# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-scores 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 3.15e-09 1nox d.90.1.1 40242 1bkjA 240 5.31e-08 1bkjA d.90.1.1 40243 1f5vA 240 1.13e-06 1bkjA d.90.1.1 40255 1icrA 217 5.69e-06 1vfrA d.90.1.1 62274 1necA 216 1.14e-05 1vfrA d.90.1.1 40249 1vfrA 218 4.65e-05 1vfrA d.90.1.1 40247 1gqeA 365 9.43e-01 e.38.1.1 70351 1iweA 457 1.97e+00 c.37.1.10 71486 1jeoA 180 2.86e+00 c.80.1.3 66611 1r5tA 142 3.11e+00 1dik 874 3.87e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1edg 380 3.99e+00 1edg c.1.8.3 28807 1ec7A 446 4.34e+00 1bqg c.1.11.2 29218 d.54.1.1 38862 1s7jA 262 4.52e+00 d.21.1.2 -9424 1i3dA 146 4.63e+00 a.1.1.2 61587 1a04A 215 4.93e+00 1a04A a.4.6.2 16234 c.23.1.1 31089 1ignA 246 5.73e+00 1ignA a.4.1.6 16048 a.4.1.6 16049 1m4iA 181 6.49e+00 d.108.1.1 74457 1kblA 873 6.50e+00 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1vimA 200 7.31e+00 c.80.1.3 -8532 1d8dB 437 7.84e+00 1ft1B a.102.4.3 18866 1bqg 451 8.01e+00 1bqg c.1.11.2 29217 d.54.1.1 38861 1jcrB 437 8.27e+00 a.102.4.3 66507 1dujA 187 8.53e+00 1dujA d.135.1.1 41449 1omwA 689 8.75e+00 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1ft1B 437 9.24e+00 1ft1B a.102.4.3 18867 1ld8B 437 9.35e+00 a.102.4.3 73839 1iwhB 146 9.75e+00 a.1.1.2 76883 8pchA 220 1.05e+01 1cs8A 1adoA 363 1.07e+01 1fbaA c.1.10.1 29124 1kkcA 221 1.10e+01 a.2.11.1 68660 d.44.1.1 68661 1a53 247 1.14e+01 1a53 c.1.2.4 28564 1uhnA 189 1.15e+01 a.39.1.5 -853 1igs 248 1.18e+01 1a53 c.1.2.4 28565 1mzgA 146 1.20e+01 d.224.1.1 79696 1n46A 258 1.21e+01 a.123.1.1 85315 1go4A 205 1.41e+01 d.135.1.1 70292 1ddzA 496 1.42e+01 1ddzA c.53.2.1 33372 c.53.2.1 33373 1juk 248 1.49e+01 1a53 c.1.2.4 28567 1bqcA 302 1.50e+01 1bqcA c.1.8.3 28831 1kgqA 274 1.57e+01 b.81.1.2 72447 1a79A 171 1.59e+01 1a79A c.52.2.1 33340 d.75.1.1 39739 2ccyA 128 1.60e+01 2ccyA a.24.3.2 16544 1mldA 314 1.60e+01 2cmd c.2.1.5 30122 d.162.1.1 42089 1ci0A 228 1.62e+01 1ci0A b.45.1.1 25750 1adeA 431 1.66e+01 1adeA c.37.1.10 32213 1ixmA 192 1.78e+01 1ixmA d.123.1.1 41114 3tdt 274 1.78e+01 3tdt b.81.1.2 28053 1m3sA 186 1.95e+01 c.80.1.3 78573 1klqA 197 1.95e+01 d.135.1.1 68689 1lj2A 110 1.98e+01 h.1.13.2 73926 1phk 298 2.23e+01 1cdkA d.144.1.7 41635 1i0hA 205 2.25e+01 1avmA a.2.11.1 15760 d.44.1.1 38685 2tdt 274 2.28e+01 3tdt b.81.1.2 28054 1ix9A 205 2.42e+01 a.2.11.1 76899 d.44.1.1 76900 1gajA 257 2.46e+01 1gajA c.37.1.12 60416 1qr0A 228 2.55e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1q18A 332 2.58e+01 1g6hA 257 2.59e+01 1gajA c.37.1.12 60318 2cmd 312 2.61e+01 2cmd c.2.1.5 30135 d.162.1.1 42102 1h6zA 913 2.66e+01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1i21A 159 2.69e+01 1i21A d.108.1.1 61549 2sqcA 631 2.72e+01 2sqcA a.102.4.2 18854 a.102.4.2 18855 1dttA 560 2.78e+01 1rthA c.55.3.1 33611 e.8.1.2 43088 1s7hA 200 2.81e+01 1l0wA 580 2.82e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1gs5A 258 2.85e+01 c.73.1.2 70395 1djxB 624 2.87e+01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1d5nA 205 2.88e+01 1avmA a.2.11.1 15762 d.44.1.1 38687 1qltA 560 2.93e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 1qwlA 505 2.95e+01 e.5.1.1 -11823 1btmA 252 2.99e+01 1amk c.1.1.1 28513 1qd1A 325 3.07e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1s29A 92 3.11e+01 unknown_sccs -315 1dar 691 3.20e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1n81A 186 3.25e+01 a.185.1.1 85388 1e8gA 560 3.27e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1mg4A 113 3.35e+01 d.15.11.1 84953 1oi0A 124 3.41e+01 unknown_sccs -8782 1jdfA 447 3.43e+01 c.1.11.2 62897 d.54.1.1 62898 1no5A 114 3.49e+01 unknown_sccs -9785 1v4vA 376 3.50e+01 c.87.1.3 -8583 1edoA 244 3.67e+01 1ybvA c.2.1.2 29896 1k8eA 345 3.70e+01 1o17A 345 3.70e+01 a.46.2.1 80765 c.27.1.1 80766 1i12A 160 3.70e+01 1i21A d.108.1.1 61515 1bo1A 416 3.75e+01 1bo1A d.143.1.2 41591 1qf5A 431 3.78e+01 1adeA c.37.1.10 32212 1v4xA 144 3.83e+01 1vaoA 560 3.87e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 1pdnC 128 3.89e+01 6paxA a.4.1.5 16047 1tljA 213 3.98e+01 1s9aA 257 3.99e+01