# List of top-scoring protein chains for t04-100-30-bys 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 1ucsA 64 1.87e-05 b.85.1.1 88466 1hg7A 66 5.88e-04 1msi b.85.1.1 28280 1lfaA 187 7.62e-02 1ido c.62.1.1 34122 1jhgA 101 9.17e-02 1jhgA a.4.12.1 19009 1mjnA 179 1.19e-01 c.62.1.1 79210 1vjeA 166 8.69e-01 d.185.1.2 -10261 1bo4A 168 9.94e-01 1bo4A d.108.1.1 40798 1ml9A 302 1.05e+00 b.85.7.1 79282 1bupA 386 1.07e+00 1ba1 c.55.1.1 33377 c.55.1.1 33378 1a8h 500 1.24e+00 1a8h a.27.1.1 16922 c.26.1.1 31589 1jsxA 207 1.38e+00 c.66.1.20 71846 1f46A 140 1.44e+00 1f46A d.129.4.1 59643 1io2A 213 1.47e+00 1ekeA c.55.3.1 62612 1amx 180 1.80e+00 1amx b.2.3.1 22410 1pcfA 66 1.81e+00 1pcfA d.18.1.1 38142 1kay 381 2.31e+00 1ba1 c.55.1.1 33385 c.55.1.1 33386 1innA 166 2.34e+00 1j98A d.185.1.2 62608 1plq 258 2.35e+00 1plq d.131.1.2 41388 d.131.1.2 41389 1mgtA 174 2.57e+00 1mgtA a.4.2.1 16078 c.55.7.1 33753 1f4qA 165 2.81e+00 1alvA a.39.1.8 17360 1g6hA 257 2.87e+00 1gajA c.37.1.12 60318 1kyqA 274 3.13e+00 c.2.1.11 73281 e.37.1.1 73282 1n9lA 109 3.39e+00 d.110.3.6 85468 1o0xA 262 3.50e+00 d.127.1.1 80755 1ido 192 3.75e+00 1ido c.62.1.1 34139 1js8A 394 3.77e+00 a.86.1.1 67219 b.112.1.1 67220 1k94A 165 3.81e+00 a.39.1.8 68333 1tk1A 260 3.82e+00 1omrA 201 4.22e+00 a.39.1.5 -854 1o5oA 221 4.29e+00 c.61.1.1 -7954 1oo0A 147 4.44e+00 d.232.1.1 87182 1iejA 332 4.65e+00 1nnt c.94.1.2 62328 1q4rA 112 5.11e+00 d.58.4.4 -9943 1mf7A 194 5.67e+00 c.62.1.1 84937 1ks9A 291 5.76e+00 a.100.1.7 68857 c.2.1.6 68858 1jhfA 202 5.85e+00 a.4.5.2 63057 b.87.1.1 63058 1p8xA 344 5.89e+00 d.109.1.1 -10813 d.109.1.1 -10814 d.109.1.1 -10815 2sas 185 6.10e+00 2sas a.39.1.5 17258 1l6pA 125 6.34e+00 b.1.17.1 73626 1iw7C 1119 6.89e+00 e.29.1.1 71474 1jj2U 70 7.14e+00 1ffkS a.2.2.1 63106 1s72V 71 7.17e+00 1go4A 205 7.17e+00 d.135.1.1 70292 1rl2A 137 7.33e+00 1rl2A b.34.5.3 24610 b.40.4.5 25342 1pc6A 146 7.45e+00 unknown_sccs -11739 1r62A 160 7.50e+00 1dpgA 485 7.51e+00 1dpgA c.2.1.3 30074 d.81.1.5 39989 1rh5B 74 7.84e+00 unknown_sccs -12198 1rec 201 8.18e+00 1rec a.39.1.5 17326 1sctB 151 8.78e+00 3sdhA a.1.1.2 15003 1oaoA 674 9.41e+00 e.26.1.2 86744 1vi2A 300 9.47e+00 c.2.1.7 -5960 c.58.1.5 -6366 1ji0A 240 9.61e+00 c.37.1.12 71665 1lkoA 191 9.83e+00 a.25.1.1 78063 g.41.5.1 78064 1o17A 345 1.02e+01 a.46.2.1 80765 c.27.1.1 80766 1a3aA 148 1.02e+01 1a3aA d.112.1.1 40917 1emvB 134 1.14e+01 1bxiB d.4.1.1 37135 1qgeE 97 1.16e+01 1cvl 1ax4A 467 1.20e+01 1ax4A c.67.1.2 34391 1l7dA 384 1.21e+01 c.2.1.4 77774 c.23.12.2 77775 1ryt 190 1.25e+01 1ryt a.25.1.1 16646 g.41.5.1 45245 1lfb 99 1.27e+01 1lfb a.4.1.1 15989 1nw2A 105 1.28e+01 c.47.1.1 -7380 1giqA 413 1.29e+01 d.166.1.1 76224 d.166.1.1 76225 1jf8A 131 1.33e+01 c.44.1.1 66621 1jqlB 140 1.35e+01 c.37.1.20 63234 1oh0A 131 1.36e+01 d.17.4.3 87004 1v9dA 340 1.37e+01 unknown_sccs -1762 4cpv 109 1.38e+01 1a75A a.39.1.4 17198 1hdhA 536 1.39e+01 c.76.1.2 65805 1qz5A 375 1.41e+01 c.55.1.1 -7590 c.55.1.1 -7591 1ugiA 84 1.43e+01 1ugiA d.17.5.1 38125 1kjqA 391 1.46e+01 b.84.2.1 72616 c.30.1.1 72617 d.142.1.2 72618 1oahA 519 1.47e+01 a.138.1.3 86736 1ih8A 271 1.47e+01 2nsyA c.26.2.1 62377 1uurA 473 1.48e+01 a.47.1.1 -968 b.2.5.5 -2904 d.93.1.1 -10632 1olsB 342 1.48e+01 c.36.1.7 -6919 c.48.1.2 -7529 1ithA 141 1.49e+01 1ithA a.1.1.2 15623 1i8nA 126 1.52e+01 1i8nA g.10.1.2 61976 1kqpA 271 1.52e+01 c.26.2.1 72883 1vns 609 1.55e+01 1vns a.111.1.3 19061 1mu5A 471 1.55e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1ughI 82 1.57e+01 1ugiA d.17.5.1 38133 1wdcC 156 1.59e+01 1wdcC a.39.1.5 17317 1eyzA 392 1.59e+01 1ez1A b.84.2.1 28246 c.30.1.1 31653 d.142.1.2 41498 1h1nA 305 1.60e+01 c.1.8.3 70855 1fr2B 134 1.60e+01 d.4.1.1 83257 1b71A 191 1.60e+01 1ryt a.25.1.1 16647 g.41.5.1 45246 1o0pA 104 1.61e+01 d.58.7.1 86535 1jg1A 235 1.62e+01 c.66.1.7 66661 1g8iA 190 1.67e+01 1rec a.39.1.5 60363 1dik 874 1.67e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1ji8A 111 1.68e+01 d.203.1.1 66733 1top 162 1.72e+01 1ncx a.39.1.5 17223 1squA 155 1.75e+01 unknown_sccs -10229 1ixcA 294 1.83e+01 a.4.5.37 83764 c.94.1.1 83765 1lvaA 258 1.85e+01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1nq7A 244 1.87e+01 a.123.1.1 -1682 1nu4A 97 1.92e+01 d.58.7.1 80731 1s96A 219 1.93e+01 c.37.1.1 -6972 1xxaA 78 1.98e+01 1xxaA d.74.2.1 39700 1kblA 873 1.99e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1urnA 97 2.00e+01 1urnA d.58.7.1 39153 1j6zA 376 2.01e+01 1yagA c.55.1.1 62667 c.55.1.1 62668 1s5pA 235 2.02e+01 c.31.1.5 -6774 1ne9A 335 2.03e+01 d.108.1.4 -10805 d.108.1.4 -10806 1r3cA 366 2.03e+01 d.144.1.7 -11296 1ab4 477 2.09e+01 1ab4 e.11.1.1 43251 1kliL 69 2.12e+01 g.3.11.1 77436 1l3aA 228 2.13e+01 d.18.1.2 73531 1opy 131 2.15e+01 1opy d.17.4.3 38113 1i12A 160 2.16e+01 1i21A d.108.1.1 61515 1up8A 598 2.16e+01 a.111.1.2 -1480 1a76 326 2.22e+01 1a76 a.60.7.1 18091 c.120.1.2 33361 1tfe 145 2.22e+01 1tfe d.43.1.1 38680 1b65A 375 2.26e+01 1b65A d.154.1.1 42020 1c1dA 355 2.30e+01 1bw9A c.2.1.7 30270 c.58.1.1 33918 1ns5A 155 2.30e+01 c.116.1.3 80705 1kcqA 104 2.31e+01 d.109.1.1 68449 1ujnA 348 2.34e+01 e.22.1.1 -11998 1ireB 228 2.35e+01 b.34.4.4 76770 3pvaA 335 2.36e+01 3pvaA d.153.1.3 41854 1p4wA 99 2.38e+01 a.4.6.2 87783 1ejeA 192 2.38e+01 1ejeA b.45.1.2 25757 1v5xA 203 2.40e+01 c.1.2.4 -5169 1efdN 266 2.41e+01 1efdN c.92.2.1 35597 1f9yA 158 2.48e+01 d.58.30.1 83249 1ds1A 324 2.52e+01 1drtA b.82.2.2 28127 1colA 204 2.53e+01 1a87 f.1.1.1 43378 1eg3A 261 2.54e+01 1eg3A a.39.1.7 17376 a.39.1.7 17377 b.72.1.1 27805 1jakA 512 2.54e+01 c.1.8.6 66472 d.92.2.1 66473 1ul7A 102 2.57e+01 unknown_sccs -11020 1k8tA 510 2.60e+01 e.41.1.1 68316 1ptmA 329 2.61e+01 unknown_sccs -8456 1n4kA 381 2.61e+01 unknown_sccs 79992 b.42.6.1 79993 1rqpA 299 2.65e+01 unknown_sccs -4411 unknown_sccs -7908 1nd4A 264 2.67e+01 d.144.1.6 -11381 1v1rB 342 2.68e+01 1exrA 148 2.69e+01 1cll a.39.1.5 17299 1g291 372 2.71e+01 1g291 1k30A 368 2.74e+01 c.112.1.1 68067 1ni9A 338 2.80e+01 e.7.1.2 85739 1rqlA 267 2.81e+01 c.108.1.3 -6814 1s6cA 183 2.81e+01 a.39.1.5 -858 1r31A 428 2.83e+01 d.58.20.1 -10108 d.179.1.1 -11716 1vi9A 299 2.84e+01 c.72.1.5 -8393 1i1dA 161 2.85e+01 1i21A d.108.1.1 61526 1r13A 148 2.85e+01 d.169.1.1 -11646 h.1.1.1 -12895 1spgA 144 2.94e+01 1abwA a.1.1.2 15409 1gk8A 475 2.94e+01 c.1.14.1 65234 d.58.9.1 65235 1euaA 213 3.05e+01 1fwrA c.1.10.1 29155 2pvaA 345 3.06e+01 3pvaA d.153.1.3 41850 1qi9A 556 3.07e+01 1qhbA a.111.1.2 19053 1dtwB 342 3.08e+01 1qs0B c.36.1.7 31828 c.48.1.2 33102 1dozA 309 3.16e+01 1ak1 c.92.1.1 35592 1eu1A 780 3.16e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1vpi 122 3.16e+01 1poa a.133.1.2 19559 1sv6A 269 3.18e+01 1r1uA 106 3.19e+01 1ee8A 266 3.22e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1ugpB 226 3.23e+01 1n7kA 234 3.25e+01 c.1.10.1 85374 1br1B 150 3.26e+01 1wdcC a.39.1.5 17309 1ekjA 221 3.26e+01 1ekjB c.53.2.1 33364 1f8gA 384 3.31e+01 1sayA c.2.1.4 59695 c.23.12.2 59696 1ct5A 256 3.31e+01 1ct5A c.1.6.2 28663 1g3mA 294 3.35e+01 c.37.1.5 83268 1q7zA 566 3.39e+01 c.1.21.2 -5638 c.1.26.1 -5666 1iuqA 367 3.42e+01 c.112.1.1 -8440 1xwl 580 3.43e+01 1xwl c.55.3.5 33708 e.8.1.1 43001 1t6aA 126 3.48e+01 1d4xA 375 3.52e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1d7yA 408 3.56e+01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1eqoA 158 3.57e+01 1hka 1ivnA 190 3.61e+01 c.23.10.5 83719 1mkeA 152 3.63e+01 b.55.1.4 79231 1f1uA 323 3.67e+01 d.32.1.3 83200 d.32.1.3 83201 1adjA 421 3.67e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 2sak 121 3.71e+01 2sak d.15.5.1 37711 1gxqA 106 3.75e+01 a.4.6.1 70721 1i1iP 681 3.77e+01 1i1iP d.92.1.5 40297 1hp5A 512 3.77e+01 1hp4A c.1.8.6 61113 d.92.2.1 61114 1dkzA 219 3.85e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1gp1A 198 3.86e+01 1gp1A c.47.1.10 33059 1q8fA 313 3.87e+01 c.70.1.1 -8358 1qycA 308 3.88e+01 c.2.1.2 -5782 1hkkA 364 3.91e+01 c.1.8.5 -5384 d.26.3.1 -9506 1otjA 283 3.93e+01 b.82.2.5 -4893 6gsvA 217 3.99e+01 1b8xA a.45.1.1 17633 c.47.1.5 32925