# List of top-scoring protein chains for t2k-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 1.76e+00 1p3wA 404 2.11e+00 c.67.1.3 87752 1xpmA 396 2.11e+00 1b0pA 1231 2.52e+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 2ae0X 345 2.75e+00 1tvzA 388 2.78e+00 c.95.1.2,c.95.1.2 107367,107368 1kekA 1231 3.78e+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 2c3mA 1231 4.27e+00 1zk7A 467 5.80e+00 2gaeA 346 6.54e+00 1hxmA 229 6.92e+00 1hxmA b.1.1.1,b.1.1.2 61367,61368 1q7hA 153 7.07e+00 b.122.1.1,d.17.6.2 96042,96043 1pgl1 185 9.08e+00 1zd0A 150 9.21e+00 2gfhA 260 9.74e+00 1oe8A 211 1.04e+01 a.45.1.1,c.47.1.5 86905,86906 1xesA 413 1.26e+01 1bmv1 198 1.27e+01 1bmv1 1ng2A 193 1.70e+01 b.34.2.1,b.34.2.1 85660,85661 1i6wA 181 1.71e+01 1i6wA c.69.1.18 61859 1nijA 318 1.85e+01 c.37.1.10,d.237.1.1 85741,85742 2booA 247 1.86e+01 1jd5A 124 1.88e+01 g.52.1.1 66544 1zjjA 263 1.98e+01 1ef1A 294 2.06e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1qciA 262 2.10e+01 1qi7A d.165.1.1 42201 1o97D 320 2.13e+01 c.26.2.3,c.31.1.2 81233,81234 2akaB 299 2.29e+01 1t3qB 788 2.32e+01 d.41.1.1,d.133.1.1 106369,106370 1yueA 427 2.38e+01 1ispA 181 2.38e+01 c.69.1.18 76778 2cxxA 190 2.39e+01 2gjlA 328 2.81e+01 2biiA 424 2.99e+01 2c1cA 312 3.09e+01 1uq5A 263 3.18e+01 d.165.1.1 99778 1ksiA 642 3.19e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1xrsA 516 3.20e+01 1vhh 162 3.21e+01 1vhh d.65.1.2 39550 1d6aB 262 3.38e+01 1qi7A d.165.1.1 42198 1dyzA 129 3.40e+01 1nwpA b.6.1.1 22917 1y0zA 330 3.41e+01 1n67A 359 3.52e+01 b.2.3.4,b.2.3.4 85354,85355 1zs9A 261 3.52e+01 1rypJ 204 3.53e+01 d.153.1.4 41878 1pt1A 143 3.61e+01 b.52.2.1 95084 2napA 723 3.64e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1sgjA 284 3.65e+01 c.1.12.5 105535 1ov3A 138 3.73e+01 b.34.2.1,b.34.2.1 87451,87452 2a9dA 372 3.86e+01 1b31A 302 3.92e+01 1taxA c.1.8.3 28892 1kz8A 337 3.96e+01 e.7.1.1 77633 1g0u1 266 4.00e+01 1uirA 314 4.02e+01 c.66.1.17 99429 1ryp2 233 4.11e+01 1ryp2 1nfiE 215 4.13e+01 1iknD d.211.1.1 19172 1kuuA 202 4.23e+01 d.153.2.1 73019 1bg4 302 4.27e+01 1taxA c.1.8.3 28806 1sq9A 397 4.37e+01 b.69.4.1 105889 1ift 263 4.44e+01 1mrj d.165.1.1 42211 1frpA 335 4.45e+01 1frpA e.7.1.1 42875 1tzzA 392 4.49e+01 1a44 185 4.52e+01 1a44 b.17.1.1 23704 1o58A 303 4.56e+01 c.79.1.1 92491 1q6zA 528 4.58e+01 1dbiA 280 4.67e+01 1gci c.41.1.1 32543 1g0uI 205 4.69e+01 d.153.1.4 41891 1wucA 250 4.75e+01 1v3wA 173 4.76e+01 b.81.1.5 100291 1behA 187 4.83e+01 1a44 b.17.1.1 23700 2ccwA 129 5.09e+01 1grvB 182 5.26e+01 c.61.1.1 76322 1mdoA 393 5.30e+01 c.67.1.4 79013 1j0hA 588 5.32e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1obs 267 5.37e+01 1mrj d.165.1.1 42213 1fpkA 335 5.39e+01 1frpA e.7.1.1 42930 1nuyA 337 5.41e+01 e.7.1.1 86213 1lnwA 147 5.48e+01 a.4.5.28 78104 1ebuA 358 5.51e+01 1ebuA c.2.1.3,d.81.1.2 30035,39950 1qh8A 478 5.52e+01 1qguA c.92.2.3 35633 1ksiB 642 5.55e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24409,38045,38046 1n99A 166 5.56e+01 b.36.1.1,b.36.1.1 85459,85460 1b7aA 186 5.67e+01 1a44 b.17.1.1 23705 1rdzA 337 5.68e+01 1frpA e.7.1.1 42882 1i7qB 193 5.79e+01 1qdlB c.23.16.1 61902 1r6vA 671 5.80e+01 1qguA 478 5.83e+01 1qguA c.92.2.3 35625 1h1lA 481 5.90e+01 c.92.2.3 70851 1jjiA 311 5.99e+01 c.69.1.2 66766 1wwrA 171 5.99e+01 1de6A 426 6.08e+01 1de5A c.1.15.2 29398 1eikA 77 6.18e+01 1eikA d.78.1.1 39751 1who 96 6.20e+01 1who b.7.3.1 23215 1qj2B 809 6.27e+01 1qj2B 1a7qH 116 6.38e+01 1gc1H b.1.1.1 19955 1tlgA 125 6.43e+01 1byfA d.169.1.1 42421 1soxA 466 6.44e+01 1soxA b.1.18.6,d.120.1.1,d.176.1.1 21947,41090,42563 1zxiB 809 6.58e+01 1wlpB 138 6.64e+01 1z7lA 276 6.66e+01 1xx4A 261 6.79e+01 2c1dA 264 7.00e+01 1o69A 394 7.16e+01 c.67.1.4 92560 1byfA 125 7.16e+01 1byfA d.169.1.1 42419 1y2tA 142 7.17e+01 1e9iA 431 7.27e+01 c.1.11.1,d.54.1.1 64818,64819 1gjuA 637 7.30e+01 b.71.1.1,c.1.8.1 60580,60581 1e6yA 569 7.30e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 1grj 158 7.32e+01 1grj a.2.1.1,d.26.1.2 15691,38433 5fbpA 335 7.57e+01 1frpA e.7.1.1 42873 1gsa 316 7.74e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1k6aA 303 7.74e+01 c.1.8.3 72081 1sqrA 95 8.17e+01 1taxA 302 8.35e+01 1taxA 1umwA 237 8.45e+01 d.223.1.2,d.223.1.2 99631,99632 2bwnA 401 8.68e+01 1yf2A 425 8.79e+01 1k4jA 230 8.80e+01 d.108.1.3 72057 1pdr 99 8.81e+01 1pdr b.36.1.1 24771 1l9kA 305 8.91e+01 c.66.1.25 84569