# 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 1h5rA 293 2.87e-35 c.68.1.6 65623 1mp4A 292 5.45e-34 c.68.1.6 79376 1lvwA 295 5.59e-34 c.68.1.6 84723 1g0rA 293 8.14e-34 1g0rA c.68.1.6 34532 1fxoA 293 9.40e-34 1g0rA c.68.1.6 34524 1mc3A 296 2.88e-33 c.68.1.6 78943 1hm9A 468 2.20e-25 b.81.1.4 65866 c.68.1.5 65867 1g97A 459 3.48e-25 1fwyA b.81.1.4 60394 c.68.1.5 60395 1hv9A 456 1.40e-24 1fwyA b.81.1.4 28060 c.68.1.5 34518 1fwyA 331 2.42e-24 1fwyA b.81.1.4 28064 c.68.1.5 34522 1fxjA 331 2.61e-24 1fwyA b.81.1.4 28062 c.68.1.5 34520 1jykA 254 2.86e-20 c.68.1.13 67458 1h7eA 245 2.99e-14 c.68.1.13 60717 1vicA 262 2.28e-13 c.68.1.13 -8252 1i52A 236 7.86e-12 1i52A c.68.1.13 61767 1e5kA 201 9.65e-08 1fr9A c.68.1.8 34578 1vgwA 231 6.18e-07 c.68.1.13 -8237 1fr9A 194 8.15e-07 1fr9A c.68.1.8 34579 1eyrA 228 7.86e-06 1eyrA c.68.1.13 34514 1jv1A 505 1.17e-05 c.68.1.5 71892 1eziA 228 2.91e-05 1eyrA c.68.1.13 34512 1eu8A 409 1.59e-01 1eu8A c.94.1.1 59502 1i1wA 303 3.97e-01 c.1.8.3 76732 1v84A 253 4.26e-01 1gokA 303 4.74e-01 c.1.8.3 65420 1k6aA 303 4.86e-01 c.1.8.3 72081 1fxmA 302 4.87e-01 1taxA 1omzA 293 5.13e-01 c.68.1.15 87093 1jscA 630 5.32e-01 c.31.1.3 67224 c.36.1.5 67225 c.36.1.9 67226 1eluB 390 5.36e-01 1elqA c.67.1.3 34435 1kamA 194 6.31e-01 c.26.1.3 72254 1dqwA 267 6.60e-01 1dqwA c.1.2.3 28551 1elqA 390 6.63e-01 1elqA c.67.1.3 34436 1eluA 390 6.63e-01 1elqA c.67.1.3 34434 1fc4A 401 6.82e-01 1bs0A c.67.1.4 59760 1jx6A 342 9.53e-01 c.93.1.1 67406 1bli 483 1.25e+00 1bli b.71.1.1 27715 c.1.8.1 28702 1qj4A 257 1.34e+00 1qj4A c.69.1.20 34796 1yasA 257 1.46e+00 1qj4A c.69.1.20 34801 1ngvA 534 1.47e+00 c.111.1.2 85698 1cs1A 386 1.55e+00 1ibjA c.67.1.3 34399 1cs1C 386 1.90e+00 1ibjA c.67.1.3 34401 1ir6A 424 2.12e+00 c.107.1.2 71342 1o4sA 389 2.12e+00 c.67.1.1 86620 1tluA 130 2.12e+00 1j5rA 371 2.15e+00 1ozhA 566 2.47e+00 c.31.1.3 -6737 c.36.1.5 -6895 c.36.1.9 -6935 1b31A 302 3.14e+00 1taxA c.1.8.3 28892 1bg4 302 3.14e+00 1taxA c.1.8.3 28806 1b25A 619 3.56e+00 1b25A a.110.1.1 19044 d.152.1.1 41796 1bi5A 389 3.76e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1ga8A 311 3.81e+00 1ga8A c.68.1.4 34516 1k77A 260 3.94e+00 c.1.15.5 72096 1h70A 255 4.26e+00 1h70A d.126.1.3 60711 1cqzA 554 4.28e+00 1cr6B c.108.1.2 43339 c.69.1.11 34689 1i86A 389 4.32e+00 c.95.1.2 66068 c.95.1.2 66069 1g9rA 311 4.56e+00 1ga8A c.68.1.4 34517 1o2dA 371 4.83e+00 e.22.1.2 86591 1tux 301 4.97e+00 1taxA c.1.8.3 28907 1un7A 400 5.37e+00 b.92.1.5 -5077 c.1.9.10 -5429 1j7dA 145 6.17e+00 1jatB d.20.1.1 62680 1khdA 345 6.34e+00 a.46.2.1 77400 c.27.1.1 77401 1kekA 1231 6.67e+00 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 1g3qA 237 6.81e+00 1hyqA c.37.1.10 60237 1b0pA 1231 6.95e+00 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 2lgsA 468 7.10e+00 1lgr d.15.9.1 37838 d.128.1.1 41168 1vjoA 393 7.16e+00 c.67.1.3 -8173 1qv9A 283 7.17e+00 unknown_sccs -6888 1iugA 352 7.18e+00 c.67.1.3 -8176 1lgr 468 7.21e+00 1lgr d.15.9.1 37837 d.128.1.1 41167 1vjrA 271 7.31e+00 unknown_sccs -6853 1r3sA 367 7.60e+00 c.1.22.1 -5648 1vjs 483 7.69e+00 1bli b.71.1.1 27714 c.1.8.1 28701 1uroA 367 7.69e+00 1uroA c.1.22.1 29675 1poxA 585 7.96e+00 1poxA c.31.1.3 31731 c.36.1.5 31793 c.36.1.9 31794 1rdzA 337 8.05e+00 1frpA e.7.1.1 42882 1ionA 243 8.12e+00 c.37.1.10 62633 1lqtA 456 8.33e+00 c.3.1.1 74198 c.4.1.1 74199 1ie7C 570 8.61e+00 1ubpC b.92.1.1 62315 c.1.9.2 62316 1agx 331 8.64e+00 4pgaA c.88.1.1 35564 1luaA 287 8.77e+00 c.2.1.7 78216 c.58.1.4 78217 1s1pA 331 8.91e+00 c.1.7.1 -5240 1i88A 389 9.11e+00 c.95.1.2 66070 c.95.1.2 66071 1lkcA 364 9.23e+00 c.67.1.1 73978 3tgl 269 9.47e+00 3tgl c.69.1.17 34733 1fpkA 335 9.59e+00 1frpA e.7.1.1 42930 1hf2A 210 9.68e+00 1hf2A b.80.3.1 60992 c.102.1.1 60993 1jpmA 366 9.95e+00 c.1.11.2 67031 d.54.1.1 67032 1ayaA 101 1.01e+01 1qadA d.93.1.1 40460 4ubpC 570 1.01e+01 1ubpC b.92.1.1 28431 c.1.9.2 29053 1ubpC 570 1.01e+01 1ubpC b.92.1.1 28432 c.1.9.2 29054 1vc4A 254 1.06e+01 c.1.2.4 -5172 5fbpA 335 1.07e+01 1frpA e.7.1.1 42873 1cr6B 554 1.08e+01 1cr6B c.108.1.2 43338 c.69.1.11 34688 1hdoA 206 1.08e+01 1he2A c.2.1.2 60965 1jztA 246 1.11e+01 c.104.1.1 63319 1ep3B 262 1.12e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1cnv 299 1.15e+01 1cnv c.1.8.5 28989 1ipiA 123 1.29e+01 c.52.1.18 66255 1pfkA 320 1.29e+01 3pfk c.89.1.1 35575 1lc5A 364 1.30e+01 c.67.1.1 73827 2bpa2 175 1.31e+01 2bpa2 1egzA 291 1.36e+01 7a3hA c.1.8.3 28828 1q7zA 566 1.37e+01 c.1.21.2 -5638 c.1.26.1 -5666 1he2A 206 1.38e+01 1he2A c.2.1.2 60966 1f52A 468 1.42e+01 1lgr d.15.9.1 37839 d.128.1.1 41169 1rxwA 336 1.42e+01 a.60.7.1 -1041 c.120.1.2 -6680 1nkxA 348 1.43e+01 c.94.1.2 -8704 1nhkL 144 1.44e+01 1npk d.58.6.1 39142 1gefA 123 1.46e+01 1gefA c.52.1.18 60465 1nfjA 89 1.48e+01 d.68.6.1 -10285 1hwxA 501 1.61e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1fs0G 230 1.61e+01 1fs0G c.49.2.1 59999 1ezwA 349 1.63e+01 1ezwA c.1.16.3 29558 1dkgD 383 1.64e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1c7nA 399 1.64e+01 1d2fA c.67.1.3 34413 4xiaA 393 1.64e+01 4xis c.1.15.3 29439 1zfpE 98 1.64e+01 1griA d.93.1.1 40465 1eyqA 222 1.67e+01 1eypA d.36.1.1 38534 1jepA 222 1.67e+01 d.36.1.1 66612 1e5eA 404 1.68e+01 1ibjA c.67.1.3 59265 1nnwA 252 1.74e+01 d.159.1.5 80674 1bmbA 123 1.75e+01 1griA d.93.1.1 40466 2glsA 470 1.77e+01 1lgr d.15.9.1 37851 d.128.1.1 41181 1oacA 727 1.82e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1gkzA 388 1.82e+01 a.29.5.1 65268 d.122.1.4 65269 1d6zA 727 1.83e+01 1oacA b.30.2.1 24394 d.17.2.1 38015 d.17.2.1 38016 d.82.1.1 40007 1o69A 394 1.83e+01 c.67.1.4 -8209 1eypA 222 1.85e+01 1eypA d.36.1.1 38536 1p3wA 404 1.86e+01 c.67.1.3 87752 1f2fA 104 1.87e+01 1fmk d.93.1.1 40455 1jpnA 296 1.87e+01 a.24.13.1 67039 c.37.1.10 67040 1dg3A 592 1.91e+01 1dg3A a.114.1.1 19078 c.37.1.8 32153 1qjvA 342 1.93e+01 1qjvA b.80.1.5 28035 1g41A 444 1.98e+01 1do0A c.37.1.20 32450 1nzjA 298 2.00e+01 c.26.1.1 -6600 1efvA 315 2.02e+01 1efvA c.26.2.3 31633 c.31.1.2 31728 1qh3A 260 2.04e+01 1qh5A d.157.1.2 42059 1kfiA 572 2.04e+01 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 1ccwB 483 2.06e+01 1cb7B c.1.19.2 29646 1cb7B 483 2.08e+01 1cb7B c.1.19.2 29648 1fzaB 328 2.09e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1p80A 753 2.10e+01 c.23.16.3 -6547 e.5.1.1 -11840 1bdfA 235 2.13e+01 1bdfA d.74.3.1 39727 d.181.1.1 42602 1kz8A 337 2.13e+01 e.7.1.1 77633 1dvjA 246 2.15e+01 1dvjA c.1.2.3 28546 1mxgA 435 2.22e+01 b.71.1.1 85193 c.1.8.1 85194 1ehaA 558 2.23e+01 1ehaA b.1.18.2 21859 b.71.1.1 27786 c.1.8.1 28773 1a04A 215 2.23e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1spuB 727 2.24e+01 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 1nuyA 337 2.25e+01 e.7.1.1 86213 1ecxA 384 2.26e+01 1ecxA c.67.1.3 34431 1rxxA 421 2.26e+01 unknown_sccs -10982 2dkb 433 2.31e+01 2dkb c.67.1.4 34438 1m0qA 433 2.31e+01 c.67.1.4 78350 2pfkA 320 2.33e+01 3pfk c.89.1.1 35577 1cf9A 753 2.33e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1cj3A 392 2.36e+01 1pbe c.3.1.2 30347 d.16.1.2 37878 1v1rA 400 2.38e+01 1rkuA 206 2.38e+01 unknown_sccs -6823 3pga1 337 2.39e+01 4pgaA 1dvjC 246 2.40e+01 1dvjA c.1.2.3 28548 1dxy 333 2.42e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 1uayA 242 2.43e+01 c.2.1.2 88390 1gq6A 313 2.45e+01 c.42.1.1 70341 1nal1 297 2.54e+01 1nal3 1gwcA 230 2.59e+01 a.45.1.1 70660 c.47.1.5 70661 1jq5A 370 2.59e+01 e.22.1.2 67084 1iazA 179 2.59e+01 1iazA b.97.1.1 62131 1o5kA 306 2.60e+01 c.1.10.1 -5482 1gewA 356 2.65e+01 1gewA c.67.1.1 60470 1eg5A 384 2.66e+01 1ecxA c.67.1.3 34429 1uuqA 440 2.68e+01 c.1.8.3 -5321 1lu9A 287 2.71e+01 c.2.1.7 78210 c.58.1.4 78211 1rj9A 304 2.74e+01 a.24.13.1 -631 c.37.1.10 -7129 1gnuA 117 2.75e+01 d.15.1.3 65403 1m2dA 110 2.76e+01 c.47.1.11 78476 1griA 217 2.76e+01 1griA b.34.2.1 24531 b.34.2.1 24532 d.93.1.1 40473 1cydA 244 2.77e+01 1cydA c.2.1.2 29825 1jq3A 296 2.77e+01 c.66.1.17 67079 1qh5A 260 2.77e+01 1qh5A d.157.1.2 42057 1oxsC 353 2.77e+01 b.40.6.3 87519 c.37.1.12 87520 1vhcA 224 2.83e+01 c.1.10.1 -5488 1p2fA 220 2.83e+01 a.4.6.1 87720 c.23.1.1 87721 1gt6A 269 2.84e+01 c.69.1.17 76342 1fdyA 297 2.86e+01 1nal3 c.1.10.1 29071 1kotA 119 2.90e+01 d.15.1.3 68732 1kwsA 261 2.99e+01 c.68.1.7 73083 1hv8A 367 3.00e+01 1hv8A c.37.1.19 32405 c.37.1.19 32406 1frpA 335 3.01e+01 1frpA e.7.1.1 42875 1j9jA 247 3.03e+01 c.106.1.1 62758 1ng1 294 3.05e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1q35A 320 3.06e+01 c.94.1.1 -8658 1og6A 298 3.10e+01 c.1.7.1 86984 1aoxA 203 3.10e+01 1aoxA c.62.1.1 34151 1h5yA 253 3.11e+01 c.1.2.1 65638 1fggA 261 3.11e+01 1fggA c.68.1.7 34576 1ju5A 109 3.11e+01 d.93.1.1 77173 3pte 349 3.13e+01 3pte e.3.1.1 42687 1oltA 457 3.16e+01 unknown_sccs -5688 1jyrA 96 3.17e+01 d.93.1.1 71969 1geqA 248 3.18e+01 2tysA c.1.2.4 28589 1c3pA 375 3.19e+01 1c3pA c.42.1.2 32606 1jp3A 253 3.23e+01 1f75A c.101.1.1 63221 1rpxA 230 3.27e+01 1rpxA c.1.2.2 28536 1km4A 247 3.27e+01 c.1.2.3 72740 1c4qA 69 3.33e+01 2bosA b.40.2.1 25010 4ull 69 3.35e+01 2bosA b.40.2.1 25100 1nvmA 345 3.37e+01 a.5.7.1 86249 c.1.10.5 86250 1mroB 442 3.38e+01 1mroB a.89.1.1 18531 d.58.31.2 39449 1j9lA 247 3.38e+01 c.106.1.1 62762 1rztA 331 3.39e+01 a.60.6.1 -1023 a.60.12.1 -1030 d.218.1.2 -9807 1fg7A 356 3.39e+01 1gewA c.67.1.1 59819 1hbnB 442 3.43e+01 1mroB a.89.1.1 60900 d.58.31.2 60901 1li5A 461 3.47e+01 a.27.1.1 73912 c.26.1.1 73913 1q16B 512 3.49e+01 d.58.1.5 -9938 1q3kA 259 3.50e+01 unknown_sccs -6335 1j4aA 333 3.54e+01 c.2.1.4 71502 c.23.12.1 71503 1ka1A 357 3.57e+01 e.7.1.1 68369 1dgmA 363 3.58e+01 1bx4A c.72.1.1 34936 1b16A 254 3.61e+01 1b16A c.2.1.2 29875 1jrkA 156 3.61e+01 d.113.1.1 71827 1q1gA 276 3.63e+01 c.56.2.1 -7846 1tib 269 3.63e+01 3tgl c.69.1.17 34738 4rhv1 289 3.67e+01 1pov1 1i60A 278 3.67e+01 c.1.15.4 71118 1c0nA 406 3.67e+01 1c0nA c.67.1.3 34433 1nh9A 87 3.68e+01 d.68.6.1 -10287 1bovA 69 3.71e+01 2bosA b.40.2.1 25070 1cb0A 283 3.73e+01 1cb0A c.56.2.1 33790 1ci8A 392 3.75e+01 e.3.1.1 64765 2hgsA 474 3.76e+01 2hgsA c.30.1.4 31722 d.142.1.6 75997 1nal3 297 3.78e+01 1nal3 1uehA 253 3.82e+01 c.101.1.1 -6879 1pjr 724 3.86e+01 1pjr c.37.1.19 32391 c.37.1.19 32392 1cc1L 498 3.91e+01 1h2rL e.18.1.1 43301 1al0G 175 3.93e+01 2bpa2 b.121.5.1 23275 2ucz 165 3.93e+01 1u9aA d.20.1.1 38330 1t0iA 191 3.94e+01 1poiA 317 3.94e+01 1poiA unknown_sccs 34153 1s4nA 348 4.00e+01 unknown_sccs -8262