# List of top-scoring protein chains for T0404.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.soe.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 2cz4A 119 1.01e-17 d.58.5.1 131035 2gw8A 114 1.38e-05 2ns1B 116 3.99e-05 2piiA 112 4.30e-05 d.58.5.1 39071 1hwuA 112 5.61e-05 d.58.5.1 83633 2eg2A 112 5.75e-05 1gnkA 112 8.15e-05 2pii d.58.5.1 39073 3bzqA 114 1.10e-04 2gnkA 112 1.17e-04 2pii d.58.5.1 39075 2o66A 135 6.50e-04 2v5hG 112 7.64e-04 1ul3A 112 7.89e-04 d.58.5.1 99534 1qy7A 112 1.54e-03 d.58.5.1 96575 1o51A 114 5.94e-03 d.58.5.4 92480 1vfjA 116 9.27e-03 d.58.5.1 113637 2j9dE 119 1.03e-02 2j9cA 119 1.21e-02 2dclA 127 3.02e-02 2qyxA 238 2.20e+00 1gv2A 105 2.47e+00 a.4.1.3,a.4.1.3 83335,83336 1mseC 105 2.49e+00 1a5j a.4.1.3,a.4.1.3 16039,16040 2uxyA 341 3.25e+00 1h89C 159 3.29e+00 a.4.1.3,a.4.1.3,a.4.1.3 65726,65727,65728 3b3xA 265 3.76e+00 1i2sA 282 3.89e+00 e.3.1.1 71104 1w7fA 307 3.92e+00 2nqzA 385 5.99e+00 2nsoA 386 6.00e+00 1uwiA 489 6.52e+00 c.1.8.4 119759 2hmaA 376 6.76e+00 2a90A 240 8.32e+00 1a5jA 110 8.86e+00 a.4.1.3,a.4.1.3 16043,16044 2ysaA 55 1.01e+01 2ozhA 142 1.02e+01 1r8oA 96 1.11e+01 b.42.4.1 104852 2eihA 343 1.23e+01 2h4mA 865 1.24e+01 2opfA 262 1.34e+01 1k3xA 262 1.34e+01 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 1q3cA 262 1.34e+01 a.156.1.2,b.113.1.1,g.39.1.8 104521,104522,104523 2oq4A 262 1.34e+01 1vkcA 158 1.36e+01 d.108.1.1 113663 2eeiA 106 1.44e+01 2ghpA 292 1.46e+01 d.58.7.1,d.58.7.1,d.58.7.1 135184,135185,135186 2gmgA 105 1.48e+01 1zgzA 122 1.49e+01 c.23.1.1 125065 3boeA 210 1.53e+01 2pjvA 31 1.53e+01 1pujA 282 1.59e+01 c.37.1.8 88294 2jepA 395 1.74e+01 1zt2A 330 1.75e+01 d.264.1.1 125624 1pnuE 177 1.88e+01 i.1.1.1 88202 1josA 128 1.97e+01 d.52.7.1 84191 1nwyE 185 2.01e+01 i.1.1.2 86349 6pfkA 319 2.01e+01 3pfk c.89.1.1 35583 2nt4A 127 2.07e+01 4pfkA 319 2.16e+01 c.89.1.1 35582 1ewkA 490 2.16e+01 1ewkA c.93.1.1 35712 1mtoA 319 2.17e+01 c.89.1.1 79458 2gkgA 127 2.17e+01 2nt3A 127 2.20e+01 2plqA 348 2.21e+01 1gowA 489 2.23e+01 1qvbA c.1.8.4 28981 1nkwE 212 2.24e+01 i.1.1.2 80590 2ew5A 181 2.38e+01 2helA 306 2.39e+01 3b9oA 440 2.43e+01 2ha8A 184 2.44e+01 3bw6A 144 2.48e+01 1efzA 386 2.50e+01 1pud c.1.20.1 29659 1wkdA 386 2.51e+01 c.1.20.1 29664 1wkeA 386 2.55e+01 c.1.20.1 29663 1pxgA 382 2.57e+01 c.1.20.1 95287 1uwsA 489 2.61e+01 c.1.8.4 108073 1wkfA 386 2.63e+01 c.1.20.1 29662 1pryA 227 2.69e+01 c.66.1.3 95063 1ozqA 386 2.69e+01 c.1.20.1 93854 1y5wA 385 2.71e+01 c.1.20.1 122654 1r5yA 386 2.71e+01 c.1.20.1 97134 1udrA 129 2.71e+01 3chy c.23.1.1 31041 2h57A 190 2.74e+01 1i78A 297 2.79e+01 f.4.4.1 66046 2okoA 385 2.85e+01 2z1vA 386 2.85e+01 1lf2A 331 2.91e+01 b.50.1.2 77914 2igxA 329 2.94e+01 b.50.1.2 137404 1zvfA 176 2.94e+01 1xdhA 331 2.94e+01 b.50.1.2 121870 1bvsA 203 2.95e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16280,17955,25274 1onfA 500 3.03e+01 c.3.1.5,c.3.1.5,d.87.1.1 87141,87142,87143 2elcA 329 3.03e+01 1mfgA 95 3.07e+01 b.36.1.1 79043 3bq7A 81 3.15e+01 3cg0A 140 3.19e+01 1pfzA 380 3.36e+01 1smrA b.50.1.2 26881 1s7mA 174 3.43e+01 b.144.1.1 98649 1gvdA 52 3.58e+01 a.4.1.3 83338 2h3lA 103 3.67e+01 b.36.1.1 136046 2bjuA 453 3.83e+01 b.50.1.2 128633 1vm7A 311 3.93e+01 c.72.1.1 108884 2j8eA 128 4.08e+01 1sa0A 451 4.11e+01 c.32.1.1,d.79.2.1 98769,98770 1ffxA 451 4.11e+01 1tubA i.10.1.1 46007 1iqdB 215 4.12e+01 1mfa b.1.1.1,b.1.1.2 62646,62647 1i4wA 353 4.16e+01 c.66.1.24 66028 1h8mA 140 4.27e+01 1h8mA d.110.4.1 60782 1tvkA 440 4.28e+01 c.32.1.1,d.79.2.1 107362,107363 2f2uA 402 4.28e+01 1vaxA 287 4.28e+01 d.96.1.4,d.96.1.4 119910,119911 1iruK 201 4.34e+01 d.153.1.4 71362 1jajA 174 4.35e+01 d.218.1.2 66471 1jffA 451 4.39e+01 c.32.1.1,d.79.2.1 62932,62933 2rgcA 166 4.43e+01 2yzcA 302 4.47e+01 1gv5A 52 4.49e+01 a.4.1.3 83337 2nnwB 234 4.55e+01 2o2sA 315 4.72e+01 2nsmA 439 4.72e+01 1g8aA 227 4.90e+01 c.66.1.3 90506 1s1hI 142 4.90e+01 i.1.1.1 105161 1k85A 88 5.34e+01 b.1.2.1 77285 1wjlA 90 5.39e+01 b.36.1.1 114701 2crlA 98 5.50e+01 1fseA 74 5.79e+01 1fseA a.4.6.2 60000 2f46A 156 5.98e+01 2r2cA 183 6.14e+01 1jv2A 957 6.27e+01 b.1.15.1,b.1.15.1,b.1.15.1,b.69.8.1 67334,67335,67336,67337 2egxA 269 6.48e+01 2ftsA 419 6.50e+01 b.85.6.1,b.103.1.1,c.57.1.2 134079,134080,134081 1s1iR 137 6.52e+01 i.1.1.1 105192 1t3eA 421 6.53e+01 b.85.6.1,b.103.1.1,c.57.1.2 106348,106349,106350 1dvrA 220 6.72e+01 1zin c.37.1.1,g.41.2.1 31899,45200 2rggA 166 6.79e+01 2dgdA 223 7.11e+01 2bg9A 370 7.12e+01 1mbgA 52 7.17e+01 a.4.1.3 16033 1tkjA 284 7.27e+01 c.56.5.4 119296 1jg5A 83 7.40e+01 d.205.1.1 66666 1is8K 84 7.49e+01 d.205.1.1 66331 1dtzA 689 7.49e+01 1cb6A c.94.1.2,c.94.1.2 59134,59135 1vlzA 128 7.65e+01 3chy c.23.1.1 31048 1ivzA 132 7.65e+01 d.58.41.1 76863 2z98A 200 7.71e+01 2rd5A 298 7.74e+01 2cc1A 262 7.85e+01 e.3.1.1 130211 2fug5 207 7.93e+01 1zoiA 276 7.96e+01