# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 2bcoA 350 9.45e-22 1yw4A 341 1.01e-19 1h8lA 380 2.23e-03 b.3.2.1,c.56.5.1 65737,65738 1qmuA 380 2.25e-03 1qmuA b.3.2.1,c.56.5.1 22534,33827 2bo9A 308 1.12e-02 2c1cA 312 2.03e-01 1dtdA 303 3.43e-01 1aye c.56.5.1 33823 1aye 401 4.25e-01 1aye c.56.5.1,d.58.3.1 33824,39065 1jqgA 433 4.49e-01 c.56.5.1,d.58.3.1 71791,71792 2bgiA 272 3.55e+00 1po5A 476 4.65e+00 a.104.1.1 94963 1v8fA 276 7.76e+00 c.26.1.4 100503 1m4lA 307 7.82e+00 c.56.5.1 78604 2aqjA 538 9.74e+00 1yme 309 1.00e+01 1aye c.56.5.1 33804 2ctc 307 1.02e+01 1aye c.56.5.1 33802 1f0yA 302 1.05e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1ttuA 477 1.09e+01 b.1.18.1,b.2.5.8,b.42.7.1 107305,107306,107307 2adcA 229 1.11e+01 2ctb 307 1.13e+01 1aye c.56.5.1 33803 1nonA 179 1.13e+01 c.61.1.1 103868 1vpbA 451 1.28e+01 1gxmA 332 1.28e+01 a.102.5.1 76371 1xznA 179 1.35e+01 1t2aA 375 1.38e+01 c.2.1.2 99078 1gnxA 479 1.43e+01 c.1.8.4 76241 2hdhA 293 1.54e+01 2hdhA a.100.1.3,c.2.1.6 18795,30199 1eqcA 394 1.72e+01 1cz1A c.1.8.3 28811 1zhrA 238 1.74e+01 1xx9A 238 1.75e+01 1ki9A 192 1.80e+01 c.37.1.1 84404 1t6cA 315 1.81e+01 c.55.1.8,c.55.1.8 106558,106559 6cpa 307 1.86e+01 1aye c.56.5.1 33816 1v3wA 173 2.02e+01 b.81.1.5 100291 1zhpA 238 2.03e+01 1a3c 181 2.08e+01 1a3c c.61.1.1 34095 1zhmA 238 2.12e+01 1wyuB 474 2.19e+01 2gl5A 410 2.26e+01 1cz1A 394 2.27e+01 1cz1A c.1.8.3 28839 1midA 91 2.28e+01 a.52.1.1 91280 1uypA 432 2.40e+01 b.29.1.19,b.67.2.3 100176,100177 2a35A 215 2.41e+01 2frvB 536 2.43e+01 1h2rL e.18.1.1 43291 1fp3A 402 2.61e+01 1fp3A a.102.1.3 18842 1l3iA 192 2.84e+01 c.66.1.22 77676 1i24A 404 2.86e+01 c.2.1.2 83663 1frvB 536 2.86e+01 1h2rL e.18.1.1 43296 1jvbA 347 2.93e+01 b.35.1.2,c.2.1.1 77181,77182 1mjc 69 2.96e+01 1mjc b.40.4.5 25319 1esc 306 2.96e+01 1esc c.23.10.1 31334 3mefA 69 3.05e+01 1mjc b.40.4.5 25320 1bavA 309 3.10e+01 1aye c.56.5.1 33806 1il6 185 3.43e+01 1alu a.26.1.1 16827 1bmtA 246 3.44e+01 1bmtA a.46.1.1,c.23.6.1 17757,31235 1w2tA 432 3.45e+01 1ivnA 190 3.63e+01 c.23.10.5 83719 2chsA 127 3.75e+01 2chsA d.79.1.2 39764 1hx1B 114 3.80e+01 1hx1B a.7.7.1 61350 1dbfA 127 3.83e+01 2chsA d.79.1.2 39761 1k38A 254 4.11e+01 e.3.1.1 84303 2conA 79 4.13e+01 1x59A 73 4.22e+01 1cjcA 460 4.26e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 2bsfA 176 4.31e+01 1w61A 414 4.32e+01 1k9dA 679 4.44e+01 c.1.8.10,d.92.2.2 77292,77293 1wcgA 464 4.54e+01 1n7hA 381 4.55e+01 c.2.1.2 80250 2fi1A 190 4.56e+01 1l8nA 679 4.58e+01 c.1.8.10,d.92.2.2 84564,84565 1wphA 201 4.67e+01 1rc9A 221 4.73e+01 1d2eA 397 4.80e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1ihnA 113 4.94e+01 1ihnA c.103.1.1 62388 1o04A 500 5.00e+01 c.82.1.1 86508 1hdoA 206 5.10e+01 1he2A c.2.1.2 60965 1gz6A 319 5.18e+01 c.2.1.2 76410 1qm9A 198 5.26e+01 1qm9A d.58.7.1,d.58.7.1 39207,39208 1jwqA 179 5.29e+01 c.56.5.6 90921 1o0wA 252 5.31e+01 a.149.1.1,d.50.1.1 80751,80752 1bh9A 45 5.41e+01 1bh9A a.22.1.3 16483 1ysc 421 5.44e+01 1ivyA c.69.1.5 34652 1obr 326 5.51e+01 1aye c.56.5.2 33828 1he2A 206 5.57e+01 1he2A c.2.1.2 60966 1xruA 282 5.61e+01 1lox 662 5.78e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1zbqA 327 5.81e+01 2bl1A 172 5.84e+01 1jz8A 1023 5.95e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1yvoA 172 6.03e+01 1rwzA 245 6.03e+01 d.131.1.2,d.131.1.2 98005,98006 1tz9A 367 6.11e+01 c.1.15.6 107466 1c3oE 1073 6.12e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18564,31493,31685,31686,41530,41531 1z72A 225 6.12e+01 1iciA 256 6.15e+01 1iciA c.31.1.5 62266 1gehA 444 6.21e+01 c.1.14.1,d.58.9.1 65181,65182 2bsjA 133 6.24e+01 1eybA 471 6.30e+01 1ey2A b.82.1.4 28115 1joa 447 6.39e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30563,30564,40203 1i45A 248 6.45e+01 1amk c.1.1.1 61665 1zbsA 291 6.51e+01 1ow4A 129 6.59e+01 a.39.2.1 93628 1xmbA 418 6.69e+01 1zy9A 564 6.70e+01 1rpnA 335 6.71e+01 c.2.1.2 97708 1dfx 125 6.78e+01 1dfx b.1.13.1,g.41.5.2 22367,45255 1b37B 472 6.81e+01 1b37B c.3.1.2,d.16.1.5 30390,37954 1eswA 500 6.86e+01 1cwyA c.1.8.1 59500 7timA 247 6.86e+01 1amk c.1.1.1 28457 1z77A 200 6.90e+01 1f47B 144 7.22e+01 1f46A d.129.4.1 59645 1m98A 317 7.26e+01 a.175.1.1,d.17.4.6 78866,78867 2c5uA 375 7.27e+01 1h8aC 128 7.32e+01 a.4.1.3,a.4.1.3 65731,65732 1kwmA 402 7.34e+01 c.56.5.1,d.58.3.1 73079,73080 1cwyA 500 7.37e+01 1cwyA c.1.8.1 28789 1to6A 371 7.40e+01 c.141.1.1 107170 1mwvA 714 7.45e+01 a.93.1.3,a.93.1.3 85161,85162 1m2kA 249 7.51e+01 c.31.1.5 84754 1b37A 472 7.59e+01 1b37B c.3.1.2,d.16.1.5 30389,37953 1lldA 319 7.61e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1wnaA 131 7.66e+01 2bhoA 130 7.75e+01 1cy9A 264 7.81e+01 1ecl e.10.1.1 43236 1tsm 316 7.88e+01 1bkpA d.117.1.1 41024 1g2rA 100 7.89e+01 1g2rA d.192.1.1 60231 2aegA 268 7.95e+01 1ejdA 419 8.12e+01 1uae d.68.2.2 39576 1keeA 1073 8.12e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68492,68493,68494,68495,68496,68497 1db3A 372 8.32e+01 1db3A c.2.1.2 29813 1b5qA 472 8.42e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1umwA 237 8.49e+01 d.223.1.2,d.223.1.2 99631,99632 1xhcA 367 8.51e+01 1cs0C 1073 8.52e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18559,31488,31675,31676,41520,41521 1wovA 250 8.55e+01 1z5rA 306 8.62e+01 1cs0A 1073 8.63e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1iygA 133 8.63e+01 a.118.8.1 76947 1aw9 216 8.67e+01 1gnwA a.45.1.1,c.47.1.5 17736,33030 1dp0A 1023 8.78e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22073,22074,23722,24346,28845 1neyA 247 8.81e+01 c.1.1.1 80449