# List of top-scoring protein chains for t2k.100-30-str 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.soe.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 2gw8A 114 3.40e-05 2j9cA 119 6.48e-05 2ns1B 116 9.78e-05 2pii 112 1.26e-04 2pii 1gnkA 112 1.65e-04 2pii d.58.5.1 39073 2eg2A 112 1.98e-04 3bzqA 114 6.28e-04 2o66A 135 1.45e-03 1o51A 114 1.97e-03 d.58.5.4 92480 2dclA 127 5.58e-03 1vfjA 116 3.25e-02 d.58.5.1 113637 2qyxA 238 2.62e-01 2id1A 130 4.50e-01 2h57A 190 1.30e+00 1mb4A 370 1.33e+00 c.2.1.3 78908 d.81.1.1 78909 1xg4A 295 1.34e+00 3b9oA 440 1.45e+00 1vm7A 311 1.51e+00 c.72.1.1 108884 1mumA 295 1.58e+00 c.1.12.7 85108 2b9wA 424 1.62e+00 2dc1A 236 2.50e+00 1t4bA 367 2.67e+00 c.2.1.3 106406 d.81.1.1 106407 1pj5A 830 2.70e+00 b.44.2.1 94742 c.3.1.2 94743 d.16.1.5 94744 d.250.1.1 94745 1ulrA 88 2.71e+00 d.58.10.1 113283 1y8qA 346 2.87e+00 1r5yA 386 2.89e+00 c.1.20.1 97134 1pxgA 382 2.90e+00 c.1.20.1 95287 1brmA 367 3.02e+00 1brmA c.2.1.3 30030 d.81.1.1 39945 1k1xA 659 3.36e+00 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1s2wA 295 3.51e+00 c.1.12.7 98407 1ep3A 311 4.42e+00 2dorA c.1.4.1 28597 1jbeA 128 4.52e+00 3chy c.23.1.1 62845 1pud 386 5.22e+00 1pud 2f1rA 171 5.41e+00 1fcqA 350 5.62e+00 c.1.8.9 65006 2b33A 140 5.73e+00 d.79.1.1 127765 2bw0A 329 5.87e+00 b.46.1.1 129303 c.65.1.1 129304 1jffA 451 6.11e+00 c.32.1.1 62932 d.79.2.1 62933 1tvkA 440 6.23e+00 c.32.1.1 107362 d.79.2.1 107363 1j5xA 342 6.25e+00 c.80.1.1 71591 2b0mA 393 6.31e+00 c.1.4.1 127644 1eswA 500 6.31e+00 1cwyA c.1.8.1 59500 1cwyA 500 6.66e+00 1cwyA c.1.8.1 28789 1d3gA 367 6.66e+00 1d3gA c.1.4.1 28600 3chy 128 6.77e+00 3chy 1oniA 137 7.00e+00 d.79.1.1 87144 1qd9A 124 7.05e+00 1qu9A d.79.1.1 39758 1e6mA 128 7.23e+00 3chy c.23.1.1 31039 1rxxA 421 7.94e+00 d.126.1.4 98061 8abp 306 8.56e+00 8abp 8abpA 306 8.56e+00 c.93.1.1 35647 1pujA 282 9.21e+00 c.37.1.8 88294 2dy0A 190 9.26e+00 1qp8A 303 9.50e+00 1qp8A c.2.1.4 30092 c.23.12.1 31352 1c7sA 858 1.03e+01 1qba b.1.18.2 21812 b.2.2.3 22408 c.1.8.6 29011 d.92.2.1 40410 1b01A 45 1.04e+01 2cpgA a.43.1.3 17458 2a2cA 478 1.04e+01 1apyB 141 1.07e+01 1apyB 1wvqA 167 1.08e+01 2cpgA 45 1.17e+01 2cpgA a.43.1.3 17455 1jg1A 235 1.18e+01 c.66.1.7 66661 1ab5A 125 1.19e+01 3chy c.23.1.1 31056 1gu7A 364 1.20e+01 b.35.1.2 83321 c.2.1.1 83322 2d59A 144 1.22e+01 c.2.1.8 131266 2bkxA 242 1.23e+01 2elcA 329 1.27e+01 1rscI 111 1.31e+01 d.73.1.1 118620 1y63A 184 1.33e+01 c.37.1.1 116494 1rsgA 516 1.35e+01 1tubA 440 1.37e+01 1tubA c.32.1.1 31751 d.79.2.1 39803 1nh8A 304 1.43e+01 c.94.1.1 80507 d.58.5.3 80508 2nv0A 196 1.44e+01 c.23.16.1 138625 3c24A 286 1.45e+01 1rblI 109 1.48e+01 d.73.1.1 118599 1fseA 74 1.49e+01 1fseA a.4.6.2 60000 1josA 128 1.50e+01 d.52.7.1 84191 2hfsA 332 1.52e+01 2nsyA 271 1.54e+01 2nsyA c.26.2.1 31612 1kqpA 271 1.55e+01 c.26.2.1 72883 1u8tA 129 1.55e+01 c.23.1.1 113192 1qba 858 1.56e+01 1qba 1ab6A 125 1.57e+01 3chy c.23.1.1 31054 2ig8A 144 1.58e+01 1s28A 132 1.68e+01 d.198.1.1 105223 1pymA 295 1.74e+01 1pymA c.1.12.7 29308 1nal1 297 1.81e+01 1nal3 2epiA 100 1.84e+01 2cz9A 350 1.84e+01 2i5eA 211 1.89e+01 1qahA 136 1.91e+01 d.79.1.1 96338 1o63A 219 1.93e+01 c.94.1.1 92540 1nv8A 284 1.96e+01 c.66.1.30 86224 1r89A 437 1.97e+01 a.160.1.3 97221 d.218.1.7 97222 d.58.16.2 97223 1uumA 372 2.00e+01 c.1.4.1 100010 2a14A 263 2.08e+01 c.66.1.15 125972 1ja9A 274 2.10e+01 c.2.1.2 62817 1fdyA 297 2.13e+01 1nal3 c.1.10.1 29071 1wkvA 389 2.16e+01 c.79.1.1 120989 1g291 372 2.21e+01 1g291 1y0kA 209 2.25e+01 c.52.1.31 122485 2v9dA 343 2.26e+01 2gaxA 135 2.27e+01 2p0oA 372 2.28e+01 1ae1A 273 2.28e+01 1bdb c.2.1.2 29943 1b37B 472 2.28e+01 1b37B c.3.1.2 30390 d.16.1.5 37954 1sqgA 429 2.28e+01 a.79.1.3 105912 c.66.1.38 105913 2hf9A 226 2.29e+01 2bjdA 101 2.32e+01 1yovA 537 2.32e+01 c.111.1.2 123785 2choA 716 2.36e+01 a.246.1.1 130479 c.1.8.10 130480 d.92.2.3 130481 2a9gA 418 2.45e+01 d.126.1.4 126435 1jxhA 288 2.49e+01 c.72.1.2 67415 1no5A 114 2.54e+01 d.218.1.5 92014 1nal3 297 2.59e+01 1nal3 3b8iA 287 2.66e+01 1vddA 228 2.67e+01 e.49.1.1 108519 2g5cA 281 2.69e+01 a.100.1.12 134646 c.2.1.6 134647 2ae2A 260 2.70e+01 1bdb c.2.1.2 29945 2dejA 350 2.74e+01 2k29A 53 2.76e+01 1dquA 538 2.77e+01 1dquA c.1.12.7 29314 2uykA 129 2.86e+01 2omkA 231 3.03e+01 1wy7A 207 3.09e+01 c.66.1.32 121433 1ylhA 560 3.24e+01 2jepA 395 3.24e+01 1rj9A 304 3.26e+01 a.24.13.1 97553 c.37.1.10 97554 2nrkA 173 3.34e+01 2bhuA 602 3.46e+01 b.1.18.2 128554 b.71.1.1 128555 c.1.8.1 128556 6pfkA 319 3.48e+01 3pfk c.89.1.1 35583 1ujqA 305 3.49e+01 c.1.12.7 99463 1gkpA 458 3.57e+01 b.92.1.3 70231 c.1.9.6 70232 1q9uA 130 3.59e+01 d.129.7.1 96314 1xcbA 211 3.60e+01 a.4.5.38 109552 c.2.1.12 109553 2v3zA 440 3.60e+01 1wl9A 440 3.60e+01 c.55.2.1 120998 d.127.1.1 120999 1xknA 355 3.62e+01 d.126.1.6 115414 2yv1A 294 3.62e+01 1sr9A 644 3.63e+01 a.5.7.1 105960 c.1.10.5 105961 d.270.1.1 105962 2i0fA 157 3.66e+01 2bwvA 440 3.75e+01 c.55.2.1 129387 d.127.1.1 129388 1cr5A 189 3.76e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1esmA 316 3.78e+01 1esmA c.37.1.6 31953 1x1nA 524 3.79e+01 c.1.8.1 121593 2ashA 381 3.91e+01 2rjnA 154 3.92e+01 2au3A 407 3.95e+01 3pfk 319 3.96e+01 3pfk 8rucI 123 3.97e+01 1rboC d.73.1.1 39629 1x7oA 287 3.97e+01