# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1mkiA 330 5.92e-64 e.3.1.2 84994 1i2sA 282 6.67e-05 e.3.1.1 71104 4blmA 265 2.76e-04 1btl e.3.1.1 42721 1bza 262 3.03e-04 1btl e.3.1.1 42701 1iyoA 262 5.13e-04 e.3.1.1 76970 1iysA 262 5.37e-04 e.3.1.1 -11760 1alq 266 9.26e-04 1btl e.3.1.1 42707 1ghpA 258 1.32e-03 1btl e.3.1.1 60520 1pioA 257 1.50e-03 1btl e.3.1.1 42719 3blm 257 1.79e-03 1btl e.3.1.1 42709 1hzoA 271 6.99e-03 e.3.1.1 71092 1bueA 265 2.24e-02 1btl e.3.1.1 42727 1bsg 266 2.30e-02 1btl e.3.1.1 42729 1n9bA 265 3.79e-02 e.3.1.1 85463 1e25A 282 6.27e-02 1e25A e.3.1.1 42731 1g6aA 271 1.07e-01 1btl e.3.1.1 42704 1m40A 263 1.39e-01 e.3.1.1 74437 1n4oA 276 1.40e-01 e.3.1.1 -11764 1btl 263 1.60e-01 1btl e.3.1.1 42691 1ermA 263 1.62e-01 1btl e.3.1.1 42690 1klxA 138 1.77e-01 a.118.18.1 77440 1fqgA 263 1.77e-01 1btl e.3.1.1 42699 1o7eA 276 2.25e-01 e.3.1.1 -11766 1nrfA 262 2.89e-01 e.3.1.1 -11780 1ei5A 520 3.01e-01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 2tbs 222 4.60e-01 5ptp b.47.1.2 26009 1hj8A 222 5.09e-01 b.47.1.2 65844 5ptp 223 5.68e-01 5ptp b.47.1.2 25831 1cqqA 180 1.06e+00 1cqqA b.47.1.4 26422 1mh0A 287 1.20e+00 b.47.1.2 79110 1fw9A 164 1.53e+00 1fw9A d.190.1.1 60059 1ouvA 273 1.62e+00 a.118.18.1 -1586 1foaA 348 1.88e+00 1foaA c.68.1.10 59929 1k38A 254 2.15e+00 e.3.1.1 84303 1ie7C 570 2.48e+00 1ubpC b.92.1.1 62315 c.1.9.2 62316 4ubpC 570 2.60e+00 1ubpC b.92.1.1 28431 c.1.9.2 29053 1a0jA 223 2.75e+00 5ptp b.47.1.2 26002 1ad1A 266 2.81e+00 1aj2 c.1.21.1 29668 1ubpC 570 3.18e+00 1ubpC b.92.1.1 28432 c.1.9.2 29054 1n83A 270 3.73e+00 a.123.1.1 80276 1oalA 151 4.05e+00 b.1.8.1 86739 1v4eA 299 4.33e+00 a.128.1.1 -1781 1furA 467 4.50e+00 1furA a.127.1.1 19403 1fo9A 348 4.57e+00 1foaA c.68.1.10 59928 1fo8A 343 4.71e+00 1foaA c.68.1.10 59927 1ao0A 459 4.76e+00 1ecfB c.61.1.1 34049 d.153.1.1 41816 1s83A 223 5.37e+00 b.47.1.2 -4178 1k4wA 252 5.69e+00 a.123.1.1 72068 8kme2 259 5.81e+00 1ucyE 1fuoA 467 6.04e+00 1furA a.127.1.1 19411 1i7wB 151 6.14e+00 1i7wB j.71.1.1 61910 1i7xB 151 6.43e+00 1i7xB j.71.1.1 61914 1e7uA 961 7.16e+00 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1ahtH 259 7.30e+00 5ptp 1hj9A 226 7.39e+00 b.47.1.2 65845 1h8dH 260 8.60e+00 5ptp 1d2dA 59 9.12e+00 1r1bA a.16.1.3 16397 1nq7A 244 9.19e+00 a.123.1.1 -1682 1o69A 394 9.36e+00 c.67.1.4 -8209 1dceB 331 1.09e+01 1dceB a.102.4.3 18872 1c5lH 259 1.09e+01 5ptp 1oktA 211 1.09e+01 a.45.1.1 -942 c.47.1.5 -7467 1k82A 268 1.17e+01 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 1r1bA 59 1.19e+01 1r1bA a.16.1.3 16396 1jljA 189 1.21e+01 c.57.1.1 63169 1fniA 223 1.25e+01 5ptp b.47.1.2 25962 1e8xA 961 1.26e+01 1e8xA a.118.1.6 19148 b.7.1.1 23183 d.15.1.5 37631 d.144.1.4 41711 1fm9D 272 1.28e+01 2prgA a.123.1.1 19313 2prgA 271 1.32e+01 2prgA a.123.1.1 19311 1rfmA 344 1.32e+01 c.122.1.1 -8032 1colA 204 1.33e+01 1a87 f.1.1.1 43378 1vduA 172 1.41e+01 unknown_sccs -1651 1qlmA 316 1.42e+01 1qlmA d.147.1.1 41765 1khdA 345 1.56e+01 a.46.2.1 77400 c.27.1.1 77401 1yaiA 151 1.60e+01 1yaiA b.1.8.1 22289 1ci9A 392 1.67e+01 e.3.1.1 64767 1d6jA 211 1.70e+01 1d6jA c.37.1.4 31940 1eq9A 222 1.70e+01 5ptp b.47.1.2 26068 1f7zA 233 1.76e+01 5ptp b.47.1.2 59681 1thtA 305 1.76e+01 1thtA c.69.1.13 34711 1hz4A 373 1.79e+01 a.118.8.2 65960 1iqqA 200 1.79e+01 d.124.1.1 66274 1dpo 223 1.82e+01 5ptp b.47.1.2 25975 1mctA 223 1.84e+01 5ptp b.47.1.2 25961 1e6bA 221 1.85e+01 1e6bA a.45.1.1 59294 c.47.1.5 59295 1eso 154 1.86e+01 1yaiA b.1.8.1 22293 1kb9D 246 1.87e+01 a.3.1.3 77317 f.23.11.1 77318 1j1jA 240 1.91e+01 a.118.16.1 -1637 1ci8A 392 1.92e+01 e.3.1.1 64765 6gsvA 217 2.09e+01 1b8xA a.45.1.1 17633 c.47.1.5 32925 2sqcA 631 2.16e+01 2sqcA a.102.4.2 18854 a.102.4.2 18855 1prgA 270 2.16e+01 2prgA a.123.1.1 19314 1ihcA 188 2.19e+01 1di6A c.57.1.1 62379 1ohuA 175 2.31e+01 f.1.4.1 -12058 1csn 298 2.32e+01 1csn d.144.1.7 41664 1zac 90 2.37e+01 1ncx a.39.1.5 17236 1o6yA 299 2.41e+01 d.144.1.7 81106 1keyA 235 2.42e+01 a.118.16.1 72389 1sw6A 327 2.44e+01 1sw6A d.211.1.1 19176 1hd8A 363 2.50e+01 b.105.1.1 65803 e.3.1.1 65804 1fw1A 216 2.56e+01 a.45.1.1 60051 c.47.1.5 60052 1ezvD 245 2.57e+01 1be3D a.3.1.3 59546 f.23.11.1 59547 1kyoD 248 2.58e+01 a.3.1.3 73254 f.23.11.1 73255 1necA 216 2.58e+01 1vfrA d.90.1.1 40249 1d6zA 727 2.61e+01 1oacA b.30.2.1 24394 d.17.2.1 38015 d.17.2.1 38016 d.82.1.1 40007 1etu 394 2.67e+01 1efcA c.37.1.8 64737 1nj4A 363 2.82e+01 b.105.1.1 80545 e.3.1.1 80546 1spuB 727 2.88e+01 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 3pte 349 2.90e+01 3pte e.3.1.1 42687 1pwgA 349 2.96e+01 1sqc 631 3.03e+01 2sqcA a.102.4.2 18858 a.102.4.2 18859 1lt8A 406 3.05e+01 c.1.26.1 78186 1jjfA 268 3.17e+01 c.69.1.2 66765 1chkA 238 3.19e+01 1chkA d.2.1.7 36999 1mplA 349 3.31e+01 e.3.1.1 79387 1hvbA 349 3.33e+01 3pte e.3.1.1 42686 1avsA 90 3.37e+01 1cll a.39.1.5 17226 1bmw 96 3.60e+01 1who b.7.3.1 23217 1ncx 162 3.61e+01 1ncx a.39.1.5 17222 1kezA 300 3.64e+01 c.69.1.22 68546 1cfyA 143 3.73e+01 1cof d.109.1.2 40858 1q1lA 401 3.81e+01 unknown_sccs -11166 1top 162 3.83e+01 1ncx a.39.1.5 17223 1fhvA 323 3.90e+01 1fhuA c.1.11.2 29235 d.54.1.1 38879 1dfx 125 3.92e+01 1dfx b.1.13.1 22367 g.41.5.2 45255