# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1.12e-40 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1nrkA 328 3.11e-32 unknown_sccs -4071 unknown_sccs -10176 1g7sA 594 7.10e-02 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1vjtA 483 4.11e-01 c.2.1.5 -5941 d.162.1.2 -11508 1chmA 401 5.72e-01 1chmA c.55.2.1 33545 d.127.1.1 41142 1j6wA 175 7.26e-01 1j98A d.185.1.2 62663 1obbA 480 2.83e+00 c.2.1.5 86760 d.162.1.2 86761 1ja1A 622 3.72e+00 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1djxA 624 4.04e+00 1djxB a.39.1.7 17342 b.7.1.1 23159 c.1.18.1 29587 1djxB 624 4.36e+00 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1t2dA 322 4.50e+00 c.2.1.5 -5920 d.162.1.1 -11487 1g0oA 283 5.23e+00 1ybvA c.2.1.2 60181 1jcfA 344 5.88e+00 c.55.1.1 62878 c.55.1.1 62879 1smrA 335 6.01e+00 1smrA b.50.1.2 26878 1io1A 398 6.06e+00 1io1A e.32.1.1 62611 1lj5A 379 6.30e+00 e.1.1.1 73928 2bpa1 426 6.77e+00 2bpa1 1m98A 317 7.54e+00 a.175.1.1 78866 d.17.4.6 78867 1erjA 393 7.73e+00 1erjA b.69.4.1 27660 1m2oA 768 7.95e+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 1innA 166 8.06e+00 1j98A d.185.1.2 62608 1vjeA 166 8.44e+00 d.185.1.2 -10261 1pcfA 66 8.85e+00 1pcfA d.18.1.1 38142 1k3iA 656 9.10e+00 b.1.18.2 68113 b.18.1.1 68114 b.69.1.1 68115 1iwmA 186 9.53e+00 b.125.1.2 83758 1rcqA 357 9.67e+00 1rlw 126 1.08e+01 1rlw b.7.1.1 23177 1h09A 338 1.17e+01 b.109.1.1 83420 c.1.8.8 83421 1ewqA 765 1.20e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1id0A 152 1.30e+01 d.122.1.3 66111 1f20A 435 1.31e+01 b.43.4.1 64932 c.25.1.4 64933 1hf2A 210 1.38e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1gnd 447 1.38e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 1o63A 219 1.38e+01 c.94.1.1 -8691 1gof 639 1.46e+01 1gof b.1.18.2 21807 b.18.1.1 23709 b.69.1.1 27631 1li4A 432 1.47e+01 c.2.1.4 84616 c.23.12.3 84617 1a7cA 379 1.57e+01 1sek e.1.1.1 42660 1i50C 318 1.60e+01 d.74.3.1 61756 d.181.1.1 61757 1a7tA 232 1.62e+01 1a7tA d.157.1.1 42041 1ldg 316 1.64e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1sdjA 310 1.66e+01 d.21.1.2 -9420 d.21.1.2 -9421 1qhqA 140 1.76e+01 1qhqA b.6.1.1 63326 1befA 181 1.79e+01 1befA b.47.1.3 26419 1fcjA 322 1.80e+01 1oasA c.79.1.1 35289 1d5tA 433 1.84e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1inp 400 1.86e+01 1inp e.7.1.1 42972 1ko3A 230 1.89e+01 d.157.1.1 -11454 2rmcA 182 1.94e+01 2cpl b.62.1.1 27491 1pz1A 333 1.97e+01 c.1.7.1 -5255 1j7nA 776 2.07e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1s72H 171 2.13e+01 1nkxA 348 2.14e+01 c.94.1.2 -8704 1ivyA 452 2.22e+01 1ivyA c.69.1.5 34654 1ri6A 343 2.22e+01 unknown_sccs -4621 1e8gA 560 2.31e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1dxrH 258 2.39e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 1qlpA 394 2.41e+01 1ovaA e.1.1.1 42628 1gpl 432 2.42e+01 1gpl b.12.1.2 23645 c.69.1.19 34793 1scuA 288 2.43e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1eq2A 310 2.46e+01 1eq2A c.2.1.2 29814 1m15A 357 2.48e+01 a.83.1.1 78368 d.128.1.2 78369 1ev7A 317 2.49e+01 1ev7B c.52.1.9 33315 1rfmA 344 2.51e+01 c.122.1.1 -8032 1giqA 413 2.57e+01 d.166.1.1 76224 d.166.1.1 76225 1rqpA 299 2.58e+01 unknown_sccs -4411 unknown_sccs -7908 1c24A 263 2.66e+01 1c24A d.127.1.1 41148 1dl5A 317 2.73e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1jmxA 494 2.74e+01 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 1pv9A 348 2.77e+01 c.55.2.1 -7610 d.127.1.1 -11000 1bg0 356 2.77e+01 1qh4A a.83.1.1 18476 d.128.1.2 41211 1ra9 159 2.85e+01 1vdrA c.71.1.1 34820 1ab8A 220 2.96e+01 1azsA d.58.29.1 39414 1dysA 348 3.08e+01 1bvwA c.6.1.1 30669 1s0uA 408 3.10e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1b1cA 181 3.16e+01 1amoA c.23.5.2 31212 1qs1A 462 3.17e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1ltlA 279 3.18e+01 b.40.4.11 84701 1nytA 271 3.21e+01 c.2.1.7 86417 c.58.1.5 86418 1iy8A 267 3.25e+01 c.2.1.2 83774 1tuhA 156 3.28e+01 1j7lA 264 3.29e+01 d.144.1.6 62697 2hlcA 230 3.36e+01 5ptp b.47.1.2 26074 1dbxA 158 3.39e+01 1dbuA d.116.1.1 40928 1v5sA 126 3.41e+01 1f2dA 341 3.67e+01 1f2dA c.79.1.1 35298 1qyaA 307 3.70e+01 1cjxA 357 3.71e+01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1v33A 366 3.84e+01 unknown_sccs -11384 1fwxA 595 3.86e+01 b.6.1.4 60069 b.69.3.1 60070 1dmmA 131 3.87e+01 1opy d.17.4.3 38114