# List of top-scoring protein chains for t2k-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 1b0zA 445 4.14e-02 2pgi c.80.1.2 35309 2pgi 445 4.14e-02 2pgi c.80.1.2 35308 1c7qA 445 4.80e-02 2pgi c.80.1.2 35307 1ufoA 238 1.24e-01 unknown_sccs -8303 1moq 368 4.69e-01 1moq c.80.1.1 35302 1j5xA 342 7.57e-01 c.80.1.1 71591 1p5fA 189 1.62e+00 c.23.16.2 -6508 1pe0A 197 1.94e+00 c.23.16.2 88045 3csuA 310 2.02e+00 3csuA c.78.1.1 35094 c.78.1.1 35095 1pea 385 2.05e+00 1pea c.93.1.1 35662 1at1A 310 2.67e+00 3csuA c.78.1.1 35168 c.78.1.1 35169 2ng1 293 2.81e+00 1ng1 a.24.13.1 16962 c.37.1.10 32273 1jpnA 296 3.21e+00 a.24.13.1 67039 c.37.1.10 67040 1vhxA 150 3.49e+00 unknown_sccs -7663 1ls6A 295 3.76e+00 c.37.1.5 -7026 1ekxA 311 4.07e+00 3csuA c.78.1.1 35088 c.78.1.1 35089 1hl8A 449 4.29e+00 unknown_sccs -4690 unknown_sccs -5361 1rqlA 267 4.32e+00 c.108.1.3 -6814 1m22A 503 4.66e+00 c.117.1.1 78464 1amk 251 5.04e+00 1amk c.1.1.1 28503 1ls1A 295 5.58e+00 a.24.13.1 78170 c.37.1.10 78171 1f0kA 364 5.88e+00 1f0kA c.87.1.2 35465 1fezA 256 5.92e+00 1fezA c.108.1.3 43343 1usgA 346 6.54e+00 c.93.1.1 -8635 1ng1 294 6.67e+00 1ng1 a.24.13.1 16961 c.37.1.10 32272 1orvA 728 6.67e+00 b.70.3.1 87354 c.69.1.24 87355 1o58A 303 6.80e+00 c.79.1.1 -8503 1j6nA 303 7.30e+00 1jayA 212 7.36e+00 c.2.1.6 66478 1itwA 741 7.97e+00 c.77.1.2 76793 1cdzA 96 8.17e+00 1cdzA c.15.1.1 30925 1hl9A 449 9.20e+00 unknown_sccs -4694 unknown_sccs -5365 1e9rA 437 9.28e+00 c.37.1.11 64827 1n55A 251 9.30e+00 c.1.1.1 80007 1o5kA 306 9.63e+00 c.1.10.1 -5482 1g8yA 279 9.79e+00 1g8yA c.37.1.11 32302 1poxA 585 1.02e+01 1poxA c.31.1.3 31731 c.36.1.5 31793 c.36.1.9 31794 1ny6A 267 1.04e+01 c.37.1.20 -7221 1qmvA 197 1.08e+01 1qq2A c.47.1.10 33066 1nlfA 279 1.09e+01 c.37.1.11 85850 1jaxA 212 1.13e+01 c.2.1.6 66476 1su8A 636 1.15e+01 e.26.1.2 -12015 1a87 321 1.17e+01 1a87 f.1.1.1 43380 1dk4A 252 1.18e+01 1dk4A e.7.1.1 42970 1qatB 622 1.30e+01 1djxB a.39.1.7 17355 b.7.1.1 23172 c.1.18.1 29600 1uiqA 351 1.30e+01 1v7cA 351 1.30e+01 c.79.1.1 -8512 1gq2A 555 1.31e+01 c.2.1.7 70308 c.58.1.3 70309 1d2eA 397 1.32e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1rj9A 304 1.39e+01 a.24.13.1 -631 c.37.1.10 -7129 1vi6A 208 1.40e+01 c.23.15.1 -6489 1uzbA 516 1.40e+01 c.82.1.1 -8552 1qasA 622 1.41e+01 1djxB a.39.1.7 17340 b.7.1.1 23157 c.1.18.1 29585 1a9xB 379 1.41e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1oaoA 674 1.43e+01 e.26.1.2 86744 2lbp 346 1.44e+01 2liv c.93.1.1 35709 1fjgB 256 1.45e+01 1fjfB c.23.15.1 31400 1edoA 244 1.52e+01 1ybvA c.2.1.2 29896 1pg5A 299 1.57e+01 1m3sA 186 1.58e+01 c.80.1.3 78573 1cs0B 382 1.58e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417 1g291 372 1.61e+01 1g291 1c3oB 382 1.63e+01 1c3oB c.8.3.1 30744 c.23.16.1 31421 1garA 212 1.68e+01 2gar c.65.1.1 34162 1rvv1 154 1.68e+01 1rvv1 1rvvA 154 1.68e+01 1rvv1 c.16.1.1 30927 1i2aA 219 1.70e+01 e.24.1.1 -12012 1kyqA 274 1.72e+01 c.2.1.11 73281 e.37.1.1 73282 1a26 361 1.73e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1a59 378 1.79e+01 1aj8A a.103.1.1 18902 1cjsA 219 1.85e+01 1cjsA e.24.1.1 43354 1tdj 514 1.92e+01 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1dqsA 393 1.97e+01 1dqsA e.22.1.1 43347 1cf9A 753 2.04e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1h2sA 225 2.05e+01 f.13.1.1 76578 1me8A 503 2.08e+01 c.1.5.1 79028 1j4nA 271 2.08e+01 f.19.1.1 71510 1jkxA 212 2.11e+01 c.65.1.1 66813 1aquA 297 2.19e+01 1aquA c.37.1.5 31942 1nxqA 251 2.22e+01 c.2.1.2 86388 1pnsB 234 2.23e+01 i.1.1.1 88169 1ionA 243 2.24e+01 c.37.1.10 62633 1kkjA 419 2.27e+01 c.67.1.4 72647 1n1mA 728 2.27e+01 b.70.3.1 79815 c.69.1.24 79816 1djxA 624 2.31e+01 1djxB a.39.1.7 17342 b.7.1.1 23159 c.1.18.1 29587 1a4yA 460 2.32e+01 1a4yA c.10.1.1 30852 1ak5 503 2.35e+01 1ak5 c.1.5.1 28639 1eqnA 321 2.36e+01 1dd9A e.13.1.1 43256 1p80A 753 2.40e+01 c.23.16.3 -6547 e.5.1.1 -11840 1ybvA 283 2.43e+01 1ybvA c.2.1.2 29948 1kaeA 434 2.49e+01 c.82.1.2 72247 1jgjA 217 2.50e+01 1c3wA f.13.1.1 62952 1efyA 350 2.50e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1djxB 624 2.57e+01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1be1 137 2.57e+01 1be1 c.23.6.1 31237 1k75A 434 2.57e+01 c.82.1.2 68253 1dar 691 2.58e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1ky3A 182 2.61e+01 c.37.1.8 73193 1j5eB 256 2.64e+01 c.23.15.1 71543 1d3uB 201 2.68e+01 1aisB a.74.1.2 18386 a.74.1.2 18387 1n0wA 243 2.70e+01 c.37.1.11 79772 5bcaA 516 2.71e+01 1b9zA b.3.1.1 22529 c.1.8.1 28799 1efcA 393 2.71e+01 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1qo0D 196 2.74e+01 1qo0D c.23.1.3 31125 1kv5A 250 2.75e+01 c.1.1.1 73052 1vhyA 257 2.76e+01 b.122.1.2 -5129 c.116.1.5 -6705 1hy3A 294 2.79e+01 c.37.1.5 71090 1b9zA 516 2.81e+01 1b9zA b.3.1.1 22528 c.1.8.1 28798 1fzqA 181 2.90e+01 1hurA c.37.1.8 32060 1cem 363 2.92e+01 1cem a.102.1.2 18826 1nxzA 246 2.98e+01 b.122.1.2 86391 c.116.1.5 86392 1mtzA 293 2.99e+01 c.69.1.7 79467 1l6rA 227 3.00e+01 c.108.1.10 77768 1g3mA 294 3.02e+01 c.37.1.5 83268 1dfoA 417 3.08e+01 1bj4A c.67.1.4 34480 3pfk 319 3.09e+01 3pfk c.89.1.1 35581 5pal 109 3.09e+01 1a75A a.39.1.4 17215 1ji2A 585 3.13e+01 b.1.18.2 71672 b.71.1.1 71673 c.1.8.1 71674 4pfk 319 3.13e+01 3pfk c.89.1.1 35582 1brlB 324 3.14e+01 1lucA c.1.16.1 29554 4ts1A 319 3.15e+01 2ts1 c.26.1.1 31565 1g0oA 283 3.15e+01 1ybvA c.2.1.2 60181 1g0hA 252 3.18e+01 1dk4A e.7.1.1 60171 1q0rA 298 3.20e+01 unknown_sccs -8330 1itcA 516 3.21e+01 b.3.1.1 83705 c.1.8.1 83706 1pfkA 320 3.23e+01 3pfk c.89.1.1 35575 1s6tA 285 3.23e+01 c.37.1.5 -7040 1vkjA 285 3.23e+01 1tpfA 250 3.24e+01 1amk c.1.1.1 28467 1ujpA 271 3.24e+01 c.1.2.4 -5177 1fn9A 365 3.25e+01 1fn9A d.196.1.1 59894 1a16 440 3.29e+01 1az9 c.55.2.1 33548 d.127.1.1 41165 1umwA 237 3.33e+01 unknown_sccs -9455 unknown_sccs -9456 3timA 250 3.44e+01 1amk c.1.1.1 28483 1pot 325 3.50e+01 1pot c.94.1.1 35807 1kl1A 419 3.53e+01 c.67.1.4 72663 1nrwA 288 3.53e+01 c.108.1.10 86128 1pmmA 466 3.58e+01 c.67.1.6 -8159 1iatA 557 3.59e+01 1dqrA c.80.1.2 62123 2gbp 309 3.62e+01 1gca c.93.1.1 35657 1lsuA 147 3.67e+01 c.2.1.9 74250 1hrkA 359 3.67e+01 1hrkA c.92.1.1 61228 1lucB 324 3.69e+01 1lucA c.1.16.1 29548 1gca 309 3.74e+01 1gca c.93.1.1 35659 1o5iA 249 3.79e+01 c.2.1.2 -5833 1aisB 200 3.91e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1khdA 345 3.94e+01 a.46.2.1 77400 c.27.1.1 77401 1a1s 314 3.94e+01 1othA c.78.1.1 35258 c.78.1.1 35259 1az9 457 3.96e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 2ts1 419 3.98e+01 2ts1 c.26.1.1 31564