# List of top-scoring protein chains for t2k-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 1qxrA 189 2.48e-01 1plzA 189 2.52e-01 b.82.1.7 88160 1h1iC 350 7.93e-01 b.82.1.5 76471 1h1iB 350 1.07e+00 b.82.1.5 76470 1j58A 385 1.12e+00 b.82.1.2 71531 1fxzA 476 1.20e+00 b.82.1.2 65059 b.82.1.2 65060 2eifA 136 1.22e+00 1bkb b.34.5.2 24607 b.40.4.5 25339 1a3z 155 1.42e+00 1rcy b.6.1.1 23019 1rcy 151 1.43e+00 1rcy b.6.1.1 23018 1e30A 155 1.55e+00 1rcy b.6.1.1 23016 1h1iD 350 1.95e+00 b.82.1.5 76472 1cur 155 1.99e+00 1rcy b.6.1.1 23021 1juhA 350 2.00e+00 b.82.1.5 71884 1cawB 184 2.33e+00 1caxB b.82.1.2 28113 1hxs2 272 2.92e+00 1lr5A 163 3.68e+00 b.82.1.2 74215 1pjjA 271 3.79e+00 1nnjA 271 3.79e+00 a.156.1.2 80669 b.113.1.1 80670 g.39.1.8 80671 1bkb 136 3.80e+00 1bkb b.34.5.2 24609 b.40.4.5 25341 1khiA 176 4.50e+00 b.34.5.2 77408 b.40.4.5 77409 2pcfB 250 5.33e+00 1hcz i.4.1.1 45911 1k07A 263 5.36e+00 d.157.1.1 77218 1miuA 738 5.58e+00 a.170.1.1 79153 a.171.1.1 79154 b.40.4.3 79155 b.40.4.3 79156 b.40.4.3 79157 1qqp2 218 5.62e+00 1qqp2 8acn 754 6.58e+00 1amj c.8.2.1 30724 c.83.1.1 35400 1amj 754 7.04e+00 1amj c.8.2.1 30725 c.83.1.1 35401 1pvc2 271 7.58e+00 1aym2 2pia 321 8.16e+00 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1o8uA 257 8.27e+00 c.14.1.3 81194 1c96A 753 8.55e+00 1amj c.8.2.1 30727 c.83.1.1 35403 1sbp 310 8.60e+00 1sbp c.94.1.1 35760 1fw9A 164 8.97e+00 1fw9A d.190.1.1 60059 1caxB 184 9.21e+00 1caxB b.82.1.2 28105 1fsu 492 9.90e+00 1auk c.76.1.2 35032 1jlxA 304 1.07e+01 1jlyA b.42.3.1 25583 b.42.3.1 25584 1a7tA 232 1.07e+01 1a7tA d.157.1.1 42041 6acn 754 1.09e+01 1amj c.8.2.1 30721 c.83.1.1 35397 1jlyA 304 1.16e+01 1jlyA b.42.3.1 25587 b.42.3.1 25588 7acn 754 1.21e+01 1amj c.8.2.1 30717 c.83.1.1 35393 1b0jA 754 1.21e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1apo 42 1.21e+01 1edmB g.3.11.1 44240 1dqsA 393 1.35e+01 1dqsA e.22.1.1 43347 1cauB 184 1.41e+01 1caxB b.82.1.2 28103 1prxB 224 1.44e+01 1prxA c.47.1.10 33077 1krhA 338 1.44e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1hdhA 536 1.46e+01 c.76.1.2 65805 1jegA 83 1.48e+01 b.34.2.1 66610 1hcz 252 1.61e+01 1hcz b.2.6.1 22464 b.84.2.2 28250 1l0sA 90 1.74e+01 b.81.2.1 73408 1jdc 429 1.79e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1luqA 127 1.85e+01 1qu5A 182 1.90e+01 1qu5A b.26.1.2 23922 1k9jA 139 1.91e+01 d.169.1.1 68353 2itg 163 1.91e+01 1b9dA c.55.3.2 33669 1ep0A 185 1.97e+01 1dzrA b.82.1.1 28080 1vhyA 257 2.02e+01 1cdi 179 2.08e+01 1cdy b.1.1.1 19727 b.1.1.3 21666 1fy7A 278 2.13e+01 1fy7A d.108.1.1 40817 1jjuA 489 2.14e+01 a.3.1.7 66774 a.3.1.7 66775 b.1.18.14 66776 b.1.18.14 66777 b.61.4.1 66778 1jofA 365 2.18e+01 b.69.10.1 71775 1jl0A 334 2.23e+01 1jenA d.156.1.1 63155 1kb0A 677 2.27e+01 a.3.1.6 68378 b.70.1.1 68379 1i05A 180 2.32e+01 1mup b.60.1.1 27130 1i06A 180 2.32e+01 1mup b.60.1.1 27131 1hyvA 166 2.33e+01 1b9dA c.55.3.2 61424 1cskA 71 2.38e+01 1ckaA b.34.2.1 24513 1h10A 125 2.40e+01 b.55.1.1 83446 1b9dA 163 2.49e+01 1b9dA c.55.3.2 33649 1qy1A 174 2.57e+01 1j83A 180 2.59e+01 b.18.1.12 66430 1m6kA 251 2.60e+01 e.3.1.1 78695 3dni 260 2.61e+01 3dni d.151.1.1 41791 1fpzA 212 2.61e+01 1fpzA c.45.1.1 59976 1o59A 355 2.67e+01 1itg 166 2.67e+01 1b9dA c.55.3.2 33661 1fi4A 416 2.73e+01 1fi4A d.14.1.5 59847 d.58.26.2 59848 1fsb 40 2.75e+01 1fsb g.3.11.1 44283 1jgtA 513 2.77e+01 c.26.2.1 66684 d.153.1.1 66685 1fxkC 133 2.78e+01 1fxkC a.2.5.1 15702 1apf 49 2.86e+01 1ahl g.9.1.1 44602 1oxsC 353 2.90e+01 b.40.6.3 87519 c.37.1.12 87520 1oxxK 353 2.90e+01 1iyjB 817 2.92e+01 a.170.1.1 76948 a.171.1.1 76949 b.40.4.3 76950 b.40.4.3 76951 b.40.4.3 76952 1bl3A 160 2.94e+01 1b9dA c.55.3.2 33655 1c8uA 285 2.94e+01 1c8uA d.38.1.3 38547 d.38.1.3 38548 1l0lB 439 3.12e+01 d.185.1.1 84484 d.185.1.1 84485 1whe 86 3.14e+01 1edmB g.3.11.1 44242 g.32.1.1 44974 1nxzA 246 3.16e+01 b.122.1.2 86391 c.116.1.5 86392 1exqA 154 3.17e+01 1b9dA c.55.3.2 33646 1fzdA 201 3.19e+01 3fib d.171.1.1 42484 1b4rA 80 3.27e+01 1b4rA b.1.3.1 22072 1imuA 107 3.28e+01 d.204.1.1 66218 1pz7A 204 3.28e+01 1h8eA 510 3.32e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1bcpC 199 3.34e+01 1bcpB b.40.2.1 25121 d.169.1.2 42430 1df3A 162 3.34e+01 1mup b.60.1.1 27134 1e79A 510 3.36e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1ei5A 520 3.41e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 3ncmA 92 3.48e+01 3ncmA b.1.1.4 21702 1g1sA 162 3.50e+01 d.169.1.1 65100 g.3.11.1 65101 1m2xA 223 3.54e+01 d.157.1.1 84764 1kxgA 152 3.54e+01 b.22.1.1 73145 1swuA 127 3.56e+01 1swuA b.61.1.1 27230 1d0aB 168 3.60e+01 1d0aB b.8.1.1 23224 h.1.2.1 45431 1wpoB 256 3.60e+01 1lay b.57.1.1 27013 1m1zA 513 3.62e+01 c.26.2.1 78457 d.153.1.1 78458 2izgB 123 3.65e+01 1swuA b.61.1.1 27236 1dd6A 228 3.69e+01 1a7tA d.157.1.1 42054 1j1tA 233 3.73e+01 1rhfA 182 3.76e+01 1pbyA 489 3.87e+01 1jv4A 162 3.88e+01 b.60.1.1 67343 1bpv 112 3.88e+01 1bpv b.1.2.1 22071 1s3iA 310 3.97e+01 1akp 114 3.99e+01 2mcm b.1.7.1 22212