# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 1z6oM 191 9.68e-03 1fha 183 6.71e-02 2fha a.25.1.1 16675 2fha 183 6.71e-02 2fha a.25.1.1 16674 1bcfA 158 7.64e-02 1bcfA a.25.1.1 16648 1vjxA 157 1.03e-01 a.25.1.1 100837 2fkzA 155 1.15e-01 1r03A 182 2.04e-01 a.25.1.1 104675 1rcd 173 2.17e-01 2fha a.25.1.1 16687 1bgeA 175 2.23e-01 1bgc a.26.1.1 16823 1za0A 275 4.18e-01 1q8iA 783 5.78e-01 c.55.3.5,e.8.1.1 96208,96209 1mojA 182 5.87e-01 a.25.1.1 91367 1tjoA 182 6.25e-01 1bgeB 175 6.30e-01 1bgc a.26.1.1 16824 1bg7 176 6.78e-01 2fha a.25.1.1 16686 1bgc 174 1.01e+00 1bgc a.26.1.1 16822 1b5pA 385 1.18e+00 c.67.1.1 90403 1bjwA 382 1.29e+00 1bjwA c.67.1.1 34349 1ljrA 244 2.00e+00 1ljrA a.45.1.1,c.47.1.5 17707,33001 1rktA 205 2.13e+00 a.4.1.9,a.121.1.1 97623,97624 1b5l 172 2.65e+00 1b5l a.26.1.3 16900 1ux8A 132 3.29e+00 1m6nA 802 3.57e+00 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 78697,78698,78699,78700 1k04A 162 3.92e+00 a.24.14.1 67904 1rfyA 102 4.54e+00 1us6A 102 4.75e+00 a.2.13.1 107999 1tf5A 844 4.81e+00 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 2cohA 202 5.23e+00 1kx9A 112 5.90e+00 a.118.21.1 77602 1jm0A 50 6.29e+00 k.8.1.1 66870 1hwyA 501 6.89e+00 1hwyA c.2.1.7,c.58.1.1 30262,33910 1jgcA 161 7.00e+00 a.25.1.1 66673 1ixmA 192 7.37e+00 1ixmA d.123.1.1 41114 1vd5A 377 8.03e+00 a.102.1.7 108518 1jadA 251 8.43e+00 h.4.10.1 66461 2fm9A 215 8.57e+00 1h96A 182 9.44e+00 2fha a.25.1.1 60811 1lb3A 182 9.73e+00 a.25.1.1 77873 1zb1A 392 9.78e+00 1zzgA 415 1.03e+01 1iw8A 231 1.05e+01 a.111.1.1 76866 1pszA 303 1.09e+01 1toaA c.92.2.2 35600 1hwxA 501 1.09e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 1r8iA 213 1.11e+01 a.8.7.1 97239 1n97A 389 1.11e+01 a.104.1.1 80335 1gwcA 230 1.12e+01 a.45.1.1,c.47.1.5 70660,70661 1l6nA 289 1.22e+01 a.61.1.1,a.73.1.1 73624,73625 1e1dA 553 1.26e+01 1e1dA e.26.1.1 43363 2aplA 157 1.28e+01 1pi1A 185 1.35e+01 a.29.7.1 94699 1e2uA 553 1.42e+01 1e1dA e.26.1.1 43362 1gntA 553 1.43e+01 e.26.1.1 70290 1lkcA 364 1.43e+01 c.67.1.1 73978 1konA 249 1.48e+01 e.39.1.1 72823 1hrhA 136 1.51e+01 1rthA c.55.3.1 33577 1n8vA 112 1.53e+01 a.118.21.1 85457 1v2dA 381 1.56e+01 c.67.1.1 108281 1jsmB 176 1.59e+01 h.3.1.1 63265 1o26A 232 1.64e+01 d.207.1.1 86566 1d2tA 231 1.66e+01 1d2tA a.111.1.1 19052 1gw9A 388 1.75e+01 c.1.15.3 70658 1mnzA 388 1.76e+01 c.1.15.3 79328 1bp3A 191 1.77e+01 1huw a.26.1.1 16838 1o4sA 389 1.79e+01 c.67.1.1 86620 2f6lA 166 1.80e+01 2fp1A 166 1.80e+01 1jigA 146 1.80e+01 a.25.1.1 71685 2dc3A 193 1.81e+01 1toaA 313 1.82e+01 1toaA c.92.2.2 35598 1vcsA 102 1.83e+01 1s9pA 227 1.84e+01 a.123.1.1 105384 1xis 387 1.85e+01 4xis c.1.15.3 29422 2xis 387 1.85e+01 4xis c.1.15.3 29427 1ek8A 185 1.90e+01 1ek8A d.67.3.1 59444 4xis 387 1.92e+01 4xis c.1.15.3 29421 1dat 174 1.93e+01 2fha a.25.1.1 16677 3xis 387 1.95e+01 4xis c.1.15.3 29423 1buyA 166 1.95e+01 1eerA a.26.1.2 16848 1urvA 190 1.97e+01 1ut0A 190 1.97e+01 a.1.1.2 108012 1lc5A 364 2.02e+01 c.67.1.1 73827 1aew 174 2.04e+01 2fha a.25.1.1 16676 1eza 259 2.10e+01 1zymA a.60.10.1,c.8.1.2 18113,30708 1k0fA 277 2.11e+01 c.92.2.2 71974 1dchA 104 2.14e+01 1dcpA d.74.1.1 39692 1h0cA 392 2.17e+01 c.67.1.3 83424 1fkoA 543 2.19e+01 1rthA c.55.3.1,e.8.1.2 33612,43094 1h6hA 143 2.21e+01 d.189.1.1 65681 2cj4A 150 2.24e+01 1gd9A 389 2.29e+01 c.67.1.1 60454 1e4mM 501 2.38e+01 1e70M c.1.8.4 59226 1tk1A 260 2.40e+01 d.248.1.1 107066 1e70M 501 2.40e+01 1e70M c.1.8.4 28926 1e6qM 501 2.41e+01 1e70M c.1.8.4 28920 1q6aA 107 2.45e+01 a.186.1.1 95966 1e7uA 961 2.47e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 4lbd 267 2.51e+01 2lbd a.123.1.1 19289 1f93A 104 2.52e+01 1dcpA d.74.1.1 39688 1muwA 386 2.53e+01 c.1.15.3 79495 6gsvA 217 2.69e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1nkpA 88 2.73e+01 a.38.1.1 80573 1iv8A 720 2.81e+01 b.71.1.1,c.1.8.1 76842,76843 1kq4A 232 2.82e+01 d.207.1.1 68791 2hekA 371 2.83e+01 1gdeA 389 2.84e+01 c.67.1.1 60456 1jt6A 188 2.87e+01 a.4.1.9,a.121.1.1 67247,67248 2myr 501 2.90e+01 1ec5A 50 2.97e+01 1ec5A k.8.1.1 46421 2g3bA 208 3.04e+01 1dugA 234 3.22e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1wn0A 145 3.22e+01 1h0oA 390 3.26e+01 a.25.1.2 70845 1dcoA 104 3.29e+01 1dcpA d.74.1.1 39680 1fmk 452 3.31e+01 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24511,40436,41690 1dcpA 104 3.31e+01 1dcpA d.74.1.1 39672 2cb5A 453 3.39e+01 3gcb d.3.1.1 37035 1mroA 548 3.44e+01 1mroA a.89.1.1,d.58.31.2 18525,39443 1rkpA 326 3.50e+01 a.211.1.2 97620 1yviA 149 3.61e+01 1fm2A 169 3.67e+01 1fm2A d.153.1.2 59877 2lbd 267 3.69e+01 2lbd a.123.1.1 19287 2fb1A 226 3.69e+01 1qxoA 388 3.77e+01 d.258.1.1 96539 1rthA 560 3.80e+01 1rthA c.55.3.1,e.8.1.2 33576,43028 1lfpA 249 3.85e+01 e.39.1.1 73885 1nlwA 80 3.85e+01 a.38.1.1 80633 1or0A 160 3.86e+01 d.153.1.2 93445 1knqA 175 3.87e+01 c.37.1.17 72786 1e19A 314 3.89e+01 1b7bA c.73.1.1 34967 1g13A 162 3.91e+01 1g13A b.95.1.1 60194 1ru0A 105 3.91e+01 1yt8A 539 3.93e+01 1bax 94 3.96e+01 1bax a.61.1.3 18133 1s5lZ 62 3.98e+01 1pbgA 468 4.00e+01 1e70M c.1.8.4 28946 1f7uA 607 4.00e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1mhyB 395 4.09e+01 1mtyB a.25.1.2 16781 2af6A 258 4.12e+01 2ygsA 92 4.13e+01 1cy5A a.77.1.3 18431 1mmoB 384 4.15e+01 1mtyB a.25.1.2 16768 1jusA 194 4.15e+01 a.4.1.9,a.121.1.1 67326,67327 1jk0B 345 4.30e+01 a.25.1.2 63143 1cd9C 175 4.38e+01 1bgc a.26.1.1 16816 2g2dA 193 4.38e+01 2dvh 79 4.41e+01 1c53 a.3.1.1 15803 1jtyA 194 4.42e+01 a.4.1.9,a.121.1.1 67292,67293 1htqA 477 4.49e+01 d.15.9.1,d.128.1.1 71035,71036 2ezi 75 4.52e+01 2ezh a.4.1.2 16028 1giqA 413 4.53e+01 d.166.1.1,d.166.1.1 76224,76225 1cy5A 97 4.70e+01 1cy5A a.77.1.3 18430 2ezh 75 4.72e+01 2ezh a.4.1.2 16029 1u6tA 121 4.78e+01 2g5cA 281 4.83e+01 1bqnA 558 4.86e+01 1rthA c.55.3.1,e.8.1.2 33599,43064 1xmeA 568 4.87e+01 2ag9A 164 4.90e+01 2ag4A 164 4.92e+01 2ceyA 306 4.93e+01 1y60A 169 4.97e+01 1lylA 504 4.98e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1cxc 124 5.02e+01 1ycc a.3.1.1 15890 1a7m 180 5.05e+01 1lki a.26.1.1 16830 1u7gA 385 5.09e+01 f.44.1.1 107723 1wmwA 330 5.11e+01 1sqgA 429 5.24e+01 a.79.1.3,c.66.1.38 105912,105913 1d3yA 301 5.27e+01 1d3yA e.12.1.1 43252 1vrtA 560 5.33e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1rzl 91 5.36e+01 1rzl a.52.1.1 17817 1rypE 242 5.36e+01 1rypE d.153.1.4 41936 1b43A 340 5.39e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 3pbgA 468 5.42e+01 1e70M c.1.8.4 28951 1mpgA 282 5.53e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 2axtZ 62 5.56e+01 1orjA 130 5.57e+01 a.24.19.1 93456 1kllA 130 5.62e+01 d.32.1.2 72720 1ehkC 33 5.62e+01 1ehkC f.23.9.1 43626 1vf7A 369 5.66e+01 f.46.1.1 108557 1om0A 274 5.68e+01 c.1.8.5 87058 2dc4A 165 5.76e+01 1ee4A 423 5.78e+01 1ee4A a.118.1.1 19128 1ne2A 200 5.82e+01 c.66.1.32 85586 1jsdB 176 5.82e+01 h.3.1.1 63259 1zq9A 285 5.93e+01 1e1oA 504 5.95e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1rw6A 210 5.95e+01 a.47.4.1 105113 1k3kA 158 5.98e+01 f.1.4.1 72017 1pu5A 164 6.00e+01 b.95.1.1 104310 1iseA 185 6.09e+01 d.67.3.1 90691 1txnA 328 6.10e+01 1b8xA 280 6.11e+01 1b8xA a.45.1.1,c.47.1.5 17739,33033 1v7nV 163 6.16e+01 a.26.1.2 100476 1ta3A 274 6.18e+01 c.1.8.5 106731 1qsdA 106 6.20e+01 1qsdA a.7.5.1 16335 2cxbA 124 6.20e+01 1ycc a.3.1.1 15891 1eetA 557 6.28e+01 1rthA c.55.3.1,e.8.1.2 33608,43078 2cbiA 594 6.33e+01 1midA 91 6.36e+01 a.52.1.1 91280 1dttA 560 6.39e+01 1rthA c.55.3.1,e.8.1.2 33611,43088 1htoA 477 6.39e+01 d.15.9.1,d.128.1.1 70987,70988 1qoxN 449 6.40e+01 1qoxN c.1.8.4 28978 2a2oA 258 6.48e+01 1b24A 188 6.49e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 2a2mA 258 6.51e+01 1wleA 501 6.52e+01 2awiA 317 6.59e+01 2bvcA 486 6.60e+01 1ufwA 95 6.70e+01 d.58.7.1 99358 1p5sA 203 6.76e+01 a.40.1.1 94147 1ar1B 298 6.86e+01 2occB b.6.1.2,f.17.2.1 23037,43619 1xm9A 457 6.87e+01 1uouA 474 6.91e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1bib 321 6.92e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 1wa5B 530 6.96e+01 2aelA 374 6.99e+01 1q8hA 49 7.02e+01 g.32.1.1 96207 1ej5A 107 7.06e+01 1ej5A a.68.1.1 18268 1fk5A 93 7.12e+01 1rzl a.52.1.1 59866 1bqnB 430 7.12e+01 1rthA e.8.1.2 43065 1mzm 93 7.13e+01 1rzl a.52.1.1 17814 1fk9A 543 7.34e+01 1rthA c.55.3.1,e.8.1.2 33607,43080 1b8dA 164 7.44e+01 1cpcA a.1.1.3 15665 1kpsB 171 7.45e+01 a.118.12.1 68787 1brwA 433 7.47e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1li5A 461 7.47e+01 a.27.1.1,c.26.1.1 73912,73913 1muhA 481 7.49e+01 c.55.3.4 79485 1jfzA 154 7.64e+01 a.149.1.1 66655 1hfeS 123 7.68e+01 1hfeS a.137.4.1 19640 5abp 306 7.69e+01 8abp c.93.1.1 35651 1abe 306 7.70e+01 8abp c.93.1.1 35648 1zboA 210 7.72e+01 1wwiA 148 7.74e+01 2hntE 81 7.75e+01 1ucyH 1fz1C 389 7.78e+01 1mtyB a.25.1.2 16746 1uc2A 481 7.86e+01 d.261.1.1 99161 1jli 112 7.87e+01 1jli a.26.1.2 16884 1odeA 122 7.90e+01 d.79.1.2 86846 1uw4B 248 7.97e+01 a.118.1.14 100072 1ufyA 122 8.06e+01 d.79.1.2 88489 1t5oA 351 8.07e+01 c.124.1.5 106459 1gvhA 396 8.22e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1po5A 476 8.23e+01 a.104.1.1 94963 1sfjA 238 8.23e+01 1hbnA 549 8.27e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1wyuA 438 8.31e+01 1vjoA 393 8.35e+01 c.67.1.3 100827 1ireA 204 8.47e+01 d.149.1.1 76769 1bs0A 384 8.53e+01 1bs0A c.67.1.4 34490 1eemA 241 8.59e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1ugpA 203 8.63e+01 d.149.1.1 107831 1kv9A 668 8.68e+01 a.3.1.6,b.70.1.1 73056,73057 1bk6A 422 8.70e+01 1bk5A a.118.1.1 19133 1cwyA 500 8.73e+01 1cwyA c.1.8.1 28789 1jfaA 374 8.76e+01 a.128.1.5 66622 1mtyB 384 8.81e+01 1mtyB a.25.1.2 16740 1ucyH 150 8.87e+01 1ucyH 2a3qA 170 8.99e+01