# List of top-scoring protein chains for t2k-w0.5 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 1in6A 334 2.76e-01 1hqcA a.4.5.11 62601 c.37.1.13 62602 1c0pA 363 3.98e-01 1an9A c.4.1.2 30647 d.16.1.3 37934 1in7A 334 7.33e-01 1hqcA a.4.5.11 62603 c.37.1.13 62604 1in4A 334 7.46e-01 1hqcA a.4.5.11 62597 c.37.1.13 62598 1in5A 334 7.55e-01 1hqcA a.4.5.11 62599 c.37.1.13 62600 1j7kA 334 7.63e-01 1hqcA a.4.5.11 62695 c.37.1.13 62696 1in8A 334 7.86e-01 1hqcA a.4.5.11 62605 c.37.1.13 62606 1c7nA 399 1.13e+00 1d2fA c.67.1.3 34413 1grj 158 2.50e+00 1grj a.2.1.1 15691 d.26.1.2 38433 1bdyA 123 2.79e+00 1bdyA b.7.1.1 23190 1d3bB 91 5.78e+00 1d3bB b.38.1.1 24804 1h4wA 224 6.18e+00 b.47.1.2 65622 1g291 372 6.92e+00 1g291 1f4tA 368 7.95e+00 1f4tA a.104.1.1 18973 1io7A 368 7.95e+00 1f4tA a.104.1.1 18971 1io8A 368 8.02e+00 1f4tA a.104.1.1 62618 1igl 67 8.06e+00 1zeiA g.1.1.1 43993 1j5wA 298 1.01e+01 1bia 321 1.06e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1bib 321 1.06e+01 1bia a.4.5.1 16084 b.34.1.1 24448 d.104.1.2 40788 1evsA 187 1.07e+01 1evsA a.26.1.1 16845 1qjoA 80 1.15e+01 1iyu b.84.1.1 28229 1jgtA 513 1.32e+01 c.26.2.1 66684 d.153.1.1 66685 1gwjA 377 1.35e+01 1h61A 364 1.40e+01 1oyc c.1.4.1 60657 1kk1A 410 1.42e+01 1bt0A 76 1.43e+01 1ubi d.15.1.1 37607 1faaA 124 1.48e+01 1erv c.47.1.1 32738 1b2pA 119 1.61e+01 1b2pA b.78.1.1 27998 3sicI 107 1.73e+01 3ssi d.84.1.1 40028 1zfo 31 1.78e+01 g.39.1.4 45149 1dpo 223 1.80e+01 5ptp b.47.1.2 25975 2sicI 107 1.84e+01 3ssi d.84.1.1 40031 1a0fA 201 1.91e+01 1a0fA a.45.1.1 17737 c.47.1.5 33031 3ssi 113 1.91e+01 3ssi d.84.1.1 40032 1nddA 76 1.91e+01 1ubi d.15.1.1 37599 1nddD 76 1.91e+01 1ubi d.15.1.1 37602 1qe3A 489 1.94e+01 2bce c.69.1.1 34630 1c7iA 489 1.95e+01 1thg c.69.1.1 34632 1i7mA 267 2.01e+01 1jenA 1qspA 165 2.13e+01 1qspA a.24.10.2 16639 1l0wA 580 2.13e+01 1c03A 168 2.13e+01 1qspA a.24.10.2 16635 1cyw 205 2.30e+01 1cyx b.6.1.2 23024 1iq4A 179 2.48e+01 1iq4A d.77.1.1 62641 1hmr 132 2.52e+01 1hmt b.60.1.2 27170 1hms 132 2.52e+01 1hmt b.60.1.2 27168 1hmt 132 2.52e+01 1hmt b.60.1.2 27169 1k9oE 223 2.63e+01 b.47.1.2 68355 1jenA 267 2.68e+01 1jenA 1ayfB 105 2.74e+01 1ayfA d.15.4.1 37685 1ayfA 105 2.74e+01 1ayfA d.15.4.1 37684 1i7cA 267 2.76e+01 1jenA 3tgjE 233 2.76e+01 5ptp b.47.1.2 25992 1tfxC 58 2.77e+01 1bpi g.8.1.1 44540 1br2A 791 2.80e+01 1lvk b.34.3.1 24558 c.37.1.9 32155 2tnfA 156 2.81e+01 2tnfA b.22.1.1 23880 1hznA 31 2.82e+01 j.82.1.1 61454 1tubB 427 2.82e+01 1tubA c.32.1.1 31752 d.79.2.1 39804 1c02A 166 2.89e+01 1qspA a.24.10.2 16633 1adz 71 2.91e+01 1bpi g.8.1.1 44542 1ju3A 583 2.94e+01 b.18.1.13 67300 c.69.1.21 67301 1fx0B 498 2.95e+01 a.69.1.1 60083 b.49.1.1 60084 c.37.1.11 60085 1l6uA 128 2.95e+01 1e6eB 128 2.97e+01 1ayfA d.15.4.1 59300 1l6vA 128 2.98e+01 1slwB 223 3.00e+01 5ptp b.47.1.2 25979 1fts 295 3.06e+01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1cjeB 127 3.08e+01 1ayfA d.15.4.1 37687 1br1A 820 3.23e+01 1lvk b.34.3.1 24564 c.37.1.9 32161 1ivhA 394 3.25e+01 3mdeA a.29.3.1 16608 e.6.1.1 42869 1slxB 223 3.27e+01 5ptp b.47.1.2 25981 1isnA 323 3.40e+01 3tgkE 231 3.43e+01 5ptp b.47.1.2 63338 1h6vE 499 3.44e+01 c.3.1.5 60705 c.3.1.5 60706 d.87.1.1 60707 1ia0B 445 3.48e+01 1lwuA 119 3.52e+01 1mpgA 282 3.58e+01 1mpgA a.96.1.3 18747 d.129.1.2 41296 1bwvS 138 3.62e+01 1rboC d.73.1.1 39662 1h4rB 314 3.77e+01 a.11.2.1 65619 b.55.1.5 65620 d.15.1.4 65621 1h4rA 314 3.78e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1anc 223 3.85e+01 5ptp b.47.1.2 25982 1ezsC 223 3.88e+01 5ptp b.47.1.2 25989 2trm 223 3.88e+01 5ptp b.47.1.2 25999 1and 223 3.92e+01 5ptp b.47.1.2 25985 1ane 223 3.95e+01 5ptp b.47.1.2 25984 1f5rA 231 3.95e+01 5ptp b.47.1.2 59654 1qtfA 246 3.98e+01 1agjA b.47.1.1 25830