# List of top-scoring protein chains for T0319.t04-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 2ba1A 179 2.92e+00 1v87A 114 4.05e+00 g.44.1.1 108422 2a4eA 215 4.16e+00 1zin 217 4.96e+00 1zin c.37.1.1,g.41.2.1 31915,45178 1ottA 465 8.14e+00 f.20.1.1 87425 1h7vA 60 9.79e+00 g.41.5.1 65713 1weoA 93 9.79e+00 1x6hA 86 9.84e+00 1dx8A 70 1.10e+01 1rb9 g.41.5.1 45243 1dl6A 58 1.17e+01 1dl6A g.41.3.1 45207 1rlyA 60 1.18e+01 g.41.3.1 104988 1x4vA 63 1.24e+01 1b4bA 71 1.47e+01 1b4aA d.74.2.1 39718 1vg7A 299 1.53e+01 a.128.1.1 108605 1wl2A 299 1.55e+01 2azlA 299 1.61e+01 1wl1A 299 1.62e+01 1vg6A 299 1.66e+01 a.128.1.1 108604 1v4kA 299 1.66e+01 a.128.1.1 100302 1vg3A 299 1.68e+01 a.128.1.1 108601 1v4hA 299 1.72e+01 a.128.1.1 100298 1wkzA 299 1.72e+01 1vg4A 299 1.74e+01 a.128.1.1 108602 1v4iA 299 1.75e+01 a.128.1.1 100299 1v4eA 299 1.75e+01 a.128.1.1 100296 1wl0A 299 1.76e+01 1gtvA 214 1.82e+01 c.37.1.1 70537 1v4jA 299 1.84e+01 a.128.1.1 100300 1vg2A 299 1.87e+01 a.128.1.1 108600 1jssA 224 1.91e+01 d.129.3.2 71844 1kcw 1046 1.95e+01 1kcw b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3 23151,23152,23153,23154,23155,23156 1wdjA 187 1.95e+01 1bor 56 2.02e+01 1bor g.44.1.1 45324 2ez0A 473 2.10e+01 1otuA 465 2.12e+01 f.20.1.1 87435 1jb0A 755 2.12e+01 1jb0A f.29.1.1 62820 2exyA 473 2.15e+01 1wl3A 299 2.19e+01 2ddhA 661 2.29e+01 2fedA 465 2.37e+01 1otsA 465 2.38e+01 f.20.1.1 87415 2exwA 473 2.40e+01 1li5A 461 2.45e+01 a.27.1.1,c.26.1.1 73912,73913 1f9nA 149 2.46e+01 a.4.5.3,d.74.2.1 64990,64991 1bez 310 2.52e+01 1b6g c.69.1.8 34666 1hdeA 310 2.61e+01 1b6g c.69.1.8 34675 1jqlB 140 2.70e+01 c.37.1.20 63234 1kzfA 230 2.74e+01 d.108.1.3 73354 1b6g 310 2.78e+01 1b6g c.69.1.8 34661 1ede 310 2.79e+01 1b6g c.69.1.8 34662 1z1zA 131 2.86e+01 1o5wA 534 2.89e+01 c.3.1.2,d.16.1.5 92520,92521 1xq5B 146 3.02e+01 2bxrA 527 3.10e+01 1meyC 87 3.16e+01 2gliA k.12.1.1 46430 4wbcA 183 3.25e+01 1wba b.42.4.1 25596 1b4aA 149 3.26e+01 1b4aA a.4.5.3,d.74.2.1 16088,39721 1fn0A 186 3.34e+01 1wba b.42.4.1 25595 1eylA 186 3.38e+01 1wba b.42.4.1 25593 1fmzA 186 3.40e+01 1wba b.42.4.1 25594 1xtoA 311 3.59e+01 2cvbA 188 3.72e+01 1iwmA 186 3.86e+01 b.125.1.2 83758 1udeA 195 3.99e+01 b.40.5.1 99208 1z6nA 167 4.04e+01 2fe7A 166 4.28e+01 1ni2A 296 4.38e+01 a.11.2.1,b.55.1.5,d.15.1.4 80525,80526,80527 1mjgM 729 4.41e+01 e.26.1.3 79204 1oaoC 729 4.41e+01 e.26.1.3 86746 2cblA 305 4.50e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1b47A 304 4.52e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17381,17775,40529 1b6fA 159 4.58e+01 1bv1 d.129.3.1 41316 1yvhA 329 4.70e+01 2cf2B 304 5.08e+01 2cdh4 305 5.15e+01 1nm2A 317 5.18e+01 c.19.1.1,d.58.23.1 80654,80655 1twlA 186 5.29e+01 2axtU 104 5.30e+01 2etlA 228 5.35e+01 1f7uA 607 5.40e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1s5lU 134 5.48e+01 1af8 86 5.50e+01 2af8 a.28.1.1 16932 1fbvA 388 5.57e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1,g.44.1.1 17384,17778,40532,45321 1u5kA 244 5.59e+01 1qibA 161 5.65e+01 1ck7A d.92.1.11 40359 1jsdA 319 5.87e+01 b.19.1.2 63258 1pft 50 5.91e+01 1pft g.41.3.1 45206 2aorA 223 6.17e+01 2f8oA 100 6.35e+01 1fm4A 159 6.41e+01 1bv1 d.129.3.1 76186 2cyjA 118 6.71e+01 2eiaA 206 6.72e+01 1eia a.28.3.1,a.73.1.1 16949,18329 1eia 207 6.72e+01 1eia a.28.3.1,a.73.1.1 16951,18331 2aa1B 146 6.90e+01 1w5hA 33 7.19e+01 h.1.3.1 109178 1wijA 140 7.32e+01 1qnaA 200 7.48e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1oboA 169 7.50e+01 c.23.5.1 86776 1v74B 87 7.63e+01 a.24.20.1 100443 1rajA 393 7.81e+01 e.8.1.4 104881 1cdwA 179 7.81e+01 1ytbA d.129.1.1,d.129.1.1 41212,41213 1bgxT 832 7.82e+01 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18083,33353,33699,42992 1yk4A 52 7.84e+01 1sxvA 172 7.92e+01 1am2 199 7.96e+01 1am2 b.86.1.2 28381 1rdr 461 8.01e+01 1rdr e.8.1.4 43116 1nvpA 181 8.01e+01 d.129.1.1,d.129.1.1 92209,92210 1vr5A 547 8.02e+01 1tqlA 461 8.03e+01 e.8.1.4 107235 1ra6A 461 8.03e+01 e.8.1.4 104879 1taq 832 8.05e+01 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 1c9bB 180 8.06e+01 1ytbA d.129.1.1,d.129.1.1 41216,41217 1qp2A 70 8.09e+01 1pse b.34.4.2 24596 1tghA 185 8.14e+01 1ytbA d.129.1.1,d.129.1.1 41214,41215 1k44A 136 8.15e+01 d.58.6.1 72033 1jfiC 185 8.16e+01 1ytbA d.129.1.1,d.129.1.1 62938,62939 1iud 380 8.19e+01 4mbp c.94.1.1 35786 1ub4A 110 8.41e+01 b.34.6.2 88399 1du3D 168 8.44e+01 1d4vB b.22.1.1 23888 1dv7A 227 8.47e+01 1dvjA c.1.2.3 28550 1lp6A 229 8.51e+01 c.1.2.3 74171 1d4vB 163 8.53e+01 1d4vB b.22.1.1 23884 1loqA 228 8.53e+01 c.1.2.3 74155 1tfkB 91 8.63e+01 1sezA 504 8.66e+01 c.3.1.2,d.16.1.5 98822,98823 1jcoB 30 8.73e+01 g.1.1.1 66503 1km4A 247 8.77e+01 c.1.2.3 72740 1dg6A 191 8.77e+01 1d4vB b.22.1.1 23883 2fmpA 335 8.79e+01 1km1A 247 8.82e+01 c.1.2.3 72736 1km0A 247 8.86e+01 c.1.2.3 72732 1wicA 152 8.88e+01 1dvjA 246 8.88e+01 1dvjA c.1.2.3 28546 1li1A 229 8.88e+01 d.169.1.6,d.169.1.6 73898,73899 1q23A 219 8.94e+01 c.43.1.1 104481 1t9pA 54 8.98e+01