# List of top-scoring protein chains for T0246.t2k-w0.5 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 1cnzA 363 3.04e-64 1cnzA c.77.1.1 35061 1cm7A 363 3.60e-64 1cnzA c.77.1.1 35063 2ayqA 366 4.47e-64 1cnzA c.77.1.1 35057 1a05A 358 5.41e-63 1cnzA c.77.1.1 35059 1xad 345 3.09e-62 1cnzA c.77.1.1 35055 1osjA 345 1.04e-61 1cnzA c.77.1.1 35039 1gc8A 345 1.23e-61 1cnzA c.77.1.1 35042 1g2uA 345 1.40e-61 1cnzA c.77.1.1 35036 1xaa 345 1.71e-61 1cnzA c.77.1.1 35033 1dr0A 346 2.00e-61 1cnzA c.77.1.1 35045 1ipd 345 2.08e-61 1cnzA c.77.1.1 35038 1dpzA 349 2.16e-61 1cnzA c.77.1.1 35053 1gc9A 345 2.63e-61 1cnzA c.77.1.1 35037 1dr8A 344 2.64e-61 1cnzA c.77.1.1 35051 1walA 345 2.94e-61 1cnzA c.77.1.1 35041 1idm 343 3.08e-61 1cnzA c.77.1.1 35035 1iso 416 6.00e-58 1iso c.77.1.1 35065 1bl5 414 2.83e-57 1iso c.77.1.1 35083 1pb1A 416 2.83e-57 c.77.1.1 88014 1grp 416 3.15e-57 1iso c.77.1.1 35077 6icd 416 3.62e-57 1iso c.77.1.1 35081 1hj6A 416 4.32e-57 1iso c.77.1.1 35070 1cw7A 416 4.48e-57 1iso c.77.1.1 35087 1gro 416 4.79e-57 1iso c.77.1.1 35079 1ide 416 6.14e-57 1iso c.77.1.1 35082 1hqsA 423 7.41e-57 1iso c.77.1.1 61154 1cw4A 416 7.57e-57 1iso c.77.1.1 35068 1lwdA 413 1.12e-45 c.77.1.1 78265 1t0lA 414 1.30e-43 1itwA 741 1.07e-01 c.77.1.2 76793 1rerA 391 4.76e-01 b.1.18.4 -2740 f.10.1.1 -12385 1i9wA 390 4.76e-01 b.1.18.4 71163 f.10.1.1 71164 1lf1A 308 5.12e-01 c.1.8.3 73877 1li0A 263 1.34e+00 e.3.1.1 77968 1h5vA 304 2.03e+00 c.1.8.3 70898 7a3hA 303 2.03e+00 7a3hA c.1.8.3 28817 1qi2A 305 2.03e+00 7a3hA c.1.8.3 28824 1a3h 300 2.07e+00 7a3hA c.1.8.3 28819 1li9A 263 2.72e+00 e.3.1.1 77969 1t3lA 337 2.73e+00 1jykA 254 2.90e+00 c.68.1.13 67458 1fqgA 263 4.44e+00 1btl e.3.1.1 42699 1vjiA 372 4.80e+00 c.1.4.1 -5197 1vyuA 351 5.36e+00 1ylvA 342 6.71e+00 1b4kA c.1.10.3 29180 1esuA 263 6.93e+00 1btl e.3.1.1 42696 1m40A 263 7.22e+00 e.3.1.1 74437 1hyp 80 7.42e+00 1hyp a.52.1.1 17806 1ermA 263 7.76e+00 1btl e.3.1.1 42690 1h7nA 340 7.76e+00 1b4kA c.1.10.3 60726 1h7oA 341 7.78e+00 c.1.10.3 60727 1ohlA 342 7.81e+00 c.1.10.3 87035 1lhyA 263 8.07e+00 e.3.1.1 77967 1b3qA 379 8.10e+00 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1htzA 263 8.22e+00 1btl e.3.1.1 61262 1jwzA 263 8.36e+00 e.3.1.1 71922 1aw5 340 8.70e+00 1b4kA c.1.10.3 29181 1jwvA 263 8.75e+00 e.3.1.1 71918 1n8yC 608 8.94e+00 c.10.2.5 80314 c.10.2.5 80315 g.3.9.1 80316 g.3.9.1 80317 1i5dA 191 9.03e+00 1b3qA d.122.1.3 61783 1jvjA 263 9.12e+00 e.3.1.1 71896 1jtdA 263 9.15e+00 e.3.1.1 67264 1kb9E 185 9.58e+00 b.33.1.1 77319 f.23.12.1 77320 1efm 379 9.68e+00 1efcA c.37.1.8 64732 2amg 418 9.74e+00 1jdc b.71.1.1 27796 c.1.8.1 28783 1efuA 385 9.80e+00 1efcA b.43.3.1 25682 b.44.1.1 25722 c.37.1.8 32115 1dg1G 394 9.83e+00 1efcA b.43.3.1 25684 b.44.1.1 25724 c.37.1.8 32117 1efcA 393 9.83e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1d8tA 393 9.83e+00 1efcA b.43.3.1 25686 b.44.1.1 25726 c.37.1.8 32119 1ob2A 393 9.83e+00 5csmA 256 1.00e+01 5csmA a.130.1.2 19494 1rie 129 1.00e+01 1rie b.33.1.1 24427 1etu 379 1.01e+01 1efcA c.37.1.8 64737 1gcyA 527 1.02e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1i58A 189 1.04e+01 1b3qA d.122.1.3 61773 1qdlA 422 1.06e+01 1qdlA d.161.1.1 42088 1qi3A 429 1.07e+01 1jdc b.71.1.1 27794 c.1.8.1 28781 1qi5A 429 1.09e+01 1jdc b.71.1.1 27792 c.1.8.1 28779 1bccE 196 1.10e+01 1rie b.33.1.1 24431 f.23.12.1 43699 1jtgA 263 1.12e+01 e.3.1.1 67266 1l0lE 196 1.13e+01 b.33.1.1 84490 f.23.12.1 84491 1uu1A 335 1.13e+01 c.67.1.1 -8146 1ck3A 263 1.15e+01 1btl e.3.1.1 42698 1pzpA 263 1.16e+01 e.3.1.1 -11759 1mg4A 113 1.16e+01 d.15.11.1 84953 1vzv 221 1.21e+01 1at3A b.57.1.1 27025 1earA 147 1.22e+01 b.107.1.1 64875 d.58.38.1 64876 1dyr 206 1.23e+01 1aoeA c.71.1.1 34916 1kyqA 274 1.23e+01 c.2.1.11 73281 e.37.1.1 73282 1j7xA 302 1.23e+01 c.14.1.2 66425 1vj3A 205 1.24e+01 c.71.1.1 -8370 3csmA 256 1.27e+01 5csmA a.130.1.2 19500 1uf0A 116 1.28e+01 d.15.11.1 -9199 1cnv 299 1.29e+01 1cnv c.1.8.5 28989 1qpkA 418 1.29e+01 1jdc b.71.1.1 27793 c.1.8.1 28780 1fnmA 691 1.42e+01 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303 1qi4A 429 1.43e+01 1jdc b.71.1.1 27791 c.1.8.1 28778 1hqkA 154 1.43e+01 c.16.1.1 65902 1ojt 482 1.45e+01 1lvl c.3.1.5 30581 c.3.1.5 30582 d.87.1.1 40212 1kk9A 221 1.45e+01 d.115.1.1 77432 1bhy 482 1.46e+01 1lvl c.3.1.5 30583 c.3.1.5 30584 d.87.1.1 40213 1jdc 429 1.46e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1dar 691 1.51e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 2efgA 691 1.60e+01 1dar b.43.3.1 25708 c.37.1.8 32143 d.14.1.1 37548 d.58.11.1 39301 1mfwA 107 1.63e+01 d.15.11.1 84940 1k7jA 206 1.63e+01 d.115.1.1 72103 1nnhA 294 1.64e+01 d.104.1.1 -10772 1eqfA 280 1.67e+01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1on2A 142 1.71e+01 a.4.5.24 87103 a.76.1.1 87104 1rylA 167 1.79e+01 1on1A 142 1.80e+01 a.4.5.24 87099 a.76.1.1 87100 1vhwA 253 1.80e+01 c.56.2.1 -7765 1jizA 166 1.87e+01 d.92.1.11 71693 1rhs 296 1.92e+01 1rhs c.46.1.2 32703 c.46.1.2 32704 1vyvA 359 1.93e+01 1dp2A 293 1.97e+01 1rhs c.46.1.2 32705 c.46.1.2 32706 1ljuA 130 1.97e+01 c.44.1.1 73944 1nhq 447 2.07e+01 1nhp c.3.1.5 30551 c.3.1.5 30552 d.87.1.1 40197 1cg2A 393 2.08e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1ljlA 131 2.11e+01 c.44.1.1 73939 1jf8A 131 2.13e+01 c.44.1.1 66621 1c0aA 585 2.18e+01 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1il2A 590 2.18e+01 b.40.4.1 66193 d.74.4.1 66194 d.104.1.1 66195 1jk3A 158 2.20e+01 d.92.1.11 66790 1ua4A 455 2.24e+01 c.72.1.3 -8416 1ce7A 241 2.25e+01 1mrj d.165.1.1 42194 8dfr 189 2.27e+01 1aoeA c.71.1.1 34895 1k8kA 418 2.31e+01 c.55.1.1 68305 c.55.1.1 68306 2mllA 241 2.41e+01 1mrj d.165.1.1 42195 1g99A 408 2.47e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1nhs 447 2.50e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1h8eG 272 2.52e+01 1e79G c.49.2.1 60756 1nhr 447 2.52e+01 1nhp c.3.1.5 30553 c.3.1.5 30554 d.87.1.1 40198 1j3gA 187 2.55e+01 d.118.1.1 77075 1nh1A 330 2.58e+01 unknown_sccs -11798 1i4gA 233 2.58e+01 3seb b.40.2.2 25148 d.15.6.1 37737 1esfA 233 2.58e+01 3seb b.40.2.2 25146 d.15.6.1 37735 1udeA 195 2.59e+01 b.40.5.1 -3955 1qmgA 524 2.61e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1rm8A 169 2.64e+01 d.92.1.11 -10584 1lk0A 131 2.74e+01 c.44.1.1 73948 1rxiA 131 2.85e+01 1f8wA 447 2.90e+01 1nhp c.3.1.5 30561 c.3.1.5 30562 d.87.1.1 40202 1iy9A 275 2.90e+01 c.66.1.17 76943 1rflA 172 2.91e+01 c.37.1.8 -7099 1llp 343 3.16e+01 1arv a.93.1.1 18578 1i0eA 381 3.21e+01 a.83.1.1 83655 d.128.1.2 83656 1pw4A 451 3.25e+01 unknown_sccs -12259 1npx 447 3.33e+01 1nhp c.3.1.5 30557 c.3.1.5 30558 d.87.1.1 40200 1ltqA 301 3.34e+01 c.108.1.9 78208 c.37.1.1 78209 1nhp 447 3.35e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1os9A 165 3.39e+01 d.92.1.11 -10576 1np7A 489 3.44e+01 a.99.1.1 80677 c.28.1.1 80678 1iknC 119 3.50e+01 b.1.18.1 21928 2cb5A 453 3.68e+01 3gcb d.3.1.1 37035 1a8y 367 3.78e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1knvA 293 3.78e+01 c.52.1.7 68707 1b66A 140 3.83e+01 1b66A d.96.1.2 40657 1j04A 392 3.89e+01 c.67.1.3 -8171 1fvrA 327 3.94e+01 d.144.1.7 60047