# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-scores 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 1plzA 189 1.92e+00 b.82.1.7 88160 1ih7A 903 2.86e+00 1clqA c.55.3.5 62375 e.8.1.1 62376 1qxrA 189 3.63e+00 b.82.1.7 -4834 1wkt 88 4.40e+00 1wkt b.11.1.2 23630 1k7kA 221 4.75e+00 c.51.4.1 72104 1nc7A 138 5.22e+00 b.123.1.1 85549 1c9qA 117 5.38e+00 1c9qA g.52.1.1 45377 1nv8A 284 5.70e+00 c.66.1.30 86224 3pfk 319 5.95e+00 3pfk c.89.1.1 35581 1ny6A 267 6.52e+00 c.37.1.20 -7221 4pfk 319 6.64e+00 3pfk c.89.1.1 35582 2aaiB 262 8.21e+00 1abrB b.42.2.1 25561 b.42.2.1 25562 1g3gA 164 8.31e+00 1g6gA b.26.1.2 23918 1umuA 116 8.57e+00 1umuA b.87.1.1 28382 1sxjE 354 8.89e+00 1sspE 223 8.99e+00 3eugA c.18.1.1 31009 1clqA 903 9.08e+00 1clqA c.55.3.5 33717 e.8.1.1 43006 1umuB 116 9.54e+00 1umuA b.87.1.1 28383 1akz 223 1.05e+01 3eugA c.18.1.1 31007 1dtvA 67 1.07e+01 1dtvA g.30.1.1 44963 1s72M 194 1.08e+01 1vddA 228 1.08e+01 6pfkA 319 1.16e+01 3pfk c.89.1.1 35583 1jj2L 194 1.19e+01 1ffkI d.12.1.2 63097 3eugA 229 1.20e+01 3eugA c.18.1.1 31018 1j27A 102 1.22e+01 unknown_sccs -10116 1q3oA 109 1.27e+01 b.36.1.1 -3776 4eugA 229 1.32e+01 3eugA c.18.1.1 31019 1rpyA 114 1.38e+01 d.93.1.1 -10636 8rucI 123 1.52e+01 1rboC d.73.1.1 39629 1n6eA 1071 1.54e+01 b.36.1.3 80149 b.68.7.1 80150 b.69.9.1 80151 c.14.1.2 80152 1rl6A 177 1.59e+01 1rl6A d.141.1.1 41473 d.141.1.1 41474 1ge8A 249 1.62e+01 1plq d.131.1.2 41398 d.131.1.2 41399 1rboC 123 1.66e+01 1rboC d.73.1.1 39634 1p3dA 475 1.73e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1iz5A 249 1.75e+01 d.131.1.2 83834 d.131.1.2 83835 1svpA 161 1.78e+01 1svpA b.47.1.3 26384 2arcB 164 1.82e+01 2arcA b.82.4.1 28149 1cawB 184 1.86e+01 1caxB b.82.1.2 28113 1e32A 458 1.87e+01 1e32A b.52.2.3 59183 c.37.1.20 59184 d.31.1.1 59185 2arcA 164 1.88e+01 2arcA b.82.4.1 28148 1uf3A 228 1.96e+01 unknown_sccs -11463 2cxbA 124 1.97e+01 1ycc a.3.1.1 15891 1fzrA 138 2.00e+01 1fzrA c.52.1.17 33336 1ksfX 758 2.10e+01 a.174.1.1 77522 c.37.1.20 77523 c.37.1.20 77524 1cxc 124 2.37e+01 1ycc a.3.1.1 15890 1vavA 222 2.40e+01 1ollA 188 2.49e+01 b.1.1.4 -2690 b.1.1.4 -2691 1q38A 89 2.58e+01 b.1.2.1 -2765 1cauB 184 2.68e+01 1caxB b.82.1.2 28103 1k32A 1045 2.71e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 2mev1 277 2.76e+01 2mev1 3hmgA 328 2.77e+01 1hgeA b.19.1.2 23825 1bqsA 209 2.81e+01 1bqsA b.1.1.4 21704 b.1.1.4 21705 2snv 151 2.81e+01 1svpA b.47.1.3 26394 2pna 104 2.84e+01 1qadA d.93.1.1 40501 1agi 125 2.89e+01 7rsa d.5.1.1 37303 1hbyA 123 2.91e+01 7rsa d.5.1.1 60936 1bjoA 360 2.93e+01 1bjnA c.67.1.4 34471 1ld4A 264 2.94e+01 i.6.1.1 77886 1gz6A 319 2.96e+01 c.2.1.2 76410 1b35C 282 3.11e+01 1b35C 1h9oA 112 3.14e+01 1qadA d.93.1.1 60837 1caxB 184 3.17e+01 1caxB b.82.1.2 28105 2aacA 177 3.20e+01 2arcA b.82.4.1 28150 1d4tA 104 3.24e+01 1d4tA d.93.1.1 40537 1cfyA 143 3.28e+01 1cof d.109.1.2 40858 1cof 143 3.33e+01 1cof d.109.1.2 40860 1m0dA 138 3.38e+01 c.52.1.17 74354 1gnuA 117 3.39e+01 d.15.1.3 65403 2hgsA 474 3.55e+01 2hgsA c.30.1.4 31722 d.142.1.6 75997 1euvA 221 3.57e+01 1euvA d.3.1.7 37133 2hrvA 142 3.65e+01 2hrvA b.47.1.4 26429 1jsxA 207 3.73e+01 c.66.1.20 71846 1hkkA 364 3.76e+01 c.1.8.5 -5384 d.26.3.1 -9506 2pia 321 3.77e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1kotA 119 3.85e+01 d.15.1.3 68732 1dgrN 79 3.93e+01 1caxB