# List of top-scoring protein chains for t04-100-30-bys-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 1eu8A 409 3.21e-01 1eu8A c.94.1.1 59502 1d3gA 367 3.94e-01 1d3gA c.1.4.1 28600 1md6A 154 4.62e-01 b.42.1.2 91242 2cqeA 98 9.14e-01 2b0mA 393 1.02e+00 1kcfA 258 1.10e+00 a.140.2.1,c.55.3.7 68434,68435 1e3aB 560 1.50e+00 1ajqB 1n08A 163 1.63e+00 b.43.5.1 79730 1gk9B 557 1.69e+00 1e0cA 271 1.94e+00 1e0cA c.46.1.2,c.46.1.2 32717,32718 1yvvA 336 2.10e+00 1a65A 504 2.37e+00 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 2fe5A 94 2.78e+00 1uumA 372 3.23e+00 c.1.4.1 100010 1hfuA 503 3.27e+00 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1wtaA 275 3.64e+00 1mtyD 512 4.35e+00 1mhyD a.25.1.2 16742 1cpo 299 4.41e+00 1cpo a.39.3.1,a.39.3.1 17390,17391 1twyA 290 4.47e+00 4ubpB 126 4.71e+00 1ubpB b.85.3.1 28345 2az4A 429 4.74e+00 1l6pA 125 4.81e+00 b.1.17.1 73626 1rf6A 427 4.87e+00 d.68.2.2 97366 1eajA 126 5.03e+00 1f5wA b.1.1.1 59401 1sqjA 789 5.25e+00 b.69.13.1,b.69.13.1 105918,105919 1h2rS 267 5.89e+00 2frvA e.19.1.1 43310 1ilr1 152 7.39e+00 1irp 1y71A 130 7.46e+00 1j55A 95 7.75e+00 a.39.1.2 77078 1qwtA 255 7.81e+00 b.26.1.3 96501 1u6zA 513 8.27e+00 1wuiS 267 8.47e+00 1u3oA 82 8.79e+00 1bf5A 545 9.27e+00 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1oa4A 222 9.40e+00 b.29.1.11 86731 1o6dA 163 9.64e+00 c.116.1.3 92567 1ubkS 267 9.64e+00 e.19.1.1 88423 2gkeA 274 9.85e+00 1e9gA 286 9.88e+00 1wgjA b.40.5.1 59393 1gqzA 274 1.03e+01 d.21.1.1,d.21.1.1 83311,83312 2awfA 172 1.08e+01 1vqqA 646 1.10e+01 1oqvA 192 1.13e+01 d.24.1.2 87320 2evrA 246 1.14e+01 1mhyD 521 1.23e+01 1mhyD a.25.1.2 16780 2a1vA 144 1.25e+01 1tv9A 335 1.26e+01 1lkqA 21 1.28e+01 1sx5A 244 1.31e+01 c.52.1.2 99023 1xmkA 79 1.41e+01 1qynA 153 1.41e+01 d.33.1.1 96597 1j2gA 319 1.44e+01 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 1pwhA 327 1.49e+01 c.79.1.1 95224 1gcb 454 1.50e+01 3gcb d.3.1.1 37034 1tueA 212 1.52e+01 c.37.1.20 107323 2fy6A 143 1.55e+01 1bpyA 335 1.59e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 1fezA 256 1.60e+01 1fezA c.108.1.3 43343 1xsnA 335 1.62e+01 2tmdA 729 1.63e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 2cblA 305 1.71e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1djqA 729 1.72e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 2i1b 153 1.74e+01 2i1b b.42.1.2 25538 1qsgA 265 1.74e+01 1eny c.2.1.2 29935 1wsrA 375 1.79e+01 1e3dA 266 1.80e+01 2frvA e.19.1.1 59188 1fi8A 228 1.83e+01 5ptp b.47.1.2 26374 1wmxA 205 1.84e+01 b.18.1.24 109418 1xzzA 246 1.86e+01 1jjzA 29 1.87e+01 g.3.3.1 71699 1zc1A 208 1.90e+01 2azwA 148 2.07e+01 1bwzA 274 2.08e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1tit 98 2.11e+01 1tit b.1.1.4 21716 1wyxA 69 2.11e+01 1djnA 729 2.24e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28612,30313,30598 1os8A 223 2.24e+01 b.47.1.1 93481 1o94A 729 2.25e+01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1pfzA 380 2.31e+01 1smrA b.50.1.2 26881 2rn2 155 2.35e+01 2rn2 c.55.3.1 33551 3gcb 470 2.43e+01 3gcb d.3.1.1 37032 1led 243 2.47e+01 1led b.29.1.1 24039 1nb9A 147 2.73e+01 b.43.5.1 85515 2gcfA 73 2.74e+01 2bjfA 329 2.75e+01 1rztA 331 2.87e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 2rslA 140 2.91e+01 2rslA c.53.1.1 33345 1tr7A 164 2.93e+01 1q45A 391 2.93e+01 c.1.4.1 95780 1deuA 277 2.94e+01 1theB d.3.1.1 37085 1lo6A 223 2.97e+01 b.47.1.2 74143 1rvkA 382 2.98e+01 c.1.11.2,d.54.1.1 97928,97929 1cmiA 85 3.11e+01 1cmiA d.39.1.1 38551 2fmpA 335 3.18e+01 1rvaA 244 3.28e+01 1rvaA c.52.1.2 33240 2a8yA 270 3.32e+01 2d3jA 157 3.39e+01 1wzzA 334 3.42e+01 1s1hM 132 3.43e+01 i.1.1.1 105165 1iohA 21 3.46e+01 1wojA 214 3.47e+01 1pufA 77 3.49e+01 a.4.1.1 95131 1rqlA 267 3.50e+01 c.108.1.3 97750 1l7dA 384 3.54e+01 c.2.1.4,c.23.12.2 77774,77775 2bv5A 282 3.56e+01 2bcqA 335 3.56e+01 1na6A 404 3.59e+01 b.142.1.1,c.52.1.22 91748,91749 1bs0A 384 3.59e+01 1bs0A c.67.1.4 34490 1dp4A 435 3.60e+01 1dp4A c.93.1.1 35710 1btl 263 3.63e+01 1btl e.3.1.1 42691 2fdbM 164 3.75e+01 1uwcA 261 3.75e+01 c.69.1.17 100101 1i7oA 429 3.88e+01 1i7oA d.177.1.1,d.177.1.1 61893,61894 1hn3A 40 3.89e+01 j.91.1.1 65892 1nw1A 429 3.99e+01 d.144.1.8 86286 1qwoA 442 4.01e+01 c.60.1.2 104620 1pidA 21 4.02e+01 1paz 123 4.04e+01 1bqk b.6.1.1 22878 1jznA 135 4.05e+01 d.169.1.1 84262 1jhnA 424 4.06e+01 b.104.1.1,b.29.1.12 66722,70060 1tkjA 284 4.11e+01 1vkpA 383 4.15e+01 d.126.1.6 108686 1gttA 429 4.17e+01 d.177.1.1,d.177.1.1 70529,70530 1q4vA 21 4.31e+01 2a6aA 218 4.37e+01 2covD 104 4.44e+01 1nt0A 286 4.53e+01 b.23.1.1,b.23.1.1,g.3.11.1 86143,86144,86145 2bjhA 260 4.58e+01 1avwB 171 4.60e+01 1wba b.42.4.1 25599 1ji6A 589 4.82e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1f1zA 273 4.83e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1ton 235 4.83e+01 5ptp b.47.1.2 26307 1cskA 71 4.84e+01 1ckaA b.34.2.1 24513 1edqA 540 4.90e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1zgoA 223 4.90e+01 1ctn 540 4.94e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 1ypqA 135 4.97e+01 1ivyA 452 5.00e+01 1ivyA c.69.1.5 34654 1guiA 155 5.11e+01 b.18.1.14 76351 1egiA 147 5.11e+01 1eggA d.169.1.1 42331 1reoA 486 5.13e+01 c.3.1.2,d.16.1.5 97325,97326 1sgt 223 5.15e+01 5ptp b.47.1.1 25814 1yvhA 329 5.26e+01 1r1gA 31 5.27e+01 g.3.7.2 96816 1yqzA 438 5.28e+01 1f8gA 384 5.29e+01 1sayA c.2.1.4,c.23.12.2 59695,59696 1hhsA 664 5.30e+01 1hi0P e.8.1.6 61045 1tf9A 284 5.34e+01 1e0nA 27 5.35e+01 b.72.1.1 27807 1zy1B 197 5.39e+01 2crbA 97 5.44e+01 1o7nA 449 5.44e+01 b.33.1.2,d.129.3.3 81162,81163 1w6vA 141 5.45e+01 1uvjA 664 5.46e+01 e.8.1.6 100045 1xjo 284 5.48e+01 1xjo c.56.5.4 33843 1yrrA 382 5.60e+01 2bijA 305 5.60e+01 1m1hA 248 5.60e+01 b.114.1.1,d.58.42.1 78415,78416 1fo4A 1332 5.69e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1wlpB 138 5.71e+01 2bkaA 242 5.72e+01 1rweA 21 5.72e+01 1pm4A 119 5.72e+01 b.135.1.1 94891 3cox 507 5.81e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1no1A 126 5.84e+01 a.179.1.1 85913 1ei9A 279 5.86e+01 1ei9A c.69.1.13 34713 1m40A 263 5.88e+01 e.3.1.1 74437 2bbhA 269 5.90e+01 1f2aA 215 6.01e+01 1cs8A d.3.1.1 37040 1msoA 21 6.06e+01 1ggxA 223 6.11e+01 1ggxA d.22.1.1 38367 1txyA 104 6.17e+01 2b1yA 104 6.17e+01 1ov3A 138 6.22e+01 b.34.2.1,b.34.2.1 87451,87452 1ermA 263 6.23e+01 1btl e.3.1.1 42690 1iz6A 138 6.24e+01 b.34.5.2,b.40.4.5 76976,76977 1reqA 727 6.25e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 2bmoA 447 6.32e+01 1hz4A 373 6.33e+01 a.118.8.2 65960 1r6vA 671 6.33e+01 1faoA 126 6.37e+01 1faoA b.55.1.1 26974 1flcB 175 6.39e+01 1flcB h.3.1.1 45716 1eg9A 449 6.41e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1bli 483 6.42e+01 1bli b.71.1.1,c.1.8.1 27715,28702 1y9iA 178 6.44e+01 1jcaA 21 6.44e+01 1aly 146 6.45e+01 1aly b.22.1.1 23856 2a72A 146 6.49e+01 1wznA 252 6.53e+01 1rhfA 182 6.54e+01 b.1.1.1,b.1.1.4 97469,97470 1yt8A 539 6.61e+01 1yo3A 102 6.67e+01 1c9kA 180 6.72e+01 1c9kB c.37.1.11 32363 1r4pA 297 6.73e+01 d.165.1.2 97025 2c0cA 362 6.74e+01 1wr3A 36 6.80e+01 1be9A 119 6.81e+01 1pdr b.36.1.1 24774 1ru0A 105 6.90e+01 1t0qA 498 6.97e+01 a.25.1.2 106220 2fcfA 103 7.07e+01 1y12A 165 7.07e+01 1oh0A 131 7.09e+01 d.17.4.3 87004 1i1qA 520 7.18e+01 1qdlA d.161.1.1 61543 5reqA 727 7.30e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 1eemA 241 7.34e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1i6pA 220 7.38e+01 1ddzA c.53.2.1 61848 1zxzA 197 7.43e+01 2anwA 241 7.43e+01 2fneA 117 7.48e+01 1ukmB 128 7.50e+01 d.169.1.1 99500 1qfoA 119 7.54e+01 1qfoA b.1.1.1 19708 1k3mA 21 7.57e+01 1i4mA 108 7.62e+01 d.6.1.1 66025 1o51A 114 7.63e+01 d.58.5.4 92480 2b7kA 200 7.69e+01 1amuA 563 7.71e+01 1amuA e.23.1.1 43351 1v97A 1332 7.73e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1g7aA 21 7.76e+01 1ivnA 190 7.85e+01 c.23.10.5 83719 1ls9A 91 7.89e+01 a.3.1.1 78177 1m5q1 130 7.95e+01 1uisA 231 7.99e+01 d.22.1.1 99431 1gvhA 396 8.00e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1p5hA 428 8.00e+01 c.123.1.1 87802 1swvA 267 8.03e+01 1kutA 230 8.04e+01 d.143.1.1 73017 1wcdJ 441 8.07e+01 1v1qA 134 8.08e+01 1ujmA 342 8.13e+01 1dcoA 104 8.15e+01 1dcpA d.74.1.1 39680 2g3aA 152 8.15e+01 1yge 839 8.21e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1u55A 188 8.28e+01 d.278.1.1 107677 1vlqA 337 8.40e+01 c.69.1.25 108848 1qunB 279 8.43e+01 b.2.3.2,b.2.3.2 22411,22412 1vk4A 298 8.50e+01 c.72.1.1 100850 1kamA 194 8.50e+01 c.26.1.3 72254 1b7gO 340 8.54e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1xg8A 111 8.63e+01 2fuvA 549 8.68e+01 1q7hA 153 8.69e+01 b.122.1.1,d.17.6.2 96042,96043 1othA 321 8.81e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1y1pA 342 8.95e+01 1evxA 162 8.95e+01 1a73A d.4.1.3 37149