# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 4.60e-04 1kw3B 292 4.61e-04 d.32.1.3 77549 d.32.1.3 77550 1dhy 292 1.30e-03 1han d.32.1.3 38504 d.32.1.3 38505 1han 297 2.77e-03 1han d.32.1.3 38506 d.32.1.3 38507 1lkdA 297 2.94e-03 d.32.1.3 78059 d.32.1.3 78060 1lgtA 297 4.32e-03 d.32.1.3 77956 d.32.1.3 77957 1kllA 130 1.75e-02 d.32.1.2 72720 1f9zA 135 1.43e-01 1qipA d.32.1.1 38484 1fa8A 135 1.76e-01 1qipA d.32.1.1 38486 1jc4A 148 3.26e-01 1jc4A d.32.1.4 62863 1dynA 125 7.01e-01 1dynA b.55.1.1 26955 1k0gA 453 1.40e+00 d.161.1.1 67940 1hn2A 159 2.17e+00 b.60.1.1 65890 1gt1A 159 2.34e+00 b.60.1.1 -4436 2dynA 122 2.34e+00 1dynA b.55.1.1 26957 1a8a 318 2.40e+00 1avc a.65.1.1 18169 1obpA 159 2.43e+00 1obpA b.60.1.1 27092 1kjvA 284 2.49e+00 b.1.1.2 77421 d.19.1.1 77422 1uwzA 136 2.65e+00 7aatA 401 2.73e+00 1ajsA c.67.1.1 34250 1k0eA 453 2.90e+00 d.161.1.1 67938 1qopB 396 2.92e+00 2tysB c.79.1.1 35270 1i9gA 280 2.96e+00 c.66.1.13 62090 2tysB 397 3.06e+00 2tysB c.79.1.1 35272 1anxA 319 3.45e+00 1avc a.65.1.1 18161 1k8yB 396 3.55e+00 c.79.1.1 72184 2ran 316 3.62e+00 1avc a.65.1.1 18170 1faoA 126 4.08e+00 1faoA b.55.1.1 26974 1jtkA 136 4.18e+00 c.97.1.1 71862 1jr3A 373 4.23e+00 a.80.1.1 63245 c.37.1.20 63246 1oo0A 147 4.25e+00 d.232.1.1 87182 1eg7A 557 4.44e+00 1eg7A c.37.1.10 32241 1bksB 397 4.55e+00 2tysB c.79.1.1 35285 1a8b 318 4.60e+00 1avc a.65.1.1 18171 1hyvA 166 4.90e+00 1b9dA c.55.3.2 61424 1dik 874 4.91e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1kblA 873 5.02e+00 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1dxeA 256 5.19e+00 1dxeA c.1.12.5 29310 1skyE 473 5.35e+00 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1qqgA 264 5.44e+00 1qqgA b.55.1.2 26987 b.55.1.2 26988 1eazA 125 5.68e+00 b.55.1.1 70113 1hw1A 239 5.72e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1v61A 132 6.08e+00 3fruA 269 6.50e+00 1agdA b.1.1.2 20657 d.19.1.1 38150 2wsyB 396 6.54e+00 2tysB c.79.1.1 35288 1b9dA 163 6.67e+00 1b9dA c.55.3.2 33649 1q16B 512 7.92e+00 d.58.1.5 -9938 1ltqA 301 8.06e+00 c.108.1.9 78208 c.37.1.1 78209 1e79D 482 8.10e+00 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1jotA 133 8.74e+00 1jotA 1khdA 345 8.80e+00 a.46.2.1 77400 c.27.1.1 77401 1f1uA 323 9.48e+00 d.32.1.3 83200 d.32.1.3 83201 1vhyA 257 9.71e+00 b.122.1.2 -5129 c.116.1.5 -6705 1m2tA 254 9.73e+00 d.165.1.1 84761 1h8eD 482 1.04e+01 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1e8oB 106 1.05e+01 1914 d.49.1.1 38775 1mogA 67 1.09e+01 d.230.2.1 85034 1tmcA 175 1.12e+01 1agdA d.19.1.1 38258 1qgvA 142 1.14e+01 1qgvA c.47.1.8 33056 1pms 136 1.14e+01 1awe b.55.1.1 26966 1ddgA 374 1.17e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1ftrA 296 1.20e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1iv0A 98 1.24e+01 unknown_sccs -7667 1f1xA 322 1.26e+01 d.32.1.3 83208 d.32.1.3 83209 1hsbA 270 1.32e+01 1agdA b.1.1.2 20736 d.19.1.1 38257 1q7bA 244 1.34e+01 c.2.1.2 -5826 8ohm 435 1.35e+01 1heiA c.37.1.14 32469 c.37.1.14 32470 1bykA 255 1.39e+01 1bykA c.93.1.1 35706 1j5yA 187 1.39e+01 a.4.5.1 71592 d.94.2.1 71593 1h6zA 913 1.46e+01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1p99A 295 1.47e+01 c.94.1.1 -8697 1kyqA 274 1.49e+01 c.2.1.11 73281 e.37.1.1 73282 1uypA 432 1.52e+01 unknown_sccs -3480 unknown_sccs -4554 2pldA 105 1.53e+01 1qadA d.93.1.1 40521 1v88A 130 1.55e+01 1b4bA 71 1.63e+01 1b4aA d.74.2.1 39718 1bak 119 1.69e+01 1bak b.55.1.1 26973 1fxoA 293 1.74e+01 1g0rA c.68.1.6 34524 1o0wA 252 1.76e+01 a.149.1.1 80751 d.50.1.1 80752 1heiA 451 1.77e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 2wsyA 268 1.79e+01 2tysA c.1.2.4 28588 1utwA 432 1.79e+01 2pth 193 1.82e+01 2pth c.56.3.1 33793 1cjxA 357 1.83e+01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1ihkA 174 1.83e+01 1bfg b.42.1.1 62384 1eggA 147 1.91e+01 1eggA d.169.1.1 42333 1e2xA 243 1.93e+01 1e2xA a.4.5.6 16113 a.78.1.1 18443 1awqA 164 2.01e+01 2cpl b.62.1.1 27461 1ogiA 303 2.04e+01 b.43.4.2 -4042 c.25.1.1 -6587 1vddA 228 2.11e+01 1go2A 304 2.17e+01 b.43.4.2 76243 c.25.1.1 76244 1bl3A 160 2.20e+01 1b9dA c.55.3.2 33655 1kte 105 2.24e+01 1kte c.47.1.1 32771 1awsA 164 2.26e+01 2cpl b.62.1.1 27431 2pleA 105 2.27e+01 1qadA d.93.1.1 40522 1gkuB 1054 2.29e+01 c.37.1.16 65257 c.37.1.16 65258 e.10.1.1 65259 1duzA 275 2.33e+01 1agdA b.1.1.2 20670 d.19.1.1 38224 1nzoA 363 2.36e+01 b.105.1.1 -2933 e.3.1.1 -11784 1kawA 135 2.37e+01 3ullA b.40.4.3 25288 1egiA 147 2.40e+01 1eggA d.169.1.1 42331 1r72A 211 2.42e+01 unknown_sccs -215 unknown_sccs -5981 1f6bA 198 2.45e+01 c.37.1.8 64986 1j5pA 253 2.47e+01 c.2.1.3 83092 d.81.1.3 71577 1que 303 2.49e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1l92 164 2.49e+01 1l92 d.2.1.3 36629 1lc0A 294 2.50e+01 c.2.1.3 73823 d.81.1.4 73824 1b2rA 304 2.50e+01 1fnc b.43.4.2 25648 c.25.1.1 31538 1kkeA 210 2.57e+01 b.21.1.2 68669 b.83.1.2 68670 1amoA 615 2.57e+01 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 2cpl 165 2.58e+01 2cpl b.62.1.1 27420 1cwoA 165 2.61e+01 2cpl b.62.1.1 27445 1lrzA 426 2.63e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1v9kA 228 2.63e+01 1o0uA 429 2.63e+01 c.118.1.1 80743 1qh0A 295 2.64e+01 b.43.4.2 68891 c.25.1.1 68892 1omwA 689 2.70e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1f20A 435 2.74e+01 b.43.4.1 64932 c.25.1.4 64933 1c0aA 585 2.74e+01 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1lw9A 164 2.78e+01 d.2.1.3 84727 119l 164 2.85e+01 1l92 d.2.1.3 36622 1p36A 164 2.86e+01 d.2.1.3 -8840 1gcuA 295 2.92e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1snc 149 2.94e+01 1snc b.40.1.1 24813 1pqnA 127 2.96e+01 c.47.1.8 -7479 1gtrA 553 3.04e+01 1gtrA b.53.1.2 26939 c.26.1.1 31578 1mb4A 370 3.15e+01 c.2.1.3 78908 d.81.1.1 78909 1mu5A 471 3.18e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1g0rA 293 3.18e+01 1g0rA c.68.1.6 34532 1p5hA 428 3.21e+01 c.123.1.1 87802 1q9uA 130 3.22e+01 unknown_sccs -11025 1mi0A 65 3.26e+01 d.15.7.1 79135 1uch 230 3.26e+01 1uch d.3.1.6 37129 1itg 166 3.29e+01 1b9dA c.55.3.2 33661 1avc 673 3.41e+01 1avc a.65.1.1 18178 a.65.1.1 18179 1gh9A 71 3.44e+01 1gh9A g.41.6.1 45266 1t3lA 337 3.46e+01 1k5nA 276 3.50e+01 b.1.1.2 77266 d.19.1.1 77267 1t6uA 117 3.57e+01 1uddA 226 3.62e+01 1b4aA 149 3.64e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1lqpA 135 3.69e+01 d.32.1.2 78151 1rcf 169 3.70e+01 1rcf c.23.5.1 31170 1dkuA 317 3.76e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1uz5A 402 3.78e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1awe 130 3.78e+01 1awe b.55.1.1 26968 1kdoA 227 3.81e+01 c.37.1.1 68478 1i4fA 275 3.92e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1ue1A 164 3.93e+01 b.40.4.3 -3905 1dkrA 317 3.99e+01 1dkuA c.61.1.2 34114 c.61.1.2 34115