# List of top-scoring protein chains for T0289.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 2bo9A 308 2.09e-25 2boaA 404 2.67e-25 1dtdA 303 6.95e-25 1aye c.56.5.1 33823 1aye 401 2.58e-24 1aye c.56.5.1,d.58.3.1 33824,39065 1cpb 306 2.75e-24 1aye c.56.5.1 33826 1zliA 309 8.68e-24 1kwmA 402 1.60e-23 c.56.5.1,d.58.3.1 73079,73080 1z5rA 306 1.99e-23 1h8lA 380 1.27e-22 b.3.2.1,c.56.5.1 65737,65738 1nsa 395 3.92e-22 1aye c.56.5.1,d.58.3.1 33825,39066 1yme 309 5.35e-22 1aye c.56.5.1 33804 1m4lA 307 5.54e-22 c.56.5.1 78604 1pytB 309 6.77e-22 1aye c.56.5.1 33820 2ctc 307 6.99e-22 1aye c.56.5.1 33802 1bavA 309 1.48e-21 1aye c.56.5.1 33806 5cpa 307 1.53e-21 1aye c.56.5.1 33811 1cbx 307 1.71e-21 1aye c.56.5.1 33813 2c1cA 312 4.82e-21 1pca 403 4.20e-20 1aye c.56.5.1,d.58.3.1 33822,39063 1uwyA 426 5.79e-20 b.3.2.1,c.56.5.1 100130,100131 1yw6A 335 4.64e-18 1jqgA 433 4.77e-18 c.56.5.1,d.58.3.1 71791,71792 1obr 326 1.55e-17 1aye c.56.5.2 33828 1yw4A 341 1.58e-16 2g9dA 350 2.99e-14 2bcoA 350 3.40e-14 1m22A 503 4.54e-01 c.117.1.1 78464 1ycdA 243 1.88e+00 1d6mA 653 4.89e+00 1d6mA e.10.1.1 43248 1i7dA 659 6.37e+00 1d6mA e.10.1.1 61886 1vcoA 550 7.51e+00 c.23.16.1,c.37.1.10 108508,108509 1vcnA 550 8.02e+00 c.23.16.1,c.37.1.10 108506,108507 1r4mB 431 1.16e+01 c.111.1.2 97000 2c5uA 375 1.26e+01 1yovB 444 1.29e+01 1tt5B 434 1.33e+01 c.111.1.2 107292 1e5mA 416 1.35e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1thg 544 1.55e+01 1thg c.69.1.17 34763 1jwqA 179 1.61e+01 c.56.5.6 90921 1wzkA 585 1.85e+01 1itxA 419 1.86e+01 c.1.8.5,d.26.3.1 71425,71426 1xeyA 466 2.15e+01 1pmmA 466 2.15e+01 c.67.1.6 94901 1jf6A 585 2.38e+01 b.1.18.2,b.71.1.1,c.1.8.1 71650,71651,71652 1vb9A 585 2.42e+01 1jf5A 585 2.42e+01 b.1.18.2,b.71.1.1,c.1.8.1 71644,71645,71646 1m2vB 926 2.42e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78497,78498,78499,78500,78501 1vfoA 585 2.47e+01 1ji2A 585 2.48e+01 b.1.18.2,b.71.1.1,c.1.8.1 71672,71673,71674 1wzlA 585 2.52e+01 1wzmA 585 2.67e+01 1g1yA 585 2.71e+01 1bvzA b.1.18.2,b.71.1.1,c.1.8.1 60210,60211,60212 1pcxA 810 2.79e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1s6yA 450 2.85e+01 c.2.1.5,d.162.1.2 105314,105315 1s58A 554 2.99e+01 b.121.5.2 105262 1obaA 339 3.16e+01 b.109.1.1,c.1.8.8 92753,92754 1vjzA 341 3.25e+01 c.1.8.3 100838 1y7wA 291 3.33e+01 1j1iA 296 3.60e+01 c.69.1.10 83977 2b61A 377 3.63e+01 1m0dA 138 3.89e+01 c.52.1.17 74354 1rwzA 245 4.16e+01 d.131.1.2,d.131.1.2 98005,98006 1pbv 195 4.43e+01 1pbv a.118.3.1 19179 1fts 295 4.79e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 1ypxA 375 4.85e+01 2afwA 329 4.91e+01 2afsA 329 4.93e+01 1sp8A 418 4.98e+01 d.32.1.3,d.32.1.3 105868,105869 2afuA 329 4.98e+01 2bleA 367 5.21e+01 1r6dA 337 5.26e+01 c.2.1.2 97148 1gzjA 304 5.31e+01 c.1.8.3 70813 1h80A 464 5.41e+01 b.80.1.8 65714 1x9iA 302 5.41e+01 1h09A 338 5.49e+01 b.109.1.1,c.1.8.8 83420,83421 1cvuA 552 5.51e+01 1cqeA a.93.1.2,g.3.11.1 18716,44259 1enz 268 5.55e+01 1eny c.2.1.2 29912 1s31A 273 5.70e+01 1ohvA 472 5.70e+01 c.67.1.4 93031 1esxA 96 5.74e+01 1esxA j.11.1.1 59501 1f6aA 176 5.75e+01 2fcbA b.1.1.4,b.1.1.4 21791,21792 1u5jA 539 5.86e+01 a.5.7.2,c.1.10.5 107682,107683 1yh1A 359 5.94e+01 1rqbA 539 6.05e+01 a.5.7.2,c.1.10.5 105057,105058 2aeeA 211 6.21e+01 1ekqA 272 6.28e+01 1c3qA c.72.1.2 34941 1fs9A 507 6.30e+01 1qdbA a.138.1.3 19693 1c8zA 265 6.33e+01 1c8zA d.23.1.1 38375 1y6iA 233 6.36e+01 1qdbA 473 6.41e+01 1qdbA a.138.1.3 19688 1o5wA 534 6.44e+01 c.3.1.2,d.16.1.5 92520,92521 1gq6A 313 6.58e+01 c.42.1.1 70341 1r8mE 203 6.64e+01 a.118.3.1 97242 1yq1A 208 6.72e+01 1khtA 192 6.83e+01 c.37.1.1 84401 1fs7A 485 6.91e+01 1qdbA a.138.1.3 19691 1eny 268 6.97e+01 1eny c.2.1.2 29910 1bvrA 268 6.98e+01 1eny c.2.1.2 29913 2b35A 269 7.01e+01 1fzrA 138 7.15e+01 1fzrA c.52.1.17 33336 1gpoH 221 7.21e+01 1igtB b.1.1.1,b.1.1.2 20225,21237 1t16A 427 7.31e+01 f.4.3.4 106242 1i7eA 265 7.34e+01 1c8zA d.23.1.1 61887 3hfmH 215 7.44e+01 1igtB b.1.1.1,b.1.1.2 19977,21033 2bwrA 401 7.49e+01 1szwA 379 7.58e+01 d.265.1.4 99047 1f2qA 176 7.71e+01 2fcbA b.1.1.4,b.1.1.4 21789,21790 1ldjA 760 7.91e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1qhmA 624 7.91e+01 1cm5A c.7.1.1 30677 1wv2A 265 7.97e+01 1t11A 392 8.00e+01 a.223.1.1,d.241.2.1,d.26.1.1 106236,106237,106238 1r8sE 203 8.12e+01 a.118.3.1 97248 1h1nA 305 8.20e+01 c.1.8.3 70855 1ibjA 464 8.24e+01 1ibjA c.67.1.3 62162 1j88A 172 8.34e+01 2fcbA b.1.1.4,b.1.1.4 62717,62718 1yy3A 346 8.53e+01 1gehA 444 8.57e+01 c.1.14.1,d.58.9.1 65181,65182 1zynA 202 8.57e+01 1s3hA 539 8.60e+01 a.5.7.2,c.1.10.5 105235,105236 1j87A 172 8.63e+01 2fcbA b.1.1.4,b.1.1.4 62715,62716 1xwyA 264 8.77e+01 1ddxA 552 8.81e+01 1cqeA a.93.1.2,g.3.11.1 18732,44275 1f3yA 165 8.84e+01 d.113.1.1 59635 1xvlA 321 8.84e+01