# 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.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 6.88e-19 d.58.5.1 131035 2gw8A 114 3.74e-06 2ns1B 116 9.94e-06 2piiA 112 1.19e-05 d.58.5.1 39071 2eg2A 112 1.65e-05 1hwuA 112 1.91e-05 d.58.5.1 83633 1gnkA 112 2.15e-05 2pii d.58.5.1 39073 2gnkA 112 2.93e-05 2pii d.58.5.1 39075 3bzqA 114 4.40e-05 1ul3A 112 2.58e-04 d.58.5.1 99534 2v5hG 112 2.99e-04 2o66A 135 5.30e-04 1qy7A 112 6.08e-04 d.58.5.1 96575 1o51A 114 1.63e-03 d.58.5.4 92480 2j9dE 119 3.49e-03 2j9cA 119 4.22e-03 1vfjA 116 6.69e-03 d.58.5.1 113637 2dclA 127 9.80e-03 3b3xA 265 1.05e+00 1i2sA 282 1.08e+00 e.3.1.1 71104 1w7fA 307 1.09e+00 1mseC 105 1.21e+00 1a5j a.4.1.3 16039 a.4.1.3 16040 1gv2A 105 1.21e+00 a.4.1.3 83335 a.4.1.3 83336 2uxyA 341 1.35e+00 2qyxA 238 1.35e+00 1h89C 159 1.70e+00 a.4.1.3 65726 a.4.1.3 65727 a.4.1.3 65728 2nqzA 385 1.84e+00 2nsoA 386 1.84e+00 2opfA 262 2.80e+00 2oq4A 262 2.81e+00 1q3cA 262 2.81e+00 a.156.1.2 104521 b.113.1.1 104522 g.39.1.8 104523 1k3xA 262 2.81e+00 a.156.1.2 77242 b.113.1.1 77243 g.39.1.8 77244 2hmaA 376 2.89e+00 1zt2A 330 3.39e+00 d.264.1.1 125624 1r8oA 96 3.47e+00 b.42.4.1 104852 2ysaA 55 3.80e+00 1a5jA 110 4.89e+00 a.4.1.3 16043 a.4.1.3 16044 2a90A 240 5.69e+00 2gmgA 105 6.00e+00 2ozhA 142 6.02e+00 3boeA 210 6.11e+00 1ewkA 490 6.27e+00 1ewkA c.93.1.1 35712 1vkcA 158 6.44e+00 d.108.1.1 113663 2pjvA 31 6.47e+00 1pujA 282 6.79e+00 c.37.1.8 88294 1wkdA 386 6.82e+00 c.1.20.1 29664 1efzA 386 6.82e+00 1pud c.1.20.1 29659 2ew5A 181 6.90e+00 2h57A 190 6.95e+00 3bq7A 81 6.97e+00 1uwiA 489 6.98e+00 c.1.8.4 119759 1pxgA 382 7.08e+00 c.1.20.1 95287 1wkeA 386 7.11e+00 c.1.20.1 29663 1wkfA 386 7.24e+00 c.1.20.1 29662 1ozqA 386 7.38e+00 c.1.20.1 93854 2nt4A 127 7.41e+00 2eeiA 106 7.42e+00 1y5wA 385 7.42e+00 c.1.20.1 122654 1r5yA 386 7.43e+00 c.1.20.1 97134 2eihA 343 7.49e+00 2gkgA 127 7.57e+00 2nt3A 127 7.62e+00 2okoA 385 7.82e+00 2z1vA 386 7.84e+00 1zgzA 122 8.02e+00 c.23.1.1 125065 1zvfA 176 8.31e+00 1josA 128 8.92e+00 d.52.7.1 84191 3b9oA 440 8.93e+00 1pnuE 177 9.30e+00 i.1.1.1 88202 2plqA 348 9.33e+00 1nwyE 185 1.00e+01 i.1.1.2 86349 1udrA 129 1.01e+01 3chy c.23.1.1 31041 1bvsA 203 1.06e+01 1hjp a.5.1.1 16280 a.60.2.1 17955 b.40.4.2 25274 1onfA 500 1.10e+01 c.3.1.5 87141 c.3.1.5 87142 d.87.1.1 87143 1nkwE 212 1.13e+01 i.1.1.2 80590 3bw6A 144 1.15e+01 1lf2A 331 1.18e+01 b.50.1.2 77914 2igxA 329 1.18e+01 b.50.1.2 137404 1xdhA 331 1.19e+01 b.50.1.2 121870 6pfkA 319 1.26e+01 3pfk c.89.1.1 35583 2h4mA 865 1.29e+01 2helA 306 1.31e+01 1pfzA 380 1.33e+01 1smrA b.50.1.2 26881 1mtoA 319 1.34e+01 c.89.1.1 79458 1vm7A 311 1.36e+01 c.72.1.1 108884 2elcA 329 1.39e+01 1ffxA 451 1.39e+01 1tubA i.10.1.1 46007 1sa0A 451 1.39e+01 c.32.1.1 98769 d.79.2.1 98770 4pfkA 319 1.39e+01 c.89.1.1 35582 1gvdA 52 1.44e+01 a.4.1.3 83338 1tvkA 440 1.47e+01 c.32.1.1 107362 d.79.2.1 107363 1tubA 440 1.47e+01 1tubA c.32.1.1 31751 d.79.2.1 39803 1i78A 297 1.47e+01 f.4.4.1 66046 1mfgA 95 1.48e+01 b.36.1.1 79043 1jffA 451 1.52e+01 c.32.1.1 62932 d.79.2.1 62933 1s7mA 174 1.52e+01 b.144.1.1 98649 2ghpA 292 1.53e+01 d.58.7.1 135184 d.58.7.1 135185 d.58.7.1 135186 2bjuA 453 1.56e+01 b.50.1.2 128633 1vaxA 287 1.66e+01 d.96.1.4 119910 d.96.1.4 119911 2rgcA 166 1.73e+01 2yzcA 302 1.74e+01 1u6mA 199 1.75e+01 d.108.1.1 113069 3ch3X 265 1.79e+01 1h8mA 140 1.82e+01 1h8mA d.110.4.1 60782 1gowA 489 1.82e+01 1qvbA c.1.8.4 28981 1qcrA 446 1.84e+01 1be3A d.185.1.1 59025 d.185.1.1 59026 1ppjA 446 1.84e+01 d.185.1.1 104252 d.185.1.1 104253 3cg0A 140 1.88e+01 2jepA 395 1.90e+01 1sqbA 480 1.91e+01 d.185.1.1 105890 d.185.1.1 105891 2ha8A 184 1.92e+01 2h3lA 103 1.95e+01 b.36.1.1 136046 2j8eA 128 2.01e+01 1gv5A 52 2.03e+01 a.4.1.3 83337 2f2uA 402 2.14e+01 1bucA 383 2.15e+01 3mdeA a.29.3.1 16590 e.6.1.1 42851 2f46A 156 2.15e+01 1uwsA 489 2.20e+01 c.1.8.4 108073 1vboA 149 2.24e+01 b.77.3.1 108479 2nsmA 439 2.24e+01 1fseA 74 2.27e+01 1fseA a.4.6.2 60000 1i4wA 353 2.31e+01 c.66.1.24 66028 1jajA 174 2.32e+01 d.218.1.2 66471 1k85A 88 2.36e+01 b.1.2.1 77285 1pryA 227 2.43e+01 c.66.1.3 95063 1s1hI 142 2.56e+01 i.1.1.1 105161 2d42A 249 2.57e+01 1mblA 256 2.58e+01 1btl e.3.1.1 42723 2z98A 200 2.61e+01 2rggA 166 2.64e+01 4blmA 265 2.67e+01 1btl e.3.1.1 42721 2o2sA 315 2.75e+01 2ftsA 419 2.76e+01 b.85.6.1 134079 b.103.1.1 134080 c.57.1.2 134081 1tikA 213 2.76e+01 c.23.5.3 107003 2dgdA 223 2.76e+01 1t3eA 421 2.77e+01 b.85.6.1 106348 b.103.1.1 106349 c.57.1.2 106350 1nbuA 119 2.81e+01 d.96.1.3 91767 2rd5A 298 2.82e+01 1vlzA 128 2.92e+01 3chy c.23.1.1 31048 1mbgA 52 2.95e+01 a.4.1.3 16033 2o18A 340 2.96e+01 1ew4A 106 2.96e+01 1ew4A d.82.2.1 40023 1soyA 108 3.06e+01 d.82.2.1 112107 1oyiA 82 3.11e+01 a.4.5.19 93729 2cc1A 262 3.12e+01 e.3.1.1 130211 3cggA 195 3.17e+01 1gf0A 130 3.24e+01 3lzt d.2.1.2 60474 1fs0G 230 3.28e+01 1fs0G c.49.2.1 59999 1uocA 289 3.36e+01 c.55.3.9 99686 1z92B 219 3.37e+01 g.18.1.1 124738 g.18.1.1 124739 2p11A 231 3.46e+01 2bklA 695 3.55e+01 1su8A 636 3.64e+01 e.26.1.2 98999 2gv0A 131 3.68e+01 1jhjA 171 3.69e+01 b.18.1.9 66714 2id7A 128 3.70e+01 3b51X 656 3.74e+01 2egxA 269 3.76e+01 1jg5A 83 3.78e+01 d.205.1.1 66666 1is8K 84 3.83e+01 d.205.1.1 66331 1cj6A 130 3.84e+01 3lzt d.2.1.2 36469 1ougA 130 3.85e+01 d.2.1.2 36504 1j5xA 342 3.89e+01 c.80.1.1 71591 2crlA 98 3.91e+01 1z68A 719 3.92e+01 1wjlA 90 3.93e+01 b.36.1.1 114701 1wp1A 474 3.94e+01 f.5.1.1 114778 1tkjA 284 3.96e+01 c.56.5.4 119296 1qq9A 284 3.96e+01 1xjo c.56.5.4 33841