# 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 1f7sA 139 1.49e-24 1cof d.109.1.2 40857 1v6fA 151 1.00e-23 1cfyA 143 2.12e-22 1cof d.109.1.2 40858 1cof 143 6.20e-22 1cof d.109.1.2 40860 1cnuA 137 8.12e-22 1cof d.109.1.2 40862 1m4jA 142 4.79e-19 d.109.1.2 78602 1ak7 174 1.17e-18 1cof d.109.1.2 40864 1hqz1 141 2.07e-10 1hqz9 141 2.85e-10 1udmA 149 9.30e-08 1p1cA 199 1.93e-02 c.66.1.16 87669 1khhA 198 2.38e-02 c.66.1.16 68615 1mai 131 1.27e-01 1mai b.55.1.1 26951 1svy 114 3.47e-01 1svy d.109.1.1 40831 1svq 114 3.69e-01 1svy d.109.1.1 40832 1svr 114 4.45e-01 1svy d.109.1.1 40833 1o6sB 105 5.36e-01 b.1.6.1 81096 1jn5A 140 5.92e-01 d.17.4.2 66921 1ufoA 238 7.68e-01 unknown_sccs -8303 1qcxA 359 8.30e-01 1qcxA b.80.1.2 28028 1jkgA 140 8.57e-01 d.17.4.2 66795 1gtmA 419 1.28e+00 1hwyA c.2.1.7 30223 c.58.1.1 33871 1ex2A 189 1.29e+00 1ex2A c.51.4.2 33225 1poiB 260 1.49e+00 1poiB unknown_sccs 34155 1suh 146 1.78e+00 1edhA b.1.6.1 22206 1vjrA 271 1.93e+00 unknown_sccs -6853 1cp3A 277 1.99e+00 1pauA c.17.1.1 30992 1jb0D 138 2.46e+00 1jb0D d.187.1.1 62823 1edhA 226 2.82e+00 1edhA b.1.6.1 22198 b.1.6.1 22199 1j7iA 264 2.90e+00 1j7iA d.144.1.6 62694 2vik 126 3.18e+00 2vil d.109.1.1 40829 2vil 126 3.19e+00 2vil d.109.1.1 40830 1g5vA 88 3.39e+00 1g5vA b.34.9.1 60292 1pvgA 418 3.65e+00 d.14.1.3 -9032 d.122.1.2 -10965 1qy5A 269 3.67e+00 d.122.1.1 -10958 1cc8A 73 4.22e+00 1cc8A d.58.17.1 39343 1gqyA 475 4.23e+00 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1fe0A 68 4.55e+00 1cc8A d.58.17.1 39345 1ecfB 504 4.93e+00 1ecfB c.61.1.1 34054 d.153.1.1 41821 1ecfA 504 5.28e+00 1ecfB c.61.1.1 34053 d.153.1.1 41820 1qk8A 146 5.29e+00 1ewxA c.47.1.10 33061 1p3dA 475 5.62e+00 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1dssG 333 5.72e+00 1dssG c.2.1.3 30022 d.81.1.1 39937 1mml 265 5.92e+00 1mml e.8.1.2 43015 1o8xA 146 6.01e+00 c.47.1.10 86681 1nb9A 147 6.03e+00 b.43.5.1 85515 1a88A 275 6.11e+00 1brt c.69.1.12 34707 1idk 359 6.37e+00 1qcxA b.80.1.2 28025 1p8xA 344 6.44e+00 d.109.1.1 -10813 d.109.1.1 -10814 d.109.1.1 -10815 1mhnA 59 7.05e+00 b.34.9.1 84964 1akeA 214 7.25e+00 1zin c.37.1.1 31905 g.41.2.1 45185 1ewxA 146 7.86e+00 1ewxA c.47.1.10 33062 2nmbA 160 7.96e+00 2nmbA b.55.1.2 26994 1nw8A 319 8.05e+00 c.66.1.11 86292 1fpxA 352 8.07e+00 1fpxA a.4.5.29 59950 c.66.1.12 59951 1b00A 127 8.20e+00 3chy c.23.1.1 31122 1fwyA 331 8.35e+00 1fwyA b.81.1.4 28064 c.68.1.5 34522 1nmeA 146 8.50e+00 c.17.1.1 85874 1crwG 333 8.80e+00 1dssG c.2.1.3 30026 d.81.1.1 39941 1ixmA 192 8.96e+00 1ixmA d.123.1.1 41114 1j7lA 264 9.15e+00 d.144.1.6 62697 1qtrA 317 9.17e+00 1qtrA c.69.1.7 34660 1elt 236 9.46e+00 5ptp b.47.1.2 26281 1hv9A 456 9.92e+00 1fwyA b.81.1.4 28060 c.68.1.5 34518 1uzxA 169 1.00e+01 d.20.1.2 -9409 1pauA 147 1.00e+01 1pauA c.17.1.1 30994 4uagA 437 1.02e+01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1uag 437 1.04e+01 4uagA c.5.1.1 30653 c.59.1.1 33954 c.72.2.1 34957 1b0pA 1231 1.06e+01 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1pytA 94 1.08e+01 1pytA d.58.3.1 39064 1aj6 219 1.09e+01 1aj6 d.122.1.2 41106 1ho1A 242 1.12e+01 1ho1A c.1.24.1 61097 1e4yA 214 1.14e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1a99A 344 1.18e+01 1pot c.94.1.1 35812 1bsg 266 1.19e+01 1btl e.3.1.1 42729 1kl9A 182 1.20e+01 b.40.4.5 72681 1eg2A 319 1.24e+01 1eg2A c.66.1.11 34249 1afwA 393 1.25e+01 1afwA c.95.1.1 35900 c.95.1.1 35901 1l0oA 150 1.29e+01 d.122.1.3 73403 1mu5A 471 1.29e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1ayl 541 1.29e+01 1ayl c.91.1.1 64718 c.109.1.1 64719 1kekA 1231 1.31e+01 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1ncg 110 1.31e+01 1edhA b.1.6.1 22193 1qqp2 218 1.32e+01 1qqp2 3uagA 437 1.36e+01 4uagA c.5.1.1 30652 c.59.1.1 33953 c.72.2.1 34956 1xxaA 78 1.37e+01 1xxaA d.74.2.1 39700 1d4xG 126 1.42e+01 1d0nA d.109.1.1 59109 1jmkC 230 1.44e+01 c.69.1.22 71747 1crzA 403 1.50e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1c5kA 439 1.51e+01 1crzA b.68.4.1 27630 c.51.2.1 33212 1d0nA 729 1.53e+01 1d0nA d.109.1.1 40834 d.109.1.1 40835 d.109.1.1 40836 d.109.1.1 40837 d.109.1.1 40838 d.109.1.1 40839 1fxjA 331 1.53e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1pxtB 390 1.55e+01 1afwA c.95.1.1 35906 c.95.1.1 35907 1h2vZ 156 1.56e+01 d.58.7.1 76595 1nnmA 652 1.57e+01 1pg4A 652 1.57e+01 e.23.1.1 88067 1g5bA 221 1.59e+01 1g5bA d.159.1.3 60261 1jbeA 128 1.59e+01 3chy c.23.1.1 62845 1fp2A 352 1.61e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1m5wA 243 1.62e+01 c.1.24.1 84836 1yagG 125 1.67e+01 1d0nA d.109.1.1 40846 1qo3C 137 1.72e+01 1qo3C d.169.1.1 42350 1azwA 313 1.76e+01 1qtrA c.69.1.7 34658 1ei1A 391 1.77e+01 1aj6 d.14.1.3 37570 d.122.1.2 41104 1nm1G 125 1.79e+01 d.109.1.1 80653 1mmiA 366 1.80e+01 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1nqkA 381 1.81e+01 c.1.16.4 -5607 1q8bA 105 1.81e+01 unknown_sccs -9958 1ef8A 261 1.81e+01 1ef8A c.14.1.3 30921 1gw1A 376 1.83e+01 c.1.8.3 76361 1cye 129 1.90e+01 3chy c.23.1.1 31077 1iz7A 295 1.92e+01 c.69.1.8 76982 2ae2A 260 1.99e+01 1bdb c.2.1.2 29945 1ae1A 273 2.08e+01 1bdb c.2.1.2 29943 2polA 366 2.10e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1fjgS 93 2.11e+01 1qkfA d.28.1.1 38451 1cpn 208 2.11e+01 1axkA b.29.1.2 24175 1nox 205 2.12e+01 1nox d.90.1.1 40242 1nwbA 124 2.13e+01 b.124.1.1 86296 1nciA 110 2.13e+01 1edhA b.1.6.1 22191 1lldA 319 2.14e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 3chy 128 2.18e+01 3chy c.23.1.1 31038 1j9yA 385 2.24e+01 1j9yA c.1.8.3 62791 1odzA 386 2.26e+01 c.1.8.3 86889 1e6mA 128 2.27e+01 3chy c.23.1.1 31039 1el5A 389 2.28e+01 1b3mA c.3.1.2 30369 d.16.1.3 37937 1l9fA 389 2.31e+01 c.3.1.2 73716 d.16.1.3 73717 1h6rA 236 2.32e+01 d.22.1.1 65683 1hw7A 255 2.33e+01 1i7fA d.193.1.1 61297 1th8A 145 2.36e+01 1pxgA 382 2.47e+01 c.1.20.1 -5616 1ex7A 186 2.47e+01 1gky c.37.1.1 59537 1qkfA 92 2.50e+01 1qkfA d.28.1.1 38456 1lxnA 99 2.55e+01 d.58.48.1 84737 1r5yA 386 2.61e+01 c.1.20.1 -5626 1f3eA 386 2.64e+01 1pud c.1.20.1 29661 1gky 187 2.72e+01 1gky c.37.1.1 31839 1k4gA 386 2.72e+01 c.1.20.1 72054 1d8vA 263 2.78e+01 1mrj d.165.1.1 42193 1mrj 247 2.80e+01 1mrj d.165.1.1 42177 1eur 365 2.82e+01 1eut b.68.1.1 27607 1ijgA 309 2.88e+01 1fouA e.27.1.1 62493 1qu9A 128 2.88e+01 1qu9A d.79.1.1 39755 1qu9C 128 2.88e+01 1qu9A d.79.1.1 39757 1ub4C 85 2.96e+01 b.129.1.1 88401 1o58A 303 2.97e+01 c.79.1.1 -8503 1j6nA 303 3.00e+01 1cv2A 296 3.02e+01 1bn6A c.69.1.8 34680 1mj5A 302 3.04e+01 c.69.1.8 -8326 1ehiA 377 3.05e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1gikA 261 3.09e+01 d.165.1.1 -11545 1e8nA 710 3.10e+01 1qfmA b.69.7.1 27675 c.69.1.4 34643 1k32A 1045 3.18e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1h9sA 140 3.24e+01 1b9mA b.40.6.2 60843 b.40.6.2 60844 1hnnA 282 3.28e+01 c.66.1.15 65895 1euu 605 3.28e+01 1eut b.1.18.2 21892 b.18.1.1 23713 b.68.1.1 27610 1auk 489 3.30e+01 1auk c.76.1.2 35030 1oen 540 3.31e+01 1ayl c.91.1.1 64750 c.109.1.1 64751 1pud 386 3.38e+01 1pud c.1.20.1 29658 1o1zA 234 3.40e+01 c.1.18.3 86555 1h2wA 710 3.42e+01 b.69.7.1 76596 c.69.1.4 76597 1qfmA 710 3.50e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1ucaA 190 3.50e+01 d.124.1.1 88462 1i7fA 292 3.50e+01 1i7fA d.193.1.1 61888 1ucdA 190 3.51e+01 1b9mA 265 3.53e+01 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1rypH 205 3.54e+01 d.153.1.4 41876 1lgpA 116 3.61e+01 b.26.1.2 73890 1bk7A 190 3.66e+01 1bk7A d.124.1.1 41121 1m7bA 184 3.68e+01 c.37.1.8 74572 1bo4A 168 3.70e+01 1bo4A d.108.1.1 40798 1ixmB 192 3.82e+01 1ixmA d.123.1.1 41115 1o5oA 221 3.84e+01 c.61.1.1 -7954 1p2fA 220 3.84e+01 a.4.6.1 87720 c.23.1.1 87721 1h2xA 710 3.93e+01 b.69.7.1 76598 c.69.1.4 76599 1tmcA 175 3.93e+01 1agdA d.19.1.1 38258 1jetA 517 3.95e+01 1jevA c.94.1.1 35718 1n1mA 728 3.99e+01 b.70.3.1 79815 c.69.1.24 79816