# List of top-scoring protein chains for t04-100-30-dssp-ebghstl 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 1pj5A 830 7.05e-52 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1nrkA 328 2.37e-39 unknown_sccs -4071 unknown_sccs -10176 1g7sA 594 6.45e-03 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1li4A 432 4.25e-02 c.2.1.4 84616 c.23.12.3 84617 1ja1A 622 5.12e-02 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1vjtA 483 1.10e-01 c.2.1.5 -5941 d.162.1.2 -11508 1j6wA 175 1.19e-01 1j98A d.185.1.2 62663 1hrhA 136 1.94e-01 1rthA c.55.3.1 33577 1d4fA 431 2.97e-01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1ltlA 279 4.69e-01 b.40.4.11 84701 1dxrH 258 4.91e-01 6prcH b.41.1.1 25456 f.23.10.1 43433 1vjeA 166 4.94e-01 d.185.1.2 -10261 1opy 131 5.45e-01 1opy d.17.4.3 38113 1id0A 152 5.91e-01 d.122.1.3 66111 1m98A 317 6.88e-01 a.175.1.1 78866 d.17.4.6 78867 1qhqA 140 7.05e-01 1qhqA b.6.1.1 63326 1t2dA 322 7.38e-01 c.2.1.5 -5920 d.162.1.1 -11487 1dmmA 131 7.49e-01 1opy d.17.4.3 38114 1m1nB 522 8.41e-01 c.92.2.3 78418 1innA 166 8.57e-01 1j98A d.185.1.2 62608 1dbxA 158 9.25e-01 1dbuA d.116.1.1 40928 1io1A 398 9.64e-01 1io1A e.32.1.1 62611 1pcfA 66 1.03e+00 1pcfA d.18.1.1 38142 1a7tA 232 1.32e+00 1a7tA d.157.1.1 42041 1fcjA 322 1.40e+00 1oasA c.79.1.1 35289 1pv9A 348 1.45e+00 c.55.2.1 -7610 d.127.1.1 -11000 1g0oA 283 1.54e+00 1ybvA c.2.1.2 60181 1ko3A 230 1.61e+00 d.157.1.1 -11454 1djxB 624 1.73e+00 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1pz1A 333 1.77e+00 c.1.7.1 -5255 1jcfA 344 1.84e+00 c.55.1.1 62878 c.55.1.1 62879 1ufkA 254 1.87e+00 unknown_sccs -8103 1chmA 401 2.24e+00 1chmA c.55.2.1 33545 d.127.1.1 41142 1djxA 624 2.33e+00 1djxB a.39.1.7 17342 b.7.1.1 23159 c.1.18.1 29587 1iy8A 267 2.33e+00 c.2.1.2 83774 2fcr 173 2.34e+00 1rcf c.23.5.1 31151 1f20A 435 2.92e+00 b.43.4.1 64932 c.25.1.4 64933 1jjtA 228 2.98e+00 1a7tA d.157.1.1 63139 1tuhA 156 2.99e+00 1iq4A 179 3.09e+00 1iq4A d.77.1.1 62641 1lj5A 379 3.10e+00 e.1.1.1 73928 1r72A 211 3.13e+00 unknown_sccs -215 unknown_sccs -5981 1jmxA 494 3.36e+00 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 1jjeA 222 3.44e+00 1a7tA d.157.1.1 63117 1ldg 316 3.56e+00 1ceqA c.2.1.5 30165 d.162.1.1 42132 1a7cA 379 3.75e+00 1sek e.1.1.1 42660 1cuk 203 3.87e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1i50B 1224 3.97e+00 e.29.1.1 61755 1kk1A 410 4.11e+00 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1m32A 366 4.27e+00 c.67.1.3 78508 1s0uA 408 4.49e+00 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1a4sA 503 4.50e+00 1bpwA c.82.1.1 35361 1c24A 263 4.54e+00 1c24A d.127.1.1 41148 1a04A 215 4.76e+00 1a04A a.4.6.2 16234 c.23.1.1 31089 1gdoA 240 4.80e+00 1gdoA d.153.1.1 41804 1o6uA 403 4.83e+00 a.5.3.1 -366 unknown_sccs -3048 c.13.1.1 -6221 1e0wA 313 4.87e+00 1taxA c.1.8.3 59150 1nxmA 197 4.87e+00 b.82.1.1 86385 1e1oA 504 4.89e+00 1lylA b.40.4.1 25258 d.104.1.1 40714 1t8hA 277 5.15e+00 1n6aA 259 5.29e+00 b.76.2.1 80121 b.85.7.1 80122 1b1cA 181 5.35e+00 1amoA c.23.5.2 31212 1cl8A 276 5.47e+00 1ckqA c.52.1.1 33230 1fgyA 127 5.47e+00 1faoA b.55.1.1 26976 1e9lA 377 5.62e+00 1e9lA c.1.8.5 59395 d.26.3.1 59396 1nytA 271 5.64e+00 c.2.1.7 86417 c.58.1.5 86418 1nkxA 348 5.69e+00 c.94.1.2 -8704 1m15A 357 5.72e+00 a.83.1.1 78368 d.128.1.2 78369 1krhA 338 6.26e+00 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1vjqA 79 6.51e+00 unknown_sccs -13478 1j7nA 776 6.55e+00 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1p1jA 533 6.59e+00 c.2.1.3 87687 d.81.1.3 87688 1erjA 393 6.74e+00 1erjA b.69.4.1 27660 1jflA 228 6.78e+00 c.78.2.1 71656 c.78.2.1 71657 1eyqA 222 6.87e+00 1eypA d.36.1.1 38534 1od8A 313 7.00e+00 c.1.8.3 86838 1obbA 480 7.03e+00 c.2.1.5 86760 d.162.1.2 86761 1rfmA 344 7.29e+00 c.122.1.1 -8032 1k66A 149 7.48e+00 c.23.1.1 -6406 1mrg 263 7.70e+00 1mrj d.165.1.1 42183 1ewqA 765 7.88e+00 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 2hrvA 142 8.20e+00 2hrvA b.47.1.4 26429 1rypE 242 8.33e+00 1rypE d.153.1.4 41936 1pbtA 244 8.36e+00 unknown_sccs -6866 1qh8B 519 8.37e+00 1qguB c.92.2.3 35634 1m2oA 768 8.38e+00 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1evlA 401 8.42e+00 1qf6A c.51.1.1 33202 d.104.1.1 40751 1s72H 171 8.46e+00 1mqoA 227 8.47e+00 1vns 609 8.57e+00 1vns a.111.1.3 19061 1lshA 1056 8.62e+00 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1nnwA 252 8.67e+00 d.159.1.5 80674 1d2mA 665 8.72e+00 1d2mA c.37.1.19 32417 c.37.1.19 32418 1c0pA 363 9.02e+00 1an9A c.4.1.2 30647 d.16.1.3 37934 1b5pA 385 9.07e+00 c.67.1.1 -8133 1cqyA 99 9.27e+00 1b9zA b.3.1.1 22527 1rlw 126 9.59e+00 1rlw b.7.1.1 23177 1bj7 156 9.82e+00 1bj7 b.60.1.1 27113 1l2uA 245 9.84e+00 c.1.2.3 73516 1kl7A 514 1.01e+01 c.79.1.1 72678 1gs5A 258 1.04e+01 c.73.1.2 70395 1mh1 186 1.09e+01 1eesA c.37.1.8 32002 1ukfA 188 1.09e+01 unknown_sccs -8886 1c3wA 222 1.13e+01 1c3wA f.13.1.1 43405 1c96A 753 1.15e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1bg0 356 1.16e+01 1qh4A a.83.1.1 18476 d.128.1.2 41211 1ej1A 190 1.16e+01 1ejhA d.86.1.1 40144 1ogsA 497 1.17e+01 b.71.1.2 86997 c.1.8.3 86998 1lssA 140 1.18e+01 c.2.1.9 74246 1c4oA 664 1.18e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1hdmB 193 1.18e+01 1hdmB b.1.1.2 21584 d.19.1.1 38158 1ul7A 102 1.23e+01 unknown_sccs -11020 1dl5A 317 1.25e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1fxlA 167 1.25e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1inp 400 1.25e+01 1inp e.7.1.1 42972 1eljA 381 1.26e+01 4mbp c.94.1.1 35791 1qftA 175 1.26e+01 1qftA b.60.1.1 27151 1gof 639 1.28e+01 1gof b.1.18.2 21807 b.18.1.1 23709 b.69.1.1 27631 1rcqA 357 1.28e+01 1qgxA 357 1.28e+01 1qgxA e.7.1.1 42973 1e3dA 266 1.35e+01 2frvA e.19.1.1 59188 1ho1A 242 1.36e+01 1ho1A c.1.24.1 61097 1eudB 396 1.36e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1nbwA 607 1.37e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1b93A 152 1.38e+01 1b93A c.24.1.2 31507 1q0uA 219 1.43e+01 c.37.1.19 -7205 1ka9H 200 1.44e+01 c.23.16.1 77308 1m2eA 135 1.45e+01 c.23.1.5 78478 1gtdA 85 1.46e+01 d.58.45.1 76344 1ofdA 1520 1.47e+01 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1m0kA 262 1.50e+01 f.13.1.1 78344 1f2dA 341 1.51e+01 1f2dA c.79.1.1 35298 1smrA 335 1.52e+01 1smrA b.50.1.2 26878 1d5tA 433 1.54e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1kq3A 376 1.54e+01 e.22.1.2 68790 1ofuA 320 1.55e+01 c.32.1.1 86972 d.79.2.1 86973 1ka1A 357 1.56e+01 e.7.1.1 68369 1jvnA 555 1.57e+01 c.1.2.1 67355 c.23.16.1 67356 1jpmA 366 1.59e+01 c.1.11.2 67031 d.54.1.1 67032 1l3iA 192 1.62e+01 c.66.1.22 77676 1pmhX 185 1.65e+01 1cnzA 363 1.65e+01 1cnzA c.77.1.1 35061 1t7pA 698 1.68e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1lwdA 413 1.69e+01 c.77.1.1 78265 1dmhA 311 1.69e+01 1dmhA b.3.6.1 22633 1oh0A 131 1.73e+01 d.17.4.3 87004 2bc2A 227 1.74e+01 1a7tA d.157.1.1 42031 1adjA 421 1.79e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 1grj 158 1.84e+01 1grj a.2.1.1 15691 d.26.1.2 38433 1mdbA 539 1.86e+01 e.23.1.1 79008 1v7oA 165 1.87e+01 unknown_sccs -10249 1pvtA 238 1.88e+01 c.74.1.1 -8444 1mgtA 174 1.90e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1befA 181 1.92e+01 1befA b.47.1.3 26419 1ofgA 381 1.92e+01 1ofgA c.2.1.3 30064 d.81.1.5 39979 1at0 145 1.99e+01 1at0 b.86.1.1 28374 1cjxA 357 1.99e+01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1p3jA 217 2.00e+01 c.37.1.1 -6996 g.41.2.1 -12769 1vi2A 300 2.00e+01 c.2.1.7 -5960 c.58.1.5 -6366 1qksA 567 2.05e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1uzbA 516 2.05e+01 c.82.1.1 -8552 1iugA 352 2.05e+01 c.67.1.3 -8176 1rzhH 260 2.06e+01 b.41.1.1 -3979 f.23.10.1 -12092 1h6dA 433 2.08e+01 c.2.1.3 65656 d.81.1.5 65657 1itcA 516 2.12e+01 b.3.1.1 83705 c.1.8.1 83706 1jqgA 433 2.13e+01 c.56.5.1 71791 d.58.3.1 71792 1k07A 263 2.13e+01 d.157.1.1 77218 1e8gA 560 2.19e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1b8aA 438 2.21e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1ab8A 220 2.24e+01 1azsA d.58.29.1 39414 1dnlA 199 2.25e+01 1ci0A b.45.1.1 25753 1m0uA 249 2.27e+01 a.45.1.1 78359 c.47.1.5 78360 1mvoA 136 2.27e+01 c.23.1.1 79513 1vi6A 208 2.29e+01 c.23.15.1 -6489 1nhs 447 2.31e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1mo9A 523 2.31e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1k8wA 327 2.35e+01 b.122.1.1 83094 unknown_sccs -10143 1jl3A 139 2.36e+01 c.44.1.1 66826 1f6dA 376 2.37e+01 1f6dA c.87.1.3 35467 1gr3A 160 2.38e+01 b.22.1.1 65476 1gegA 256 2.39e+01 1ybvA c.2.1.2 29888 1omwA 689 2.42e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 2rmcA 182 2.44e+01 2cpl b.62.1.1 27491 8acn 754 2.48e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1avwB 171 2.50e+01 1wba b.42.4.1 25599 1gnlA 544 2.50e+01 e.26.1.1 70287 1kyqA 274 2.58e+01 c.2.1.11 73281 e.37.1.1 73282 1od3A 168 2.58e+01 b.18.1.10 86825 1k47A 337 2.58e+01 d.14.1.5 72040 d.58.26.4 72041 1nktA 922 2.59e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1lk9A 448 2.60e+01 c.67.1.1 78057 1nm1G 125 2.60e+01 d.109.1.1 80653 1oeqA 418 2.63e+01 1m2xA 223 2.64e+01 d.157.1.1 84764 1qovH 260 2.64e+01 6prcH b.41.1.1 25464 f.23.10.1 43457 1eu8A 409 2.66e+01 1eu8A c.94.1.1 59502 1s1dA 331 2.67e+01 unknown_sccs -4566 1v2dA 381 2.72e+01 1f1xA 322 2.73e+01 d.32.1.3 83208 d.32.1.3 83209 1a05A 358 2.73e+01 1cnzA c.77.1.1 35059 1cz4A 185 2.73e+01 1cz4A b.52.2.3 26934 d.31.1.1 38468 1eudA 311 2.78e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1j7xA 302 2.79e+01 c.14.1.2 66425 1f6yA 262 2.80e+01 1f6yA c.1.21.2 29673 1jk7A 323 2.83e+01 1auiA d.159.1.3 63144 1v39 322 2.84e+01 3mag c.66.1.25 34206 1vp9 322 2.84e+01 3mag c.66.1.25 34210 1bjwA 382 2.87e+01 1bjwA c.67.1.1 34349 1nhp 447 2.88e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1ek4A 418 2.89e+01 1dd8A c.95.1.1 59436 c.95.1.1 59437 1iwmA 186 2.90e+01 b.125.1.2 83758 3pmgA 561 2.93e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1d4xG 126 2.95e+01 1d0nA d.109.1.1 59109 1rypL 212 2.96e+01 d.153.1.4 41880 1iq6A 134 2.96e+01 d.38.1.4 76755 1lylA 504 2.96e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1pjr 724 2.97e+01 1pjr c.37.1.19 32391 c.37.1.19 32392 1f06A 320 2.98e+01 1dapA c.2.1.3 59556 d.81.1.3 59557 1sdjA 310 2.99e+01 d.21.1.2 -9420 d.21.1.2 -9421 1eg5A 384 3.02e+01 1ecxA c.67.1.3 34429 1q6oA 216 3.02e+01 c.1.2.3 -5162 1j71A 334 3.03e+01 1eagA b.50.1.2 62669 1squA 155 3.03e+01 unknown_sccs -10229 1l8bA 190 3.04e+01 d.86.1.1 73683 1ne7A 289 3.07e+01 unknown_sccs -6858 7odcA 424 3.08e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1dy9A 187 3.10e+01 1jxpA b.47.1.3 26400 1i4wA 353 3.11e+01 c.66.1.24 66028 1q15A 503 3.12e+01 c.26.2.1 -6625 d.153.1.1 -11400 1d9tA 289 3.14e+01 1deaA 2tmdA 729 3.17e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1rzjG 321 3.19e+01 d.172.1.1 -11666 1ec7A 446 3.19e+01 1bqg c.1.11.2 29218 d.54.1.1 38862 1ag9A 175 3.20e+01 1rcf c.23.5.1 31178 1d3gA 367 3.21e+01 1d3gA c.1.4.1 28600 1dfoA 417 3.23e+01 1bj4A c.67.1.4 34480 1p4xA 250 3.24e+01 a.4.5.28 87784 a.4.5.28 87785 1gd1O 334 3.26e+01 1dssG c.2.1.3 29962 d.81.1.1 39877 1go3E 187 3.27e+01 b.40.4.5 83054 d.230.1.1 83055 1fvuA 133 3.28e+01 1ixxB d.169.1.1 42345 1h1dA 221 3.31e+01 c.66.1.1 83452 1id1A 153 3.34e+01 1id1A c.2.1.9 62286 1o1xA 155 3.36e+01 c.121.1.1 86553 1korA 400 3.36e+01 c.26.2.1 72824 d.210.1.1 72825 1e8uA 454 3.36e+01 1e8tA b.68.1.1 59389 1n6zA 105 3.38e+01 unknown_sccs 85369 1kv8A 216 3.39e+01 c.1.2.3 73054 6ldh 330 3.42e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1r8oB 71 3.45e+01 1k5nA 276 3.51e+01 b.1.1.2 77266 d.19.1.1 77267 1g9mG 321 3.52e+01 1gc1G d.172.1.1 42492 1js3A 486 3.53e+01 c.67.1.6 67215 1nh8A 304 3.54e+01 c.94.1.1 80507 d.58.5.3 80508 1euvA 221 3.57e+01 1euvA d.3.1.7 37133 1o17A 345 3.57e+01 a.46.2.1 80765 c.27.1.1 80766 1inlA 296 3.58e+01 c.66.1.17 66220 1suuA 312 3.59e+01 unknown_sccs -4610 1kqrA 179 3.61e+01 b.29.1.14 72886 1lfdA 87 3.62e+01 1lfdA d.15.1.5 37622 1qyaA 307 3.63e+01 1jxhA 288 3.64e+01 c.72.1.2 67415 1usrA 454 3.66e+01 b.68.1.1 -4569 1iazA 179 3.66e+01 1iazA b.97.1.1 62131 1vpt 348 3.68e+01 3mag c.66.1.25 34207 1ll7A 392 3.69e+01 c.1.8.5 78085 d.26.3.1 78086 1dq3A 454 3.70e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1fy7A 278 3.79e+01 1fy7A d.108.1.1 40817 1tmy 120 3.82e+01 1dbwA c.23.1.1 31083 1ct5A 256 3.84e+01 1ct5A c.1.6.2 28663 1hskA 326 3.86e+01 2mbr d.145.1.2 61241 d.146.1.1 61242 1ssxA 198 3.88e+01 b.47.1.1 -4112 1k3iA 656 3.90e+01 b.1.18.2 68113 b.18.1.1 68114 b.69.1.1 68115 1rypA 243 3.91e+01 1pmaA d.153.1.4 41932 1h5qA 265 3.92e+01 1cydA c.2.1.2 60643 1j3vA 289 3.94e+01 a.100.1.1 -1303 c.2.1.6 -5947 1nslA 184 3.95e+01 d.108.1.1 86137 1f89A 291 3.95e+01 d.160.1.1 64988 1jj2W 91 3.99e+01 1ffkU d.29.1.1 63108 1qq4A 198 4.00e+01 1qq4A b.47.1.1 25768