# 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 1zboA 210 1.20e+00 b.122.1.10 124859 1b59A 370 1.40e+00 1bn5 a.4.5.25 16225 d.127.1.1 41162 1q1cA 280 1.55e+00 d.26.1.1 104474 d.26.1.1 104475 1i88A 389 1.60e+00 c.95.1.2 66070 c.95.1.2 66071 1bn5 478 1.66e+00 1bn5 1b6a 478 1.67e+00 1bn5 1b6aA 478 1.67e+00 a.4.5.25 16223 d.127.1.1 41160 1hzpA 335 2.73e+00 1hn9A c.95.1.2 61455 c.95.1.2 61456 1u6eA 335 3.26e+00 c.95.1.2 119568 c.95.1.2 119569 2j7mA 149 3.33e+00 2j1aA 150 3.62e+00 2nqlA 388 3.73e+00 1lwdA 413 3.94e+00 c.77.1.1 78265 2p1jA 186 4.14e+00 1bi5A 389 4.20e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1w9hA 427 4.50e+00 c.55.3.10 120785 2nw5A 360 4.87e+00 2hngA 127 4.89e+00 1zowA 313 5.67e+00 2iw2A 494 5.73e+00 1ciy 590 5.95e+00 1ciy 1ciyA 590 5.95e+00 b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1xgsA 295 6.56e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 2z6wA 165 6.66e+00 2g7oA 70 6.76e+00 a.241.1.1 134736 1vdnA 162 6.78e+00 b.62.1.1 120006 1x47A 98 6.78e+00 d.50.1.1 121680 1i86A 389 6.86e+00 c.95.1.2 66068 c.95.1.2 66069 2bitX 165 7.26e+00 b.62.1.1 128590 2gz1A 366 7.45e+00 c.2.1.3 135887 d.81.1.1 135888 2cwsA 237 8.87e+00 2b5gA 171 9.58e+00 d.108.1.1 127892 1wrjA 156 9.75e+00 1x89A 178 9.84e+00 b.60.1.1 121799 1rr7A 129 1.04e+01 a.4.1.14 105075 1ktjA 129 1.05e+01 b.1.18.7 72974 1wl4A 397 1.07e+01 2d51A 406 1.08e+01 1xesA 413 1.15e+01 2fmlA 273 1.21e+01 a.4.5.68 133778 d.113.1.6 133779 2yweA 600 1.28e+01 1ihjA 98 1.29e+01 1pdr b.36.1.1 62382 1tedA 393 1.29e+01 c.95.1.2 106807 1srqA 341 1.31e+01 e.55.1.1 105967 2yrrA 353 1.36e+01 1qqsA 174 1.39e+01 1nglA b.60.1.1 27143 2c7yA 404 1.45e+01 1zj8A 566 1.46e+01 1dwkA 156 1.48e+01 1dw9A a.35.1.4 17075 d.72.1.1 39606 1okjA 251 1.49e+01 c.55.1.9 103998 c.55.1.9 103999 2gelA 231 1.71e+01 2ywqA 105 1.79e+01 2q8kA 401 1.87e+01 1ihgA 370 1.88e+01 2cpl a.118.8.1 62380 b.62.1.1 62381 1xkiA 162 1.90e+01 b.60.1.1 115408 2qwvA 208 1.91e+01 1h6hA 143 2.06e+01 d.189.1.1 65681 2nyiA 195 2.17e+01 1q48A 134 2.22e+01 d.224.1.2 95783 1icxA 155 2.23e+01 d.129.3.1 71191 2grrB 170 2.25e+01 2aexA 346 2.28e+01 1woqA 267 2.34e+01 c.55.1.10 109462 c.55.1.10 109463 1y0gA 191 2.34e+01 b.61.6.1 116299 1ig8A 486 2.41e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1mq8A 291 2.54e+01 b.1.1.3 79405 b.1.1.4 79406 2ch5A 347 2.55e+01 c.55.1.5 130453 c.55.1.5 130454 1gr0A 367 2.62e+01 c.2.1.3 70379 d.81.1.3 70380 1o4vA 183 2.63e+01 c.23.8.1 86628 3butA 136 2.79e+01 2v3zA 440 2.90e+01 1wl9A 440 2.90e+01 c.55.2.1 120998 d.127.1.1 120999 1qmhA 347 2.92e+01 1qmhA c.47.2.1 33082 d.68.2.1 39568 2bwvA 440 2.92e+01 c.55.2.1 129387 d.127.1.1 129388 1mgtA 174 3.02e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1td5A 202 3.09e+01 d.110.2.2 106767 2f96A 224 3.15e+01 c.55.3.5 133153 2hhjA 267 3.49e+01 c.60.1.1 136497 3bhdA 234 3.53e+01 2hq9A 149 3.54e+01 b.45.1.1 136659 1qaxA 428 3.67e+01 1qaxA d.58.20.1 39376 d.179.1.1 42597 2ib8A 395 3.68e+01 1n4wA 504 3.69e+01 c.3.1.2 91676 d.16.1.1 91677 2q0oA 236 3.77e+01 2hzqA 174 3.79e+01 1r31A 428 3.80e+01 d.58.20.1 96897 d.179.1.1 96898 1yqfA 203 3.88e+01 d.25.1.1 123880 2qo4A 126 3.98e+01