# List of top-scoring protein chains for t04-100-30-dssp-ehl2-scores 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 1tv8A 340 9.33e-01 c.1.28.3 107352 1m7vA 363 1.05e+00 d.174.1.1 78748 2b06A 155 1.64e+00 1mmvB 419 2.27e+00 d.174.1.1 91318 1om4A 422 2.35e+00 d.174.1.1 87067 2bjvA 265 3.98e+00 2bkaA 242 4.47e+00 1t9xA 1049 4.86e+00 1ykiA 217 6.19e+00 1r13A 148 6.39e+00 d.169.1.1,h.1.1.1 96782,96783 1icrA 217 6.45e+00 1vfrA d.90.1.1 62274 1xseA 295 6.73e+00 1amuA 563 7.57e+00 1amuA e.23.1.1 43351 1xg5A 279 7.62e+00 2bvyA 475 8.96e+00 1dv1A 449 9.23e+00 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 2b0lA 102 1.01e+01 1xu9A 286 1.02e+01 1itwA 741 1.22e+01 c.77.1.2 76793 1z94A 147 1.25e+01 1ofdA 1520 1.37e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1o50A 157 1.41e+01 d.37.1.1,d.37.1.1 92478,92479 1n9lA 109 1.55e+01 d.110.3.6 85468 1y5mA 276 1.57e+01 1oyeA 1049 1.62e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1ex1A 605 1.62e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 1x38A 602 1.69e+01 1xhcA 367 1.72e+01 1lrzA 426 1.78e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1xneA 113 1.86e+01 1gpmA 525 1.86e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1kveB 77 2.06e+01 1kveB 1ugpB 226 2.06e+01 b.34.4.4 107832 1ireB 228 2.06e+01 b.34.4.4 76770 1ylnA 252 2.15e+01 1np7A 489 2.16e+01 a.99.1.1,c.28.1.1 80677,80678 1rypK 198 2.17e+01 d.153.1.4 41879 2gaiA 633 2.28e+01 7taa 478 2.41e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1w5nA 337 2.43e+01 1yspA 181 2.46e+01 4pfk 319 2.73e+01 3pfk c.89.1.1 35582 1g3qA 237 2.76e+01 1hyqA c.37.1.10 60237 1iow 306 2.85e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1rypF 233 2.89e+01 1rypF d.153.1.4 41937 1jqlB 140 2.99e+01 c.37.1.20 63234 1g6aA 271 3.03e+01 1btl e.3.1.1 42704 2a6hD 1524 3.27e+01 2prd 174 3.33e+01 2prd b.40.5.1 25435 1ps9A 671 3.34e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1oz9A 150 3.43e+01 d.92.1.15 93808 1iab 200 3.44e+01 1iae d.92.1.8 40312 1iae 200 3.45e+01 1iae d.92.1.8 40311 1pfkA 320 3.48e+01 3pfk c.89.1.1 35575 2pfkA 320 3.67e+01 3pfk c.89.1.1 35577 1rypC 244 3.91e+01 1rypC d.153.1.4 41934 1nar 290 3.96e+01 1nar c.1.8.5 28988 1nrjB 218 4.03e+01 c.37.1.8 86125 1rtm1 149 4.06e+01 1rtm1 1oshA 232 4.10e+01 a.123.1.1 93496 2afwA 329 4.13e+01 1mw9X 592 4.13e+01 e.10.1.1 91480 1w0mA 226 4.39e+01 c.1.1.1 109027 1zy9A 564 4.40e+01 1fm0D 81 4.42e+01 1fmaD d.15.3.1 37642 1nmeA 146 4.46e+01 c.17.1.1 85874 1olmA 403 4.54e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1jnuA 104 4.55e+01 d.110.3.6 71762 1brwA 433 4.77e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2aaa 484 4.78e+01 7taa b.71.1.1,c.1.8.1 27777,28764 1xuvA 178 4.83e+01 2msbA 115 4.94e+01 1rtm1 d.169.1.1 42355 1ed5A 444 4.95e+01 1nseA d.174.1.1 42530 1jtvA 327 4.97e+01 c.2.1.2 84230 1furA 467 4.98e+01 1furA a.127.1.1 19403 1qkrA 188 4.98e+01 1qkrA a.24.9.1 16628 2fq3A 104 5.03e+01 1yarH 217 5.03e+01 1bcpA 235 5.11e+01 1bcpA d.166.1.1 42255 1aua 296 5.12e+01 1aua a.5.3.1,c.13.1.1 16290,30882 2cu3A 64 5.21e+01 1b67A 68 5.22e+01 1a7w a.22.1.2 16474 1fds 327 5.24e+01 1fds c.2.1.2 29838 1z91A 147 5.30e+01 1tr7A 164 5.36e+01 1d1vA 444 5.37e+01 1nseA d.174.1.1 59101 1kgsA 225 5.43e+01 a.4.6.1,c.23.1.1 68596,68597 1top 162 5.45e+01 1ncx a.39.1.5 17223 1uwfA 158 5.47e+01 1gzgA 337 5.51e+01 c.1.10.3 70805 1ev7A 317 5.57e+01 1ev7B c.52.1.9 33315 1zdnA 158 5.61e+01 1mup 166 5.64e+01 1mup b.60.1.1 27133 3cox 507 5.77e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1wguA 136 5.85e+01 1lm4A 194 6.15e+01 d.167.1.1 84626 1rkbA 173 6.25e+01 1u1iA 392 6.27e+01 c.2.1.3,d.81.1.3 107582,107583 1khtA 192 6.30e+01 c.37.1.1 84401 1pt6A 213 6.30e+01 c.62.1.1 95091 1d0cA 444 6.48e+01 d.174.1.1 64769 1b4kA 337 6.48e+01 1b4kA c.1.10.3 29184 1klfB 279 6.55e+01 b.2.3.2,b.2.3.2 72684,72685 1w2yA 229 6.63e+01 a.204.1.1 109140 1jmxB 349 6.65e+01 b.69.2.2 66906 1o6uA 403 6.72e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1whsB 153 6.80e+01 1whtB 1whtB 153 6.95e+01 1whtB 1wr2A 238 7.03e+01 1tn4 159 7.04e+01 1ncx a.39.1.5 17248 1sflA 238 7.39e+01 1qtnA 164 7.45e+01 1pauA c.17.1.1 30999 1bn7A 294 7.57e+01 1bn6A c.69.1.8 34677 1yrvA 169 7.76e+01 1hstA 90 7.76e+01 1hstA a.4.5.13 16140 1v5iB 76 7.83e+01 1vicA 262 7.85e+01 c.68.1.13 100756 1xr4A 509 7.88e+01 1pyoA 167 8.11e+01 c.17.1.1 95370 1l8nA 679 8.20e+01 c.1.8.10,d.92.2.2 84564,84565 1go4A 205 8.21e+01 d.135.1.1 70292 1stzA 338 8.36e+01 a.4.5.51,d.110.2.3 106009,106010 1ufkA 254 8.43e+01 c.66.1.39 99340 1rypI 222 8.48e+01 d.153.1.4 41877 1qciA 262 8.62e+01 1qi7A d.165.1.1 42201 1qunB 279 8.72e+01 b.2.3.2,b.2.3.2 22411,22412 1n3kA 130 8.90e+01 a.77.1.4 79965 1vqvA 306 8.95e+01