# List of top-scoring protein chains for T0495.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 1gefA 123 4.38e-01 1gefA c.52.1.18 60465 1e1hA 287 3.23e+00 d.92.1.7 83167 2g7nA 425 3.79e+00 2g7pA 425 3.94e+00 2q3sA 206 4.83e+00 c.55.3.5 139802 2ba0G 259 4.84e+00 2vfaA 229 8.91e+00 1vfnA 281 1.03e+01 c.56.2.1 33773 1lvuA 289 1.04e+01 c.56.2.1 91146 2qplA 282 1.05e+01 1b8oA 284 1.05e+01 1b8oA c.56.2.1 33762 2ai2A 289 1.05e+01 c.56.2.1 126814 1fxuA 289 1.06e+01 1b8oA c.56.2.1 33772 1a9tA 284 1.06e+01 c.56.2.1 33765 1a9rA 282 1.06e+01 c.56.2.1 33767 3pnpA 289 1.07e+01 c.56.2.1 33763 1a9sA 289 1.07e+01 c.56.2.1 33768 1hh1A 143 1.10e+01 1gefA c.52.1.18 61036 2es9A 115 1.28e+01 a.247.1.1 132318 1lvwA 295 1.40e+01 c.68.1.6 84723 2eo0A 147 1.72e+01 2ct3A 70 1.85e+01 1on3A 523 1.85e+01 c.14.1.4,c.14.1.4 87107,87108 2e74D 179 2.04e+01 b.33.1.1,f.23.12.1 132049,132050 1vf5D 179 2.05e+01 b.33.1.1,f.23.12.1 100583,100584 2p4sA 373 2.34e+01 1xzwA 426 2.47e+01 b.1.12.1,d.159.1.1 116270,116271 1q7fA 286 2.61e+01 b.68.9.1 96036 1qydA 313 2.65e+01 c.2.1.2 96583 3c2bA 221 2.66e+01 1pv9A 348 2.88e+01 c.55.2.1,d.127.1.1 95157,95158 1mqmB 221 2.88e+01 h.3.1.1 91407 1x9gA 200 2.97e+01 c.33.1.3 109527 1rldA 446 2.97e+01 1burA c.1.14.1,d.58.9.1 29328,39234 2ii2A 310 3.14e+01 3crvA 551 3.23e+01 2hhpA 530 3.27e+01 a.160.1.1,d.218.1.3,d.58.16.1 136503,136504,136505 3c66A 537 3.30e+01 2o1pA 546 3.31e+01 a.160.1.1,d.218.1.3,d.58.16.1 138875,138876,138877 1oaoA 674 3.31e+01 e.26.1.2 86744 1nw1A 429 3.42e+01 d.144.1.8 86286 1bmrA 67 3.64e+01 g.3.7.1 44144 3cc6A 281 3.69e+01 2q66A 525 3.72e+01 1l1jA 239 3.95e+01 b.47.1.1 84516 2hpsA 186 4.11e+01 1stzA 338 4.14e+01 a.4.5.51,d.110.2.3 106009,106010 1gyoA 109 4.31e+01 a.138.1.1 70763 2jc5A 259 4.38e+01 1x9qA 268 4.48e+01 3rubL 477 4.55e+01 1burA c.1.14.1,d.58.9.1 29326,39232 1rlcL 477 4.57e+01 1burA c.1.14.1,d.58.9.1 29330,39236 1ej7L 475 4.59e+01 1burA c.1.14.1,d.58.9.1 29327,39233 2ishA 421 4.74e+01 3c8bA 432 4.78e+01 3bonA 425 4.79e+01 2ilpA 444 4.85e+01 d.92.1.7 137496 1n32D 208 4.88e+01 d.66.1.2 79872 2vqeD 209 4.89e+01 8rucA 475 4.93e+01 1burA c.1.14.1,d.58.9.1 29339,39245 1fepA 724 4.97e+01 1fepA f.4.3.3 43808 1rxoB 475 5.04e+01 1burA c.1.14.1,d.58.9.1 29352,39258 1xtfA 427 5.05e+01 d.92.1.7 116018 1xtgA 424 5.05e+01 d.92.1.7 116020 1fjgD 209 5.05e+01 1c05A d.66.1.2 39553 1y0kA 209 5.06e+01 c.52.1.31 122485 1y88A 199 5.21e+01 a.60.4.3,c.52.1.30 116560,116561 3bs2A 148 5.21e+01 3bu1A 148 5.21e+01 1ujzA 87 5.25e+01 a.28.2.1 99475 2j43A 219 5.56e+01 3bu9A 148 5.58e+01 1s5aA 150 6.06e+01 d.17.4.10 98525 2i2qA 137 6.34e+01 2on7A 206 6.48e+01 2jojA 77 7.08e+01 1q3aA 165 7.08e+01 d.92.1.11 95664 2pqxA 245 7.26e+01 1gk5A 49 7.32e+01 g.3.11.1 70209 2pzhA 135 7.68e+01 2nrjA 346 7.93e+01 1ibgH 217 7.94e+01 1igtB b.1.1.1,b.1.1.2 20049,21091 1cjbA 231 7.96e+01 1qk3A c.61.1.1 34079