# List of top-scoring protein chains for t2k-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 1kyfA 247 6.30e-02 1b9kA 238 8.58e-02 1qtsA b.1.10.1 22315 d.105.1.1 40791 1qtsA 247 1.51e-01 1qtsA b.1.10.1 22313 d.105.1.1 40789 1kgdA 180 2.19e-01 c.37.1.1 68582 1fzyA 149 3.75e-01 d.20.1.1 65072 1fnc 314 1.83e+00 1fnc b.43.4.2 25627 c.25.1.1 31517 1e42A 258 1.98e+00 1e42A b.1.10.1 22316 d.105.1.1 40792 1dt9A 437 2.05e+00 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1qu6A 179 2.70e+00 1qu6A d.50.1.1 38784 d.50.1.1 38785 1fit 147 2.78e+00 1fit d.13.1.1 37499 1qi7A 253 5.44e+00 1qi7A d.165.1.1 42210 1fnd 314 5.96e+00 1fnc b.43.4.2 25626 c.25.1.1 31516 1emsA 440 7.47e+00 1emsA d.13.1.1 37520 d.160.1.1 42086 1uch 230 8.06e+00 1uch d.3.1.6 37129 1qo0D 196 8.11e+00 1qo0D c.23.1.3 31125 1semA 58 8.86e+00 1ckaA b.34.2.1 24544 9apiA 347 9.30e+00 1ovaA e.1.1.1 42630 1hn2A 159 9.34e+00 b.60.1.1 65890 2arcB 164 9.45e+00 2arcA b.82.4.1 28149 1kid 203 1.01e+01 1derA c.8.5.1 30771 1gefA 123 1.05e+01 1gefA c.52.1.18 60465 1obpA 159 1.06e+01 1obpA b.60.1.1 27092 1gpc 218 1.15e+01 1gpc b.40.4.7 25393 1lox 662 1.33e+01 1lox a.119.1.2 19238 b.12.1.1 23638 1l7mA 211 1.40e+01 1bjx 110 1.44e+01 1bjx c.47.1.2 32774 2bjxA 110 1.44e+01 1bjx c.47.1.2 32776 2arcA 164 1.46e+01 2arcA b.82.4.1 28148 2madH 373 1.48e+01 2bbkH b.69.2.1 27639 1obwA 175 1.49e+01 2prd b.40.5.1 25416 1f5sA 211 1.51e+01 1f5sA c.108.1.4 59656 1j97A 211 1.51e+01 1f5sA c.108.1.4 62753 2tbd 134 1.51e+01 2tbd d.89.1.1 40241 1i40A 175 1.61e+01 b.40.5.1 66024 1qg0A 308 1.70e+01 1fnc b.43.4.2 25639 c.25.1.1 31529 1tbd 134 1.72e+01 2tbd d.89.1.1 40240 1knqA 175 1.76e+01 1e69B 322 1.93e+01 1e69B c.37.1.12 32377 1efuB 282 1.93e+01 1efuB a.5.2.2 58975 d.43.1.1 58976 d.43.1.1 38677 2pia 321 2.00e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1cgt 684 2.00e+01 1cxlA b.1.1.5 21815 b.3.1.1 22484 b.71.1.1 27722 c.1.8.1 28709 1qj2B 809 2.06e+01 1qj2B d.41.1.1 38589 d.133.1.1 41419 1qlpA 394 2.09e+01 1ovaA e.1.1.1 42628 1rrpB 134 2.13e+01 1rrpB b.55.1.3 26995 1ftrA 296 2.14e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1ev2E 220 2.14e+01 1cvsC b.1.1.4 21738 b.1.1.4 21739 1earA 147 2.18e+01 b.107.1.1 64875 d.58.38.1 64876 1mhlA 108 2.32e+01 1d2vA a.93.1.2 18699 2tbvA 387 2.34e+01 2tbvA b.10.1.2 23302 1cxpA 104 2.35e+01 1d2vA a.93.1.2 18695 1d2vA 104 2.35e+01 1d2vA a.93.1.2 18697 1fjgJ 105 2.57e+01 1fjfJ d.58.15.1 39330 1dypA 271 2.74e+01 1dypA b.29.1.2 24185 1rl6A 177 2.79e+01 1rl6A d.141.1.1 41473 d.141.1.1 41474 1hfuA 503 2.81e+01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1g4mA 393 2.87e+01 b.1.1.5 65143 b.1.1.5 65144 1pdkB 157 2.93e+01 1pdkB b.2.3.2 22427 1i4uA 181 2.99e+01 b.60.1.1 61732 1ci3M 249 3.04e+01 1hcz b.2.6.1 22480 b.84.2.2 28266 1fviA 297 3.08e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 1qqp2 218 3.11e+01 1qqp2 1h91A 180 3.17e+01 b.60.1.1 60805 1smlA 269 3.19e+01 1smlA d.157.1.1 42053 1mypA 108 3.20e+01 1d2vA a.93.1.2 18701 1c9fA 90 3.20e+01 1c9fA d.15.2.1 37639 1j98A 157 3.26e+01 1j98A d.185.1.2 62755 1ipwA 175 3.31e+01 2prd b.40.5.1 25427 1gp0A 143 3.37e+01 1mypB 108 3.44e+01 1mypB a.93.1.2 18702 1f41A 127 3.60e+01 1etb1 b.3.4.1 22539 1ag9A 175 3.68e+01 1rcf c.23.5.1 31178 1hbp 183 3.71e+01 1aqb b.60.1.1 27079 1thx 115 3.79e+01 1thx c.47.1.1 32732 1b3qA 379 3.80e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1hyeA 313 3.97e+01 2cmd c.2.1.5 61400 d.162.1.1 61401