# List of top-scoring protein chains for t2k-100-30-alpha 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 1abmA 198 1.49e-01 1avmA 1ap6A 198 2.02e-01 1avmA a.2.11.1 15746 d.44.1.1 38705 1pl4A 198 2.68e-01 a.2.11.1 -132 d.44.1.1 -9733 1n0nA 199 3.02e-01 a.2.11.1 79750 d.44.1.1 79751 1tocR 120 3.17e-01 1tocR g.8.1.2 44558 g.8.1.2 44559 1vmoA 163 3.46e-01 1vmoA b.77.1.1 27974 1v33A 366 7.91e-01 unknown_sccs -11384 2ccyA 128 1.10e+00 2ccyA a.24.3.2 16544 1pmaA 233 2.51e+00 1pmaA d.153.1.4 41918 1rypD 241 2.70e+00 1rypD d.153.1.4 41935 1psdA 409 3.15e+00 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1qw9A 502 4.47e+00 b.71.1.2 -4677 c.1.8.3 -5348 1b06A 210 5.53e+00 1avmA a.2.11.1 15740 d.44.1.1 38737 1shp 55 6.85e+00 1bpi g.8.1.1 44553 1avpA 204 7.77e+00 1avpA d.3.1.7 37132 1g71A 347 8.38e+00 1g71A unknown_sccs 43268 1nlnA 204 8.45e+00 d.3.1.7 -8897 1qz8A 113 8.48e+00 unknown_sccs -4264 1skz 119 8.97e+00 1skz g.3.15.1 44366 g.3.15.1 44367 1flcB 175 9.26e+00 1flcB h.3.1.1 45716 1ew3A 159 9.95e+00 1mup b.60.1.1 27114 1d8bA 81 1.06e+01 1d8bA a.60.8.1 18094 2prgA 271 1.10e+01 2prgA a.123.1.1 19311 1kf6D 119 1.12e+01 f.21.2.2 72400 1c44A 123 1.16e+01 1qndA d.106.1.1 40795 1p7gA 222 1.36e+01 a.2.11.1 -108 d.44.1.1 -9742 1jdc 429 1.43e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1ju2A 536 1.47e+01 c.3.1.2 77169 d.16.1.1 77170 1rypC 244 1.52e+01 1rypC d.153.1.4 41934 1ej0A 180 1.56e+01 1ej0A c.66.1.2 34179 1fntc 245 1.61e+01 1ei7A 158 1.66e+01 1rmvA a.24.5.1 16584 1ud0A 113 1.68e+01 unknown_sccs -450 1ri5A 298 1.68e+01 unknown_sccs -8063 1lrwA 600 1.69e+01 b.70.1.1 -4629 1i85A 110 1.77e+01 1i85A b.1.1.1 61946 1sly 618 1.81e+01 1qsaA a.118.5.1 19184 d.2.1.6 36990 1idsA 207 1.82e+01 1avmA a.2.11.1 15722 d.44.1.1 38730 1g1eB 89 1.82e+01 1g1eB a.59.1.1 17931 1prgA 270 1.85e+01 2prgA a.123.1.1 19314 1fm9D 272 1.90e+01 2prgA a.123.1.1 19313 1kkcA 221 1.92e+01 a.2.11.1 68660 d.44.1.1 68661 1jb7B 260 1.94e+01 1otcB b.40.4.3 62839 1qndA 123 1.96e+01 1qndA d.106.1.1 40794 1aohB 147 2.01e+01 1aohA b.2.2.2 22402 1lfaA 187 2.07e+01 1ido c.62.1.1 34122 1dgqA 188 2.09e+01 1ido c.62.1.1 34131 153l 185 2.10e+01 153l d.2.1.5 36984 1nb8A 353 2.17e+01 d.3.1.9 80385 1qsaA 618 2.22e+01 1qsaA a.118.5.1 19182 d.2.1.6 36988 1dtx 59 2.31e+01 1bpi g.8.1.1 44551 1lf7A 182 2.39e+01 b.60.1.1 73878 1kagA 173 2.42e+01 c.37.1.2 72249 1td5A 202 2.43e+01 1g8lA 411 2.46e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1mk0A 97 2.52e+01 d.226.1.1 79216 1eaiC 61 2.55e+01 1eaiC g.22.1.1 44894 1k8tA 510 2.56e+01 e.41.1.1 68316 1n7zA 334 2.58e+01 b.127.1.1 85380 1g72A 573 2.59e+01 4aahA b.70.1.1 27680 1adz 71 2.68e+01 1bpi g.8.1.1 44542 1ly2A 130 2.71e+01 g.18.1.1 74335 g.18.1.1 74336 1f5mA 180 2.72e+01 1f5mB d.110.2.1 40895 1f5mB 180 2.74e+01 1f5mB d.110.2.1 40896 1dn1B 267 2.77e+01 1dn1B a.47.2.1 17771 1ohtA 215 2.79e+01 d.118.1.1 87036 1lkvX 232 2.83e+01 a.118.14.1 73980 1h10A 125 2.85e+01 b.55.1.1 83446 1f6bA 198 2.94e+01 c.37.1.8 64986 1aohA 147 2.98e+01 1aohA b.2.2.2 22401 1vcbA 118 3.06e+01 1vcbA d.15.1.1 37603 1ghqB 134 3.08e+01 1ghqB g.18.1.1 60522 g.18.1.1 60523 1lm8B 118 3.16e+01 d.15.1.1 74033 1k1fA 72 3.16e+01 a.147.1.1 68007 1ycsB 239 3.20e+01 1ycsB b.34.2.1 24553 d.211.1.1 19155 1iw2A 182 3.23e+01 b.60.1.1 71468 2hgf 97 3.40e+01 1bhtA g.10.1.1 44607 1i88A 389 3.49e+01 c.95.1.2 66070 c.95.1.2 66071 1viuA 203 3.65e+01 d.113.1.1 -10889 1jltB 122 3.65e+01 a.133.1.2 66868 1qe3A 489 3.79e+01 2bce c.69.1.1 34630 1shsA 147 3.81e+01 1shsA b.15.1.1 23675 1i86A 389 3.82e+01 c.95.1.2 66068 c.95.1.2 66069 1bi5A 389 3.84e+01 1bi5A c.95.1.2 35985 c.95.1.2 35986 1h09A 338 3.84e+01 b.109.1.1 83420 c.1.8.8 83421 1ezeA 38 3.89e+01 1ezeA j.39.1.1 46302 5bcaA 516 3.91e+01 1b9zA b.3.1.1 22529 c.1.8.1 28799