+00 e.3.1.1 74437 1fs5A 266 1.71e+00 c.124.1.1 65044 1tvxA 75 2.07e+00 1tvxA d.9.1.1 37441 1w1oA 534 2.32e+00 d.58.32.4,d.145.1.1 109071,109072 1a9xA 1058 2.37e+00 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1whzA 70 2.58e+00 1huxA 270 2.70e+00 1huxA c.55.1.5 61278 2gk9A 426 2.72e+00 1c93A 265 2.94e+00 2ebn c.1.8.5 28998 1f8rA 498 3.24e+00 1f8rA c.3.1.2,d.16.1.5 30410,37974 1eyeA 280 3.51e+00 1aj2 c.1.21.1 29672 1cs0A 1073 3.57e+00 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1epxA 370 3.99e+00 1fbaA c.1.10.1 29150 1edt 271 4.21e+00 2ebn c.1.8.5 28993 1v2bA 177 4.27e+00 d.107.1.2 108279 1f3vA 179 4.50e+00 1f3vA d.58.22.1 39382 1x8vA 455 4.92e+00 1g6aA 271 4.95e+00 1btl e.3.1.1 42704 1kw4A 89 5.01e+00 a.60.1.2 73077 1dv1A 449 5.04e+00 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1bsg 266 5.06e+00 1btl e.3.1.1 42729 1vyrA 364 5.28e+00 c.1.4.1 108906 1dtdA 303 5.36e+00 1aye c.56.5.1 33823 1nykA 165 5.41e+00 b.33.1.1 86408 1dzkA 157 5.48e+00 1obpA b.60.1.1 27096 1bueA 265 5.56e+00 1btl e.3.1.1 42727 1k07A 263 5.71e+00 d.157.1.1 77218 1btkA 169 6.54e+00 1btkA b.55.1.1 26959 1bjt 793 6.78e+00 1bjt e.11.1.1 43249 1e2kA 331 6.84e+00 1qhiA c.37.1.1 31854 1e4fT 419 6.99e+00 1e4fT c.55.1.1,c.55.1.1 33453,33454 1r89A 437 7.37e+00 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1jl2A 156 7.49e+00 c.55.3.1 66822 1gnlA 544 7.72e+00 e.26.1.1 70287 1bqcA 302 8.22e+00 1bqcA c.1.8.3 28831 2pth 193 8.45e+00 2pth c.56.3.1 33793 1jb3A 131 8.87e+00 1jc7A b.40.3.2 62833 1guiA 155 9.06e+00 b.18.1.14 76351 1kid 203 9.16e+00 1derA c.8.5.1 30771 1kjwA 295 9.19e+00 b.34.2.1,c.37.1.1 68643,68644 1w2fA 276 9.32e+00 d.143.1.3 109125 1oboA 169 9.37e+00 c.23.5.1 86776 1woqA 267 9.40e+00 c.55.1.10,c.55.1.10 109462,109463 1omrA 201 9.77e+00 a.39.1.5 93349 1inlA 296 1.02e+01 c.66.1.17 66220 1bupA 386 1.11e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1iy8A 267 1.20e+01 c.2.1.2 83774 1eu8A 409 1.22e+01 1eu8A c.94.1.1 59502 1ju3A 583 1.28e+01 b.18.1.13,c.69.1.21 67300,67301 1oywA 523 1.31e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1jssA 224 1.40e+01 d.129.3.2 71844 1rl0A 255 1.40e+01 1b8oA 284 1.43e+01 1b8oA c.56.2.1 33762 1kq3A 376 1.54e+01 e.22.1.2 68790 1ia9A 280 1.55e+01 1ia9A d.144.1.5 62113 1ii7A 333 1.56e+01 1ii7A d.159.1.4 62415 1kolA 398 1.59e+01 b.35.1.2,c.2.1.1 77474,77475 1v8yA 170 1.62e+01 1rm6A 769 1.62e+01 1byfA 125 1.64e+01 1byfA d.169.1.1 42419 1e25A 282 1.65e+01 1e25A e.3.1.1 42731 1c75A 71 1.71e+01 451c a.3.1.1 15796 1qgiA 259 1.71e+01 1qgiA d.2.1.7 37001 1h99A 224 1.73e+01 a.142.1.1,a.142.1.1 60814,60815 1gvnB 287 1.75e+01 c.37.1.21 76354 1m15A 357 1.76e+01 a.83.1.1,d.128.1.2 78368,78369 1oc7A 364 1.80e+01 c.6.1.1 86794 1ryiA 382 1.83e+01 1y0hA 105 1.85e+01 1uzvA 114 1.87e+01 1ggzA 148 1.90e+01 a.39.1.5 70176 1dcoA 104 1.93e+01 1dcpA d.74.1.1 39680 1j6qA 136 1.94e+01 b.40.9.1 77091 1q52A 314 1.96e+01 c.14.1.3 95846 1icpA 376 1.99e+01 1oyc c.1.4.1 62270 1dsxA 87 2.00e+01 1t1dA d.42.1.2 38644 1dqaA 467 2.01e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1qsgA 265 2.03e+01 1eny c.2.1.2 29935 2dfkA 402 2.07e+01 1gveA 327 2.08e+01 c.1.7.1 70597 1w6uA 302 2.08e+01 1pdo 135 2.08e+01 1pdo c.54.1.1 33376 1z8kA 193 2.09e+01 1p6oA 161 2.10e+01 c.97.1.2 94185 1g8iA 190 2.12e+01 1rec a.39.1.5 60363 1jw9B 249 2.13e+01 c.111.1.1 67377 1t1dA 100 2.24e+01 1t1dA d.42.1.2 38637 1qnrA 344 2.25e+01 1qnoA c.1.8.3 28834 1ew6A 137 2.26e+01 1ewaA a.1.1.2 15637 1usgA 346 2.27e+01 c.93.1.1 99864 1gtfA 74 2.28e+01 b.82.5.1 70460 1ako 268 2.39e+01 1ako d.151.1.1 41779 1j1iA 296 2.40e+01 c.69.1.10 83977 1ooyA 481 2.41e+01 c.124.1.3,c.124.1.2 93388,93389 1jqnA 883 2.52e+01 c.1.12.3 77159 2gfaA 119 2.59e+01 1fmcA 255 2.66e+01 1cydA c.2.1.2 29856 1xkzA 255 2.67e+01 1g5cA 170 2.68e+01 1g5cA c.53.2.1 60264 1qgvA 142 2.68e+01 1qgvA c.47.1.8 33056 1em2A 229 2.70e+01 1em2A d.129.3.2 41321 1wnaA 131 2.71e+01 1f2tA 149 2.73e+01 1f2tA c.37.1.12 32373 2dpmA 284 2.75e+01 2dpmA c.66.1.28 34246 1q7zA 566 2.76e+01 c.1.21.2,c.1.26.1 96090,96091 1a99A 344 2.81e+01 1pot c.94.1.1 35812 1j55A 95 2.81e+01 a.39.1.2 77078 1bgp 309 2.84e+01 1bgp a.93.1.1 18690 1b4pA 217 2.92e+01 a.45.1.1,c.47.1.5 83158,83159 1r2qA 170 2.98e+01 c.37.1.8 96874 1dzlA 505 3.06e+01 1dzlA b.121.6.1 23586 1eljA 381 3.06e+01 4mbp c.94.1.1 35791 1g0sA 209 3.06e+01 1g0sA d.113.1.1 60187 1wwzA 159 3.18e+01 1oafA 261 3.19e+01 a.93.1.1 86734 1ji1A 637 3.25e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1uebA 184 3.28e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1d5rA 324 3.33e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1szhA 161 3.40e+01 a.226.1.1 106157 1ryaA 160 3.41e+01 d.113.1.5 105122 1cf7B 95 3.41e+01 1cf7B a.4.5.17 16152 1apyA 162 3.42e+01 1apyA d.153.1.5 42004 1g8sA 230 3.43e+01 c.66.1.3 90507 1tw6A 133 3.44e+01 1vpt 348 3.46e+01 3mag c.66.1.25 34207 1e8gA 560 3.47e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1i27A 73 3.52e+01 1i27A a.4.5.30 61555 1hztA 190 3.56e+01 1i9aA d.113.1.2 61459 1ek0A 170 3.60e+01 1ctqA c.37.1.8 32076 1ifqA 138 3.60e+01 1ifqA d.110.4.1 62350 1dkzA 219 3.64e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1jl1A 155 3.67e+01 c.55.3.1 66821 1i6aA 219 3.68e+01 c.94.1.1 61827 3bamA 213 3.69e+01 1bam c.52.1.3 33288 1ea7A 310 3.69e+01 c.41.1.1 70086 1x8qA 184 3.70e+01 1fxkC 133 3.77e+01 1fxkC a.2.5.1 15702 1sfxA 109 3.78e+01 a.4.5.50 105505 1kr4A 125 3.80e+01 d.58.5.2 72889 7a3hA 303 3.88e+01 7a3hA c.1.8.3 28817 1d9cA 121 3.88e+01 1d9cA a.26.1.3 16901 1e5pA 151 3.91e+01 1bj7 b.60.1.1 59272 1gk9A 260 3.93e+01 d.153.1.2 65246 1qtnA 164 3.94e+01 1pauA c.17.1.1 30999 1xx1A 285 4.06e+01 1lyvA 306 4.08e+01 c.45.1.2 74348 1q8fA 313 4.10e+01 c.70.1.1 96203 1mtzA 293 4.12e+01 c.69.1.7 79467 1wp5A 323 4.14e+01 1qwyA 291 4.15e+01 b.84.3.2 96509 1clc 639 4.15e+01 1clc a.102.1.2,b.1.18.2 18835,21872 1uekA 275 4.30e+01 d.14.1.5,d.58.26.5 88483,88484 1oxjA 173 4.35e+01 a.60.1.2,a.118.1.13 87517,87518 1qq5A 253 4.41e+01 1qq5A c.108.1.1 43327 1gegA 256 4.42e+01 1ybvA c.2.1.2 29888 1hxhA 253 4.45e+01 c.2.1.2 76725 1juhA 350 4.46e+01 b.82.1.5 71884 1b5pA 385 4.47e+01 c.67.1.1 90403 1xszA 356 4.48e+01 1xfsA 178 4.53e+01 d.129.3.5 109589 1vhwA 253 4.59e+01 c.56.2.1 100706 1jfrA 262 4.65e+01 1jfrA c.69.1.16 34724 1cxzB 86 4.69e+01 1cxzB a.2.6.1 15705 1ej6D 418 4.77e+01 i.7.1.1 45970 1enfA 212 4.80e+01 3seb b.40.2.2,d.15.6.1 25198,37787 1kwfA 363 4.86e+01 a.102.1.2 73078 1chuA 540 4.87e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1czaN 917 4.88e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1m4lA 307 4.92e+01 c.56.5.1 78604 1rh6A 55 4.96e+01 a.6.1.7 104935 1j98A 157 4.96e+01 1j98A d.185.1.2 62755 1xkpB 124 5.00e+01 1wddS 128 5.07e+01 1o7nA 449 5.16e+01 b.33.1.2,d.129.3.3 81162,81163 1j7gA 144 5.25e+01 c.110.1.1 84130 1p0zA 131 5.31e+01 d.110.6.1 93882 1vmeA 410 5.36e+01 c.23.5.1,d.157.1.3 108893,108894 1cojA 212 5.36e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1io0A 185 5.38e+01 c.10.1.1 76753 1x74A 360 5.38e+01 1qksA 567 5.39e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1k94A 165 5.44e+01 a.39.1.8 68333 1f0lA 535 5.46e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1t6cA 315 5.49e+01 c.55.1.8,c.55.1.8 106558,106559 1g6hA 257 5.65e+01 1gajA c.37.1.12 60318 1aj2 282 5.67e+01 1aj2 c.1.21.1 29665 1gk8A 475 5.77e+01 c.1.14.1,d.58.9.1 65234,65235 1gky 187 5.83e+01 1gky c.37.1.1 31839 1i76A 163 5.85e+01 1hfc d.92.1.11 61877 1dciA 275 5.87e+01 1dciA c.14.1.3 30918 1u4gA 301 5.87e+01 d.92.1.2 107670 1hp8 68 5.92e+01 1hp8 a.17.1.1 16399 1rg8A 146 5.93e+01 1f7lA 121 5.97e+01 1f7lA d.150.1.2 59666 1tu9A 134 6.01e+01 a.1.1.2 107320 1gz2A 142 6.11e+01 d.169.1.1 83392 1bif 469 6.14e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1wddA 477 6.17e+01 1a0p 290 6.23e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 1h3gA 601 6.24e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1cydA 244 6.28e+01 1cydA c.2.1.2 29825 1s95A 333 6.32e+01 d.159.1.3 105375 1o08A 221 6.37e+01 c.108.1.6 86525 1o97D 320 6.37e+01 c.26.2.3,c.31.1.2 81233,81234 1w3iA 293 6.39e+01 c.1.10.1 109152 1c7sA 858 6.45e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1cp2A 269 6.55e+01 1cp2A c.37.1.10 32269 1ihgA 370 6.55e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 1ls1A 295 6.66e+01 a.24.13.1,c.37.1.10 78170,78171 1j93A 353 6.81e+01 c.1.22.1 66454 1l8bA 190 6.90e+01 d.86.1.1 73683 1eejA 216 6.95e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1v30A 124 7.04e+01 1jtvA 327 7.07e+01 c.2.1.2 84230 1gvfA 286 7.15e+01 c.1.10.2 70599 1yx1A 264 7.26e+01 1bea 127 7.32e+01 1bea a.52.1.2 17826 1dvoA 152 7.34e+01 1dvoA a.136.1.1 19623 1dbqA 289 7.36e+01 1qpzA c.93.1.1 35666 1dceB 331 7.41e+01 1dceB a.102.4.3 18872 1g0oA 283 7.42e+01 1ybvA c.2.1.2 60181 1yacA 208 7.45e+01 1yacA c.33.1.3 31757 1k92A 455 7.48e+01 c.26.2.1,d.210.1.1 68325,68326 1fiqB 350 7.52e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 1d7uA 433 7.55e+01 2dkb c.67.1.4 34439 1gpiA 431 7.67e+01 b.29.1.10 65450 1vlyA 338 7.68e+01 b.44.2.1,d.250.1.1 108871,108872 1cliA 345 7.78e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1i4wA 353 7.79e+01 c.66.1.24 66028 1pwgA 349 7.80e+01 e.3.1.1 104340 1gheA 177 7.90e+01 d.108.1.1 76222 1ghpA 258 7.97e+01 1btl e.3.1.1 60520 1x7dA 350 8.00e+01 1jmxA 494 8.06e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1h6kA 757 8.16e+01 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 1oi7A 288 8.17e+01 c.2.1.8,c.23.4.1 87049,87050 1y0yA 353 8.34e+01 1njhA 119 8.50e+01 b.128.1.1 85787 1cn3F 29 8.50e+01 1n13B 113 8.51e+01 1rwiA 270 8.64e+01 b.68.9.1 97987 1gnkA 112 8.67e+01 2pii d.58.5.1 39073 1vcaA 202 8.69e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1hm9A 468 8.70e+01 b.81.1.4,c.68.1.5 65866,65867 1i9zA 347 8.82e+01 1i9yA d.151.1.2 62102 1j0hA 588 8.85e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1h9dB 134 8.99e+01 2jhbA b.54.1.1 60822