# 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 1gdgA 293 5.32e-05 1kw3B 292 1.15e-04 d.32.1.3 77549 d.32.1.3 77550 1dhy 292 2.26e-04 1han d.32.1.3 38504 d.32.1.3 38505 1han 297 1.68e-03 1han d.32.1.3 38506 d.32.1.3 38507 1lkdA 297 1.68e-03 d.32.1.3 78059 d.32.1.3 78060 1lgtA 297 3.29e-03 d.32.1.3 77956 d.32.1.3 77957 1jc4A 148 4.44e-02 1jc4A d.32.1.4 62863 1f9zA 135 1.11e-01 1qipA d.32.1.1 38484 1fa8A 135 1.19e-01 1qipA d.32.1.1 38486 1kllA 130 3.27e-01 d.32.1.2 72720 1af5 126 4.17e-01 1bp7A d.95.2.1 40572 1gkuB 1054 1.16e+00 c.37.1.16 65257 c.37.1.16 65258 e.10.1.1 65259 1g9zA 152 1.53e+00 1bp7A d.95.2.1 60408 1bp7A 152 1.54e+00 1bp7A d.95.2.1 40568 1obpA 159 1.90e+00 1obpA b.60.1.1 27092 1hn2A 159 1.97e+00 b.60.1.1 65890 1gt1A 159 1.97e+00 b.60.1.1 -4436 1dynA 125 2.60e+00 1dynA b.55.1.1 26955 2dynA 122 2.87e+00 1dynA b.55.1.1 26957 1q16B 512 4.88e+00 d.58.1.5 -9938 1f6bA 198 4.95e+00 c.37.1.8 64986 1i9gA 280 5.33e+00 c.66.1.13 62090 1eg7A 557 5.34e+00 1eg7A c.37.1.10 32241 1qqgA 264 5.45e+00 1qqgA b.55.1.2 26987 b.55.1.2 26988 7aatA 401 5.64e+00 1ajsA c.67.1.1 34250 3fruA 269 6.21e+00 1agdA b.1.1.2 20657 d.19.1.1 38150 1jotA 133 6.31e+00 1jotA 1p5hA 428 6.35e+00 c.123.1.1 87802 1eazA 125 6.59e+00 b.55.1.1 70113 1k0eA 453 6.64e+00 d.161.1.1 67938 1a8b 318 7.38e+00 1avc a.65.1.1 18171 1a8a 318 7.43e+00 1avc a.65.1.1 18169 2ran 316 7.46e+00 1avc a.65.1.1 18170 1jroB 777 7.58e+00 d.41.1.1 67141 d.133.1.1 67142 1hw1A 239 7.65e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1bh5A 183 8.27e+00 1qipA d.32.1.1 38476 8ohm 435 8.54e+00 1heiA c.37.1.14 32469 c.37.1.14 32470 1dxeA 256 9.02e+00 1dxeA c.1.12.5 29310 1cwoA 165 9.42e+00 2cpl b.62.1.1 27445 2cpl 165 9.76e+00 2cpl b.62.1.1 27420 1o0wA 252 9.82e+00 a.149.1.1 80751 d.50.1.1 80752 1awqA 164 9.90e+00 2cpl b.62.1.1 27461 1awsA 164 9.91e+00 2cpl b.62.1.1 27431 1skyE 473 1.01e+01 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1heiA 451 1.01e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 1mu5A 471 1.03e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1ftrA 296 1.06e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1v61A 132 1.08e+01 1hrhA 136 1.12e+01 1rthA c.55.3.1 33577 1lrzA 426 1.15e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1k3bA 119 1.16e+01 b.61.5.1 72016 1bkb 136 1.16e+01 1bkb b.34.5.2 24609 b.40.4.5 25341 1q9uA 130 1.18e+01 unknown_sccs -11025 1anxA 319 1.20e+01 1avc a.65.1.1 18161 1h8eD 482 1.30e+01 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1jmoA 480 1.30e+01 e.1.1.1 77138 1q1gA 276 1.39e+01 c.56.2.1 -7846 2pleA 105 1.43e+01 1qadA d.93.1.1 40522 1ge9A 184 1.45e+01 1dd5A d.67.3.1 60463 1gwyA 175 1.47e+01 b.97.1.1 83356 1k0gA 453 1.48e+01 d.161.1.1 67940 1faoA 126 1.49e+01 1faoA b.55.1.1 26974 1bykA 255 1.53e+01 1bykA c.93.1.1 35706 1fxjA 331 1.56e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1dkuA 317 1.57e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1lshA 1056 1.59e+01 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1eggA 147 1.71e+01 1eggA d.169.1.1 42333 1ibsA 317 1.75e+01 c.61.1.2 66107 c.61.1.2 66108 1nxzA 246 1.87e+01 b.122.1.2 86391 c.116.1.5 86392 1egiA 147 1.92e+01 1eggA d.169.1.1 42331 1hyvA 166 1.96e+01 1b9dA c.55.3.2 61424 1lqpA 135 1.98e+01 d.32.1.2 78151 1nkiA 135 1.98e+01 d.32.1.2 -9544 1e8oB 106 1.98e+01 1914 d.49.1.1 38775 1r72A 211 1.99e+01 unknown_sccs -215 unknown_sccs -5981 1btn 106 1.99e+01 1btn b.55.1.1 26952 1j5yA 187 2.00e+01 a.4.5.1 71592 d.94.2.1 71593 1r9cA 139 2.04e+01 d.32.1.2 -9557 1vhyA 257 2.13e+01 b.122.1.2 -5129 c.116.1.5 -6705 1ltqA 301 2.16e+01 c.108.1.9 78208 c.37.1.1 78209 1tmcA 175 2.20e+01 1agdA d.19.1.1 38258 1h6zA 913 2.21e+01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1c0aA 585 2.23e+01 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1kjvA 284 2.25e+01 b.1.1.2 77421 d.19.1.1 77422 1fg7A 356 2.26e+01 1gewA c.67.1.1 59819 1kawA 135 2.29e+01 3ullA b.40.4.3 25288 1dkrA 317 2.31e+01 1dkuA c.61.1.2 34114 c.61.1.2 34115 1oo0A 147 2.33e+01 d.232.1.1 87182 1f48A 589 2.34e+01 1f48A c.37.1.10 32280 c.37.1.10 32281 1amoA 615 2.44e+01 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1em8A 147 2.50e+01 unknown_sccs -7272 1ihuA 589 2.50e+01 c.37.1.10 62394 c.37.1.10 62395 1fxoA 293 2.53e+01 1g0rA c.68.1.6 34524 1f1uA 323 2.54e+01 d.32.1.3 83200 d.32.1.3 83201 1hsbA 270 2.56e+01 1agdA b.1.1.2 20736 d.19.1.1 38257 1lc0A 294 2.72e+01 c.2.1.3 73823 d.81.1.4 73824 1bak 119 2.73e+01 1bak b.55.1.1 26973 1q7bA 244 2.77e+01 c.2.1.2 -5826 1nowA 507 2.77e+01 c.1.8.6 85936 d.92.2.1 85937 1b9dA 163 2.77e+01 1b9dA c.55.3.2 33649 1ble 163 2.79e+01 1ble c.38.1.1 32475 1e79D 482 2.81e+01 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1uwzA 136 2.82e+01 1g0uI 205 2.87e+01 d.153.1.4 41891 1mpyA 307 2.87e+01 1mpyA d.32.1.3 38508 d.32.1.3 38509 1ddmA 135 2.88e+01 2nmbA b.55.1.2 26993 1jr7A 311 2.89e+01 b.82.2.3 63255 1hkeA 137 2.97e+01 1jy5A 212 2.97e+01 d.124.1.1 71940 1iv0A 98 2.97e+01 unknown_sccs -7667 1dttA 560 2.98e+01 1rthA c.55.3.1 33611 e.8.1.2 43088 1rypJ 204 3.06e+01 d.153.1.4 41878 1dssG 333 3.09e+01 1dssG c.2.1.3 30022 d.81.1.1 39937 1mogA 67 3.16e+01 d.230.2.1 85034 1hvd 319 3.17e+01 1avc a.65.1.1 18154 1crwG 333 3.18e+01 1dssG c.2.1.3 30026 d.81.1.1 39941 1r8sA 164 3.21e+01 c.37.1.8 -7082 1uuzA 137 3.26e+01 d.233.1.1 -9478 1brmA 367 3.29e+01 1brmA c.2.1.3 30030 d.81.1.1 39945 1jn5A 140 3.32e+01 d.17.4.2 66921 1vk3A 615 3.34e+01 d.79.4.1 -10416 d.79.4.1 -10417 d.139.1.1 -11154 d.139.1.1 -11155 1fwyA 331 3.36e+01 1fwyA b.81.1.4 28064 c.68.1.5 34522 1kdoA 227 3.36e+01 c.37.1.1 68478 1qipA 183 3.39e+01 1qipA d.32.1.1 38470 1gcuA 295 3.41e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1mkaA 171 3.45e+01 1mkaA d.38.1.2 38543 1kkeA 210 3.58e+01 b.21.1.2 68669 b.83.1.2 68670 1f1xA 322 3.64e+01 d.32.1.3 83208 d.32.1.3 83209 2dpg 485 3.72e+01 1dpgA c.2.1.3 30076 d.81.1.5 39991 1f0iA 504 3.74e+01 1f0iA d.136.1.2 59566 d.136.1.2 59567 1rthA 560 3.75e+01 1rthA c.55.3.1 33576 e.8.1.2 43028 1nouA 507 3.77e+01 c.1.8.6 85932 d.92.2.1 85933 1oywA 523 3.78e+01 unknown_sccs -270 c.37.1.19 -7209 c.37.1.19 -7210 1f3yA 165 3.80e+01 d.113.1.1 59635 1dpgA 485 3.83e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1v9kA 228 3.84e+01 1jacA 133 3.86e+01 1jotA 1v0wA 506 3.88e+01