# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1jq5A 370 9.12e-01 e.22.1.2 67084 1dm0A 287 1.53e+00 1dm0A d.165.1.2 42227 1mdl 359 1.88e+00 2mnr c.1.11.2 29247 d.54.1.1 38891 1q48A 134 1.94e+00 unknown_sccs -9776 1rvkA 382 2.07e+00 c.1.11.2 -5568 d.54.1.1 -9826 2phlA 397 2.33e+00 1dgwA b.82.1.2 28082 b.82.1.2 28083 1ikpA 613 3.71e+00 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 2mnr 357 4.09e+00 2mnr c.1.11.2 29245 d.54.1.1 38889 1lshB 319 4.34e+00 f.7.1.1 74245 1o04A 500 4.46e+00 c.82.1.1 86508 1fsz 372 4.87e+00 1fsz c.32.1.1 31750 d.79.2.1 39802 1vi9A 299 4.88e+00 c.72.1.5 -8393 1hlrA 907 5.10e+00 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1alo 907 5.17e+00 1alo 1d2eA 397 7.23e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1k32A 1045 8.32e+00 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1oz9A 150 8.76e+00 unknown_sccs -10588 1khiA 176 9.70e+00 b.34.5.2 77408 b.40.4.5 77409 1nt4A 391 1.05e+01 c.60.1.2 -7942 1bj7 156 1.06e+01 1bj7 b.60.1.1 27113 1eyhA 144 1.15e+01 1eduA a.118.9.1 19214 1guzA 310 1.21e+01 c.2.1.5 65586 d.162.1.1 65587 1bob 320 1.21e+01 1bob d.108.1.1 40816 1iupA 282 1.22e+01 c.69.1.10 76815 5rubA 490 1.23e+01 1burA c.1.14.1 29382 d.58.9.1 39288 1m3qA 317 1.38e+01 a.96.1.3 -1288 d.129.1.2 -11006 1ptmA 329 1.41e+01 unknown_sccs -8456 1fs7A 485 1.42e+01 1qdbA a.138.1.3 19691 1ebmA 317 1.52e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1fkmA 396 1.56e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1exqA 154 1.60e+01 1b9dA c.55.3.2 33646 1b7yA 350 1.63e+01 1pysA d.104.1.1 40776 1ad3A 452 1.64e+01 1ad3A c.82.1.1 35335 1m2tA 254 1.65e+01 d.165.1.1 84761 1i6iA 366 1.67e+01 1bg2 c.37.1.9 61844 1nnhA 294 1.70e+01 d.104.1.1 -10772 1hyvA 166 1.76e+01 1b9dA c.55.3.2 61424 1wdcB 156 1.82e+01 1wdcB a.39.1.5 17302 1g0oA 283 1.82e+01 1ybvA c.2.1.2 60181 1pfjA 108 1.84e+01 1kq3A 376 1.89e+01 e.22.1.2 68790 1f2tB 148 2.02e+01 1f2tB 1q6hA 224 2.06e+01 d.26.1.1 -9487 1nsf 273 2.08e+01 1d2nA c.37.1.20 32429 1a4sA 503 2.09e+01 1bpwA c.82.1.1 35361 1jpmA 366 2.09e+01 c.1.11.2 67031 d.54.1.1 67032 1itg 166 2.27e+01 1b9dA c.55.3.2 33661 1vhxA 150 2.38e+01 unknown_sccs -7663 1khdA 345 2.39e+01 a.46.2.1 77400 c.27.1.1 77401 1cpcA 162 2.54e+01 1cpcA a.1.1.3 15643 1kk8B 139 2.61e+01 a.39.1.5 77430 1lmb3 92 2.64e+01 1lmb3 1n9lA 109 2.80e+01 d.110.3.6 85468 1nu5A 370 2.88e+01 c.1.11.2 -5565 d.54.1.1 -9823 1mngA 203 2.90e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1a8q 274 2.97e+01 1brt c.69.1.12 34702 1eyvA 156 2.98e+01 1eyvA a.79.1.1 18446 1bia 321 3.04e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1bl3A 160 3.12e+01 1b9dA c.55.3.2 33655 1okrA 123 3.13e+01 unknown_sccs -235 1jkvA 266 3.13e+01 unknown_sccs 71719 1ihrA 76 3.16e+01 1ihrA d.212.1.2 62392 1j09A 468 3.19e+01 a.97.1.1 77025 c.26.1.1 77026 1hr6A 475 3.20e+01 1hr6A d.185.1.1 61164 d.185.1.1 61165 1qzmA 94 3.26e+01 c.37.1.20 -7254 1lt5D 103 3.42e+01 3chbD b.40.2.1 24875 1k94A 165 3.50e+01 a.39.1.8 68333 1ur5A 309 3.52e+01 c.2.1.5 -5910 d.162.1.1 -11477 1a8d 452 3.55e+01 1a8d b.29.1.6 24262 b.42.4.2 25607 1s6bA 119 3.56e+01 a.133.1.2 -1953 1p0hA 318 3.61e+01 d.108.1.1 -10802 1o7eA 276 3.62e+01 e.3.1.1 -11766 1eu3A 210 3.85e+01 1an8 b.40.2.2 25206 d.15.6.1 37795 1djrD 103 3.85e+01 3chbD b.40.2.1 24865 1bqbA 301 3.94e+01 1hyt d.92.1.2 58962 1e2uA 553 4.00e+01 1e1dA e.26.1.1 43362 1gntA 553 4.00e+01 e.26.1.1 70290