# List of top-scoring protein chains for t2k-100-30-alpha 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 1i1kA 309 1.70e-01 1daaA e.17.1.1 61533 1a3gA 308 2.20e-01 1daaA e.17.1.1 43286 3pmgA 561 2.94e-01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1lba 146 2.95e-01 1lba d.118.1.1 41062 1lxtA 561 3.27e-01 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1l2qA 458 3.34e-01 1l2rA 458 3.34e-01 1din 236 1.89e+00 1din c.69.1.9 34682 1qc5A 192 2.09e+00 1aoxA c.62.1.1 34147 1e9kA 38 2.39e+00 j.87.1.1 64826 1ggvA 232 2.42e+00 1din c.69.1.9 34683 1djxA 624 2.82e+00 1djxB a.39.1.7 17342 b.7.1.1 23159 c.1.18.1 29587 1noyA 388 3.48e+00 1clqA c.55.3.5 33713 1gtzA 156 3.58e+00 1djxB 624 3.82e+00 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1d0iA 156 4.34e+00 2dhqA c.23.13.1 31383 1jy5A 212 5.57e+00 1qasA 622 5.98e+00 1djxB a.39.1.7 17340 b.7.1.1 23157 c.1.18.1 29585 1nozA 388 6.81e+00 1clqA c.55.3.5 33715 1kqfC 217 7.45e+00 1jmoA 480 7.92e+00 1hlrA 907 7.99e+00 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1hllA 32 8.18e+00 1dhs 344 8.41e+00 1dhs c.31.1.1 31727 1bxkA 355 9.26e+00 1bxkA c.2.1.2 29803 1qatB 622 1.05e+01 1djxB a.39.1.7 17355 b.7.1.1 23172 c.1.18.1 29600 1qhtA 775 1.07e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1jq3A 296 1.08e+01 c.66.1.17 67079 1rmd 116 1.08e+01 1rmd g.37.1.1 45025 g.44.1.1 45322 1e6qM 501 1.09e+01 1e70M c.1.8.4 28920 1ede 310 1.09e+01 1b6g c.69.1.8 34662 1b6g 310 1.10e+01 1b6g c.69.1.8 34661 1bn7A 294 1.10e+01 1bn6A c.69.1.8 34677 1m4vA 204 1.12e+01 1e4mM 501 1.14e+01 1e70M c.1.8.4 59226 1cqwA 295 1.16e+01 1b6g c.69.1.8 34679 1nnt 328 1.18e+01 1nnt c.94.1.2 35884 1cb0A 283 1.22e+01 1cb0A c.56.2.1 33790 1e70M 501 1.23e+01 1e70M c.1.8.4 28926 1qmhA 347 1.24e+01 1qmhA c.47.2.1 33082 d.68.2.1 39568 1dhpA 292 1.27e+01 1dhpA c.1.10.1 29097 2atjA 308 1.27e+01 1bgp a.93.1.1 18675 1nftA 329 1.29e+01 1nnt c.94.1.2 35881 1iejA 332 1.30e+01 1nnt c.94.1.2 62328 1wad 112 1.31e+01 3cyr a.138.1.1 19658 1l5jA 865 1.33e+01 7atjA 308 1.43e+01 1bgp a.93.1.1 18673 1c4xA 285 1.44e+01 1c4xA c.69.1.10 34684 1tfaA 329 1.44e+01 1nnt c.94.1.2 35880 1gc1G 321 1.49e+01 1gc1G d.172.1.1 42493 1bn6A 294 1.51e+01 1bn6A c.69.1.8 34678 1inlA 296 1.56e+01 c.66.1.17 66220 1imjA 210 1.57e+01 1tgoA 773 1.58e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1uae 419 1.62e+01 1uae d.68.2.2 39574 1bmlC 362 1.68e+01 1bmlC d.15.5.1 37729 d.15.5.1 37730 d.15.5.1 37731 7timA 247 1.68e+01 1amk c.1.1.1 28457 1ihcA 188 1.75e+01 1di6A c.57.1.1 62379 1ia9A 280 1.79e+01 1ia9A d.144.1.5 62113 1i45A 248 1.79e+01 1amk c.1.1.1 61665 1qn0A 112 1.89e+01 3cyr a.138.1.1 19659 1oyc 400 1.92e+01 1oyc c.1.4.1 28603 1jljA 189 1.93e+01 c.57.1.1 63169 1i3jA 116 1.98e+01 1i3jA e.30.1.1 61594 1qe3A 489 2.15e+01 2bce c.69.1.1 34630 1kfiA 572 2.17e+01 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 1jjiA 311 2.28e+01 c.69.1.2 66766 1vtp 26 2.29e+01 j.36.2.1 46284 1c4zA 358 2.38e+01 1c4zA d.148.1.1 41766 1b8wA 42 2.42e+01 1b8wA g.9.1.1 44593 1xnb 185 2.42e+01 1axkA b.29.1.11 24308 3dfr 162 2.51e+01 3dfr c.71.1.1 34880 1eziA 228 2.58e+01 1eyrA c.68.1.3 34512 1b74A 254 2.58e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1d66A 66 2.61e+01 1d66A g.38.1.1 45076 h.1.3.1 45510 1obr 326 2.73e+01 1aye c.56.5.2 33828 2ezl 99 2.74e+01 2ezk a.4.1.2 16026 1j6rA 214 2.83e+01 1ee4A 423 3.10e+01 1ee4A a.118.1.1 19128 1ako 268 3.25e+01 1ako d.151.1.1 41779 1bpv 112 3.25e+01 1bpv b.1.2.1 22071 1b0nB 57 3.26e+01 1b0nB a.34.1.1 17002 1d8cA 723 3.46e+01 1d8cA c.1.13.1 29325 1b73A 254 3.50e+01 1b74A c.78.2.1 35266 c.78.2.1 35267 1mli 96 3.51e+01 1mli d.58.4.1 39070 1g73A 162 3.60e+01 1fewA a.7.4.1 16332 1kl7A 514 3.60e+01 1cs1A 386 3.70e+01 1ibjA c.67.1.3 34399 1kewA 361 3.70e+01 c.2.1.2 68544 1pfkA 320 3.72e+01 3pfk c.89.1.1 35575