# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1vmoA 163 5.66e-01 1vmoA b.77.1.1 27974 1pl4A 198 1.07e+00 a.2.11.1 -132 d.44.1.1 -9733 1ap6A 198 1.08e+00 1avmA a.2.11.1 15746 d.44.1.1 38705 1abmA 198 1.10e+00 1avmA 1n0nA 199 1.38e+00 a.2.11.1 79750 d.44.1.1 79751 1ndbA 596 1.52e+00 c.43.1.3 80411 c.43.1.3 80412 1v33A 366 1.73e+00 unknown_sccs -11384 1tocR 120 1.76e+00 1tocR g.8.1.2 44558 g.8.1.2 44559 1nm8A 616 2.65e+00 c.43.1.3 85872 c.43.1.3 85873 1psdA 409 2.83e+00 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1snzA 344 3.70e+00 b.30.5.4 -3496 1pwxA 254 3.98e+00 c.2.1.2 -5858 1qe3A 489 4.56e+00 2bce c.69.1.1 34630 1j0hA 588 6.21e+00 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1g71A 347 7.36e+00 1g71A unknown_sccs 43268 1pmaA 233 7.58e+00 1pmaA d.153.1.4 41918 1josA 128 7.63e+00 d.52.7.1 84191 1qw9A 502 7.81e+00 b.71.1.2 -4677 c.1.8.3 -5348 1hk9A 74 8.98e+00 b.38.1.2 83541 1lm8B 118 9.30e+00 d.15.1.1 74033 1i85A 110 9.98e+00 1i85A b.1.1.1 61946 1kf6D 119 1.12e+01 f.21.2.2 72400 1grwA 126 1.21e+01 b.1.11.2 70391 1vcbA 118 1.25e+01 1vcbA d.15.1.1 37603 1dgqA 188 1.31e+01 1ido c.62.1.1 34131 1jztA 246 1.42e+01 c.104.1.1 63319 1otcB 260 1.44e+01 1otcB b.40.4.3 25310 1mspA 126 1.44e+01 1mspA b.1.11.2 22333 1grj 158 1.49e+01 1grj a.2.1.1 15691 d.26.1.2 38433 1n7hA 381 1.49e+01 c.2.1.2 80250 1rypD 241 1.62e+01 1rypD d.153.1.4 41935 1rypC 244 1.70e+01 1rypC d.153.1.4 41934 1ohtA 215 1.81e+01 d.118.1.1 87036 1kkcA 221 1.84e+01 a.2.11.1 68660 d.44.1.1 68661 1c4kA 730 1.85e+01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 2nllB 103 1.89e+01 2nllB g.39.1.2 45115 1qo3C 137 1.92e+01 1qo3C d.169.1.1 42350 1p7gA 222 1.95e+01 a.2.11.1 -108 d.44.1.1 -9742 1ocxA 182 2.04e+01 b.81.1.3 86814 1ibsA 317 2.11e+01 c.61.1.2 66107 c.61.1.2 66108 3mspA 126 2.14e+01 1mspA b.1.11.2 22343 1jb7B 260 2.21e+01 1otcB b.40.4.3 62839 1qz8A 113 2.26e+01 unknown_sccs -4264 1mk0A 97 2.27e+01 d.226.1.1 79216 1nb8A 353 2.30e+01 d.3.1.9 80385 1kebA 108 2.33e+01 c.47.1.1 77341 1ordA 730 2.37e+01 1ordA c.23.1.4 31274 c.67.1.5 34503 d.125.1.1 41124 1kagA 173 2.37e+01 c.37.1.2 72249 1dkuA 317 2.37e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1cbh 36 2.46e+01 2cbh g.3.8.1 44182 1n8fA 350 2.46e+01 c.1.10.4 85397 1ud0A 113 2.47e+01 unknown_sccs -450 1qndA 123 2.48e+01 1qndA d.106.1.1 40794 153l 185 2.50e+01 153l d.2.1.5 36984 1awo 62 2.51e+01 1bbzA b.34.2.1 24482 1dkrA 317 2.55e+01 1dkuA c.61.1.2 34114 c.61.1.2 34115 1ycsB 239 2.66e+01 1ycsB b.34.2.1 24553 d.211.1.1 19155 1lfaA 187 2.76e+01 1ido c.62.1.1 34122 1jyhA 157 2.78e+01 d.60.1.3 71956 2cbh 36 2.78e+01 2cbh g.3.8.1 44181 1ej0A 180 2.88e+01 1ej0A c.66.1.2 34179 1r9cA 139 2.93e+01 d.32.1.2 -9557 1bkjA 240 2.98e+01 1bkjA d.90.1.1 40243 1tuhA 156 3.03e+01 1d8bA 81 3.05e+01 1d8bA a.60.8.1 18094 1shp 55 3.34e+01 1bpi g.8.1.1 44553 1mjnA 179 3.41e+01 c.62.1.1 79210 1bbzE 58 3.44e+01 1bbzA b.34.2.1 24479 1gbs 185 3.51e+01 153l d.2.1.5 36986 1bbzA 58 3.54e+01 1bbzA b.34.2.1 24477 1idsA 207 3.56e+01 1avmA a.2.11.1 15722 d.44.1.1 38730 1aboA 62 3.67e+01 1bbzA b.34.2.1 24474 1b06A 210 3.69e+01 1avmA a.2.11.1 15740 d.44.1.1 38737 1nxcA 478 3.86e+01 a.102.2.1 -1333 2trxA 108 3.89e+01 1thx c.47.1.1 32719