# List of top-scoring protein chains for t06-100-30-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 2d4pA 141 8.18e-02 1pjcA 361 5.86e-01 1sayA c.2.1.4,c.23.12.2 30101,31361 1je0A 236 6.81e-01 c.56.2.1 66581 1zbfA 142 7.70e-01 2bh1X 96 7.86e-01 1jysA 242 9.45e-01 c.56.2.1 77216 1a8s 273 9.48e-01 1brt c.69.1.12 34710 1vc1A 110 1.18e+00 c.13.2.1 108493 1kyhA 276 1.28e+00 c.72.1.4 73222 1ct5A 256 1.45e+00 1ct5A c.1.6.2 28663 1vjeA 166 1.66e+00 d.185.1.2 100807 1rxyA 253 2.49e+00 c.56.2.1 98065 1z4rA 168 2.58e+00 1zejA 293 2.64e+00 2cxcA 144 2.98e+00 1t6aA 126 3.00e+00 d.129.8.1 106555 2fg9A 178 3.50e+00 1v8bA 479 3.67e+00 1yrtA 364 4.51e+00 2dbyA 368 4.63e+00 2plc 274 4.69e+00 2plc c.1.18.2 29614 1i12A 160 4.76e+00 1i21A d.108.1.1 61515 1j8mF 297 4.83e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 1v37A 177 4.95e+00 1wy1A 172 4.98e+00 1gw5S 142 4.99e+00 d.110.4.2 70633 1ec7A 446 5.36e+00 1bqg c.1.11.2,d.54.1.1 29218,38862 1yvoA 172 5.40e+00 1zo0A 126 6.25e+00 1vk8A 106 6.35e+00 d.58.48.1 108636 1yqtA 538 6.39e+00 1ypfA 336 6.66e+00 1qlmA 316 7.34e+00 1qlmA d.147.1.1 41765 2a2nA 176 7.52e+00 1xm7A 195 8.05e+00 1wyzA 242 8.34e+00 1oj4A 283 8.38e+00 d.14.1.5,d.58.26.5 93083,93084 1a0p 290 8.65e+00 1a0p a.60.9.1,d.163.1.1 18105,42165 1wu7A 434 9.22e+00 1ygmA 118 9.23e+00 3nul 130 9.39e+00 3nul d.110.1.1 40891 1yw5A 177 9.69e+00 1vliA 385 9.96e+00 b.85.1.1,c.1.10.6 108830,108831 1p2hA 571 1.01e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 2fg1A 158 1.02e+01 1vggA 161 1.04e+01 1xt8A 292 1.05e+01 1h70A 255 1.05e+01 1h70A d.126.1.3 60711 1sl4A 155 1.06e+01 d.169.1.1 105710 1tiqA 180 1.07e+01 d.108.1.1 107010 1h75A 81 1.07e+01 1h75A c.47.1.1 60716 1lucA 355 1.08e+01 1lucA c.1.16.1 29547 1oaoC 729 1.09e+01 e.26.1.3 86746 1nv8A 284 1.09e+01 c.66.1.30 86224 1va4A 279 1.10e+01 c.69.1.12 108458 1z85A 234 1.12e+01 2a1iA 146 1.15e+01 2aefA 234 1.15e+01 2exrA 524 1.17e+01 1pb1A 416 1.17e+01 c.77.1.1 88014 1r6wA 322 1.22e+01 c.1.11.2,d.54.1.1 97165,97166 1zccA 248 1.22e+01 1c4oA 664 1.23e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1xkpC 143 1.25e+01 1ub3A 220 1.26e+01 c.1.10.1 88395 1mtyB 384 1.26e+01 1mtyB a.25.1.2 16740 1q77A 138 1.27e+01 c.26.2.4 96023 1yb2A 275 1.28e+01 1n6zA 105 1.30e+01 d.263.1.1 85369 1zu1A 127 1.34e+01 2g0qA 173 1.36e+01 1vhsA 175 1.36e+01 d.108.1.1 100698 1ej6D 418 1.40e+01 i.7.1.1 45970 1shuX 182 1.42e+01 c.62.1.1 98882 1jykA 254 1.42e+01 c.68.1.13 67458 1ixcA 294 1.42e+01 a.4.5.37,c.94.1.1 83764,83765 1kdj 102 1.43e+01 1plc b.6.1.1 22864 1r77A 103 1.47e+01 1vj1A 363 1.50e+01 b.35.1.2,c.2.1.1 100794,100795 1zxxA 319 1.52e+01 1iibA 106 1.53e+01 1iibA c.44.2.1 32648 1sqiA 393 1.54e+01 d.32.1.3,d.32.1.3 105914,105915 1y5eA 169 1.55e+01 1cnv 299 1.59e+01 1cnv c.1.8.5 28989 1qysA 106 1.62e+01 k.41.1.1 96603 830cA 168 1.67e+01 1ck7A d.92.1.11 40400 1v4pA 157 1.67e+01 1v6tA 255 1.67e+01 2ptd 298 1.67e+01 2plc c.1.18.2 29605 1vhwA 253 1.68e+01 c.56.2.1 100706 1sc3B 88 1.69e+01 2ffcA 353 1.71e+01 1m2xA 223 1.72e+01 d.157.1.1 84764 1rf6A 427 1.73e+01 d.68.2.2 97366 1lssA 140 1.73e+01 c.2.1.9 74246 1vp2A 208 1.75e+01 1id1A 153 1.77e+01 1id1A c.2.1.9 62286 1odkA 235 1.79e+01 c.56.2.1 86863 1hqsA 423 1.80e+01 1iso c.77.1.1 61154 1aa7A 158 1.83e+01 1aa7A a.95.1.1 18741 1nfp 228 1.86e+01 1nfp c.1.16.2 29555 1ryp2 233 1.88e+01 1ryp2 2azwA 148 1.92e+01 2bogX 286 1.94e+01 1hi9A 274 1.95e+01 1hi9A c.99.1.1 61063 1wsrA 375 2.02e+01 1t6sA 162 2.05e+01 1fm0D 81 2.06e+01 1fmaD d.15.3.1 37642 1dq3A 454 2.09e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1yqdA 366 2.11e+01 1s12A 94 2.14e+01 1ru3A 732 2.15e+01 e.26.1.3 97835 1xccA 220 2.17e+01 1g2rA 100 2.18e+01 1g2rA d.192.1.1 60231 2ajrA 331 2.20e+01 1zosA 230 2.22e+01 1ohlA 342 2.24e+01 c.1.10.3 87035 1go3F 107 2.28e+01 a.60.8.2 65407 1wstA 417 2.28e+01 1xc3A 302 2.31e+01 2bfwA 200 2.33e+01 1nf2A 268 2.34e+01 c.108.1.10 91849 1zpvA 91 2.36e+01 1v74B 87 2.38e+01 a.24.20.1 100443 1vk1A 242 2.38e+01 d.268.1.2 108634 2hvm 273 2.41e+01 1cnv c.1.8.5 28985 1yz4A 160 2.49e+01 1ns5A 155 2.50e+01 c.116.1.3 80705 1x7dA 350 2.52e+01 1usgA 346 2.52e+01 c.93.1.1 99864 8rucI 123 2.54e+01 1rboC d.73.1.1 39629 1yqhA 109 2.54e+01 1a53 247 2.59e+01 1a53 c.1.2.4 28564 1w6vA 141 2.59e+01 1uirA 314 2.60e+01 c.66.1.17 99429 1khyA 148 2.62e+01 a.174.1.1 77410 1ockA 412 2.64e+01 c.117.1.1 86802 1ro2A 216 2.65e+01 d.264.1.2 97665 2f5xA 312 2.68e+01 1b7yB 785 2.70e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1kblA 873 2.72e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1u4gA 301 2.79e+01 d.92.1.2 107670 1efvB 255 2.83e+01 1efvB c.26.2.3 31634 2d2eA 250 2.83e+01 1lwdA 413 2.85e+01 c.77.1.1 78265 1yt3A 375 2.90e+01 1k8kA 418 2.91e+01 c.55.1.1,c.55.1.1 68305,68306 1ryaA 160 2.93e+01 d.113.1.5 105122 1m6yA 301 2.94e+01 a.60.13.1,c.66.1.23 78716,78717 1yw3A 208 2.96e+01 1zuwA 272 3.02e+01 1wnaA 131 3.05e+01 2awpA 198 3.09e+01 1on0A 158 3.10e+01 d.108.1.1 87095 1q7zA 566 3.10e+01 c.1.21.2,c.1.26.1 96090,96091 1szoA 257 3.17e+01 c.14.1.3 106164 1tqzA 133 3.17e+01 1cfr 285 3.18e+01 1cfr c.52.1.7 33312 1zczA 464 3.18e+01 1t9hA 307 3.19e+01 1ylqA 96 3.21e+01 1qnrA 344 3.24e+01 1qnoA c.1.8.3 28834 1fr2A 86 3.25e+01 a.28.2.1 83256 2bhuA 602 3.27e+01 1t9bA 677 3.28e+01 1lqtA 456 3.30e+01 c.3.1.1,c.4.1.1 74198,74199 1ro0A 216 3.35e+01 d.264.1.2 97664 1prxA 224 3.42e+01 1prxA c.47.1.10 33076 1qg9A 21 3.42e+01 j.35.1.1 46275 1h1dA 221 3.43e+01 c.66.1.1 83452 2fuvA 549 3.45e+01 2hmzA 113 3.47e+01 2mhr a.24.4.1 16564 2a1vA 144 3.49e+01 1vefA 395 3.52e+01 1earA 147 3.53e+01 b.107.1.1,d.58.38.1 64875,64876 1dj0A 264 3.54e+01 1dj0A d.265.1.1 90337 1kqpA 271 3.56e+01 c.26.2.1 72883 1u55A 188 3.63e+01 d.278.1.1 107677 2beiA 170 3.65e+01 1jflA 228 3.67e+01 c.78.2.1,c.78.2.1 71656,71657 1f0xA 571 3.77e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1ed8A 449 3.83e+01 1b8jA c.76.1.1 34988 1nh2B 53 3.89e+01 a.32.1.1 91874 1qd9A 124 3.92e+01 1qu9A d.79.1.1 39758 1vhqA 232 3.95e+01 c.23.16.2 100696 2c60A 111 3.99e+01 1gp6A 356 4.00e+01 b.82.2.1 65441 1xqaA 113 4.03e+01 1y80A 210 4.06e+01 1yh1A 359 4.06e+01 1tfr 305 4.07e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1ra0A 430 4.07e+01 1zu4A 320 4.10e+01 1bykA 255 4.10e+01 1bykA c.93.1.1 35706 1vfrA 218 4.13e+01 1vfrA d.90.1.1 40247 1chd 203 4.16e+01 1chd c.40.1.1 32478 1b5pA 385 4.19e+01 c.67.1.1 90403 1ki9A 192 4.19e+01 c.37.1.1 84404 1vkhA 273 4.20e+01 c.69.1.32 108662 1uuyA 167 4.24e+01 c.57.1.1 108059 2fymA 431 4.24e+01 1ww8A 439 4.26e+01 1vbkA 307 4.26e+01 1ktgA 138 4.27e+01 d.113.1.1 72972 1vr5A 547 4.30e+01 1othA 321 4.33e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1pvvA 315 4.36e+01 c.78.1.1,c.78.1.1 95190,95191 1fpzA 212 4.45e+01 1fpzA c.45.1.1 59976 8tlnE 316 4.46e+01 1hyt d.92.1.2 59075 1l2tA 235 4.50e+01 c.37.1.12 73514 1y1pA 342 4.52e+01 1u6tA 121 4.55e+01 2bkyX 89 4.55e+01 1ezwA 349 4.56e+01 1ezwA c.1.16.3 29558 1owlA 484 4.57e+01 a.99.1.1,c.28.1.1 93647,93648 1ujcA 161 4.57e+01 1huxA 270 4.61e+01 1huxA c.55.1.5 61278 1vhoA 346 4.61e+01 b.49.3.1,c.56.5.4 100694,100695 1xmxA 385 4.63e+01 1ew4A 106 4.67e+01 1ew4A d.82.2.1 40023 2fdsA 352 4.70e+01 1pz7A 204 4.73e+01 b.29.1.4 95405 1qo3C 137 4.80e+01 1qo3C d.169.1.1 42350 1hfc 169 4.83e+01 1hfc d.92.1.11 40335 1w0mA 226 4.84e+01 c.1.1.1 109027 1vp8A 201 4.85e+01 1g3qA 237 4.86e+01 1hyqA c.37.1.10 60237 2d1yA 256 4.91e+01 1svdM 110 4.97e+01 1nzjA 298 4.99e+01 c.26.1.1 92377 1vquA 374 5.01e+01 1f74A 293 5.02e+01 1nal3 c.1.10.1 29079 1xjjA 644 5.03e+01 1f3uA 118 5.04e+01 1f3uA b.65.1.1 27521 1j48A 110 5.05e+01 b.1.7.1 84112 1hxhA 253 5.08e+01 c.2.1.2 76725 1fxkC 133 5.13e+01 1fxkC a.2.5.1 15702 1w9aA 147 5.13e+01 1mw7A 240 5.17e+01 e.39.1.1 79557 2g5cA 281 5.18e+01 1d3gA 367 5.19e+01 1d3gA c.1.4.1 28600 1wa3A 205 5.23e+01 1zavA 180 5.23e+01 1q6oA 216 5.24e+01 c.1.2.3 95986 1m5wA 243 5.24e+01 c.1.24.1 84836 1e8gA 560 5.28e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 2dg5A 366 5.31e+01 1qstA 160 5.32e+01 1yghA d.108.1.1 40804 1vlpA 441 5.34e+01 d.41.2.2,d.41.2.3 108840,108841 1wcgA 464 5.46e+01 1uyjA 296 5.47e+01 f.8.1.2 108143 1wduA 245 5.48e+01 d.151.1.1 109286 1xeaA 323 5.51e+01 c.2.1.3,d.81.1.5 109572,109573 1zlqA 502 5.54e+01 1zvdA 380 5.54e+01 2b5gA 171 5.56e+01 2bswA 146 5.57e+01 1g3p 217 5.58e+01 1g3p b.37.1.1,b.37.1.1 24788,24789 1vr6A 350 5.58e+01 1y1nA 291 5.59e+01 1xvwA 160 5.60e+01 2fbwD 103 5.60e+01 1wt4A 73 5.61e+01 1ukcA 522 5.61e+01 c.69.1.17 107911 1us5A 314 5.62e+01 c.94.1.1 99856 1wozA 177 5.62e+01 1im5A 180 5.65e+01 c.33.1.3 66211 2fpmA 322 5.72e+01 1wn5A 130 5.75e+01 1jf8A 131 5.76e+01 c.44.1.1 66621 1tp9A 162 5.80e+01 2bkaA 242 5.85e+01 1k2eA 156 5.86e+01 d.113.1.1 72010 2h88D 103 5.87e+01 1nu5A 370 5.90e+01 c.1.11.2,d.54.1.1 92183,92184 1t95A 240 5.93e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1cyx 205 5.96e+01 1cyx b.6.1.2 23023 1ad2 228 5.97e+01 1ad2 e.24.1.1 43353 1o20A 427 5.98e+01 c.82.1.1 86556 1fadA 99 5.98e+01 1fadA a.77.1.2 18428 1odfA 290 6.00e+01 c.37.1.6 92782 1i5gA 144 6.00e+01 1ewxA c.47.1.10 61784 1v33A 366 6.01e+01 d.264.1.1 100278 1uwvA 433 6.04e+01 b.40.4.12,c.66.1.40 100128,100129 1zbqA 327 6.06e+01 1vns 609 6.06e+01 1vns a.111.1.3 19061 1aop 497 6.07e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1z4eA 153 6.09e+01 1cjwA 166 6.13e+01 1cjwA d.108.1.1 40818 2gdjA 264 6.14e+01 1914 232 6.17e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1d2nA 272 6.26e+01 1d2nA c.37.1.20 32428 2ae5B 528 6.27e+01 2a9uA 144 6.32e+01 2bmwA 304 6.33e+01 2g39A 497 6.35e+01 1x9zA 188 6.38e+01 1uekA 275 6.38e+01 d.14.1.5,d.58.26.5 88483,88484 1uh5A 329 6.46e+01 c.2.1.2 107840 1l8aA 886 6.55e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1uv7A 110 6.63e+01 d.67.4.1 100040 1kmiZ 214 6.70e+01 h.4.11.1 72752 1ckmA 330 6.71e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1mtyD 512 6.71e+01 1mhyD a.25.1.2 16742 2blfB 81 6.72e+01 2cwxA 430 6.78e+01 1w6gA 646 6.81e+01 1nmeA 146 6.86e+01 c.17.1.1 85874 1vqoB 338 6.87e+01 2fswA 107 6.88e+01 1t0qA 498 6.93e+01 a.25.1.2 106220 1xahA 354 6.93e+01 1kamA 194 6.96e+01 c.26.1.3 72254 1or0B 528 6.97e+01 1kg0C 136 7.08e+01 d.169.1.1 72445 1z15A 344 7.14e+01 1m0uA 249 7.14e+01 a.45.1.1,c.47.1.5 78359,78360 1tt7A 330 7.16e+01 1wwiA 148 7.19e+01 1ogiA 303 7.22e+01 b.43.4.2,c.25.1.1 92914,92915 1akz 223 7.25e+01 3eugA c.18.1.1 31007 1fxd 58 7.25e+01 1fxd d.58.1.4 38941 2cwpA 112 7.27e+01 1xewX 182 7.28e+01 1toaA 313 7.29e+01 1toaA c.92.2.2 35598 2bzgA 232 7.31e+01 1dvoA 152 7.32e+01 1dvoA a.136.1.1 19623 1ef8A 261 7.32e+01 1ef8A c.14.1.3 30921 1ysrA 150 7.32e+01 1zj8A 566 7.43e+01 1sjdA 368 7.47e+01 c.1.11.2,d.54.1.1 105632,105633 2cqeA 98 7.49e+01 1wosA 364 7.50e+01 b.44.2.1,d.250.1.1 109468,109469 1nm2A 317 7.50e+01 c.19.1.1,d.58.23.1 80654,80655 1chuA 540 7.54e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1rjoA 646 7.62e+01 1vjnA 220 7.64e+01 d.157.1.4 100825 1xd3A 230 7.65e+01 1a41 234 7.70e+01 1a41 d.163.1.2 42174 2b4lA 268 7.70e+01 1dz3A 130 7.72e+01 1dz3A c.23.1.1 31105 1u60A 310 7.72e+01 e.3.1.2 107692 1ykdA 398 7.74e+01 1h2cA 140 7.74e+01 b.31.1.1 83462 1aua 296 7.77e+01 1aua a.5.3.1,c.13.1.1 16290,30882 1h4xA 117 7.79e+01 1auz c.13.2.1 60626 2cxxA 190 7.79e+01 1ytvA 366 7.79e+01 2akaB 299 7.82e+01 8abp 306 7.85e+01 8abp c.93.1.1 35647 1vjhA 122 7.89e+01 d.129.3.1 100811 1t4oA 117 7.91e+01 d.50.1.1 106425 1s5lU 134 7.91e+01 1qv9A 283 7.95e+01 c.127.1.1 96356 2aifA 135 7.98e+01 1zpdA 568 7.99e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1ohpA 125 8.01e+01 1zq6A 359 8.01e+01 2fcjA 119 8.02e+01 1it2A 146 8.03e+01 a.1.1.2 66365 1pii 452 8.06e+01 1pii c.1.2.4,c.1.2.4 28559,28563 1hw7A 255 8.06e+01 1i7fA d.193.1.1 61297 1wz3A 96 8.06e+01 1ryiA 382 8.09e+01 1rxdA 159 8.12e+01 1khtA 192 8.13e+01 c.37.1.1 84401 1o0xA 262 8.13e+01 d.127.1.1 80755 2a5yB 549 8.18e+01 1rl6A 177 8.18e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 2bmfA 451 8.26e+01 1s62A 106 8.28e+01 1rh9A 373 8.28e+01 2cy2A 174 8.31e+01 2bezF 42 8.33e+01 2foyA 260 8.37e+01 1p99A 295 8.40e+01 c.94.1.1 94384 1lc5A 364 8.41e+01 c.67.1.1 73827 1ypqA 135 8.48e+01 1t64A 377 8.50e+01 c.42.1.2 106543 1q2yA 140 8.58e+01 d.108.1.1 95655 1u8vA 490 8.59e+01 1gx5A 536 8.63e+01 e.8.1.4 70682 1uf5A 303 8.64e+01 d.160.1.2 107808 1zzmA 259 8.65e+01 1q67A 231 8.70e+01 b.55.1.7 95960 1jr8A 117 8.71e+01 a.24.15.1 67115 2d69A 430 8.75e+01 2cvlA 124 8.75e+01 1u04A 771 8.78e+01 b.34.14.1,c.55.3.10 107539,107540 2d0oA 610 8.78e+01 1x8bA 289 8.79e+01 1qmvA 197 8.83e+01 1qq2A c.47.1.10 33066 1vr8A 142 8.86e+01 1rm8A 169 8.89e+01 d.92.1.11 97660 1t0qC 86 8.91e+01 d.15.12.1 106222 2gjgA 248 8.95e+01 2bsxA 253 8.96e+01 1sxvA 172 8.96e+01 2ashA 381 9.00e+01