# 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 1a4sA 503 2.13e-70 1bpwA c.82.1.1 35361 1o04A 500 3.97e-70 c.82.1.1 86508 1wndA 495 5.13e-66 1o20A 427 1.21e-60 c.82.1.1 86556 1euhA 475 1.84e-60 1euhA c.82.1.1 35369 1uzbA 516 1.51e-54 c.82.1.1 100220 2bjkA 516 1.83e-54 1ad3A 452 2.35e-54 1ad3A c.82.1.1 35335 1uxtA 501 4.64e-54 c.82.1.1 108125 1ez0A 510 8.97e-33 1eyyA c.82.1.1 35385 1kaeA 434 2.43e-08 c.82.1.2 72247 1w8sA 263 2.99e-01 1z7bA 358 3.72e-01 1ojxA 263 4.02e-01 c.1.10.1 93164 1ra9 159 5.20e-01 1vdrA c.71.1.1 34820 1u9jA 358 5.52e-01 8dfr 189 9.88e-01 1aoeA c.71.1.1 34895 2bllA 345 1.26e+00 1nqkA 381 1.48e+00 c.1.16.4 92050 1u7pA 164 1.58e+00 1r31A 428 1.63e+00 d.58.20.1,d.179.1.1 96897,96898 1wwkA 307 1.63e+00 1j5yA 187 1.75e+00 a.4.5.1,d.94.2.1 71592,71593 4dfrA 159 1.92e+00 1vdrA c.71.1.1 34822 1y5eA 169 2.16e+00 1qlmA 316 2.43e+00 1qlmA d.147.1.1 41765 1fts 295 3.32e+00 1ng1 a.24.13.1,c.37.1.10 16968,32279 2gjsA 176 3.33e+00 1y81A 138 3.59e+00 1mhyB 395 3.89e+00 1mtyB a.25.1.2 16781 1ss4A 153 4.65e+00 d.32.1.6 105976 1mkzA 172 5.11e+00 c.57.1.1 84998 1vh6A 145 5.15e+00 a.24.19.1 100644 1vjqA 79 5.17e+00 k.43.1.1 100830 1mtyB 384 5.37e+00 1mtyB a.25.1.2 16740 1nktA 922 5.73e+00 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 85830,85831,85832,85833 1h8mA 140 5.76e+00 1h8mA d.110.4.1 60782 1vmaA 306 5.80e+00 a.24.13.1,c.37.1.10 108887,108888 1gd8A 118 5.93e+00 d.188.1.1 60445 1hqkA 154 6.22e+00 c.16.1.1 65902 1abv 134 6.43e+00 1abv a.70.1.1 18317 1rcuA 195 6.58e+00 c.129.1.1 97295 1l3iA 192 7.25e+00 c.66.1.22 77676 1vi2A 300 7.84e+00 c.2.1.7,c.58.1.5 100726,100727 2ffjA 300 8.10e+00 1i3cA 149 8.24e+00 c.23.1.1 71112 1eg7A 557 8.40e+00 1eg7A c.37.1.10 32241 2fiuA 99 8.41e+00 9gafA 295 8.80e+00 1apyA d.153.1.5 42008 1ko7A 314 8.83e+00 c.98.2.1,c.91.1.2 72797,72798 1u7bA 261 9.05e+00 1p4kA 295 1.01e+01 d.153.1.5 87772 2hmzA 113 1.02e+01 2mhr a.24.4.1 16564 2f4lA 297 1.03e+01 1nxuA 333 1.15e+01 c.122.1.1 86389 1mq7A 154 1.18e+01 b.85.4.1 79404 1rw6A 210 1.23e+01 a.47.4.1 105113 1n97A 389 1.25e+01 a.104.1.1 80335 1nv8A 284 1.26e+01 c.66.1.30 86224 1s62A 106 1.33e+01 1gx5A 536 1.34e+01 e.8.1.4 70682 1dc1A 323 1.35e+01 1dc1A c.52.1.11 33321 1kllA 130 1.37e+01 d.32.1.2 72720 1xhkA 187 1.39e+01 1vajA 214 1.40e+01 1kmvA 186 1.41e+01 c.71.1.1 72757 1x42A 232 1.41e+01 1c2pA 576 1.41e+01 1quvA e.8.1.4 43117 1eziA 228 1.46e+01 1eyrA c.68.1.13 34512 1vcsA 102 1.53e+01 2cw9A 194 1.56e+01 2hmqA 113 1.58e+01 2mhr a.24.4.1 16568 2ng1 293 1.59e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1eonA 245 1.61e+01 1rvaA c.52.1.2 33238 1ybhA 590 1.64e+01 1mrp 309 1.65e+01 1mrp c.94.1.1 35796 1xrhA 351 1.69e+01 1sek 378 1.69e+01 1sek e.1.1.1 42675 1igwA 434 1.72e+01 c.1.12.7 62370 2dhqA 146 1.72e+01 2dhqA c.23.13.1 31382 1wbhA 214 1.78e+01 2c0aA 214 1.78e+01 1d1gA 168 1.82e+01 1d1gA c.71.1.1 34889 1ewqA 765 1.82e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1ls1A 295 1.83e+01 a.24.13.1,c.37.1.10 78170,78171 1sixA 174 1.87e+01 b.85.4.1 98892 2ah5A 210 1.89e+01 1r2fA 319 1.89e+01 1r2fA a.25.1.2 16800 1ecsA 126 1.91e+01 1ecsA d.32.1.2 59407 1jbwA 428 1.92e+01 c.59.1.2,c.72.2.2 62860,62861 2cbiA 594 1.93e+01 1y0uA 96 1.98e+01 1h05A 146 2.04e+01 c.23.13.1 76433 1r64A 481 2.23e+01 b.18.1.20,c.41.1.1 97140,97141 1x0rA 249 2.25e+01 2gjlA 328 2.27e+01 1r77A 103 2.29e+01 1zkjA 359 2.29e+01 1pj5A 830 2.30e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1nnfA 309 2.32e+01 c.94.1.1 85903 1rk8C 58 2.35e+01 b.72.3.1 97605 1r4xA 275 2.42e+01 b.1.10.3,d.105.1.2 97054,97055 1xp8A 366 2.48e+01 1gxjA 186 2.51e+01 d.215.1.1 70707 2ganA 190 2.51e+01 1x3zA 335 2.51e+01 1iujA 106 2.57e+01 d.58.4.5 90701 1nrzA 164 2.58e+01 c.38.1.1 86131 2a65A 519 2.62e+01 2af4C 333 2.66e+01 1sbzA 197 2.67e+01 1rvaA 244 2.71e+01 1rvaA c.52.1.2 33240 1cqxA 403 2.74e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 2dfkA 402 2.75e+01 1q3eA 207 2.78e+01 b.82.3.2 95669 1t7lA 766 2.81e+01 1w25A 459 2.89e+01 1ta8A 332 2.89e+01 1rj9A 304 2.93e+01 a.24.13.1,c.37.1.10 97553,97554 1evyA 366 2.94e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1cktA 71 2.96e+01 1cktA a.21.1.1 16417 2bj7A 138 2.96e+01 1sx5A 244 3.02e+01 c.52.1.2 99023 2bhgA 209 3.10e+01 1h8uA 117 3.11e+01 1h8uA d.169.1.1 60793 2erxA 172 3.21e+01 1go3E 187 3.29e+01 b.40.4.5,d.230.1.1 83054,83055 1vzwA 244 3.34e+01 1tluA 130 3.37e+01 d.156.1.2 107139 1rdr 461 3.54e+01 1rdr e.8.1.4 43116 1tc1A 220 3.58e+01 1tc1A c.61.1.1 34083 1q5qA 259 3.58e+01 d.153.1.4 95904 1x1tA 260 3.59e+01 1hx1B 114 3.70e+01 1hx1B a.7.7.1 61350 1ecmA 109 3.81e+01 1ecmA a.130.1.1 19492 1zbmA 280 3.85e+01 2f2tA 161 3.88e+01 1q6uA 245 3.89e+01 d.26.1.1 95998 2blcA 238 4.00e+01 1deeG 54 4.01e+01 1fc2C a.8.1.1 16343 1xqoA 256 4.08e+01 1g2rA 100 4.10e+01 1g2rA d.192.1.1 60231 1vbkA 307 4.13e+01 1vrvA 101 4.18e+01 2be3A 226 4.19e+01 1upaA 573 4.19e+01 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 1vpjA 192 4.20e+01 2f62A 161 4.23e+01 2ch0A 133 4.33e+01 1q6hA 224 4.38e+01 d.26.1.1 95975 2a0kA 161 4.42e+01 1z0sA 278 4.56e+01 1j8yF 297 4.60e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 2b0cA 206 4.62e+01 1u7lA 392 4.64e+01 1vkrA 125 4.71e+01 c.44.2.1 108689 1wd6A 123 4.80e+01 1ogdA 131 4.85e+01 c.133.1.1 92893 1wmbA 260 4.86e+01 1jj2U 70 4.88e+01 1ffkS a.2.2.1 63106 1s72V 71 4.88e+01 a.2.2.1 105341 1q77A 138 4.90e+01 c.26.2.4 96023 2ab5A 269 4.94e+01 1o4wA 147 4.96e+01 c.120.1.1 86629 1yozA 116 4.99e+01 1imjA 210 5.00e+01 c.69.1.23 71246 1v6sA 390 5.07e+01 c.86.1.1 100424 1nzaA 103 5.07e+01 d.58.5.2 86444 1dqsA 393 5.12e+01 1dqsA e.22.1.1 43347 1vhsA 175 5.14e+01 d.108.1.1 100698 1xznA 179 5.14e+01 1vlgA 176 5.15e+01 a.25.1.1 108816 1qzzA 374 5.21e+01 a.4.5.29,c.66.1.12 96719,96720 2go7A 207 5.24e+01 1f7cA 231 5.25e+01 1f7cA a.116.1.1 19107 1keaA 221 5.26e+01 a.96.1.2 68491 1fxd 58 5.26e+01 1fxd d.58.1.4 38941 1cliA 345 5.27e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1kktA 511 5.32e+01 a.102.2.1 68687 1hssA 124 5.38e+01 1bea a.52.1.2 17819 1wwpA 119 5.46e+01 1vkcA 158 5.46e+01 1fmcA 255 5.47e+01 1cydA c.2.1.2 29856 2bpqA 373 5.58e+01 1gnkA 112 5.60e+01 2pii d.58.5.1 39073 1t3qA 168 5.63e+01 a.56.1.1,d.15.4.2 106367,106368 1ujnA 348 5.65e+01 e.22.1.1 99460 2ccmA 191 5.65e+01 1zpdA 568 5.76e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 2bjnA 160 5.76e+01 1gvhA 396 5.81e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1z2lA 423 5.83e+01 1kcmA 270 5.92e+01 d.129.3.4 72300 1fnnA 389 5.94e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1usmA 80 5.98e+01 d.74.1.1 99876 2bl9A 238 5.99e+01 1wy0A 342 5.99e+01 1k6dA 220 6.01e+01 c.124.1.2 72082 1grj 158 6.01e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1qycA 308 6.30e+01 c.2.1.2 96581 1euaA 213 6.33e+01 1fwrA c.1.10.1 29155 1k2yX 463 6.36e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1p5dX 463 6.42e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1p9oA 313 6.43e+01 c.72.3.1 94397 1igs 248 6.44e+01 1a53 c.1.2.4 28565 1aoa 275 6.53e+01 1aoa a.40.1.1,a.40.1.1 17396,17397 1wc9A 169 6.56e+01 1wrvA 308 6.61e+01 1vkfA 188 6.72e+01 c.1.29.1 108656 1g6oA 330 6.76e+01 1g6oA c.37.1.11 32430 1sv6A 269 6.79e+01 d.177.1.1 106043 1z4rA 168 6.92e+01 1vgoA 253 6.96e+01 1lhpA 312 6.98e+01 c.72.1.5 77960 1lfpA 249 7.03e+01 e.39.1.1 73885 1vloA 381 7.09e+01 b.44.2.1,d.250.1.1 108838,108839 2aobA 99 7.19e+01 1w07A 659 7.22e+01 1ejdA 419 7.30e+01 1uae d.68.2.2 39576 1f8yA 157 7.31e+01 1f8xA c.23.14.1 31395 1u0tA 307 7.34e+01 e.52.1.1 107567 1suwA 249 7.35e+01 e.52.1.1 106027 2dkaA 544 7.39e+01 2ezvA 269 7.47e+01 1vqoV 71 7.48e+01 1xnpA 202 7.51e+01 1anv 356 7.52e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17890,45365,45371 2fl4A 149 7.54e+01 1rt8A 513 7.58e+01 a.40.1.1 105095 1xtpA 254 7.60e+01 1r7lA 110 7.65e+01 d.277.1.1 104837 1qkrA 188 7.67e+01 1qkrA a.24.9.1 16628 1tzjA 338 7.67e+01 1o50A 157 7.68e+01 d.37.1.1,d.37.1.1 92478,92479 1nonA 179 7.71e+01 c.61.1.1 103868 1i0lA 221 7.73e+01 c.61.1.1 71096 1p5fA 189 7.82e+01 c.23.16.2 94142 1wp5A 323 7.88e+01 1efdN 266 7.89e+01 1efdN c.92.2.1 35597 1zczA 464 7.90e+01 1ryqA 69 7.92e+01 g.41.9.3 105126 1lkdA 297 8.03e+01 d.32.1.3,d.32.1.3 78059,78060 1colA 204 8.03e+01 1a87 f.1.1.1 43378 1z7gA 217 8.06e+01 1hh2P 344 8.06e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 1m2dA 110 8.11e+01 c.47.1.11 78476 2aw4Q 117 8.14e+01 1j8mF 297 8.17e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1yghA 164 8.20e+01 1yghA d.108.1.1 40802 1u5tA 233 8.22e+01 a.4.5.54,a.4.5.54 107684,107685 1a53 247 8.27e+01 1a53 c.1.2.4 28564 1evsA 187 8.30e+01 1evsA a.26.1.1 16845 1voqa 90 8.30e+01 1o5zA 442 8.36e+01 c.59.1.2,c.72.2.2 92530,92531 1kqzA 273 8.39e+01 c.1.8.5 68844 1yv5A 374 8.39e+01 1r4yA 136 8.65e+01 d.1.1.3 97056 1k5dB 201 8.68e+01 b.55.1.3 68169 1han 297 8.69e+01 1han d.32.1.3,d.32.1.3 38506,38507 2bh9A 489 8.74e+01 2ar0A 541 8.82e+01 1ra6A 461 8.85e+01 e.8.1.4 104879 2g8yA 385 8.85e+01 2bhvA 246 8.92e+01 1m3uA 264 8.93e+01 c.1.12.8 84784 2gf6A 135 8.95e+01 1vm8A 534 8.96e+01