# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1xpkC 388 7.43e-01 1xpmA 396 8.13e-01 1tvzA 388 1.11e+00 c.95.1.2,c.95.1.2 107367,107368 1p3wA 404 1.52e+00 c.67.1.3 87752 2ae0X 345 2.69e+00 1b0pA 1231 3.43e+00 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 1pgl1 185 4.04e+00 2gfhA 260 4.46e+00 1kekA 1231 5.19e+00 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1xesA 413 5.60e+00 1bmv1 198 5.66e+00 1bmv1 1zd0A 150 5.67e+00 2c3mA 1231 5.92e+00 1zk7A 467 6.87e+00 2gaeA 346 7.12e+00 1oe8A 211 7.67e+00 a.45.1.1,c.47.1.5 86905,86906 1yueA 427 7.82e+00 2napA 723 9.58e+00 2napA b.52.2.2,c.81.1.1 26926,35334 1q7hA 153 1.07e+01 b.122.1.1,d.17.6.2 96042,96043 1qciA 262 1.11e+01 1qi7A d.165.1.1 42201 1ef1A 294 1.39e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1t3qB 788 1.49e+01 d.41.1.1,d.133.1.1 106369,106370 1xrsA 516 1.57e+01 1o97D 320 1.58e+01 c.26.2.3,c.31.1.2 81233,81234 2akaB 299 1.60e+01 2biiA 424 1.65e+01 2cxxA 190 1.65e+01 2a9dA 372 1.74e+01 1ng2A 193 1.88e+01 b.34.2.1,b.34.2.1 85660,85661 1frpA 335 1.93e+01 1frpA e.7.1.1 42875 1y0zA 330 2.03e+01 2booA 247 2.07e+01 1nijA 318 2.09e+01 c.37.1.10,d.237.1.1 85741,85742 2c1cA 312 2.11e+01 1uirA 314 2.17e+01 c.66.1.17 99429 1vhh 162 2.18e+01 1vhh d.65.1.2 39550 1wwrA 171 2.30e+01 1dfmA 223 2.33e+01 1d2iA c.52.1.5 33295 1bg4 302 2.34e+01 1taxA c.1.8.3 28806 1zs9A 261 2.40e+01 1o58A 303 2.41e+01 c.79.1.1 92491 1nuyA 337 2.42e+01 e.7.1.1 86213 1jd5A 124 2.42e+01 g.52.1.1 66544 1uq5A 263 2.58e+01 d.165.1.1 99778 1ksiA 642 2.75e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1i6wA 181 2.88e+01 1i6wA c.69.1.18 61859 1mdoA 393 2.91e+01 c.67.1.4 79013 1soxA 466 2.92e+01 1soxA b.1.18.6,d.120.1.1,d.176.1.1 21947,41090,42563 1dyzA 129 2.98e+01 1nwpA b.6.1.1 22917 1grj 158 3.14e+01 1grj a.2.1.1,d.26.1.2 15691,38433 2gjlA 328 3.16e+01 1ift 263 3.36e+01 1mrj d.165.1.1 42211 1i7qB 193 3.37e+01 1qdlB c.23.16.1 61902 1kuuA 202 3.50e+01 d.153.2.1 73019 1sq9A 397 3.67e+01 b.69.4.1 105889 1ryp2 233 3.81e+01 1ryp2 1sgjA 284 3.82e+01 c.1.12.5 105535 1ispA 181 3.86e+01 c.69.1.18 76778 1n67A 359 3.91e+01 b.2.3.4,b.2.3.4 85354,85355 1ov3A 138 3.94e+01 b.34.2.1,b.34.2.1 87451,87452 2bnjA 303 4.06e+01 1v3wA 173 4.17e+01 b.81.1.5 100291 2ccwA 129 4.23e+01 1x1mA 107 4.42e+01 1o69A 394 4.44e+01 c.67.1.4 92560 1cqyA 99 4.50e+01 1b9zA b.3.1.1 22527 1lnwA 147 4.68e+01 a.4.5.28 78104 1wucA 250 4.71e+01 2c1dA 264 4.74e+01 1z7lA 276 4.85e+01 1v58A 241 4.99e+01 c.47.1.9,d.17.3.1 108371,108372 1a44 185 5.02e+01 1a44 b.17.1.1 23704 1wlpB 138 5.17e+01 1n2sA 299 5.22e+01 c.2.1.2 79857 1j0hA 588 5.41e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 2bwnA 401 5.42e+01 1jeyA 609 5.56e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1behA 187 5.70e+01 1a44 b.17.1.1 23700 1byfA 125 5.75e+01 1byfA d.169.1.1 42419 1qh8A 478 5.77e+01 1qguA c.92.2.3 35633 6gsvA 217 5.82e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1y2tA 142 6.00e+01 1v3vA 333 6.27e+01 b.35.1.2,c.2.1.1 108345,108346 1qreA 247 6.28e+01 1qreA b.81.1.5 28066 1jjiA 311 6.36e+01 c.69.1.2 66766 2bzsA 236 6.52e+01 1zjjA 263 6.59e+01 1wviA 257 6.61e+01 1zbsA 291 6.76e+01 1utiA 58 6.76e+01 b.34.2.1 99962 1aohA 147 6.83e+01 1aohA b.2.2.2 22401 1l9kA 305 6.89e+01 c.66.1.25 84569 1xx4A 261 6.93e+01 1tzzA 392 6.93e+01 1sxgA 280 7.13e+01 1yf2A 425 7.25e+01 1a4mA 349 7.31e+01 1a4mA c.1.9.1 29014 1gcqA 61 7.34e+01 1ckaA b.34.2.1 60434 1d2fA 390 7.54e+01 1d2fA c.67.1.3 34411 1vr0A 247 7.63e+01 1rypJ 204 7.64e+01 d.153.1.4 41878 1gjwA 637 7.70e+01 b.71.1.1,c.1.8.1 60582,60583 1yzvA 204 7.77e+01 1j0tA 78 7.85e+01 a.163.1.1 77051 1xmeA 568 7.89e+01 1iirA 415 8.01e+01 1iirA c.87.1.5 62453 1thjA 214 8.18e+01 1qreA b.81.1.5 28072 1a8h 500 8.21e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1oxjA 173 8.30e+01 a.60.1.2,a.118.1.13 87517,87518 1dywA 173 8.32e+01 2cpl b.62.1.1 27505 1a3aA 148 8.38e+01 1a3aA d.112.1.1 40917 1vj1A 363 8.40e+01 b.35.1.2,c.2.1.1 100794,100795 2hgsA 474 8.43e+01 2hgsA c.30.1.4,d.142.1.6 31722,75997 1i1wA 303 8.50e+01 c.1.8.3 76732 1vyyA 113 8.58e+01 1vemA 516 8.74e+01 1v25A 541 8.79e+01 e.23.1.1 108275 1qj2B 809 8.85e+01 1qj2B 1zupA 315 8.90e+01 1itcA 516 8.91e+01 b.3.1.1,c.1.8.1 83705,83706