# List of top-scoring protein chains for t2k-100-30-dssp_ehl2 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 1thm 279 5.59e-01 1gci c.41.1.1 32544 1jhdA 396 1.02e+00 b.58.1.2 66712 c.26.1.5 66713 1ha1 184 1.83e+00 1ha1 d.58.7.1 39147 d.58.7.1 39148 1l3kA 196 1.85e+00 1fgkA 310 3.03e+00 1fgkA d.144.1.2 41693 1lpuA 332 3.22e+00 1g6hA 257 3.56e+00 1gajA c.37.1.12 60318 1b0pA 1231 3.58e+00 c.36.1.4 31831 c.36.1.4 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1kekA 1231 3.60e+00 c.36.1.4 68524 c.36.1.4 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1jksA 294 3.64e+00 1gajA 257 3.66e+00 1gajA c.37.1.12 60416 1dyqA 234 4.07e+00 3seb b.40.2.2 59140 d.15.6.1 59141 1dckA 126 4.18e+00 1dbwA c.23.1.1 31097 1dbwA 126 4.21e+00 1dbwA c.23.1.1 31095 1goiA 499 4.39e+00 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1auz 116 5.70e+00 1auz c.13.2.1 30883 1fj7A 101 5.97e+00 1fj7A d.58.7.1 39209 1esmA 316 6.19e+00 1esmA c.37.1.6 31953 1e15A 499 6.59e+00 1e15A b.72.2.1 27810 c.1.8.5 29006 d.26.3.1 38440 1e6pA 499 6.80e+00 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1b5tA 275 6.99e+00 1b5tA c.1.23.1 29676 1gewA 356 7.72e+00 1gewA c.67.1.1 60470 1f9fA 83 8.23e+00 1f9fA d.58.8.1 39224 1qgvA 142 8.48e+00 1qgvA c.47.1.8 33056 1g9mG 321 9.46e+00 1gc1G d.172.1.1 42492 1a0oD 134 9.46e+00 1eayC d.58.24.1 39391 1a73A 163 9.81e+00 1a73A d.4.1.3 37145 1in4A 334 9.88e+00 1hqcA a.4.5.11 62597 c.37.1.13 62598 1uroA 367 1.02e+01 1uroA c.1.22.1 29675 1bm9A 122 1.06e+01 1bm9A a.4.5.7 16116 1dt9A 437 1.11e+01 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1evxA 162 1.16e+01 1a73A d.4.1.3 37149 1xyfA 436 1.17e+01 1taxA b.42.2.1 25577 c.1.8.3 28909 1qd1A 325 1.17e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1f4kA 122 1.22e+01 1bm9A a.4.5.7 59646 1fg7A 356 1.23e+01 1gewA c.67.1.1 59819 1sqc 631 1.31e+01 2sqcA a.102.4.2 18858 a.102.4.2 18859 5cytR 104 1.39e+01 1ycc a.3.1.1 15878 1qupA 222 1.49e+01 1qupA b.1.8.1 22301 d.58.17.1 39352 1g6q2 328 1.52e+01 1g6q2 2sqcA 631 1.55e+01 2sqcA a.102.4.2 18854 a.102.4.2 18855 1aoa 275 1.60e+01 1aoa a.40.1.1 17396 a.40.1.1 17397 1qfxA 460 1.61e+01 1qfxA c.60.1.3 33994 1lldA 319 1.63e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 2ptd 298 1.64e+01 2plc c.1.18.2 29605 1jnyA 435 1.65e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1f2tB 148 1.71e+01 1f2tB 1e79G 272 1.74e+01 1e79G c.49.2.1 33158 1gegA 256 1.76e+01 1ybvA c.2.1.2 29888 1aol 228 1.83e+01 1aol b.20.1.1 23840 1g7eA 122 1.84e+01 1g7eA c.47.1.7 33055 1ex1A 605 1.87e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 1d7qA 143 1.88e+01 1d7qA b.40.4.5 25331 1iexA 605 1.89e+01 c.1.8.7 66127 c.23.11.1 66128 1eikA 77 1.90e+01 1eikA d.78.1.1 39751 1preB 470 1.91e+01 1preA d.169.1.2 42438 f.8.1.1 43825 1lkzA 219 1.92e+01 1qk3A 233 1.95e+01 1qk3A c.61.1.1 34031 1qjcA 158 1.98e+01 1b6tA c.26.1.3 63328 1c24A 263 1.99e+01 1c24A d.127.1.1 41148 1preA 470 2.01e+01 1preA d.169.1.2 42437 f.8.1.1 43824 1mat 264 2.03e+01 1c24A d.127.1.1 41152 1eayC 74 2.09e+01 1eayC d.58.24.1 39386 1hlcA 129 2.13e+01 1c1lA b.29.1.3 24208 1ipcA 217 2.13e+01 1dbiA 280 2.14e+01 1gci c.41.1.1 32543 1jr8A 117 2.18e+01 a.24.15.1 67115 1jk3A 158 2.31e+01 d.92.1.11 66790 2ltnB 52 2.34e+01 2ltnB 1b7fA 168 2.35e+01 1b7fA d.58.7.1 39169 d.58.7.1 39170 2matA 264 2.36e+01 1c24A d.127.1.1 41146 1jraA 117 2.37e+01 a.24.15.1 67117 8acn 754 2.38e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1jmtA 104 2.38e+01 d.58.7.3 63180 2cb5A 453 2.39e+01 3gcb d.3.1.1 37035 1ejhA 190 2.42e+01 1ejhA d.86.1.1 40147 1efnB 152 2.42e+01 1efnB d.102.1.1 40699 1k2yX 463 2.48e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 c.84.1.1 68066 1amj 754 2.53e+01 1amj c.8.2.1 30725 c.83.1.1 35401 1jvnA 555 2.53e+01 c.1.2.1 67355 c.23.16.1 67356 1i76A 163 2.54e+01 1hfc d.92.1.11 61877 1bzsA 165 2.56e+01 1hfc d.92.1.11 40348 1evhA 112 2.58e+01 1evhA b.55.1.4 26997 1thfD 253 2.59e+01 1thfD c.1.2.1 28535 1hruA 188 2.70e+01 1hruA d.115.1.1 40926 1dvjA 246 2.75e+01 1dvjA c.1.2.3 28546 1ql3A 99 2.75e+01 1ycc a.3.1.1 15822 3mag 307 2.75e+01 3mag c.66.1.9 34205 1b0jA 754 2.79e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1pls 113 2.80e+01 1pls b.55.1.1 26965 3fruA 269 2.85e+01 1agdA b.1.1.2 20657 d.19.1.1 38150 1mxb 383 2.86e+01 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 3sxlA 184 2.86e+01 1b7fA d.58.7.1 39173 d.58.7.1 39174 1d09B 153 2.87e+01 8atcB d.58.2.1 39015 g.41.7.1 45267 1b6tA 159 2.89e+01 1b6tA c.26.1.3 31600 1dqnA 230 2.92e+01 1dqnA c.61.1.1 34067 1g6oA 330 2.92e+01 1g6oA c.37.1.13 32430 7at1B 154 2.94e+01 8atcB d.58.2.1 39053 g.41.7.1 45305 1dbhA 354 2.95e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1v39 322 3.02e+01 3mag c.66.1.9 34206 1vp9 322 3.02e+01 3mag c.66.1.9 34210 1vpt 348 3.19e+01 3mag c.66.1.9 34207 1qndA 123 3.22e+01 1qndA d.106.1.1 40794 1ytc 112 3.22e+01 1ycc a.3.1.1 15835 1ixmA 192 3.24e+01 1ixmA d.123.1.1 41114 1s01 283 3.30e+01 1gci c.41.1.1 32511 8abp 306 3.35e+01 8abp c.93.1.1 35647 1dvjC 246 3.36e+01 1dvjA c.1.2.3 28548 2anhA 446 3.36e+01 1b8jA c.76.1.1 35004 1jr7A 311 3.42e+01 b.82.2.3 63255 1h8eG 272 3.44e+01 1e79G c.49.2.1 60756 1dkzA 219 3.50e+01 1dkzA e.20.1.1 43314 1ihfB 94 3.55e+01 1huuA a.55.1.1 17894 1dqpA 230 3.55e+01 1dqnA c.61.1.1 34069 1c96A 753 3.58e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1fl2A 310 3.60e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 6acn 754 3.65e+01 1amj c.8.2.1 30721 c.83.1.1 35397 2at2A 300 3.68e+01 3csuA c.78.1.1 35196 c.78.1.1 35197 1fzaB 328 3.70e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1eijA 80 3.71e+01 1eijA a.5.6.1 16298 1fa0A 537 3.73e+01 1fa0B d.58.16.1 39335 e.9.1.2 43229 1jfzA 154 3.77e+01 a.149.1.1 66655 2mbr 340 3.79e+01 2mbr d.145.1.2 41749 d.146.1.1 41762 1d3hA 367 3.84e+01 1d3gA c.1.4.1 28601 1uxy 340 3.85e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 2gcc 70 3.88e+01 2gcc d.10.1.2 37484 1i4sA 147 3.89e+01 a.149.1.1 66026 1ecxA 384 3.90e+01 1ecxA c.67.1.3 34431 1ihkA 174 3.93e+01 1bfg b.42.1.1 62384 1yprA 125 3.94e+01 3nul d.110.1.1 40888 1fhuA 320 3.96e+01 1fhuA c.1.11.2 29234 d.54.1.1 38878