# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1jhdA 396 4.00e-01 b.58.1.2 66712 c.26.1.5 66713 1g6hA 257 5.96e-01 1gajA c.37.1.12 60318 1thm 279 1.20e+00 1gci c.41.1.1 32544 1l3kA 196 1.40e+00 1ha1 184 1.79e+00 1ha1 d.58.7.1 39147 d.58.7.1 39148 1goiA 499 2.39e+00 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1e6pA 499 2.68e+00 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1gajA 257 2.83e+00 1gajA c.37.1.12 60416 1e15A 499 3.11e+00 1e15A b.72.2.1 27810 c.1.8.5 29006 d.26.3.1 38440 1esmA 316 3.47e+00 1esmA c.37.1.6 31953 1ipcA 217 3.63e+00 1f9fA 83 3.81e+00 1f9fA d.58.8.1 39224 1dyqA 234 3.84e+00 3seb b.40.2.2 59140 d.15.6.1 59141 1b5tA 275 4.17e+00 1b5tA c.1.23.1 29676 1fj7A 101 4.17e+00 1fj7A d.58.7.1 39209 1ejhA 190 4.46e+00 1ejhA d.86.1.1 40147 1jksA 294 4.81e+00 1preB 470 4.97e+00 1preA d.169.1.2 42438 f.8.1.1 43825 1iq4A 179 5.21e+00 1iq4A d.77.1.1 62641 1kekA 1231 5.84e+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 1ihkA 174 5.92e+00 1bfg b.42.1.1 62384 1auz 116 6.31e+00 1auz c.13.2.1 30883 1g6oA 330 6.62e+00 1g6oA c.37.1.13 32430 1vp9 322 7.16e+00 3mag c.66.1.9 34210 1fgkA 310 7.17e+00 1fgkA d.144.1.2 41693 1foeA 377 7.23e+00 1foeA a.87.1.1 18517 b.55.1.1 26969 1vpt 348 7.42e+00 3mag c.66.1.9 34207 1gewA 356 7.67e+00 1gewA c.67.1.1 60470 1v39 322 7.72e+00 3mag c.66.1.9 34206 3mag 307 8.46e+00 3mag c.66.1.9 34205 1lkzA 219 8.78e+00 1ruxA 951 9.16e+00 1dhx b.13.2.2 59040 b.13.2.2 59041 1qd1A 325 9.54e+00 1qd1A d.58.34.1 39493 d.58.34.1 39494 2ptd 298 9.58e+00 2plc c.1.18.2 29605 1ej1A 190 9.78e+00 1ejhA d.86.1.1 40144 1a73A 163 9.85e+00 1a73A d.4.1.3 37145 1b0pA 1231 1.00e+01 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 1lpuA 332 1.03e+01 1iexA 605 1.03e+01 c.1.8.7 66127 c.23.11.1 66128 1qgvA 142 1.03e+01 1qgvA c.47.1.8 33056 1evxA 162 1.09e+01 1a73A d.4.1.3 37149 1lldA 319 1.10e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 1qupA 222 1.10e+01 1qupA b.1.8.1 22301 d.58.17.1 39352 1preA 470 1.12e+01 1preA d.169.1.2 42437 f.8.1.1 43824 1l8bA 190 1.13e+01 1e79G 272 1.19e+01 1e79G c.49.2.1 33158 1ex1A 605 1.19e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 5cytR 104 1.19e+01 1ycc a.3.1.1 15878 1in4A 334 1.23e+01 1hqcA a.4.5.11 62597 c.37.1.13 62598 1jk3A 158 1.24e+01 d.92.1.11 66790 1d3hA 367 1.26e+01 1d3gA c.1.4.1 28601 1bzsA 165 1.35e+01 1hfc d.92.1.11 40348 1b7fA 168 1.36e+01 1b7fA d.58.7.1 39169 d.58.7.1 39170 1d09B 153 1.37e+01 8atcB d.58.2.1 39015 g.41.7.1 45267 1d3gA 367 1.37e+01 1d3gA c.1.4.1 28600 1fg7A 356 1.39e+01 1gewA c.67.1.1 59819 1g6q2 328 1.40e+01 1g6q2 1uroA 367 1.58e+01 1uroA c.1.22.1 29675 1g9mG 321 1.61e+01 1gc1G d.172.1.1 42492 2ae2A 260 1.66e+01 1bdb c.2.1.2 29945 1dt9A 437 1.72e+01 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1xyfA 436 1.73e+01 1taxA b.42.2.1 25577 c.1.8.3 28909 1i76A 163 1.74e+01 1hfc d.92.1.11 61877 1mxa 383 1.80e+01 1mxb d.130.1.1 41326 d.130.1.1 41327 d.130.1.1 41328 1eikA 77 1.82e+01 1eikA d.78.1.1 39751 1mxb 383 1.90e+01 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 1f2tB 148 1.95e+01 1f2tB 1yprA 125 2.02e+01 3nul d.110.1.1 40888 1esfA 233 2.03e+01 3seb b.40.2.2 25146 d.15.6.1 37735 1bm9A 122 2.06e+01 1bm9A a.4.5.7 16116 1g7eA 122 2.23e+01 1g7eA c.47.1.7 33055 1jraA 117 2.24e+01 a.24.15.1 67117 1by9 81 2.27e+01 2bopA d.58.8.1 39223 1aoa 275 2.29e+01 1aoa a.40.1.1 17396 a.40.1.1 17397 1k2yX 463 2.38e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 c.84.1.1 68066 1fa0A 537 2.53e+01 1fa0B d.58.16.1 39335 e.9.1.2 43229 1pot 325 2.55e+01 1pot c.94.1.1 35807 1aogA 485 2.59e+01 3grs c.3.1.5 30517 c.3.1.5 30518 d.87.1.1 40190 2at2A 300 2.60e+01 3csuA c.78.1.1 35196 c.78.1.1 35197 1urnA 97 2.63e+01 1urnA d.58.7.1 39153 1jmtA 104 2.65e+01 d.58.7.3 63180 1qo0D 196 2.70e+01 1qo0D c.23.1.3 31125 1hp4A 512 2.74e+01 1hp4A c.1.8.6 61111 d.92.2.1 61112 1jakA 512 2.74e+01 c.1.8.6 66472 d.92.2.1 66473 1plq 258 2.77e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1f4kA 122 2.78e+01 1bm9A a.4.5.7 59646 2gcc 70 2.78e+01 2gcc d.10.1.2 37484 1a0oD 134 2.85e+01 1eayC d.58.24.1 39391 1thfD 253 2.97e+01 1thfD c.1.2.1 28535 1ivyA 452 2.99e+01 1ivyA c.69.1.5 34654 1elyA 449 3.06e+01 1b8jA c.76.1.1 35028 1efdN 266 3.14e+01 1efdN c.92.2.1 35597 1jr8A 117 3.20e+01 a.24.15.1 67115 1b8jA 449 3.22e+01 1b8jA c.76.1.1 34992 1egaA 301 3.22e+01 1egaA c.37.1.8 32150 d.52.3.1 38836 1alkA 449 3.23e+01 1b8jA c.76.1.1 34994 1evhA 112 3.25e+01 1evhA b.55.1.4 26997 1ed8A 449 3.25e+01 1b8jA c.76.1.1 34988 1kh5A 449 3.26e+01 1lm8B 118 3.26e+01 1b6rA 355 3.27e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1qk4A 233 3.33e+01 1qk3A c.61.1.1 34037 1poiA 317 3.37e+01 1poiA c.63.1.1 34153 2anhA 446 3.46e+01 1b8jA c.76.1.1 35004 1dqpA 230 3.49e+01 1dqnA c.61.1.1 34069 1vaoA 560 3.50e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 1dbwA 126 3.52e+01 1dbwA c.23.1.1 31095 830cA 168 3.55e+01 1ck7A d.92.1.11 40400 1ycc 108 3.55e+01 1ycc a.3.1.1 15834 1dqnA 230 3.56e+01 1dqnA c.61.1.1 34067 1qndA 123 3.67e+01 1qndA d.106.1.1 40794 2cb5A 453 3.70e+01 3gcb d.3.1.1 37035 1jnyA 435 3.71e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1ytc 112 3.72e+01 1ycc a.3.1.1 15835 1ewkA 490 3.72e+01 1ewkA c.93.1.1 35712 1gc5A 467 3.76e+01 1gc5A c.72.1.3 60429 2mbr 340 3.77e+01 2mbr d.145.1.2 41749 d.146.1.1 41762 1qfxA 460 3.85e+01 1qfxA c.60.1.3 33994 1uxy 340 3.86e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1dckA 126 3.88e+01 1dbwA c.23.1.1 31097 1sspE 223 3.89e+01 3eugA c.18.1.1 31009 1jjiA 311 3.98e+01 c.69.1.2 66766