# 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 1.50e-03 1pft g.41.3.1 45206 1ffkW 73 2.17e-01 1ffkW g.41.8.1 45315 1ww8A 439 2.59e-01 1vk6A 269 5.70e-01 d.113.1.4,d.113.1.4 100851,100852 2ct7A 86 5.96e-01 1vqoZ 83 6.57e-01 1s72Z 73 8.11e-01 g.41.8.1 105345 1zy1B 197 9.05e-01 1jm1A 204 1.47e+00 b.33.1.1 71745 1odhA 174 1.96e+00 d.239.1.1 86850 1dsvA 31 2.02e+00 1dsvA g.40.1.1 45174 1wd2A 60 2.16e+00 g.44.1.1 109232 1dl6A 58 2.29e+00 1dl6A g.41.3.1 45207 1neeA 138 2.40e+00 d.241.1.1,g.59.1.1 91841,91842 1rhoC 145 2.43e+00 1rhoA b.1.18.8 21901 1qvbA 481 2.47e+00 1qvbA c.1.8.4 28983 1kmtA 141 2.96e+00 b.1.18.8 77442 1zxzA 197 3.15e+00 1fsoA 139 3.19e+00 1rhoA b.1.18.8 60007 1ogdA 131 3.26e+00 c.133.1.1 92893 1rhoA 145 3.42e+00 1rhoA b.1.18.8 21899 1jj2Y 73 3.56e+00 1ffkW g.41.8.1 63110 1rlyA 60 3.67e+00 g.41.3.1 104988 1zgwA 139 3.90e+00 1e4uA 78 4.13e+00 1e4uA g.44.1.1 59231 1k0mA 241 4.51e+00 a.45.1.1,c.47.1.5 67949,67950 1jm7A 112 4.71e+00 g.44.1.1 66880 1oahA 519 4.77e+00 a.138.1.3 86736 2aq4A 434 5.03e+00 1k0nA 241 5.82e+00 a.45.1.1,c.47.1.5 67953,67954 1ptq 50 6.07e+00 1ptq g.49.1.1 45349 1iml 76 6.78e+00 1iml g.39.1.3,g.39.1.3 45145,45146 1yovA 537 6.93e+00 1dgfA 497 6.95e+00 1cf9A e.5.1.1 42782 1dghB 498 7.06e+00 1cf9A e.5.1.1 42791 1plq 258 7.48e+00 1plq d.131.1.2,d.131.1.2 41388,41389 1ee8A 266 7.67e+00 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1bc8C 93 8.12e+00 1awcA a.4.5.21 16168 1d0qA 103 9.03e+00 1d0qA g.41.3.2 45208 1qxfA 66 9.54e+00 g.41.8.4 96527 1u8bA 133 1.01e+01 1plr 258 1.01e+01 1plq d.131.1.2,d.131.1.2 41390,41391 1gvjA 146 1.03e+01 a.4.5.21 90525 1n9dA 199 1.04e+01 a.26.1.1 85464 1u79A 129 1.07e+01 d.26.1.1 107714 1i5hW 50 1.16e+01 1i5hW b.72.1.1 61785 1wxiA 275 1.17e+01 1k81A 36 1.17e+01 g.59.1.1 72136 1ur6B 52 1.18e+01 g.44.1.1 99812 1vckA 115 1.21e+01 1euiA 228 1.22e+01 3eugA c.18.1.1 31028 2a1rA 430 1.24e+01 1x75A 132 1.25e+01 1cokA 68 1.27e+01 1cokA a.60.1.2 17945 1wpkA 146 1.27e+01 1l1oC 181 1.28e+01 b.40.4.3 73480 1ssn 136 1.31e+01 2sak d.15.5.1 37720 1far 52 1.31e+01 1far g.49.1.1 45351 1c76A 136 1.36e+01 2sak d.15.5.1 37718 2sak 121 1.39e+01 2sak d.15.5.1 37711 1rfs 139 1.42e+01 1rfs b.33.1.1 24434 1g25A 65 1.49e+01 1g25A g.44.1.1 45325 1exkA 79 1.51e+01 1exkA g.54.1.1 45384 1bor 56 1.52e+01 1bor g.44.1.1 45324 1udg 244 1.53e+01 3eugA c.18.1.1 31016 1n2sA 299 1.58e+01 c.2.1.2 79857 1hfi 62 1.67e+01 1hfh g.18.1.1 44819 2cklB 165 1.67e+01 1t3nA 388 1.69e+01 d.240.1.1,e.8.1.7 106363,106364 1vd4A 62 1.70e+01 2a9fA 398 1.74e+01 1upiA 225 1.79e+01 b.82.1.1 99757 1etc 110 1.79e+01 1awcA a.4.5.21 16162 1f62A 51 1.80e+01 1f62A g.50.1.2 45360 7catA 506 1.83e+01 1cf9A e.5.1.1 42781 2bwfA 77 1.84e+01 1rmd 116 1.86e+01 1rmd g.37.1.1,g.44.1.1 45025,45322 1fps 348 1.88e+01 1uby a.128.1.1 19436 2aheA 267 1.93e+01 1faq 52 1.93e+01 1far g.49.1.1 45352 1i6aA 219 1.97e+01 c.94.1.1 61827 1kdj 102 2.02e+01 1plc b.6.1.1 22864 1rb9 53 2.06e+01 1rb9 g.41.5.1 45214 1rutX 188 2.08e+01 8rxnA 52 2.09e+01 1rb9 g.41.5.1 45215 1qyp 57 2.11e+01 1qyp g.41.3.1 45205 1udh 244 2.13e+01 3eugA c.18.1.1 31015 1uby 367 2.17e+01 1uby a.128.1.1 19435 1sp1 29 2.19e+01 g.37.1.1 45051 1dx8A 70 2.19e+01 1rb9 g.41.5.1 45243 1yk4A 52 2.22e+01 1jzxM 60 2.28e+01 i.1.1.2 67887 1u2xA 474 2.35e+01 c.72.1.3 107622 1v87A 114 2.45e+01 g.44.1.1 108422 1dxsA 80 2.51e+01 1cokA a.60.1.2 17944 1i50L 70 2.54e+01 g.41.9.2 61766 1yagA 375 2.57e+01 1yagA c.55.1.1,c.55.1.1 33449,33450 1wrvA 308 2.62e+01 1vhqA 232 2.67e+01 c.23.16.2 100696 1c9qA 117 2.70e+01 1c9qA g.52.1.1 45377 1pfvA 551 2.76e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1jgsA 138 2.80e+01 a.4.5.28 66683 1wfeA 86 2.83e+01 1jm7B 117 2.84e+01 g.44.1.1 66881 1qqtA 551 2.85e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 16923,31590,45175 1f4lA 551 2.86e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1g47A 77 2.89e+01 1g47A g.39.1.3,g.39.1.3 45147,45148 1chc 68 2.89e+01 1chc g.44.1.1 45323 2a8mA 420 2.92e+01 1l8dA 112 2.93e+01 h.4.12.1 73687 1fjgB 256 2.96e+01 1fjfB c.23.15.1 31400 4rxn 54 2.96e+01 1rb9 g.41.5.1 45226 5rxn 54 2.96e+01 1rb9 g.41.5.1 45225 2cklA 108 3.00e+01 1en7A 157 3.01e+01 1en7A a.140.4.1,d.4.1.5 64733,64734 1lj5A 379 3.10e+01 e.1.1.1 73928 2bhvA 246 3.13e+01 1vor2 58 3.14e+01 1e7lA 157 3.18e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1mea 28 3.21e+01 g.41.1.1 45176 1dgaA 375 3.36e+01 1yagA 1dxgA 36 3.45e+01 1dxgA g.41.5.2 45247 2ezvA 269 3.46e+01 1t0bA 252 3.46e+01 c.23.16.6 106199 1weoA 93 3.47e+01 1q35A 320 3.51e+01 c.94.1.1 95661 1afp 51 3.51e+01 1afp g.26.1.1 44947 2cy5A 140 3.54e+01 1ctl 85 3.55e+01 g.39.1.3,g.39.1.3 45133,45134 1adn 92 3.58e+01 1adn g.48.1.1 45348 1tbn 82 3.61e+01 1ptq g.49.1.1 45354 1iro 54 3.63e+01 1rb9 g.41.5.1 45223 1flzA 228 3.65e+01 3eugA c.18.1.1 31027 1rdg 53 3.66e+01 1rb9 g.41.5.1 45221 3daaA 277 3.71e+01 1daaA e.17.1.1 43272 5gcnA 166 3.71e+01 1yghA d.108.1.1 40807 1kwjA 68 3.71e+01 a.138.1.1 68877 2bx9A 53 3.71e+01 1hvyA 288 3.74e+01 1bkpA d.117.1.1 41049 1yl35 60 3.75e+01 1mr1C 99 3.79e+01 d.217.1.2 79420 1daaA 282 3.81e+01 1daaA e.17.1.1 43270 1wraA 308 3.81e+01 3eugA 229 3.88e+01 3eugA c.18.1.1 31018 1xakA 83 3.89e+01 1h3nA 878 3.90e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1ypvA 313 3.92e+01 4eugA 229 3.92e+01 3eugA c.18.1.1 31019 1eugA 229 3.93e+01 3eugA c.18.1.1 31021 2booA 247 3.94e+01 1ajw 145 4.00e+01 1rhoA b.1.18.8 21905 1bq8A 54 4.06e+01 1rb9 g.41.5.1 45237 1bq9A 54 4.06e+01 1rb9 g.41.5.1 45238 1brfA 53 4.09e+01 1rb9 g.41.5.1 45236 1frvA 264 4.14e+01 2frvA e.19.1.1 43308 1wuaA 375 4.14e+01 1d4xA 375 4.15e+01 1yagA c.55.1.1,c.55.1.1 59107,59108 1preA 470 4.16e+01 1preA d.169.1.2,f.8.1.1 42437,43824 1fp0A 88 4.16e+01 1fp0A g.50.1.2 45361 1b2jA 54 4.20e+01 1rb9 g.41.5.1 45231 1nykA 165 4.29e+01 b.33.1.1 86408 1yt5A 258 4.30e+01 2pcy 99 4.31e+01 1plc b.6.1.1 22849 1uh4A 637 4.33e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1ji1A 637 4.37e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 2a20A 62 4.38e+01 1r5mA 425 4.41e+01 1b8tA 192 4.44e+01 1b8tA g.39.1.3,g.39.1.3,g.39.1.3,g.39.1.3 45135,45136,45137,45138 1mswD 883 4.53e+01 e.8.1.3 79427 1p9rA 418 4.55e+01 c.37.1.11 94399 1ty9A 222 4.58e+01 1uayA 242 4.58e+01 c.2.1.2 88390 1m33A 258 4.65e+01 c.69.1.26 78514 1pvmA 184 4.67e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1ag6 99 4.72e+01 1plc b.6.1.1 22857 1nx8A 273 4.77e+01 b.82.2.8 86374 1zip 217 4.79e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1tqnA 486 4.86e+01 a.104.1.1 107238 1k7hA 476 4.88e+01 c.76.1.1 72101 1wjpA 107 4.92e+01 1f89A 291 4.99e+01 d.160.1.1 64988 1ak2 233 5.06e+01 1zin c.37.1.1,g.41.2.1 31894,45195 1nnhA 294 5.13e+01 d.104.1.1 92005 1c3hA 137 5.15e+01 b.22.1.1 90405 1qs1A 462 5.24e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 1plc 99 5.30e+01 1plc b.6.1.1 22846 1ew4A 106 5.32e+01 1ew4A d.82.2.1 40023 1k3eA 156 5.38e+01 d.198.1.1 68103 1r61A 207 5.42e+01 c.8.8.1 97138 1aky 221 5.56e+01 1zin c.37.1.1,g.41.2.1 31896,45197 2dg5B 190 5.60e+01 1k8kA 418 5.64e+01 c.55.1.1,c.55.1.1 68305,68306 1xkpC 143 5.64e+01 1yqdA 366 5.70e+01 1a7cA 379 5.76e+01 1sek e.1.1.1 42660 1bnb 38 5.77e+01 1bnb g.9.1.1 44592 1atzB 189 5.78e+01 1atzA c.62.1.1 34133 1ab4 477 5.84e+01 1ab4 e.11.1.1 43251 2drpA 66 5.87e+01 2drpA g.37.1.1,g.37.1.1 45026,45027 830cA 168 6.04e+01 1ck7A d.92.1.11 40400 1jnrB 150 6.04e+01 d.58.1.5 66969 2dabA 282 6.07e+01 1daaA e.17.1.1 43274 1a0gA 282 6.11e+01 1daaA e.17.1.1 43276 1iugA 352 6.20e+01 c.67.1.3 90699 2bydA 323 6.21e+01 1woyA 500 6.27e+01 1a67 108 6.30e+01 1cewI d.17.1.2 38000 2bdvA 231 6.35e+01 1vfyA 73 6.37e+01 1vfyA g.50.1.1 45357 1qdlA 422 6.42e+01 1qdlA d.161.1.1 42088 1dl0A 37 6.48e+01 1dl0A g.3.6.2 44112 1jmsA 381 6.52e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 2ahuA 531 6.52e+01 1c28A 135 6.57e+01 1c28A b.22.1.1 23857 6rxn 46 6.61e+01 1rb9 g.41.5.1 45222 1qz5A 375 6.69e+01 c.55.1.1,c.55.1.1 96614,96615 1qhfA 240 6.69e+01 1qhfA c.60.1.1 33960 1bovA 69 6.75e+01 2bosA b.40.2.1 25070 2pspA 106 6.76e+01 2pspA g.16.1.1,g.16.1.1 44730,44731 1vq0A 302 6.80e+01 1zin 217 6.91e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1ard 29 6.96e+01 g.37.1.1 45033 1m2kA 249 6.96e+01 c.31.1.5 84754 1qbhA 101 7.03e+01 1g3fA g.52.1.1 45374 1b13A 54 7.03e+01 1rb9 g.41.5.1 45227 1z6uA 150 7.04e+01 1db2A 377 7.12e+01 1sek e.1.1.1 42672 1fujA 221 7.35e+01 1a7s b.47.1.2 26349 1h38B 883 7.39e+01 e.8.1.3 76626 1h38C 883 7.47e+01 e.8.1.3 76627 1ghr 306 7.48e+01 1aq0A c.1.8.3 28844 1h38D 883 7.51e+01 e.8.1.3 76628 1fjgT 106 7.56e+01 1fjfT a.7.6.1 16338 1cr8A 42 7.61e+01 1ajj g.12.1.1 44613 1dgsA 667 7.69e+01 1dgsA a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 2b9dA 52 7.71e+01 2an1A 292 7.76e+01 2cy2A 174 7.76e+01 1atnA 373 7.77e+01 1yagA c.55.1.1,c.55.1.1 33437,33438 1hqcA 324 7.85e+01 1hqcA a.4.5.11,c.37.1.20 16127,32424 1b77A 228 7.85e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1cl4A 60 7.85e+01 1cl4A g.40.1.1 45171 1g8jB 133 7.85e+01 1g8jB b.33.1.1 24439 1a3gA 308 7.89e+01 1daaA e.17.1.1 43286 1g8kB 133 7.89e+01 1g8jB b.33.1.1 24435 2au3A 407 7.90e+01 1zud1 251 7.92e+01 1zkdA 387 8.05e+01 1twfL 70 8.06e+01 1v54F 98 8.12e+01 g.41.5.3 100327 1rttA 193 8.13e+01 c.23.5.4 105098 2avuE 192 8.14e+01 1m2vB 926 8.19e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78497,78498,78499,78500,78501 1jb0F 164 8.33e+01 1jb0F f.23.16.1 62825 1cv8 174 8.40e+01 1cv8 d.3.1.1 37089 1euvB 86 8.41e+01 1a5r d.15.1.1 37598 1e53A 59 8.44e+01 1e53A g.49.1.2 45356 1jr7A 311 8.63e+01 b.82.2.3 63255 2occF 98 8.66e+01 2occF g.41.5.3 45256 1ldg 316 8.86e+01 1ceqA c.2.1.5,d.162.1.1 30165,42132 1z4rA 168 8.89e+01 1ceqA 316 8.92e+01 1ceqA c.2.1.5,d.162.1.1 30163,42130 1ux6A 350 8.96e+01 b.29.1.16,g.75.1.1 100145,100146 1nxjA 183 8.96e+01 c.8.7.1 86382