# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 2.04e-01 b.58.1.2 66712 c.26.1.5 66713 1l3kA 196 3.47e-01 1ha1 184 3.53e-01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1goiA 499 3.84e-01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1e6pA 499 4.63e-01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1e15A 499 4.85e-01 1e15A b.72.2.1 27810 c.1.8.5 29006 d.26.3.1 38440 1thm 279 7.82e-01 1gci c.41.1.1 32544 1g6hA 257 9.00e-01 1gajA c.37.1.12 60318 1fj7A 101 1.27e+00 1fj7A d.58.7.1 39209 1dyqA 234 1.43e+00 3seb b.40.2.2 59140 d.15.6.1 59141 1lpuA 332 1.60e+00 1gajA 257 1.77e+00 1gajA c.37.1.12 60416 1f2tB 148 1.95e+00 1f2tB 1b5tA 275 2.05e+00 1b5tA c.1.23.1 29676 1fgkA 310 2.15e+00 1fgkA d.144.1.2 41693 1in4A 334 2.69e+00 1hqcA a.4.5.11 62597 c.37.1.13 62598 1ejhA 190 2.98e+00 1ejhA d.86.1.1 40147 1lkzA 219 2.99e+00 1auz 116 3.25e+00 1auz c.13.2.1 30883 1g6oA 330 3.51e+00 1g6oA c.37.1.13 32430 1dbwA 126 3.66e+00 1dbwA c.23.1.1 31095 1dckA 126 3.67e+00 1dbwA c.23.1.1 31097 1qgvA 142 4.03e+00 1qgvA c.47.1.8 33056 1poiA 317 4.54e+00 1poiA c.63.1.1 34153 1a73A 163 4.55e+00 1a73A d.4.1.3 37145 1gewA 356 5.22e+00 1gewA c.67.1.1 60470 1evxA 162 5.26e+00 1a73A d.4.1.3 37149 1g6q2 328 5.43e+00 1g6q2 1ipcA 217 5.53e+00 1f4kA 122 5.69e+00 1bm9A a.4.5.7 59646 1uroA 367 5.85e+00 1uroA c.1.22.1 29675 1urnA 97 6.11e+00 1urnA d.58.7.1 39153 1g7eA 122 6.32e+00 1g7eA c.47.1.7 33055 1xyfA 436 6.49e+00 1taxA b.42.2.1 25577 c.1.8.3 28909 1jmtA 104 6.50e+00 d.58.7.3 63180 1lldA 319 6.56e+00 3ldh c.2.1.5 30177 d.162.1.1 42144 1f9fA 83 6.59e+00 1f9fA d.58.8.1 39224 1ex1A 605 6.62e+00 1ex1A c.1.8.7 29013 c.23.11.1 31347 1esfA 233 6.66e+00 3seb b.40.2.2 25146 d.15.6.1 37735 1iexA 605 6.73e+00 c.1.8.7 66127 c.23.11.1 66128 1esmA 316 6.74e+00 1esmA c.37.1.6 31953 1eikA 77 6.99e+00 1eikA d.78.1.1 39751 1iq4A 179 7.16e+00 1iq4A d.77.1.1 62641 1b6rA 355 7.34e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1d09B 153 7.77e+00 8atcB d.58.2.1 39015 g.41.7.1 45267 1qupA 222 8.04e+00 1qupA b.1.8.1 22301 d.58.17.1 39352 1i76A 163 8.11e+00 1hfc d.92.1.11 61877 1kekA 1231 8.13e+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 1bzsA 165 8.15e+00 1hfc d.92.1.11 40348 1b0pA 1231 8.25e+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 1jk3A 158 8.43e+00 d.92.1.11 66790 1jksA 294 8.56e+00 1bm9A 122 8.70e+00 1bm9A a.4.5.7 16116 1efdN 266 9.11e+00 1efdN c.92.2.1 35597 5cytR 104 9.22e+00 1ycc a.3.1.1 15878 1b7fA 168 9.24e+00 1b7fA d.58.7.1 39169 d.58.7.1 39170 1iqpA 327 9.43e+00 a.80.1.1 62649 c.37.1.13 62650 1qk4A 233 9.60e+00 1qk3A c.61.1.1 34037 1mxa 383 9.62e+00 1mxb d.130.1.1 41326 d.130.1.1 41327 d.130.1.1 41328 1a0oD 134 9.68e+00 1eayC d.58.24.1 39391 1thfD 253 9.75e+00 1thfD c.1.2.1 28535 1fg7A 356 9.82e+00 1gewA c.67.1.1 59819 4pgaA 337 1.00e+01 4pgaA c.88.1.1 35565 1l1sA 113 1.01e+01 1ej1A 190 1.07e+01 1ejhA d.86.1.1 40144 1plq 258 1.09e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1aoa 275 1.10e+01 1aoa a.40.1.1 17396 a.40.1.1 17397 1foeA 377 1.12e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1fsgA 233 1.14e+01 1qk3A c.61.1.1 34029 830cA 168 1.15e+01 1ck7A d.92.1.11 40400 1jnyA 435 1.16e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1qd1A 325 1.18e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1hyuA 521 1.18e+01 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1mat 264 1.20e+01 1c24A d.127.1.1 41152 1eonA 245 1.20e+01 1rvaA c.52.1.2 33238 3mag 307 1.23e+01 3mag c.66.1.9 34205 1dt9A 437 1.24e+01 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1v39 322 1.29e+01 3mag c.66.1.9 34206 1vp9 322 1.29e+01 3mag c.66.1.9 34210 1jr7A 311 1.29e+01 b.82.2.3 63255 1mxb 383 1.30e+01 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 1efnB 152 1.37e+01 1efnB d.102.1.1 40699 3pga1 337 1.37e+01 4pgaA 1vpt 348 1.38e+01 3mag c.66.1.9 34207 1l8bA 190 1.44e+01 1jztA 246 1.45e+01 c.104.1.1 63319 3sxlA 184 1.50e+01 1b7fA d.58.7.1 39173 d.58.7.1 39174 1b8jA 449 1.50e+01 1b8jA c.76.1.1 34992 1aogA 485 1.51e+01 3grs c.3.1.5 30517 c.3.1.5 30518 d.87.1.1 40190 1by9 81 1.52e+01 2bopA d.58.8.1 39223 1g9mG 321 1.54e+01 1gc1G d.172.1.1 42492 2at2A 300 1.55e+01 3csuA c.78.1.1 35196 c.78.1.1 35197 1evhA 112 1.58e+01 1evhA b.55.1.4 26997 1yprA 125 1.60e+01 3nul d.110.1.1 40888 1fa0A 537 1.63e+01 1fa0B d.58.16.1 39335 e.9.1.2 43229 8abp 306 1.64e+01 8abp c.93.1.1 35647 1dqnA 230 1.65e+01 1dqnA c.61.1.1 34067 1fl2A 310 1.66e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1e79G 272 1.68e+01 1e79G c.49.2.1 33158 1qfxA 460 1.70e+01 1qfxA c.60.1.3 33994 1alkA 449 1.74e+01 1b8jA c.76.1.1 34994 1elyA 449 1.76e+01 1b8jA c.76.1.1 35028 1eayC 74 1.76e+01 1eayC d.58.24.1 39386 1dqpA 230 1.77e+01 1dqnA c.61.1.1 34069 1c24A 263 1.77e+01 1c24A d.127.1.1 41148 1b7gO 340 1.77e+01 1b7gO c.2.1.3 29992 d.81.1.1 39907 2matA 264 1.83e+01 1c24A d.127.1.1 41146 3minC 491 1.85e+01 1qguA c.92.2.3 35607 1kh5A 449 1.85e+01 1ewkA 490 1.85e+01 1ewkA c.93.1.1 35712 1ed8A 449 1.85e+01 1b8jA c.76.1.1 34988 1idrA 136 1.86e+01 1dlyA a.1.1.1 62301 1k2yX 463 1.88e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 c.84.1.1 68066 1rvaA 244 1.91e+01 1rvaA c.52.1.2 33240 1a4iA 301 1.96e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1b6sA 355 1.99e+01 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 2anhA 446 2.04e+01 1b8jA c.76.1.1 35004 1ihkA 174 2.06e+01 1bfg b.42.1.1 62384 1plr 258 2.06e+01 1plq d.131.1.2 41390 d.131.1.2 41391 1je0A 236 2.06e+01 c.56.2.1 66581 1preA 470 2.07e+01 1preA d.169.1.2 42437 f.8.1.1 43824 1fa0B 537 2.07e+01 1fa0B d.58.16.1 39336 e.9.1.2 43230 2cb5A 453 2.09e+01 3gcb d.3.1.1 37035 1d3hA 367 2.11e+01 1d3gA c.1.4.1 28601 1a26 361 2.12e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1qndA 123 2.12e+01 1qndA d.106.1.1 40794 1preB 470 2.13e+01 1preA d.169.1.2 42438 f.8.1.1 43825 1qk3A 233 2.13e+01 1qk3A c.61.1.1 34031 2ltnB 52 2.14e+01 2ltnB 1a4iB 301 2.21e+01 1a4iA c.2.1.7 30279 c.58.1.2 33927 1qh3A 260 2.24e+01 1qh5A d.157.1.2 42059 2minA 491 2.26e+01 1qguA c.92.2.3 35609 1d3gA 367 2.31e+01 1d3gA c.1.4.1 28600 1inp 400 2.31e+01 1inp e.7.1.1 42972 1jraA 117 2.33e+01 a.24.15.1 67117 2pgd 482 2.33e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1pot 325 2.34e+01 1pot c.94.1.1 35807 1efyA 350 2.38e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1dosA 358 2.39e+01 1dosA c.1.10.2 29175 1jr8A 117 2.40e+01 a.24.15.1 67115 1agx 331 2.43e+01 4pgaA c.88.1.1 35564 1jmsA 381 2.43e+01 a.60.6.1 66889 e.9.1.1 66890 1kwmA 402 2.44e+01 1sspE 223 2.44e+01 3eugA c.18.1.1 31009 1dbiA 280 2.44e+01 1gci c.41.1.1 32543 1bpwA 503 2.46e+01 1bpwA c.82.1.1 35365 1ck7A 631 2.48e+01 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1aol 228 2.53e+01 1aol b.20.1.1 23840 1avoA 60 2.55e+01 1avoA a.24.8.1 16619 1dg9A 157 2.59e+01 1dg9A c.44.1.1 32637 1jsrA 327 2.62e+01 c.88.1.1 67237 1pne 140 2.65e+01 1pne d.110.1.1 40866 1vaoA 560 2.66e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 3fruA 269 2.66e+01 1agdA b.1.1.2 20657 d.19.1.1 38150 1dvjA 246 2.71e+01 1dvjA c.1.2.3 28546 1gnyA 153 2.71e+01 b.18.1.11 65404 1fil 139 2.73e+01 1pne d.110.1.1 40869 2gcc 70 2.73e+01 2gcc d.10.1.2 37484 1hbnA 549 2.75e+01 1mroA a.89.1.1 60898 d.58.31.2 60899 1e8gA 560 2.75e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1ql3A 99 2.76e+01 1ycc a.3.1.1 15822 1jpaA 312 2.77e+01 d.144.1.2 67011 1a4sA 503 2.78e+01 1bpwA c.82.1.1 35361 1qo0D 196 2.78e+01 1qo0D c.23.1.3 31125 1qh5A 260 2.80e+01 1qh5A d.157.1.2 42057 1pls 113 2.83e+01 1pls b.55.1.1 26965 1ycc 108 2.86e+01 1ycc a.3.1.1 15834 1s01 283 3.01e+01 1gci c.41.1.1 32511 1bfi 112 3.03e+01 1qadA d.93.1.1 40499 1aye 401 3.05e+01 1aye c.56.5.1 33824 d.58.3.1 39065 1ytc 112 3.06e+01 1ycc a.3.1.1 15835 1qmuA 380 3.06e+01 1qmuA b.3.2.1 22534 c.56.5.1 33827 1a3h 300 3.10e+01 7a3hA c.1.8.3 28819 1i4sA 147 3.14e+01 a.149.1.1 66026 1hfc 169 3.16e+01 1hfc d.92.1.11 40335 1jfzA 154 3.17e+01 a.149.1.1 66655 1fjcA 96 3.17e+01 1fjcA d.58.7.1 39212 7a3hA 303 3.17e+01 7a3hA c.1.8.3 28817 1d2eA 397 3.23e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 9apiA 347 3.27e+01 1ovaA e.1.1.1 42630 1fr7A 260 3.31e+01 2cba b.74.1.1 27828 1cxvA 164 3.33e+01 1ck7A d.92.1.11 40404 2u1a 88 3.41e+01 2u1a d.58.7.1 39164 2dln 306 3.44e+01 1iow c.30.1.2 31715 d.142.1.1 41483 1obr 326 3.44e+01 1aye c.56.5.2 33828 1cmxA 236 3.46e+01 1uch d.3.1.6 37130 1fzaB 328 3.51e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1pmaP 211 3.52e+01 1pmaP d.153.1.4 41863 1cbg 490 3.52e+01 1e70M c.1.8.4 28933 1cnv 299 3.56e+01 1cnv c.1.8.5 28989 1ecxA 384 3.56e+01 1ecxA c.67.1.3 34431 1lml 478 3.60e+01 1lml d.92.1.3 40295 1phr 157 3.63e+01 1dg9A c.44.1.1 32635 1dvjC 246 3.65e+01 1dvjA c.1.2.3 28548 1ccr 112 3.68e+01 1ycc a.3.1.1 15877 1e8xA 961 3.76e+01 1e8xA a.118.1.6 19148 b.7.1.1 23183 d.15.1.5 37631 d.144.1.4 41711 1jvnA 555 3.76e+01 c.1.2.1 67355 c.23.16.1 67356 1g41A 444 3.79e+01 1do0A c.37.1.13 32450 1qciA 262 3.87e+01 1qi7A d.165.1.1 42201 1d6aB 262 3.89e+01 1qi7A d.165.1.1 42198 1gc5A 467 3.93e+01 1gc5A c.72.1.3 60429 1h8eG 272 3.96e+01 1e79G c.49.2.1 60756 2ae2A 260 3.96e+01 1bdb c.2.1.2 29945 1jg1A 235 3.99e+01 c.66.1.7 66661 1qm4A 396 3.99e+01 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352