# List of top-scoring protein chains for t04-100-30-alpha-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 1wgzA 510 6.47e-02 1tffA 234 8.02e-02 d.3.1.11 106854 1qkrA 188 1.89e-01 1qkrA a.24.9.1 16628 1b8zA 90 3.18e-01 1huuA a.55.1.1 17902 1mojA 182 6.95e-01 a.25.1.1 91367 2abqA 306 7.43e-01 2fflA 756 9.05e-01 1sheA 103 9.84e-01 d.274.1.1 105551 1wlsA 328 1.04e+00 1tx4A 198 1.19e+00 1tx4A a.116.1.1 19098 1tjoA 182 1.29e+00 1wwpA 119 1.31e+00 1nd6A 354 1.45e+00 c.60.1.2 80407 1wnfA 328 1.51e+00 1m1zA 513 1.54e+00 c.26.2.1,d.153.1.1 78457,78458 2ex3B 264 1.72e+00 1w33A 181 2.32e+00 2fbwC 141 2.36e+00 1ahxA 396 2.46e+00 1ajsA c.67.1.1 34293 2hpaA 342 2.89e+00 1cviA c.60.1.2 33985 2anuA 255 3.24e+00 1kktA 511 3.26e+00 a.102.2.1 68687 1jq5A 370 3.66e+00 e.22.1.2 67084 1gk9A 260 3.99e+00 d.153.1.2 65246 1wm1A 317 4.44e+00 c.69.1.7 109405 1k8kA 418 4.64e+00 c.55.1.1,c.55.1.1 68305,68306 1kid 203 4.68e+00 1derA c.8.5.1 30771 1l9hA 349 4.76e+00 f.13.1.2 73720 1twiA 434 4.83e+00 b.49.2.3,c.1.6.1 107399,107400 1rqjA 299 4.95e+00 a.128.1.1 97744 2bwvA 440 5.05e+00 1az9 457 5.32e+00 1az9 c.55.2.1,d.127.1.1 33547,41164 1xfiA 367 5.45e+00 e.50.1.1 109584 1u19A 349 5.53e+00 1srvA 145 5.67e+00 1derA c.8.5.1 30817 2be4A 272 5.67e+00 1wl9A 440 5.78e+00 1e3aA 260 6.32e+00 1ajqA d.153.1.2 41838 1v6tA 255 6.56e+00 1u2kA 309 7.32e+00 1jigA 146 7.59e+00 a.25.1.1 71685 2c2aA 258 7.60e+00 1qghA 156 8.13e+00 1qghA a.25.1.1 16728 1fmhB 33 8.29e+00 1fmhB k.6.1.1 46410 1jq0A 84 8.66e+00 h.3.2.1 71786 1qisA 396 8.77e+00 1ajsA c.67.1.1 34284 1gkzA 388 8.85e+00 a.29.5.1,d.122.1.4 65268,65269 1tufA 434 8.86e+00 b.49.2.3,c.1.6.1 107335,107336 1ay7B 89 8.92e+00 1ay7B c.9.1.1 30836 2aamA 309 9.31e+00 1qz5A 375 9.31e+00 c.55.1.1,c.55.1.1 96614,96615 1qtrA 317 9.45e+00 1qtrA c.69.1.7 34660 1v9dA 340 9.75e+00 a.207.1.1 100535 1z4eA 153 9.77e+00 2fxuA 375 1.01e+01 1ars 396 1.04e+01 1ajsA c.67.1.1 34287 2b7oA 464 1.04e+01 1r2zA 274 1.09e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1csn 298 1.10e+01 1csn d.144.1.7 41664 1colA 204 1.11e+01 1a87 f.1.1.1 43378 1zoyC 140 1.16e+01 1vgmA 378 1.17e+01 1urvA 190 1.18e+01 1ut0A 190 1.18e+01 a.1.1.2 108012 1hzxA 349 1.18e+01 1f88A f.13.1.2 61466 1nwzA 125 1.19e+01 d.110.3.1 86370 3pyp 125 1.20e+01 3pyp d.110.3.1 40897 1q0pA 223 1.25e+01 c.62.1.1 95507 1nox 205 1.25e+01 1nox d.90.1.1 40242 1evyA 366 1.27e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1yewB 247 1.27e+01 1z6aA 500 1.33e+01 1d8dA 377 1.34e+01 1ft1A a.118.6.1 19185 1iq8A 582 1.34e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1mkp 144 1.42e+01 1vhrA c.45.1.1 32654 1rpa 342 1.46e+01 1cviA c.60.1.2 33983 1chuA 540 1.49e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1wuaA 375 1.50e+01 1j6zA 376 1.53e+01 1yagA c.55.1.1,c.55.1.1 62667,62668 1g5aA 628 1.59e+01 b.71.1.1,c.1.8.1 65152,65153 1xqwA 293 1.63e+01 1yz7A 188 1.65e+01 1dgaA 375 1.67e+01 1yagA 1ywfA 296 1.68e+01 1q44A 326 1.69e+01 c.37.1.5 95779 1tn6A 382 1.70e+01 1xo1A 291 1.70e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1j8uA 325 1.72e+01 d.178.1.1 71611 1d4xA 375 1.82e+01 1yagA c.55.1.1,c.55.1.1 59107,59108 1azwA 313 1.83e+01 1qtrA c.69.1.7 34658 2a0iA 330 1.89e+01 1gk8A 475 1.89e+01 c.1.14.1,d.58.9.1 65234,65235 1hlvA 131 1.90e+01 a.4.1.7,a.4.1.7 65854,65855 1k4mA 213 1.90e+01 c.26.1.3 77258 1ey4A 149 1.93e+01 1snc b.40.1.1 24815 1ld8A 382 1.94e+01 a.118.6.1 73838 1nuuA 252 1.94e+01 c.26.1.3 86209 1qs1A 462 1.94e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 2bx2L 517 1.96e+01 1xjjA 644 1.99e+01 2end 138 2.01e+01 2end a.18.1.1 16400 2es4D 332 2.06e+01 2f8mA 244 2.09e+01 1ecfA 504 2.09e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1dxeA 256 2.09e+01 1dxeA c.1.12.5 29310 1uedA 406 2.11e+01 a.104.1.1 99256 1xmkA 79 2.15e+01 1kz7A 353 2.15e+01 a.87.1.1,b.55.1.1 73333,73334 1uvjA 664 2.16e+01 e.8.1.6 100045 1owfA 99 2.17e+01 a.55.1.1 87487 2fh5A 185 2.18e+01 1wmiA 90 2.18e+01 1dbhA 354 2.18e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1q8iA 783 2.21e+01 c.55.3.5,e.8.1.1 96208,96209 1yc9A 442 2.32e+01 1n1bA 549 2.32e+01 a.102.4.1,a.128.1.3 79799,79800 1wd7A 261 2.39e+01 1rcwA 231 2.41e+01 a.132.1.4 97299 1ld8B 437 2.47e+01 a.102.4.3 73839 1mtzA 293 2.47e+01 c.69.1.7 79467 1akhA 61 2.49e+01 1akhA a.4.1.1 15980 1l1zA 274 2.50e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1w2yA 229 2.52e+01 a.204.1.1 109140 4pah 308 2.52e+01 4pah d.178.1.1 42576 1hhsA 664 2.53e+01 1hi0P e.8.1.6 61045 1ymqA 261 2.54e+01 1qc7A 101 2.55e+01 1qc7A a.118.14.1 18456 2f6hX 419 2.58e+01 1ei5A 520 2.59e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1z5zA 271 2.60e+01 1lghA 56 2.61e+01 1lghA f.3.1.1 43733 1k07A 263 2.62e+01 d.157.1.1 77218 1wcwA 261 2.63e+01 1nm2A 317 2.65e+01 c.19.1.1,d.58.23.1 80654,80655 1jl5A 454 2.70e+01 c.10.2.6 66830 1pq1A 196 2.73e+01 f.1.4.1 94986 1p5jA 372 2.88e+01 c.79.1.1 104067 1jmsA 381 2.92e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 2gdzA 267 2.94e+01 2ahrA 259 2.96e+01 1tn6B 437 3.06e+01 1gvhA 396 3.07e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1tzvA 142 3.19e+01 a.79.1.1 107526 1ec7A 446 3.20e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1em9A 154 3.29e+01 1d1dA a.73.1.1 18333 1euhA 475 3.31e+01 1euhA c.82.1.1 35369 1qh8B 519 3.33e+01 1qguB c.92.2.3 35634 1yjsA 419 3.35e+01 1iz0A 302 3.35e+01 b.35.1.2,c.2.1.1 83821,83822 2d2yA 145 3.44e+01 1mw5A 187 3.47e+01 d.259.1.1 91477 1kl1A 419 3.48e+01 c.67.1.4 72663 1d8dB 437 3.51e+01 1ft1B a.102.4.3 18866 2aplA 157 3.53e+01 1tk9A 188 3.55e+01 c.80.1.3 107082 1yqgA 263 3.57e+01 1vqrA 297 3.60e+01 1ne2A 200 3.60e+01 c.66.1.32 85586 1pbgA 468 3.63e+01 1e70M c.1.8.4 28946 1n2aA 201 3.68e+01 a.45.1.1,c.47.1.5 91553,91554 1vprA 374 3.96e+01 1zowA 313 3.97e+01 2czlA 272 3.97e+01 1huuA 90 4.01e+01 1huuA a.55.1.1 17897 1irqA 71 4.01e+01 a.43.1.4 66297 2fvhA 120 4.04e+01 2btfA 375 4.11e+01 1yagA c.55.1.1,c.55.1.1 33429,33430 1xbtA 193 4.18e+01 1nw2A 105 4.27e+01 c.47.1.1 92215 1t6uA 117 4.30e+01 a.24.22.1 106584 1ki1B 352 4.38e+01 a.87.1.1,b.55.1.1 72497,72498 1w4rA 195 4.46e+01 1s2xA 206 4.48e+01 a.47.3.1 105229 1a0p 290 4.59e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 1tuzA 118 4.60e+01 1tq8A 163 4.70e+01 c.26.2.4 107204 1gqeA 365 4.73e+01 e.38.1.1 70351 1qrvA 73 4.74e+01 1cktA a.21.1.1 16425 1wrmA 165 4.75e+01 1qojA 63 4.79e+01 1qojA a.2.9.1 15716 1eyvA 156 4.82e+01 1eyvA a.79.1.1 18446 1q0gA 117 4.88e+01 a.24.22.1 104428 2g9iA 249 4.98e+01 1n35A 1267 5.00e+01 e.8.1.4 79935 1sesA 421 5.01e+01 1sesA a.2.7.1,d.104.1.1 15710,40710 1j34A 129 5.05e+01 d.169.1.1 84048 1eteA 134 5.08e+01 1eteA a.26.1.2 16869 1xewX 182 5.08e+01 1q4mA 221 5.08e+01 a.132.1.3 95805 1ni3A 392 5.12e+01 c.37.1.8,d.15.10.2 80531,80532 1dzoA 123 5.14e+01 1dzoA d.24.1.1 38378 1rwtA 232 5.18e+01 f.43.1.1 97992 1nh1A 330 5.19e+01 e.45.1.1 91871 2mnr 357 5.21e+01 2mnr c.1.11.2,d.54.1.1 29245,38889 1wdiA 345 5.26e+01 1bzpA 153 5.29e+01 1a6m a.1.1.2 15020 1m6jA 261 5.29e+01 c.1.1.1 78693 1gheA 177 5.32e+01 d.108.1.1 76222 1nkd 65 5.41e+01 1nkd a.30.1.1 16974 1kyqA 274 5.44e+01 c.2.1.11,e.37.1.1 73281,73282 1orjA 130 5.46e+01 a.24.19.1 93456 7odcA 424 5.47e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1oksA 56 5.48e+01 a.8.5.1 93271 1iab 200 5.50e+01 1iae d.92.1.8 40312 1a5t 334 5.51e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1iae 200 5.53e+01 1iae d.92.1.8 40311 1s5lT 32 5.54e+01 1p94A 76 5.57e+01 a.43.1.3 94380 1v64A 108 5.58e+01 a.21.1.1 108392 1qddA 144 5.59e+01 1qddA d.169.1.1 42324 1w9cA 321 5.64e+01 1jr8A 117 5.66e+01 a.24.15.1 67115 1xqoA 256 5.73e+01 1hziA 129 5.76e+01 1rcb a.26.1.2 61449 1wtyA 119 5.80e+01 1kshA 186 5.80e+01 c.37.1.8 72914 2gl5A 410 5.80e+01 1a48 306 5.84e+01 1a48 d.143.1.1 41590 2g38B 198 5.84e+01 2axtT 32 5.86e+01 2fhzA 109 5.88e+01 2fd5A 180 5.90e+01 1h5uA 842 5.91e+01 1a8i c.87.1.4 60655 1rcuA 195 5.91e+01 c.129.1.1 97295 2br9A 234 5.97e+01 1lrzA 426 6.04e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1q3eA 207 6.06e+01 b.82.3.2 95669 2f2gA 221 6.12e+01 1a6m 151 6.15e+01 1a6m a.1.1.2 15018 1lla 628 6.15e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1o5zA 442 6.17e+01 c.59.1.2,c.72.2.2 92530,92531 1h32A 261 6.18e+01 a.3.1.8,a.3.1.8 76618,76619 2eshA 118 6.18e+01 1yumA 242 6.21e+01 1obdA 306 6.23e+01 d.143.1.1 86767 2gfhA 260 6.24e+01 1on2A 142 6.28e+01 a.4.5.24,a.76.1.1 87103,87104 1g291 372 6.28e+01 1g291 1v52A 133 6.29e+01 1fm2A 169 6.29e+01 1fm2A d.153.1.2 59877 2dg5B 190 6.44e+01 2bodX 286 6.44e+01 1u59A 287 6.44e+01 d.144.1.7 107681 1a8i 842 6.48e+01 1a8i c.87.1.4 35490 2cwyA 94 6.50e+01 1h6zA 913 6.55e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1r7cA 31 6.57e+01 j.35.1.1 104831 1a4sA 503 6.60e+01 1bpwA c.82.1.1 35361 1e19A 314 6.70e+01 1b7bA c.73.1.1 34967 1rcb 129 6.72e+01 1rcb a.26.1.2 16854 1txgA 335 6.73e+01 1g0oA 283 6.73e+01 1ybvA c.2.1.2 60181 1spgB 147 6.89e+01 1cg5B a.1.1.2 15588 1u00A 227 6.94e+01 1o5hA 214 7.01e+01 a.191.1.1 92497 2g7lA 243 7.03e+01 1u61A 138 7.06e+01 a.149.1.1 107696 1ka2A 499 7.10e+01 d.92.1.5 77305 1c30B 382 7.14e+01 c.8.3.1,c.23.16.1 30736,31413 1xa1A 255 7.17e+01 e.3.1.1 109529 1qu1A 155 7.23e+01 1qu1A h.3.1.1 45670 2a1dD 329 7.29e+01 1xkzA 255 7.30e+01 1z7aA 308 7.31e+01 1d2zB 153 7.35e+01 1d2zB a.77.1.2 18439 1huw 166 7.36e+01 1huw a.26.1.1 16831 1mhyG 169 7.40e+01 1mtyG a.23.3.1 16518 1rtxA 123 7.49e+01 a.1.1.1 97827 1ss4A 153 7.55e+01 d.32.1.6 105976 1qsdA 106 7.56e+01 1qsdA a.7.5.1 16335 1ydhA 216 7.74e+01 1k8wA 327 7.74e+01 b.122.1.1,d.265.1.2 83094,90388 1q5yA 85 7.77e+01 d.58.18.4 95950 1wndA 495 7.77e+01 1z98A 281 7.81e+01 1ezvF 125 7.81e+01 1be3F f.27.1.1 59550 1kb9G 125 7.81e+01 f.27.1.1 77322 1x6zA 123 7.91e+01 1qpaA 345 7.94e+01 1arv a.93.1.1 18585 1s5jA 847 7.96e+01 1mucA 373 8.04e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 103m 154 8.10e+01 1a6m a.1.1.2 15124 2a14A 263 8.16e+01 1zs4A 83 8.31e+01 2aaoA 166 8.38e+01 1p5hA 428 8.40e+01 c.123.1.1 87802 2pgd 482 8.43e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1hcuA 503 8.48e+01 a.102.2.1 65796 1bg1A 722 8.51e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1or4A 178 8.51e+01 a.1.1.2 93447 1ntyA 311 8.62e+01 a.87.1.1,b.55.1.1 103873,103874 1iufA 144 8.68e+01 a.4.1.7,a.4.1.7 71439,71440 1fiuA 286 8.70e+01 1fiuA c.52.1.10 33317 2bykB 128 8.71e+01 1q7sA 117 8.73e+01 c.131.1.1 96055 1r5rA 119 8.74e+01 a.39.2.1 97104 1uxjA 309 8.77e+01 c.2.1.5,d.162.1.1 108112,108113 2b8wA 328 8.78e+01 2f06A 144 8.82e+01 1f0iA 504 8.89e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567