# List of top-scoring protein chains for T0312.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 1vphA 149 1.52e+00 1gskA 513 7.60e+00 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 1jpaA 312 8.66e+00 d.144.1.7 67011 1vgjA 184 1.21e+01 1kf6A 602 1.65e+01 a.7.3.1,c.3.1.4,d.168.1.1 72394,72395,72396 2b76A 602 1.68e+01 2afrA 231 1.84e+01 1a6zA 275 1.88e+01 1agdA b.1.1.2,d.19.1.1 20781,38280 1hkg 457 1.93e+01 2yhx i.12.1.1 46025 1sg5A 86 2.06e+01 1pbtA 244 2.14e+01 c.124.1.1 94416 1xhbA 472 2.31e+01 1yb1A 272 2.34e+01 1rzwA 123 2.36e+01 1tjnA 156 2.38e+01 c.92.1.3 107048 1ix5A 151 2.43e+01 d.26.1.1 83763 1pt6A 213 2.57e+01 c.62.1.1 95091 1xsaA 153 2.88e+01 1xp8A 366 2.90e+01 1bj4A 470 2.93e+01 1bj4A c.67.1.4 34479 1ejiA 478 3.19e+01 1bj4A c.67.1.4 34475 1wddS 128 3.43e+01 1vizA 240 3.49e+01 c.1.4.1 100784 1b1yA 500 3.50e+01 1byb c.1.8.1 28796 1w4hA 47 3.51e+01 1bal 51 3.60e+01 1bbl a.9.1.1 16357 1eif 135 4.07e+01 1bkb b.34.5.2,b.40.4.5 24608,25340 2bo9B 222 4.08e+01 2eifA 136 4.11e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 2aliA 158 4.55e+01 2yhx 457 4.83e+01 2yhx i.12.1.1 46024 1fwcC 567 4.96e+01 1ubpC b.92.1.1,c.1.9.2 28410,29032 1a5mC 566 5.03e+01 1ubpC b.92.1.1,c.1.9.2 28423,29045 1fwgC 567 5.03e+01 1ubpC b.92.1.1,c.1.9.2 28413,29035 1ejtC 567 5.04e+01 1ubpC b.92.1.1,c.1.9.2 28421,29043 1ef2A 566 5.04e+01 1ubpC b.92.1.1,c.1.9.2 28429,29051 1a5kC 566 5.04e+01 1ubpC b.92.1.1,c.1.9.2 28425,29047 1ejxC 567 5.05e+01 b.92.1.1,c.1.9.2 83184,83185 1a5lC 566 5.05e+01 1ubpC b.92.1.1,c.1.9.2 28426,29048 1krbC 567 5.08e+01 1ubpC b.92.1.1,c.1.9.2 28418,29040 1ejvC 567 5.09e+01 1ubpC b.92.1.1,c.1.9.2 28428,29050 1ejsC 567 5.09e+01 1ubpC b.92.1.1,c.1.9.2 28424,29046 1ejuC 567 5.09e+01 1ubpC b.92.1.1,c.1.9.2 28422,29044 1fwhC 567 5.13e+01 1ubpC b.92.1.1,c.1.9.2 28414,29036 1fwfC 567 5.20e+01 1ubpC b.92.1.1,c.1.9.2 28406,29028 1ejrC 567 5.23e+01 1ubpC b.92.1.1,c.1.9.2 28420,29042 1krcC 567 5.34e+01 1ubpC b.92.1.1,c.1.9.2 28419,29041 1dd8A 406 5.64e+01 1dd8A c.95.1.1,c.95.1.1 35932,35933 1h4fA 406 5.79e+01 c.95.1.1,c.95.1.1 90609,90610 2buhA 406 5.89e+01 1w9cA 321 5.93e+01 1f91A 406 6.09e+01 1dd8A c.95.1.1,c.95.1.1 59713,59714 1l8aA 886 6.46e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1u9cA 224 6.61e+01 2bywA 418 6.69e+01 1ek4A 418 6.69e+01 1dd8A c.95.1.1,c.95.1.1 59436,59437 1xktA 289 6.74e+01 1z6zA 282 6.75e+01 1i8dA 213 6.95e+01 b.43.4.3,b.43.4.3 61953,61954 1wimA 94 7.32e+01 2al3A 90 7.39e+01 1td5A 202 7.59e+01 d.110.2.2 106767 1nwbA 124 7.75e+01 b.124.1.1 86296 1inlA 296 7.78e+01 c.66.1.17 66220 2d2zA 261 7.84e+01 1neu 124 7.91e+01 1neu b.1.1.1 19704 1hx1B 114 7.95e+01 1hx1B a.7.7.1 61350 2aheA 267 8.22e+01 1ln1A 214 8.60e+01 d.129.3.2 74038 1k6qH 216 8.74e+01 b.1.1.1,b.1.1.2 72092,72093 1dot 686 8.80e+01 1nnt c.94.1.2,c.94.1.2 35876,35877 1hyhA 309 8.82e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117