# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 2.32e-01 1nd6A 354 8.15e-01 c.60.1.2 80407 2hpaA 342 9.12e-01 1cviA c.60.1.2 33985 1srvA 145 9.16e-01 1derA c.8.5.1 30817 1b8zA 90 1.13e+00 1huuA a.55.1.1 17902 1tffA 234 1.32e+00 d.3.1.11 106854 1csn 298 1.41e+00 1csn d.144.1.7 41664 2fflA 756 1.70e+00 1sheA 103 2.22e+00 d.274.1.1 105551 1qkrA 188 2.34e+00 1qkrA a.24.9.1 16628 1e3aA 260 2.62e+00 1ajqA d.153.1.2 41838 2fbwC 141 2.66e+00 1gk9A 260 2.73e+00 d.153.1.2 65246 1az9 457 2.80e+00 1az9 c.55.2.1,d.127.1.1 33547,41164 2bwvA 440 2.90e+00 1wl9A 440 2.90e+00 1dmtA 696 3.52e+00 1dmtA d.92.1.4 40296 1r2zA 274 3.55e+00 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1nox 205 3.65e+00 1nox d.90.1.1 40242 1kid 203 3.86e+00 1derA c.8.5.1 30771 1mojA 182 4.11e+00 a.25.1.1 91367 1tjoA 182 4.11e+00 1tn6A 382 4.13e+00 1l1zA 274 4.20e+00 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1wlsA 328 4.43e+00 1r1hA 696 5.17e+00 d.92.1.4 104756 1d8dA 377 5.34e+00 1ft1A a.118.6.1 19185 1ld8A 382 5.40e+00 a.118.6.1 73838 1qghA 156 5.83e+00 1qghA a.25.1.1 16728 1w33A 181 5.85e+00 2anuA 255 6.09e+00 2abqA 306 6.32e+00 1rpa 342 6.36e+00 1cviA c.60.1.2 33983 1urvA 190 6.66e+00 1ut0A 190 6.66e+00 a.1.1.2 108012 1colA 204 6.99e+00 1a87 f.1.1.1 43378 1tx4A 198 7.17e+00 1tx4A a.116.1.1 19098 1dbhA 354 7.22e+00 1awe a.87.1.1,b.55.1.1 18514,26967 1vin 268 7.51e+00 1vin a.74.1.1,a.74.1.1 18354,18355 2ex3B 264 7.64e+00 1dz4A 414 7.74e+00 1phd a.104.1.1 18903 1d2zB 153 7.84e+00 1d2zB a.77.1.2 18439 1l9hA 349 7.97e+00 f.13.1.2 73720 1yt3A 375 8.32e+00 1u19A 349 8.33e+00 1qs1A 462 8.33e+00 1qs1A d.166.1.1,d.166.1.1 42260,42261 1qmqA 414 8.46e+00 1phd a.104.1.1 18907 1kl1A 419 8.68e+00 c.67.1.4 72663 1tufA 434 8.94e+00 b.49.2.3,c.1.6.1 107335,107336 1vpqA 273 9.19e+00 1spgB 147 9.29e+00 1cg5B a.1.1.2 15588 1z5bA 469 9.56e+00 2ah5A 210 9.75e+00 1hzxA 349 9.89e+00 1f88A f.13.1.2 61466 1w2yA 229 1.00e+01 a.204.1.1 109140 1rw6A 210 1.02e+01 a.47.4.1 105113 1re9A 414 1.02e+01 1em9A 154 1.04e+01 1d1dA a.73.1.1 18333 1mroB 442 1.06e+01 1mroB a.89.1.1,d.58.31.2 18531,39449 1hbnB 442 1.06e+01 1mroB a.89.1.1,d.58.31.2 60900,60901 2aelA 374 1.08e+01 1yjsA 419 1.10e+01 1j34A 129 1.12e+01 d.169.1.1 84048 1nrjB 218 1.12e+01 c.37.1.8 86125 1qc7A 101 1.14e+01 1qc7A a.118.14.1 18456 1jq5A 370 1.16e+01 e.22.1.2 67084 1j8uA 325 1.21e+01 d.178.1.1 71611 4pah 308 1.31e+01 4pah d.178.1.1 42576 2bx2L 517 1.39e+01 2fh5A 185 1.43e+01 1jmsA 381 1.45e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1qgrA 876 1.49e+01 1qgrA a.118.1.1 19119 1evyA 366 1.49e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1yc9A 442 1.52e+01 1v9dA 340 1.55e+01 a.207.1.1 100535 1omwA 689 1.61e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1gpmA 525 1.61e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1z6aA 500 1.65e+01 1twiA 434 1.68e+01 b.49.2.3,c.1.6.1 107399,107400 1m1zA 513 1.69e+01 c.26.2.1,d.153.1.1 78457,78458 1q4mA 221 1.70e+01 a.132.1.3 95805 1yrcA 414 1.70e+01 1s69A 124 1.70e+01 a.1.1.1 105305 1nw2A 105 1.74e+01 c.47.1.1 92215 1jigA 146 1.76e+01 a.25.1.1 71685 1jr8A 117 1.78e+01 a.24.15.1 67115 1zq9A 285 1.80e+01 2be4A 272 1.92e+01 1v6tA 255 1.95e+01 1g291 372 1.96e+01 1g291 1qojA 63 1.97e+01 1qojA a.2.9.1 15716 1ne2A 200 2.03e+01 c.66.1.32 85586 1hlvA 131 2.04e+01 a.4.1.7,a.4.1.7 65854,65855 1tk9A 188 2.05e+01 c.80.1.3 107082 1iq8A 582 2.11e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1v7pB 128 2.13e+01 d.169.1.1 108407 1ukmB 128 2.13e+01 d.169.1.1 99500 1kz7A 353 2.14e+01 a.87.1.1,b.55.1.1 73333,73334 1wmiA 90 2.19e+01 1wm1A 317 2.19e+01 c.69.1.7 109405 1z4eA 153 2.23e+01 1w7jA 795 2.25e+01 1na3A 91 2.25e+01 k.38.1.1 85481 1swvA 267 2.29e+01 1wtyA 119 2.34e+01 1vz6A 393 2.37e+01 d.154.1.2 108949 1miwA 404 2.40e+01 a.173.1.1,d.218.1.4 79162,79163 1qddA 144 2.42e+01 1qddA d.169.1.1 42324 1zoyC 140 2.42e+01 2f2gA 221 2.45e+01 1q0pA 223 2.45e+01 c.62.1.1 95507 1ay7B 89 2.45e+01 1ay7B c.9.1.1 30836 1kiyA 374 2.47e+01 a.128.1.5 72555 103m 154 2.47e+01 1a6m a.1.1.2 15124 1mll 154 2.49e+01 1a6m a.1.1.2 15057 2mgg 154 2.49e+01 1a6m a.1.1.2 15069 1vkmA 297 2.52e+01 c.138.1.1 108670 2fvhA 120 2.52e+01 1mod 154 2.54e+01 1a6m a.1.1.2 15107 1z63A 500 2.55e+01 1u7kA 131 2.58e+01 1mlo 154 2.58e+01 1a6m a.1.1.2 15085 1yyqA 374 2.64e+01 1mngA 203 2.64e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1txgA 335 2.64e+01 2ax6A 256 2.69e+01 2mgb 154 2.70e+01 1a6m a.1.1.2 15102 1chuA 540 2.71e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1mym 154 2.71e+01 1a6m a.1.1.2 15054 1n35A 1267 2.72e+01 e.8.1.4 79935 1mlg 154 2.73e+01 1a6m a.1.1.2 15104 1xqwA 293 2.76e+01 1io7A 368 2.79e+01 1f4tA a.104.1.1 18971 1z5zA 271 2.81e+01 1nwzA 125 2.83e+01 d.110.3.1 86370 3pyp 125 2.83e+01 3pyp d.110.3.1 40897 2spl 154 2.85e+01 1a6m a.1.1.2 15047 1a6m 151 2.87e+01 1a6m a.1.1.2 15018 1nswA 105 2.87e+01 c.47.1.1 92097 1x9bA 53 2.89e+01 1k8kA 418 2.89e+01 c.55.1.1,c.55.1.1 68305,68306 1fxxA 482 2.90e+01 1fxxA c.55.3.5 33726 1tdzA 272 2.91e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1g1eB 89 2.93e+01 1g1eB a.59.1.1 17931 1bzpA 153 2.94e+01 1a6m a.1.1.2 15020 1nnjA 271 2.97e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1euhA 475 3.01e+01 1euhA c.82.1.1 35369 1wnfA 328 3.07e+01 1w9cA 321 3.12e+01 1q3eA 207 3.14e+01 b.82.3.2 95669 1nh1A 330 3.25e+01 e.45.1.1 91871 1nzeA 149 3.26e+01 a.24.18.1 92374 1va6A 518 3.29e+01 1mu5A 471 3.43e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1pjjA 271 3.46e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1ki1B 352 3.46e+01 a.87.1.1,b.55.1.1 72497,72498 1t2bA 397 3.52e+01 2gdzA 267 3.61e+01 1g6hA 257 3.63e+01 1gajA c.37.1.12 60318 1e94F 449 3.70e+01 1do0A c.37.1.20 32443 1ey4A 149 3.75e+01 1snc b.40.1.1 24815 2bdeA 470 3.75e+01 1tfuA 157 3.76e+01 c.26.1.3 106859 1rtxA 123 3.82e+01 a.1.1.1 97827 1rfyA 102 3.86e+01 1w5rA 278 3.88e+01 1tq8A 163 3.91e+01 c.26.2.4 107204 1fmhB 33 3.94e+01 1fmhB k.6.1.1 46410 1mla 309 3.95e+01 1mla c.19.1.1,d.58.23.1 31031,39383 1bg1A 722 3.96e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1jwiB 125 4.02e+01 d.169.1.1 67384 1nm2A 317 4.07e+01 c.19.1.1,d.58.23.1 80654,80655 1rcwA 231 4.15e+01 a.132.1.4 97299 1ede 310 4.18e+01 1b6g c.69.1.8 34662 1l1lA 739 4.22e+01 c.7.1.4 73470 1v1rA 400 4.24e+01 c.36.1.11 108272 1ebmA 317 4.29e+01 1ebmA a.96.1.3,d.129.1.2 18751,41300 1vqrA 297 4.31e+01 1khoA 370 4.34e+01 a.124.1.1,b.12.1.3 72489,72490 1dxeA 256 4.39e+01 1dxeA c.1.12.5 29310 1yqgA 263 4.41e+01 1huuA 90 4.42e+01 1huuA a.55.1.1 17897 1azwA 313 4.42e+01 1qtrA c.69.1.7 34658 2a0iA 330 4.44e+01 7odcA 424 4.44e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 2f05A 105 4.46e+01 1e7lA 157 4.48e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1qtrA 317 4.49e+01 1qtrA c.69.1.7 34660 1dp3A 55 4.54e+01 1dp3A a.55.1.2 59128 1xnfA 275 4.54e+01 1b6g 310 4.61e+01 1b6g c.69.1.8 34661 1upaA 573 4.64e+01 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 1g5aA 628 4.68e+01 b.71.1.1,c.1.8.1 65152,65153 2fbmA 291 4.69e+01 1eemA 241 4.76e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1q44A 326 4.80e+01 c.37.1.5 95779 1r5rA 119 4.80e+01 a.39.2.1 97104 1gvhA 396 4.85e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1fohA 664 4.89e+01 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 1mdl 359 4.90e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1ec7A 446 4.92e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1pxvA 183 4.95e+01 d.3.1.1 95301 2c1vA 338 4.95e+01 1xewX 182 4.96e+01 1iscA 192 4.98e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 2c2aA 258 4.99e+01 1ev7A 317 5.02e+01 1ev7B c.52.1.9 33315 2g7lA 243 5.02e+01 1lq7A 67 5.04e+01 k.9.1.1 74183 1ypcI 64 5.06e+01 2sniI d.40.1.1 38570 1kktA 511 5.07e+01 a.102.2.1 68687 1vykA 149 5.08e+01 2a14A 263 5.08e+01 1y4hA 188 5.09e+01 1vgmA 378 5.12e+01 1or4A 178 5.12e+01 a.1.1.2 93447 1wwpA 119 5.16e+01 2axtT 32 5.17e+01 1zowA 313 5.30e+01 1uv0A 149 5.34e+01 d.169.1.1 100028 1xk4A 93 5.35e+01 1obbA 480 5.36e+01 c.2.1.5,d.162.1.2 86760,86761 1on2A 142 5.44e+01 a.4.5.24,a.76.1.1 87103,87104 1aszB 490 5.45e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 2ahrA 259 5.47e+01 1nkd 65 5.49e+01 1nkd a.30.1.1 16974 1wgwA 99 5.51e+01 1ymqA 261 5.53e+01 2a2cA 478 5.53e+01 2gfhA 260 5.53e+01 1ei5A 520 5.55e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1ecmA 109 5.57e+01 1ecmA a.130.1.1 19492 1akhA 61 5.57e+01 1akhA a.4.1.1 15980 2avpA 70 5.62e+01 1f75A 249 5.62e+01 1f75A c.101.1.1 59662 2mnr 357 5.65e+01 2mnr c.1.11.2,d.54.1.1 29245,38889 1ug7A 128 5.68e+01 a.24.24.1 107824 1w25A 459 5.69e+01 2d0eA 407 5.73e+01 2br9A 234 5.75e+01 2fd5A 180 5.80e+01 2cqnA 77 5.81e+01 1w98B 283 5.87e+01 1ywfA 296 5.93e+01 1qqfA 277 5.97e+01 1c3d a.102.4.4 18875 1yq7A 374 6.03e+01 1xfiA 367 6.08e+01 e.50.1.1 109584 1wr8A 231 6.10e+01 1pn0A 665 6.12e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 2aaoA 166 6.16e+01 1t6t1 118 6.19e+01 2b8wA 328 6.19e+01 2a2dA 478 6.25e+01 1jk0B 345 6.28e+01 a.25.1.2 63143 1to2I 64 6.29e+01 1ars 396 6.42e+01 1ajsA c.67.1.1 34287 1j6zA 376 6.44e+01 1yagA c.55.1.1,c.55.1.1 62667,62668 1ka2A 499 6.46e+01 d.92.1.5 77305 1hjzA 192 6.54e+01 c.50.1.2 83520 1yh6A 179 6.55e+01 1hhsA 664 6.55e+01 1hi0P e.8.1.6 61045 1iufA 144 6.62e+01 a.4.1.7,a.4.1.7 71439,71440 1u2kA 309 6.63e+01 1qh8B 519 6.64e+01 1qguB c.92.2.3 35634 1mp8A 281 6.64e+01 d.144.1.7 91384 2a3dA 73 6.67e+01 2a3dA k.9.1.1 46424 1n1cA 217 6.72e+01 a.184.1.1 85254 1us6A 102 6.74e+01 a.2.13.1 107999 1k4mA 213 6.76e+01 c.26.1.3 77258 1h8eD 482 6.77e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1fkmA 396 6.77e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 1yz7A 188 6.78e+01 1xl7A 612 6.81e+01 1d4xA 375 6.87e+01 1yagA c.55.1.1,c.55.1.1 59107,59108 1ni3A 392 6.91e+01 c.37.1.8,d.15.10.2 80531,80532 1qu1A 155 6.97e+01 1qu1A h.3.1.1 45670 1uptB 60 6.98e+01 a.193.1.1 99768 1tqgA 105 7.00e+01 a.24.10.3 107224 1rtwA 220 7.01e+01 a.132.1.3 97823 1fezA 256 7.05e+01 1fezA c.108.1.3 43343 1nuuA 252 7.07e+01 c.26.1.3 86209 1kekA 1231 7.10e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1dwtA 153 7.12e+01 1a6m a.1.1.2 15190 1mtzA 293 7.18e+01 c.69.1.7 79467 1gjnA 153 7.22e+01 a.1.1.2 70191 1qisA 396 7.28e+01 1ajsA c.67.1.1 34284 1f44A 324 7.33e+01 a.60.9.1,d.163.1.1 64982,64983 1b0uA 262 7.33e+01 1b0uA c.37.1.12 32370 1vhuA 211 7.37e+01 c.50.1.2 100703 1wcwA 261 7.38e+01 1buoA 121 7.39e+01 1buoA d.42.1.1 38631 1mkp 144 7.39e+01 1vhrA c.45.1.1 32654 2d09A 407 7.43e+01 1gnwA 211 7.45e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1rcuA 195 7.48e+01 c.129.1.1 97295 1tvzA 388 7.49e+01 c.95.1.2,c.95.1.2 107367,107368 1t46A 313 7.49e+01 d.144.1.7 106397 1gk8A 475 7.52e+01 c.1.14.1,d.58.9.1 65234,65235 1ash 150 7.54e+01 1ash a.1.1.2 15622 2end 138 7.56e+01 2end a.18.1.1 16400 1nbaA 264 7.56e+01 1nbaA c.33.1.3 31753 1xpkC 388 7.58e+01 4crxA 322 7.62e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1kw4A 89 7.65e+01 a.60.1.2 73077 1fx8A 281 7.67e+01 f.19.1.1 43651 1mkfA 382 7.71e+01 b.116.1.1 79232 1lw6I 64 7.73e+01 d.40.1.1 74294 1uvjA 664 7.82e+01 e.8.1.6 100045 1s5lT 32 7.85e+01 2dh4A 340 7.87e+01 1s2xA 206 7.88e+01 a.47.3.1 105229 1wuaA 375 7.96e+01 1z00B 84 7.96e+01 1dgaA 375 7.97e+01 1yagA 1mw5A 187 7.97e+01 d.259.1.1 91477 1qz5A 375 7.98e+01 c.55.1.1,c.55.1.1 96614,96615 2genA 197 8.01e+01 1rsoB 56 8.03e+01 a.194.1.1 97812 2g39A 497 8.08e+01 1r7cA 31 8.11e+01 j.35.1.1 104831 1z7aA 308 8.12e+01 1ah7 245 8.14e+01 1ah7 a.124.1.1 19339 1n2aA 201 8.15e+01 a.45.1.1,c.47.1.5 91553,91554 1u61A 138 8.16e+01 a.149.1.1 107696 1x7yA 400 8.26e+01 1gx3A 284 8.26e+01 d.3.1.5 70678 1wd7A 261 8.31e+01 1w68A 390 8.38e+01 a.25.1.2 109216 1xbtA 193 8.39e+01 1y74A 57 8.46e+01 1nbuA 119 8.48e+01 d.96.1.3 91767 1i7kA 179 8.51e+01 1u9aA d.20.1.1 61889 2cwyA 94 8.53e+01 2fxuA 375 8.61e+01 2bfdA 400 8.62e+01 16vpA 366 8.68e+01 16vpA d.180.1.1 42601 1mq4A 272 8.69e+01 d.144.1.7 91391 1oe9A 795 8.71e+01 b.34.3.1,c.37.1.9 92792,92793 1ydhA 216 8.74e+01 1rwtA 232 8.76e+01 f.43.1.1 97992 1wu7A 434 8.76e+01 1w4rA 195 8.77e+01 1epuA 591 8.79e+01 1dn1A e.25.1.1 43358 1gkzA 388 8.83e+01 a.29.5.1,d.122.1.4 65268,65269 1pi1A 185 8.90e+01 a.29.7.1 94699 1l2lA 457 8.93e+01 c.72.1.3 77656 1qf5A 431 8.95e+01 1adeA c.37.1.10 32212 1dgnA 89 8.96e+01 1dgnA a.77.1.3 18436