# List of top-scoring protein chains for T0223.t2k-w0.5 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 1nox 205 8.25e-12 1nox d.90.1.1 40242 1bkjA 240 1.31e-09 1bkjA d.90.1.1 40243 1f5vA 240 1.86e-08 1bkjA d.90.1.1 40255 1icrA 217 1.18e-06 1vfrA d.90.1.1 62274 1kqbA 217 1.81e-06 d.90.1.1 68798 1necA 216 7.20e-06 1vfrA d.90.1.1 40249 1vfrA 218 1.15e-05 1vfrA d.90.1.1 40247 1ei6A 406 7.59e-01 1jeoA 180 1.93e+00 c.80.1.3 66611 1rhd 293 3.42e+00 1rhs c.46.1.2 32715 c.46.1.2 32716 1rhs 296 3.52e+00 1rhs c.46.1.2 32703 c.46.1.2 32704 1dp2A 293 3.54e+00 1rhs c.46.1.2 32705 c.46.1.2 32706 1mhsA 920 3.72e+00 i.18.1.1 79130 1ggoA 873 5.01e+00 1dik c.1.12.2 29305 c.8.1.1 30703 d.142.1.5 41573 1m2oA 768 6.03e+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 1jfiB 179 6.34e+00 1jfiB a.22.1.3 62937 1e3iA 376 6.39e+00 2ohxA b.35.1.2 24741 c.2.1.1 29757 1e3lA 376 6.96e+00 2ohxA b.35.1.2 24745 c.2.1.1 29761 1kblA 873 7.12e+00 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1cqa 133 7.17e+00 3nul d.110.1.1 40890 1jdeA 873 7.26e+00 c.1.12.2 66546 c.8.1.1 66547 d.142.1.5 66548 1fuuA 394 8.27e+00 1qvaA c.37.1.19 32412 1r42A 615 8.34e+00 1dik 874 9.07e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1m61A 259 9.96e+00 d.93.1.1 84846 2dikA 873 1.03e+01 1dik c.1.12.2 29306 c.8.1.1 30704 d.142.1.5 41574 2pahA 335 1.06e+01 4pah d.178.1.1 42581 1ef1A 294 1.08e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1qcwA 410 1.12e+01 1gox c.1.4.1 28622 1e5wA 346 1.14e+01 1ef1A a.11.2.1 59280 b.55.1.5 59281 d.15.1.4 59282 1kbjA 412 1.14e+01 c.1.4.1 72280 1i21A 159 1.16e+01 1i21A d.108.1.1 61549 1i12A 160 1.16e+01 1i21A d.108.1.1 61515 1i1dA 161 1.17e+01 1i21A d.108.1.1 61526 1j8uA 325 1.17e+01 d.178.1.1 71611 1c4oA 664 1.19e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1uhnA 189 1.19e+01 1d2mA 665 1.19e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1j2pA 246 1.22e+01 d.153.1.4 84022 1fepA 724 1.26e+01 1fepA f.4.3.3 43808 1dmwA 307 1.29e+01 4pah d.178.1.1 42580 4pah 308 1.29e+01 4pah d.178.1.1 42576 1cbf 285 1.49e+01 1cbf c.90.1.1 35587 1nf2A 268 1.54e+01 1gk3A 509 1.69e+01 a.127.1.2 65233 1gkjA 509 1.72e+01 a.127.1.2 70227 1gkmA 509 1.72e+01 a.127.1.2 70228 1agqA 135 1.73e+01 1agqA g.17.1.2 44789 1ni2A 296 1.74e+01 a.11.2.1 80525 b.55.1.5 80526 d.15.1.4 80527 1avc 673 1.76e+01 1avc a.65.1.1 18178 a.65.1.1 18179 1toh 343 1.83e+01 4pah d.178.1.1 42573 1phzA 429 1.85e+01 4pah d.58.18.3 39358 d.178.1.1 42583 1qqp3 220 1.90e+01 1qqp3 1pz1A 333 2.08e+01 2tohA 342 2.11e+01 4pah d.178.1.1 42574 1g55A 343 2.14e+01 1g55A c.66.1.26 34247 1e08A 371 2.43e+01 i.4.1.1 45914 1i3uA 126 2.60e+01 1gc1H b.1.1.1 61636 1i3vA 129 2.67e+01 1gc1H b.1.1.1 61637 1hfeL 421 2.83e+01 1fehA c.96.1.1 36018 d.58.1.5 39001 1ltdA 506 2.90e+01 1gox c.1.4.1 28618 d.120.1.1 41086 1jr1A 514 2.95e+01 c.1.5.1 63241 d.37.1.1 63242 d.37.1.1 63243 1rwbA 261 2.95e+01 1kbiA 511 3.02e+01 c.1.4.1 72277 d.120.1.1 72278 1n81A 186 3.06e+01 a.185.1.1 85388 1lcoA 511 3.13e+01 1gox c.1.4.1 28624 d.120.1.1 41088 1gcoA 261 3.16e+01 1ybvA c.2.1.2 29884 1geeA 261 3.16e+01 1g5uA 131 3.23e+01 3nul d.110.1.1 40893 1uw4B 248 3.27e+01 1gc7A 297 3.29e+01 1ef1A a.11.2.1 16370 b.55.1.5 27005 d.15.1.4 37613 1eb4A 509 3.32e+01 a.127.1.2 64894 1j19A 317 3.36e+01 a.11.2.1 83958 b.55.1.5 83959 d.15.1.4 83960 1ru7A 327 3.40e+01 1g6kA 261 3.40e+01 1b59A 370 3.47e+01 1bn5 a.4.5.25 16225 d.127.1.1 41162 1tafB 70 3.49e+01 1tafB a.22.1.3 16482 1rvxA 327 3.51e+01 1itxA 419 3.56e+01 c.1.8.5 71425 d.26.3.1 71426 1ok8A 394 3.59e+01 1nnhA 294 3.60e+01 1pyfA 312 3.62e+01 1nf7A 514 3.63e+01 1khvA 516 3.69e+01 e.8.1.4 68627