# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-scores 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 1pft 50 2.94e-03 1pft g.41.3.1 45206 1ffkW 73 2.58e-01 1ffkW g.41.8.1 45315 1zy1B 197 4.10e-01 1vqoZ 83 4.86e-01 2ct7A 86 5.64e-01 1ww8A 439 5.92e-01 1vk6A 269 6.30e-01 d.113.1.4,d.113.1.4 100851,100852 1s72Z 73 6.39e-01 g.41.8.1 105345 2g2kA 170 9.67e-01 1zxzA 197 1.72e+00 1dsvA 31 1.90e+00 1dsvA g.40.1.1 45174 1wd2A 60 1.91e+00 g.44.1.1 109232 1dl6A 58 2.18e+00 1dl6A g.41.3.1 45207 1neeA 138 2.64e+00 d.241.1.1,g.59.1.1 91841,91842 1odhA 174 2.77e+00 d.239.1.1 86850 1rlyA 60 3.13e+00 g.41.3.1 104988 1jj2Y 73 3.49e+00 1ffkW g.41.8.1 63110 1jm1A 204 3.84e+00 b.33.1.1 71745 1yovA 537 4.07e+00 1rhoC 145 4.30e+00 1rhoA b.1.18.8 21901 1ogdA 131 4.35e+00 c.133.1.1 92893 1k0mA 241 4.36e+00 a.45.1.1,c.47.1.5 67949,67950 1zgwA 139 4.75e+00 1bc8C 93 5.28e+00 1awcA a.4.5.21 16168 1kmtA 141 5.41e+00 b.1.18.8 77442 1fsoA 139 5.77e+00 1rhoA b.1.18.8 60007 1n9dA 199 6.00e+00 a.26.1.1 85464 1rhoA 145 6.10e+00 1rhoA b.1.18.8 21899 1jm7A 112 6.74e+00 g.44.1.1 66880 1e4uA 78 7.13e+00 1e4uA g.44.1.1 59231 1qvbA 481 7.86e+00 1qvbA c.1.8.4 28983 1k0nA 241 7.99e+00 a.45.1.1,c.47.1.5 67953,67954 1l1oC 181 9.40e+00 b.40.4.3 73480 1gvjA 146 9.83e+00 a.4.5.21 90525 1upiA 225 9.92e+00 b.82.1.1 99757 1i5hW 50 1.00e+01 1i5hW b.72.1.1 61785 1vckA 115 1.03e+01 2aq4A 434 1.06e+01 1ee8A 266 1.06e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1bor 56 1.16e+01 1bor g.44.1.1 45324 1ptq 50 1.18e+01 1ptq g.49.1.1 45349 1far 52 1.20e+01 1far g.49.1.1 45351 1qxfA 66 1.27e+01 g.41.8.4 96527 1udg 244 1.29e+01 3eugA c.18.1.1 31016 1k81A 36 1.29e+01 g.59.1.1 72136 1u8bA 133 1.30e+01 1plq 258 1.37e+01 1plq d.131.1.2,d.131.1.2 41388,41389 1dgfA 497 1.39e+01 1cf9A e.5.1.1 42782 1wxiA 275 1.39e+01 1dghB 498 1.39e+01 1cf9A e.5.1.1 42791 1iml 76 1.42e+01 1iml g.39.1.3,g.39.1.3 45145,45146 1hfi 62 1.48e+01 1hfh g.18.1.1 44819 1n2sA 299 1.49e+01 c.2.1.2 79857 1u79A 129 1.50e+01 d.26.1.1 107714 1oahA 519 1.53e+01 a.138.1.3 86736 1ssn 136 1.57e+01 2sak d.15.5.1 37720 1exkA 79 1.60e+01 1exkA g.54.1.1 45384 2bwfA 77 1.63e+01 1euiA 228 1.64e+01 3eugA c.18.1.1 31028 1c76A 136 1.64e+01 2sak d.15.5.1 37718 1t3nA 388 1.65e+01 d.240.1.1,e.8.1.7 106363,106364 1frvA 264 1.66e+01 2frvA e.19.1.1 43308 1x75A 132 1.69e+01 2aheA 267 1.69e+01 1d0qA 103 1.74e+01 1d0qA g.41.3.2 45208 1cokA 68 1.75e+01 1cokA a.60.1.2 17945 1wpkA 146 1.75e+01 1faq 52 1.79e+01 1far g.49.1.1 45352 1etc 110 1.83e+01 1awcA a.4.5.21 16162 1rfs 139 1.83e+01 1rfs b.33.1.1 24434 1plr 258 1.87e+01 1plq d.131.1.2,d.131.1.2 41390,41391 2cklB 165 1.97e+01 1vd4A 62 1.98e+01 1rmd 116 1.98e+01 1rmd g.37.1.1,g.44.1.1 45025,45322 1fps 348 1.99e+01 1uby a.128.1.1 19436 2sak 121 2.02e+01 2sak d.15.5.1 37711 1wrvA 308 2.09e+01 1rb9 53 2.11e+01 1rb9 g.41.5.1 45214 1g25A 65 2.12e+01 1g25A g.44.1.1 45325 1ur6B 52 2.15e+01 g.44.1.1 99812 1qyp 57 2.16e+01 1qyp g.41.3.1 45205 8rxnA 52 2.17e+01 1rb9 g.41.5.1 45215 1udh 244 2.20e+01 3eugA c.18.1.1 31015 1pfvA 551 2.21e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 2a8mA 420 2.21e+01 1qqtA 551 2.26e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 16923,31590,45175 1f4lA 551 2.32e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1jgsA 138 2.33e+01 a.4.5.28 66683 1uby 367 2.37e+01 1uby a.128.1.1 19435 1fjgB 256 2.39e+01 1fjfB c.23.15.1 31400 1wfeA 86 2.42e+01 1t0bA 252 2.45e+01 c.23.16.6 106199 1sp1 29 2.52e+01 g.37.1.1 45051 1mea 28 2.57e+01 g.41.1.1 45176 1jzxM 60 2.57e+01 i.1.1.2 67887 1f62A 51 2.66e+01 1f62A g.50.1.2 45360 1v87A 114 2.70e+01 g.44.1.1 108422 1yt5A 258 2.84e+01 1u2xA 474 2.87e+01 c.72.1.3 107622 1yk4A 52 2.96e+01 1vor2 58 3.01e+01 1dx8A 70 3.05e+01 1rb9 g.41.5.1 45243 1afp 51 3.16e+01 1afp g.26.1.1 44947 1tbn 82 3.20e+01 1ptq g.49.1.1 45354 1preA 470 3.30e+01 1preA d.169.1.2,f.8.1.1 42437,43824 1dxsA 80 3.30e+01 1cokA a.60.1.2 17944 1wraA 308 3.35e+01 1r61A 207 3.37e+01 c.8.8.1 97138 1en7A 157 3.43e+01 1en7A a.140.4.1,d.4.1.5 64733,64734 1mswD 883 3.43e+01 e.8.1.3 79427 1lj5A 379 3.50e+01 e.1.1.1 73928 2ezvA 269 3.54e+01 2booA 247 3.54e+01 4rxn 54 3.56e+01 1rb9 g.41.5.1 45226 5rxn 54 3.56e+01 1rb9 g.41.5.1 45225 1e7lA 157 3.57e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1zip 217 3.59e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1nnhA 294 3.59e+01 d.104.1.1 92005 1kwjA 68 3.60e+01 a.138.1.1 68877 2bydA 323 3.61e+01 1jm7B 117 3.61e+01 g.44.1.1 66881 1rutX 188 3.62e+01 2bx9A 53 3.64e+01 1uayA 242 3.65e+01 c.2.1.2 88390 2a1rA 430 3.69e+01 1ldg 316 3.74e+01 1ceqA c.2.1.5,d.162.1.1 30165,42132 1t2dA 322 3.74e+01 c.2.1.5,d.162.1.1 99084,99085 1rdg 53 3.88e+01 1rb9 g.41.5.1 45221 1ceqA 316 3.91e+01 1ceqA c.2.1.5,d.162.1.1 30163,42130 1jnrB 150 3.97e+01 d.58.1.5 66969 1ypvA 313 3.98e+01 1yl35 60 4.00e+01 1weoA 93 4.17e+01 2d8vA 67 4.29e+01 2bhvA 246 4.31e+01 1hvyA 288 4.34e+01 1bkpA d.117.1.1 41049 1k7hA 476 4.39e+01 c.76.1.1 72101 1iro 54 4.47e+01 1rb9 g.41.5.1 45223 1jsxA 207 4.52e+01 c.66.1.20 71846 1flzA 228 4.55e+01 3eugA c.18.1.1 31027 1uh4A 637 4.59e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1ji1A 637 4.60e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 2cklA 108 4.60e+01 1chc 68 4.62e+01 1chc g.44.1.1 45323 1kdj 102 4.66e+01 1plc b.6.1.1 22864 5gcnA 166 4.66e+01 1yghA d.108.1.1 40807 1vhqA 232 4.69e+01 c.23.16.2 100696 2dg5B 190 4.80e+01 3eugA 229 4.83e+01 3eugA c.18.1.1 31018 1p9rA 418 4.88e+01 c.37.1.11 94399 4eugA 229 4.89e+01 3eugA c.18.1.1 31019 1l8dA 112 4.93e+01 h.4.12.1 73687 1qs1A 462 4.93e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 1eugA 229 4.94e+01 3eugA c.18.1.1 31021 1bq8A 54 5.05e+01 1rb9 g.41.5.1 45237 1bq9A 54 5.05e+01 1rb9 g.41.5.1 45238 1deoA 233 5.07e+01 1deoA c.23.10.4 31345 1brfA 53 5.07e+01 1rb9 g.41.5.1 45236 1adn 92 5.07e+01 1adn g.48.1.1 45348 2a9fA 398 5.09e+01 1i50L 70 5.10e+01 g.41.9.2 61766 7catA 506 5.12e+01 1cf9A e.5.1.1 42781 1b2jA 54 5.15e+01 1rb9 g.41.5.1 45231 1nx8A 273 5.17e+01 b.82.2.8 86374 2a20A 62 5.22e+01 2cjsC 62 5.26e+01 1ux6A 350 5.28e+01 b.29.1.16,g.75.1.1 100145,100146 1ty9A 222 5.35e+01 1eggA 147 5.39e+01 1eggA d.169.1.1 42333 1i6aA 219 5.61e+01 c.94.1.1 61827 1m33A 258 5.63e+01 c.69.1.26 78514 3daaA 277 5.68e+01 1daaA e.17.1.1 43272 1w2lA 99 5.78e+01 1daaA 282 5.80e+01 1daaA e.17.1.1 43270 2bdvA 231 5.86e+01 1dgaA 375 5.86e+01 1yagA 1ak2 233 5.90e+01 1zin c.37.1.1,g.41.2.1 31894,45195 1xkpC 143 5.94e+01 1fp0A 88 5.95e+01 1fp0A g.50.1.2 45361 1cl4A 60 5.96e+01 1cl4A g.40.1.1 45171 1une 123 5.96e+01 1poa a.133.1.2 19583 1r5mA 425 6.00e+01 1g8jB 133 6.08e+01 1g8jB b.33.1.1 24439 1q35A 320 6.09e+01 c.94.1.1 95661 1zin 217 6.10e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1atzB 189 6.16e+01 1atzA c.62.1.1 34133 1yagA 375 6.23e+01 1yagA c.55.1.1,c.55.1.1 33449,33450 1yqdA 366 6.23e+01 1ctl 85 6.27e+01 g.39.1.3,g.39.1.3 45133,45134 1pvmA 184 6.32e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1aky 221 6.34e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1a7cA 379 6.42e+01 1sek e.1.1.1 42660 1dl0A 37 6.48e+01 1dl0A g.3.6.2 44112 1m2kA 249 6.50e+01 c.31.1.5 84754 1ajw 145 6.53e+01 1rhoA b.1.18.8 21905 1xakA 83 6.54e+01 1mr1C 99 6.55e+01 d.217.1.2 79420 1h3nA 878 6.63e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1g8kB 133 6.65e+01 1g8jB b.33.1.1 24435 1h38B 883 6.67e+01 e.8.1.3 76626 1h38C 883 6.67e+01 e.8.1.3 76627 1h38D 883 6.69e+01 e.8.1.3 76628 1vq0A 302 6.73e+01 1k7cA 233 6.74e+01 c.23.10.4 68267 1adx 40 6.76e+01 1adx g.3.11.1 44315 2adx 40 6.87e+01 1adx g.3.11.1 44317 1c3hA 137 6.90e+01 b.22.1.1 90405 1g47A 77 6.96e+01 1g47A g.39.1.3,g.39.1.3 45147,45148 1woyA 500 7.06e+01 1wjpA 107 7.07e+01 1bnb 38 7.20e+01 1bnb g.9.1.1 44592 1ghr 306 7.26e+01 1aq0A c.1.8.3 28844 1fujA 221 7.27e+01 1a7s b.47.1.2 26349 1a67 108 7.27e+01 1cewI d.17.1.2 38000 1zkdA 387 7.30e+01 1hqcA 324 7.38e+01 1hqcA a.4.5.11,c.37.1.20 16127,32424 1k8kA 418 7.41e+01 c.55.1.1,c.55.1.1 68305,68306 1b8tA 192 7.42e+01 1b8tA g.39.1.3,g.39.1.3,g.39.1.3,g.39.1.3 45135,45136,45137,45138 1d4xA 375 7.43e+01 1yagA c.55.1.1,c.55.1.1 59107,59108 1fjgT 106 7.49e+01 1fjfT a.7.6.1 16338 1ard 29 7.59e+01 g.37.1.1 45033 1g4iA 123 7.60e+01 1poa a.133.1.2 60241 1nykA 165 7.65e+01 b.33.1.1 86408 1wuaA 375 7.65e+01 1a3gA 308 7.72e+01 1daaA e.17.1.1 43286 2bnh 457 7.76e+01 1a4yA c.10.1.1 30850 1qbhA 101 7.81e+01 1g3fA g.52.1.1 45374 2drpA 66 7.81e+01 2drpA g.37.1.1,g.37.1.1 45026,45027 1z6uA 150 7.81e+01 1db2A 377 7.92e+01 1sek e.1.1.1 42672 2cy2A 174 7.95e+01 2cy5A 140 7.96e+01 1ab4 477 8.23e+01 1ab4 e.11.1.1 43251 2occD 147 8.25e+01 1ocrD f.23.1.1 43521 1b13A 54 8.28e+01 1rb9 g.41.5.1 45227 6rxn 46 8.30e+01 1rb9 g.41.5.1 45222 1qhfA 240 8.32e+01 1qhfA c.60.1.1 33960 1ew4A 106 8.43e+01 1ew4A d.82.2.1 40023 1jb0F 164 8.47e+01 1jb0F f.23.16.1 62825 1egiA 147 8.51e+01 1eggA d.169.1.1 42331 1cv8 174 8.58e+01 1cv8 d.3.1.1 37089 1rttA 193 8.65e+01 c.23.5.4 105098 1tygB 87 8.67e+01 d.15.3.2 107455 2an1A 292 8.70e+01 1z52A 470 8.72e+01 1b77A 228 8.78e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1w6sB 74 8.83e+01 1gikA 261 8.84e+01 d.165.1.1 90513 2dasA 62 8.89e+01 2gu2A 312 8.91e+01 1v54D 147 8.91e+01 f.23.1.1 100325 1io1A 398 8.96e+01 1io1A e.32.1.1 62611