# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1jx7A 117 1.25e-03 c.114.1.1 77195 2viuA 328 4.69e-01 1hgeA b.19.1.2 23797 1l1sA 113 6.61e-01 c.114.1.1 73484 1m32A 366 6.73e-01 c.67.1.3 78508 1c0pA 363 7.38e-01 1an9A c.4.1.2 30647 d.16.1.3 37934 1npk 154 8.07e-01 1npk d.58.6.1 39099 1pdo 135 9.21e-01 1pdo c.54.1.1 33376 1uekA 275 1.11e+00 d.14.1.5 88483 d.58.26.5 88484 1smlA 269 1.32e+00 1smlA d.157.1.1 42053 1bftA 101 1.36e+00 1a3qA b.1.18.1 21934 1jsmA 325 1.37e+00 b.19.1.2 63264 1fukA 165 1.47e+00 1fukA c.37.1.19 32409 1l1qA 186 1.51e+00 c.61.1.1 77653 1miwA 404 1.63e+00 a.173.1.1 79162 d.218.1.4 79163 1qyrA 252 1.70e+00 1knwA 425 1.88e+00 b.49.2.3 -4274 c.1.6.1 -5229 1aquA 297 2.11e+00 1aquA c.37.1.5 31942 1my7A 114 2.16e+00 b.1.18.1 79675 1a2vA 655 3.00e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1ep3B 262 3.15e+00 1ep2B b.43.4.2 25664 c.25.1.3 31554 1mplA 349 3.24e+00 e.3.1.1 79387 1pwgA 349 3.26e+00 1nnlA 225 3.38e+00 c.108.1.4 85906 1rypI 222 3.54e+00 d.153.1.4 41877 1unkA 87 3.60e+00 1cei a.28.2.1 16935 3pte 349 3.72e+00 3pte e.3.1.1 42687 1hh1A 143 3.73e+00 1gefA c.52.1.18 61036 1tk9A 188 4.35e+00 1d7yA 408 4.42e+00 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1hvbA 349 4.51e+00 3pte e.3.1.1 42686 1vj1A 363 4.61e+00 b.35.1.2 -3728 c.2.1.1 -5752 1qb7A 236 5.47e+00 1qb7A c.61.1.1 34087 1cei 94 5.59e+00 1cei a.28.2.1 16939 1gq8A 319 5.61e+00 b.80.1.5 70350 1bia 321 5.75e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1ass 159 6.04e+00 1a6dA c.8.5.2 30818 1omiA 248 6.38e+00 a.4.5.4 87079 b.82.3.3 87080 2reb 352 7.09e+00 2reb c.37.1.11 32282 d.48.1.1 38767 1n3bA 216 7.27e+00 c.37.1.1 79959 1exrA 148 7.29e+00 1cll a.39.1.5 17299 1bouB 302 7.33e+00 1bouB c.56.6.1 33859 1qzzA 374 9.07e+00 a.4.5.29 -277 c.66.1.12 -8045 1umdB 324 9.49e+00 c.36.1.7 -6929 c.48.1.2 -7539 1bkf 107 9.72e+00 1fkj d.26.1.1 38382 1jsdA 319 1.02e+01 b.19.1.2 63258 1rwzA 245 1.12e+01 d.131.1.2 -11106 d.131.1.2 -11107 1rypL 212 1.15e+01 d.153.1.4 41880 1ufkA 254 1.17e+01 unknown_sccs -8103 1mbmA 198 1.25e+01 b.47.1.3 78916 1hm6A 346 1.29e+01 1avc a.65.1.1 18147 1ni4B 341 1.32e+01 c.36.1.7 85729 c.48.1.2 85730 1k7jA 206 1.41e+01 d.115.1.1 72103 1h05A 146 1.42e+01 c.23.13.1 76433 1hlgA 371 1.46e+01 1hlgA c.69.1.6 34656 1vhtA 218 1.52e+01 c.37.1.1 -7004 1r6xA 395 1.60e+01 b.122.1.3 -5125 c.26.1.5 -6620 1g4yR 148 1.63e+01 1cll a.39.1.5 60252 1dqgA 135 1.71e+01 1dqgA b.42.2.2 25579 1ko7A 314 1.72e+01 c.98.2.1 72797 c.91.1.2 72798 2dhqA 146 1.75e+01 2dhqA c.23.13.1 31382 1kc6A 257 1.92e+01 c.52.1.19 68419 1nytA 271 1.93e+01 c.2.1.7 86417 c.58.1.5 86418 1sjyA 159 1.96e+01 d.113.1.1 -10908 1v7zA 260 2.00e+01 unknown_sccs -6353 1nq7A 244 2.19e+01 a.123.1.1 -1682 1lyxA 248 2.21e+01 c.1.1.1 78304 1hdfA 102 2.27e+01 1ag4 b.11.1.1 23627 1o5xA 248 2.37e+01 c.1.1.1 -5157 1qr0A 228 2.37e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1hnjA 317 2.42e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1tffA 234 2.48e+01 1np6A 174 2.53e+01 c.37.1.10 85954 1o57A 291 2.53e+01 unknown_sccs -249 c.61.1.1 -7960 1g6oA 330 2.63e+01 1g6oA c.37.1.11 32430 1ualA 274 2.66e+01 c.116.1.4 88383 2hgsA 474 2.70e+01 2hgsA c.30.1.4 31722 d.142.1.6 75997 1npyA 271 2.78e+01 c.2.1.7 85995 c.58.1.5 85996 1v2dA 381 2.79e+01 1h0bA 256 2.88e+01 b.29.1.11 83422 1s72Y 241 2.88e+01 1uxy 340 2.90e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1kblA 873 2.94e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1mkyA 439 2.98e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1vjpA 394 3.00e+01 c.2.1.3 -5897 d.81.1.3 -10480 1g38A 393 3.01e+01 2admA c.66.1.27 60235 1jj2X 240 3.04e+01 1ffkV c.9.2.1 63109 1hkhA 279 3.10e+01 c.69.1.12 -8342 1rj9A 304 3.14e+01 a.24.13.1 -631 c.37.1.10 -7129 1apxA 249 3.17e+01 1ryc a.93.1.1 18669 2pgd 482 3.22e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1lox 662 3.24e+01 1lox a.119.1.2 19238 b.12.1.1 23638 1epxA 370 3.26e+01 1fbaA c.1.10.1 29150 2tmdA 729 3.34e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1cb0A 283 3.37e+01 1cb0A c.56.2.1 33790 1bfd 528 3.37e+01 1bfd c.31.1.3 31745 c.36.1.5 31801 c.36.1.9 31802 1g1cA 99 3.51e+01 b.1.1.4 65078 1ou0A 207 3.52e+01 c.23.17.1 -6498 1ro0A 216 3.60e+01 unknown_sccs -11390 1o69A 394 3.61e+01 c.67.1.4 -8209 1s72N 187 3.63e+01 1g8fA 511 3.71e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1im5A 180 3.75e+01 unknown_sccs 66211 1ggzA 148 3.75e+01 a.39.1.5 70176 1ru8A 232 3.77e+01 c.26.2.1 -6635 1jpaA 312 3.77e+01 d.144.1.7 67011 2his 312 3.78e+01 1taxA c.1.8.3 28918 1m3uA 264 3.88e+01 c.1.12.8 84784 1hzpA 335 3.91e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 1fyeA 229 3.99e+01 1fyeA c.23.16.4 31477