# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7 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 1hg4A 279 2.92e-01 1lbd a.123.1.1 19333 2bnmA 198 3.92e-01 1ux8A 132 1.04e+00 1zzcA 198 1.10e+00 2hmx 133 1.29e+00 1hiwA a.61.1.1 18129 2fbqA 235 1.36e+00 1kx9A 112 1.72e+00 a.118.21.1 77602 1mznA 240 1.78e+00 a.123.1.1 79704 1dkfA 233 1.84e+00 3erdA a.123.1.1 19280 1zs9A 261 2.02e+00 1lbd 282 2.61e+00 1lbd a.123.1.1 19279 1w9rA 119 3.03e+00 1div 149 3.44e+00 1div d.99.1.1 40692 d.100.1.1 40693 1sheA 103 3.52e+00 d.274.1.1 105551 1aa0 113 4.04e+00 1aa0 h.1.17.1 45659 1jr3A 373 4.24e+00 a.80.1.1 63245 c.37.1.20 63246 1hkxA 147 4.67e+00 d.17.4.7 83567 1csn 298 4.85e+00 1csn d.144.1.7 41664 1ngkA 128 5.07e+00 a.1.1.1 85673 1y0uA 96 5.07e+00 1g5yA 238 5.69e+00 1lbd a.123.1.1 60294 1v74A 107 5.73e+00 d.243.1.1 100442 1jb0F 164 6.42e+00 1jb0F f.23.16.1 62825 1gm7A 209 6.68e+00 d.153.1.2 65302 1br0A 120 7.69e+00 a.47.2.1 17772 1ow5A 85 7.80e+00 a.60.1.2 93630 1j78A 458 8.62e+00 a.126.1.1 66397 a.126.1.1 66398 a.126.1.1 66399 1ly1A 181 8.62e+00 c.37.1.1 74334 1mba 147 8.63e+00 2fal a.1.1.2 15149 2fal 147 8.81e+00 2fal a.1.1.2 15150 1mvcA 240 8.94e+00 a.123.1.1 79499 1xdpA 687 9.14e+00 1dguA 183 9.71e+00 1dguA a.39.1.5 17333 1xq8A 140 1.00e+01 1db1A 259 1.01e+01 1db1A a.123.1.1 19329 1e3aA 260 1.03e+01 1ajqA d.153.1.2 41838 1wj7A 104 1.04e+01 1b4cA 92 1.08e+01 1b4cA a.39.1.2 17169 1n8vA 112 1.18e+01 a.118.21.1 85457 1yurA 98 1.21e+01 1iyhA 198 1.26e+01 a.45.1.1 83790 c.47.1.5 83791 1w33A 181 1.28e+01 1ie9A 259 1.30e+01 1db1A a.123.1.1 62318 1k8uA 90 1.35e+01 a.39.1.2 72181 2fnaA 357 1.36e+01 1gvnA 90 1.39e+01 a.8.2.1 76353 1gakA 141 1.41e+01 1gakA a.19.1.1 16415 2a07F 93 1.48e+01 1xebA 150 1.51e+01 1ez3A 127 1.55e+01 1dn1B a.47.2.1 17768 1r5qA 102 1.61e+01 a.186.1.1 97103 1wijA 140 1.64e+01 1i1gA 141 1.64e+01 a.4.5.32 65982 d.58.4.2 65983 1i9gA 280 1.73e+01 c.66.1.13 62090 2c2aA 258 1.75e+01 1l3sA 580 1.79e+01 c.55.3.5 84521 e.8.1.1 84522 1nk4A 580 1.81e+01 c.55.3.5 91923 e.8.1.1 91924 1u4bA 580 1.84e+01 c.55.3.5 107664 e.8.1.1 107665 1cfpA 92 1.93e+01 1b4cA a.39.1.2 17172 1xiuA 230 1.96e+01 1puoA 170 1.97e+01 a.101.1.1 95134 a.101.1.1 95135 1xeqA 103 2.01e+01 1h0aA 158 2.07e+01 a.118.9.1 76434 1naqA 112 2.23e+01 d.58.5.2 91761 1bd3A 243 2.33e+01 1bd3A c.61.1.1 34098 3bdpA 580 2.35e+01 1xwl c.55.3.5 33711 e.8.1.1 43004 1jchC 551 2.51e+01 b.101.1.1 66495 b.110.1.1 66496 h.4.9.1 66497 1jchA 551 2.51e+01 b.101.1.1 66491 b.110.1.1 66492 h.4.9.1 66493 1udxA 416 2.52e+01 b.117.1.1 99228 c.37.1.8 99229 d.242.1.1 99230 1gk9A 260 2.59e+01 d.153.1.2 65246 1eyhA 144 2.65e+01 1eduA a.118.9.1 19214 1pyiA 96 2.66e+01 1pyiA g.38.1.1 45079 h.1.3.1 45512 1dm1A 146 2.68e+01 2fal a.1.1.2 15153 1glqA 209 2.68e+01 1pgtA a.45.1.1 17588 c.47.1.5 32882 1qgtA 149 2.70e+01 1qgtA a.62.1.1 18135 2bykA 140 2.70e+01 1se7A 83 2.72e+01 1p8cA 145 2.80e+01 a.152.1.2 94354 1xwl 580 2.81e+01 1xwl c.55.3.5 33708 e.8.1.1 43001 1wmaA 276 2.84e+01 1c20A 128 2.85e+01 1c20A a.4.3.1 16079 1x3kA 152 2.86e+01 1x59A 73 2.89e+01 1ow4A 129 2.89e+01 a.39.2.1 93628 1ai7A 209 2.97e+01 1ajqA d.153.1.2 41845 1nu7D 282 2.99e+01 a.8.6.1 92191 a.8.6.1 92192 1tq4A 413 3.02e+01 c.37.1.8 107201 1upkA 341 3.03e+01 a.118.1.15 99758 1ia9A 280 3.07e+01 1ia9A d.144.1.5 62113 1cc8A 73 3.09e+01 1cc8A d.58.17.1 39343 1e6iA 121 3.11e+01 1b91A a.29.2.1 16969 1ajqA 209 3.11e+01 1ajqA d.153.1.2 41840 1hfoA 113 3.12e+01 d.80.1.3 61006 1ci0A 228 3.16e+01 1ci0A b.45.1.1 25750 1u59A 287 3.19e+01 d.144.1.7 107681 1poc 134 3.20e+01 1poc a.133.1.1 19513 1itzA 675 3.24e+01 c.36.1.6 76798 c.36.1.10 76797 c.48.1.1 76799 1fd9A 213 3.25e+01 1fd9A d.26.1.1 59771 1ib8A 164 3.28e+01 b.38.2.1 71168 d.52.4.1 71169 1v7pB 128 3.31e+01 d.169.1.1 108407 2a7oA 112 3.35e+01 1jraA 117 3.38e+01 a.24.15.1 67117 2f2gA 221 3.41e+01 1cmiA 85 3.47e+01 1cmiA d.39.1.1 38551 1eduA 149 3.52e+01 1eduA a.118.9.1 19215 1jr8A 117 3.54e+01 a.24.15.1 67115 1eysH 259 3.54e+01 6prcH b.41.1.1 25484 f.23.10.1 43517 1ukmB 128 3.56e+01 d.169.1.1 99500 1mzm 93 3.84e+01 1rzl a.52.1.1 17814 1kyoG 126 3.93e+01 f.27.1.1 73259 1fk5A 93 3.93e+01 1rzl a.52.1.1 59866 2czsA 80 3.95e+01