# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 3.20e-02 2fha 183 3.82e-02 2fha a.25.1.1 16674 1fha 183 4.06e-02 2fha a.25.1.1 16675 2fkzA 155 3.25e-01 1bcfA 158 3.45e-01 1bcfA a.25.1.1 16648 1rcd 173 4.10e-01 2fha a.25.1.1 16687 1r03A 182 5.75e-01 a.25.1.1 104675 1vjxA 157 6.54e-01 a.25.1.1 100837 1bjwA 382 7.00e-01 1bjwA c.67.1.1 34349 1us6A 102 7.29e-01 a.2.13.1 107999 1b5pA 385 7.35e-01 c.67.1.1 90403 1ux8A 132 7.92e-01 1rfyA 102 8.20e-01 1bgeA 175 8.64e-01 1bgc a.26.1.1 16823 1q8iA 783 8.89e-01 c.55.3.5,e.8.1.1 96208,96209 1hwyA 501 9.31e-01 1hwyA c.2.1.7,c.58.1.1 30262,33910 1bgeB 175 9.93e-01 1bgc a.26.1.1 16824 2aplA 157 1.29e+00 1bgc 174 2.03e+00 1bgc a.26.1.1 16822 1za0A 275 2.06e+00 1mojA 182 2.21e+00 a.25.1.1 91367 1tjoA 182 2.21e+00 1bg7 176 2.50e+00 2fha a.25.1.1 16686 1hwxA 501 2.56e+00 1hwyA c.2.1.7,c.58.1.1 30250,33898 1kx9A 112 3.45e+00 a.118.21.1 77602 1b5l 172 3.76e+00 1b5l a.26.1.3 16900 2cohA 202 3.97e+00 1tzvA 142 4.36e+00 a.79.1.1 107526 2fm9A 215 4.54e+00 1tf5A 844 5.09e+00 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 2fv1A 377 5.19e+00 1vd5A 377 5.65e+00 a.102.1.7 108518 2g2dA 193 5.76e+00 1lc5A 364 6.88e+00 c.67.1.1 73827 1bax 94 6.95e+00 1bax a.61.1.3 18133 4lbd 267 7.39e+00 2lbd a.123.1.1 19289 1jm0A 50 8.31e+00 k.8.1.1 66870 2lbd 267 8.36e+00 2lbd a.123.1.1 19287 1v2dA 381 8.49e+00 c.67.1.1 108281 1jadA 251 8.67e+00 h.4.10.1 66461 2b05A 246 9.43e+00 1hg2A 289 9.53e+00 1hg5A a.7.8.2,a.118.9.3 90358,90359 1mmoB 384 9.76e+00 1mtyB a.25.1.2 16768 1kv9A 668 9.94e+00 a.3.1.6,b.70.1.1 73056,73057 1e6qM 501 9.94e+00 1e70M c.1.8.4 28920 1hf8A 289 1.01e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 2myr 501 1.02e+01 1e4mM 501 1.03e+01 1e70M c.1.8.4 59226 1e70M 501 1.03e+01 1e70M c.1.8.4 28926 1hg5A 289 1.06e+01 1hg5A a.7.8.2,a.118.9.3 90360,90361 1n8vA 112 1.06e+01 a.118.21.1 85457 1mnzA 388 1.11e+01 c.1.15.3 79328 1gwcA 230 1.12e+01 a.45.1.1,c.47.1.5 70660,70661 3xis 387 1.12e+01 4xis c.1.15.3 29423 1xis 387 1.15e+01 4xis c.1.15.3 29422 4xis 387 1.15e+01 4xis c.1.15.3 29421 1jt6A 188 1.16e+01 a.4.1.9,a.121.1.1 67247,67248 1m6nA 802 1.18e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 78697,78698,78699,78700 1jsmB 176 1.22e+01 h.3.1.1 63265 2af6A 258 1.31e+01 1gw9A 388 1.32e+01 c.1.15.3 70658 1jgcA 161 1.37e+01 a.25.1.1 66673 1jigA 146 1.38e+01 a.25.1.1 71685 1a32 88 1.40e+01 1a32 a.16.1.2 16384 1zb1A 392 1.47e+01 1dchA 104 1.48e+01 1dcpA d.74.1.1 39692 1zzgA 415 1.54e+01 1hbnA 549 1.59e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1mroA 548 1.59e+01 1mroA a.89.1.1,d.58.31.2 18525,39443 2aexA 346 1.62e+01 1aew 174 1.70e+01 2fha a.25.1.1 16676 1rkpA 326 1.75e+01 a.211.1.2 97620 1li5A 461 1.76e+01 a.27.1.1,c.26.1.1 73912,73913 2fp1A 166 1.76e+01 2f6lA 166 1.76e+01 1uw4B 248 1.77e+01 a.118.1.14 100072 1h96A 182 1.78e+01 2fha a.25.1.1 60811 1lb3A 182 1.78e+01 a.25.1.1 77873 1xsm 390 1.81e+01 1xsm a.25.1.2 16804 1h0oA 390 1.81e+01 a.25.1.2 70845 2hekA 371 1.82e+01 2xis 387 1.83e+01 4xis c.1.15.3 29427 2astA 159 1.83e+01 1li5B 461 1.86e+01 a.27.1.1,c.26.1.1 73914,73915 1o26A 232 1.89e+01 d.207.1.1 86566 1w68A 390 1.96e+01 a.25.1.2 109216 1wryA 121 1.97e+01 1iv8A 720 1.97e+01 b.71.1.1,c.1.8.1 76842,76843 1dcoA 104 1.99e+01 1dcpA d.74.1.1 39680 1dcpA 104 1.99e+01 1dcpA d.74.1.1 39672 1ru0A 105 2.02e+01 1o4sA 389 2.05e+01 c.67.1.1 86620 1kq4A 232 2.06e+01 d.207.1.1 68791 1rktA 205 2.06e+01 a.4.1.9,a.121.1.1 97623,97624 1f93A 104 2.06e+01 1dcpA d.74.1.1 39688 1d3yA 301 2.13e+01 1d3yA e.12.1.1 43252 1jusA 194 2.13e+01 a.4.1.9,a.121.1.1 67326,67327 1xm9A 457 2.18e+01 1z5rA 306 2.26e+01 1hrhA 136 2.32e+01 1rthA c.55.3.1 33577 1lkcA 364 2.33e+01 c.67.1.1 73978 1k04A 162 2.37e+01 a.24.14.1 67904 2dc4A 165 2.47e+01 1knqA 175 2.49e+01 c.37.1.17 72786 1fmk 452 2.55e+01 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24511,40436,41690 1cgo 127 2.59e+01 1cpq a.24.3.2 16550 1ljrA 244 2.64e+01 1ljrA a.45.1.1,c.47.1.5 17707,33001 1yewC 289 2.67e+01 1nkpA 88 2.69e+01 a.38.1.1 80573 1n97A 389 2.76e+01 a.104.1.1 80335 1pszA 303 2.83e+01 1toaA c.92.2.2 35600 1l6nA 289 2.84e+01 a.61.1.1,a.73.1.1 73624,73625 1yviA 149 2.86e+01 1uf2C 421 2.89e+01 a.115.1.3,b.19.1.1 99291,99292 1h0cA 392 2.98e+01 c.67.1.3 83424 1dat 174 3.02e+01 2fha a.25.1.1 16677 1h3lA 87 3.03e+01 a.177.1.1 76639 2ygsA 92 3.06e+01 1cy5A a.77.1.3 18431 6gsvA 217 3.09e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1jqhA 308 3.12e+01 d.144.1.7 71793 2cj4A 150 3.14e+01 1cy5A 97 3.25e+01 1cy5A a.77.1.3 18430 1pmi 440 3.26e+01 1pmi b.82.1.3 28114 2nsyA 271 3.46e+01 2nsyA c.26.2.1 31612 1ih8A 271 3.47e+01 2nsyA c.26.2.1 62377 1t5eA 360 3.47e+01 f.46.1.1 106436 1z5hA 780 3.60e+01 1tk1A 260 3.68e+01 d.248.1.1 107066 1vf7A 369 3.77e+01 f.46.1.1 108557 1kqpA 271 3.80e+01 c.26.2.1 72883 1b8fA 509 3.81e+01 1b8fA a.127.1.2 19434 1nsyA 271 3.82e+01 2nsyA c.26.2.1 31614 1bp3A 191 3.93e+01 1huw a.26.1.1 16838 1j5kA 89 3.99e+01 d.51.1.1 71565 1fz1C 389 4.05e+01 1mtyB a.25.1.2 16746 1wu4A 396 4.05e+01 1muwA 386 4.07e+01 c.1.15.3 79495 1mpgA 282 4.07e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1ec5A 50 4.17e+01 1ec5A k.8.1.1 46421 1ej5A 107 4.17e+01 1ej5A a.68.1.1 18268 1k3kA 158 4.22e+01 f.1.4.1 72017 1js8A 394 4.26e+01 a.86.1.1,b.112.1.1 67219,67220 1p4oA 322 4.51e+01 d.144.1.7 87775 1fcyA 236 4.66e+01 2lbd a.123.1.1 19282 1ne6A 283 4.73e+01 b.82.3.2,b.82.3.2 91831,91832 1s9pA 227 4.79e+01 a.123.1.1 105384 1vcsA 102 4.81e+01 2es4D 332 4.92e+01 2ccyA 128 4.96e+01 2ccyA a.24.3.2 16544 2dvh 79 4.96e+01 1c53 a.3.1.1 15803 2aclB 244 4.98e+01 1jhfA 202 5.01e+01 a.4.5.2,b.87.1.1 63057,63058 1n1bA 549 5.10e+01 a.102.4.1,a.128.1.3 79799,79800 1mtyB 384 5.22e+01 1mtyB a.25.1.2 16740 1u7gA 385 5.26e+01 f.44.1.1 107723 1ixmB 192 5.28e+01 1ixmA d.123.1.1 41115 1d8wA 426 5.34e+01 1de5A c.1.15.2 29394 1ltzA 297 5.35e+01 d.178.1.1 74254 1de5A 426 5.38e+01 1de5A c.1.15.2 29402 1bqnA 558 5.40e+01 1rthA c.55.3.1,e.8.1.2 33599,43064 1rw6A 210 5.43e+01 a.47.4.1 105113 1wwiA 148 5.53e+01 1y3nA 490 5.55e+01 1cnt1 187 5.55e+01 1cnt3 1pi1A 185 5.64e+01 a.29.7.1 94699 1u6tA 121 5.66e+01 1k3pA 426 5.79e+01 a.103.1.1 77237 1h2sA 225 5.93e+01 f.13.1.1 76578 1de6A 426 6.01e+01 1de5A c.1.15.2 29398 1urvA 190 6.13e+01 1ut0A 190 6.13e+01 a.1.1.2 108012 1wer 334 6.18e+01 1wer a.116.1.2 19108 1v7bA 185 6.23e+01 2f57A 317 6.25e+01 1s1hC 192 6.29e+01 i.1.1.1 105156 1r2fA 319 6.37e+01 1r2fA a.25.1.2 16800 1kllA 130 6.39e+01 d.32.1.2 72720 1htoA 477 6.40e+01 d.15.9.1,d.128.1.1 70987,70988 1bza 262 6.44e+01 1btl e.3.1.1 42701 1iysA 262 6.45e+01 e.3.1.1 90723 1kmiZ 214 6.47e+01 h.4.11.1 72752 1hniB 427 6.49e+01 1rthA e.8.1.2 43045 1fm2A 169 6.53e+01 1fm2A d.153.1.2 59877 1yt8A 539 6.53e+01 1jgjA 217 6.54e+01 1c3wA f.13.1.1 62952 2cdqA 510 6.59e+01 1ar1B 298 6.61e+01 2occB b.6.1.2,f.17.2.1 23037,43619 1htqA 477 6.63e+01 d.15.9.1,d.128.1.1 71035,71036 1o6uA 403 6.63e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 2dc3A 193 6.63e+01 1zboA 210 6.73e+01 1o5kA 306 6.77e+01 c.1.10.1 92504 1w3iA 293 6.77e+01 c.1.10.1 109152 1bqnB 430 6.81e+01 1rthA e.8.1.2 43065 1konA 249 6.93e+01 e.39.1.1 72823 1xg7A 250 6.94e+01 1ixmA 192 6.98e+01 1ixmA d.123.1.1 41114 2fh1A 344 6.99e+01 1ee4A 423 6.99e+01 1ee4A a.118.1.1 19128 1or0A 160 7.00e+01 d.153.1.2 93445 1rzl 91 7.00e+01 1rzl a.52.1.1 17817 1kpsB 171 7.04e+01 a.118.12.1 68787 1e19A 314 7.05e+01 1b7bA c.73.1.1 34967 1f7uA 607 7.16e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1qsdA 106 7.21e+01 1qsdA a.7.5.1 16335 1be3D 241 7.24e+01 1be3D a.3.1.3,f.23.11.1 15955,43666 1txnA 328 7.28e+01 1wleA 501 7.28e+01 1w6kA 732 7.28e+01 1tahA 318 7.37e+01 1cvl c.69.1.18 34775 2af4C 333 7.41e+01 1qxoA 388 7.42e+01 d.258.1.1 96539 1ek8A 185 7.45e+01 1ek8A d.67.3.1 59444 1q0gA 117 7.50e+01 a.24.22.1 104428 1jtyA 194 7.58e+01 a.4.1.9,a.121.1.1 67292,67293 1qsaA 618 7.69e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1toaA 313 7.71e+01 1toaA c.92.2.2 35598 1ib2A 349 7.73e+01 1ib2A a.118.1.8 62141 1wmwA 330 7.78e+01 1l2iA 261 7.83e+01 a.123.1.1 73503 1lfpA 249 7.87e+01 e.39.1.1 73885 1zeeA 403 7.88e+01 1gd9A 389 8.06e+01 c.67.1.1 60454 1bib 321 8.07e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 1lea 84 8.10e+01 1lea a.4.5.2 16085 1cwyA 500 8.13e+01 1cwyA c.1.8.1 28789 1p8xA 344 8.22e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1ucyH 150 8.23e+01 1ucyH 1h7eA 245 8.26e+01 c.68.1.13 60717 2awiA 317 8.29e+01 1lylA 504 8.39e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1a6i 217 8.42e+01 2tct a.4.1.9,a.121.1.1 16066,19243 1bjz 207 8.50e+01 2tct a.4.1.9,a.121.1.1 16065,19242 1midA 91 8.52e+01 a.52.1.1 91280 1h6pA 203 8.52e+01 a.146.1.1 60690 1y01A 102 8.55e+01 1emy 153 8.58e+01 1a6m a.1.1.2 15204 1fgkA 310 8.65e+01 1fgkA d.144.1.7 41693 1iyoA 262 8.66e+01 e.3.1.1 76970 1wyuA 438 8.67e+01 1p2xA 159 8.67e+01 a.40.1.1 104062 1rthA 560 8.68e+01 1rthA c.55.3.1,e.8.1.2 33576,43028 1srqA 341 8.74e+01 e.55.1.1 105967 1vpi 122 8.75e+01 1poa a.133.1.2 19559 1yk3A 210 8.77e+01 1sly 618 8.80e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 2grrB 170 8.85e+01 1xjuA 163 8.87e+01 1acp 77 8.91e+01 1acp a.28.1.1 16931 2ag4A 164 8.96e+01