# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1hyuA 521 6.41e-01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1zynA 202 7.95e-01 1d2oA 187 1.72e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1d2pA 373 2.93e+00 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1esfA 233 3.34e+00 3seb b.40.2.2,d.15.6.1 25146,37735 2fvtA 135 4.21e+00 1repC 251 4.36e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1d3uA 181 4.47e+00 1ytbA d.129.1.1,d.129.1.1 41290,41291 1pczA 191 4.54e+00 1ytbA d.129.1.1,d.129.1.1 41292,41293 2g0uA 92 5.35e+00 1q59A 172 5.57e+00 f.1.4.1 95881 1souA 194 5.65e+00 c.124.1.6 105858 1aisA 182 5.75e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1v30A 124 5.81e+00 1ghtA 105 5.88e+00 2rslA c.53.1.1 60526 2ewrA 170 6.54e+00 1qdlB 195 7.11e+00 1qdlB c.23.16.1 31437 1gdtA 183 7.60e+00 2rslA a.4.1.2,c.53.1.1 16021,33348 1nxiA 132 7.62e+00 d.58.47.1 86381 1ma3A 253 8.03e+00 c.31.1.5 78883 2rslA 140 8.17e+00 2rslA c.53.1.1 33345 2fclA 169 9.52e+00 1xwvA 129 1.02e+01 1agnA 373 1.12e+01 2ohxA b.35.1.2,c.2.1.1 24737,29753 1nsyA 271 1.41e+01 2nsyA c.26.2.1 31614 1ih8A 271 1.42e+01 2nsyA c.26.2.1 62377 1svpA 161 1.45e+01 1svpA b.47.1.3 26384 1dyqA 234 1.74e+01 3seb b.40.2.2,d.15.6.1 59140,59141 2nsyA 271 1.82e+01 2nsyA c.26.2.1 31612 1y96B 85 1.89e+01 1vlqA 337 1.91e+01 c.69.1.25 108848 1pnsC 206 1.97e+01 i.1.1.1 88170 1wspA 84 1.97e+01 2a2pA 129 2.02e+01 1kqpA 271 2.07e+01 c.26.2.1 72883 1qorA 327 2.10e+01 1qorA b.35.1.2,c.2.1.1 24766,29782 2snv 151 2.12e+01 1svpA b.47.1.3 26394 1iz5A 249 2.15e+01 d.131.1.2,d.131.1.2 83834,83835 1wmhA 89 2.15e+01 1ydmA 187 2.17e+01 1fjgC 239 2.31e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 1kevA 351 2.35e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 2d1uA 104 2.38e+01 1ld4A 264 2.44e+01 i.6.1.1 77886 2adoA 196 2.47e+01 1j5eC 239 2.47e+01 d.52.3.1,d.53.1.1 71544,71545 1pedA 351 2.53e+01 1pedA b.35.1.2,c.2.1.1 24753,29769 1hrkA 359 2.54e+01 1hrkA c.92.1.1 61228 1xhfA 123 2.59e+01 1mm4A 170 2.62e+01 f.4.1.2 79294 1m93A 55 2.72e+01 e.1.1.1 91235 1pls 113 2.88e+01 1pls b.55.1.1 26965 2axwA 134 3.15e+01 5gcnA 166 3.26e+01 1yghA d.108.1.1 40807 2b3wA 168 3.36e+01 2etxA 209 3.49e+01 1ztsA 139 3.49e+01 1sqsA 242 3.53e+01 c.23.5.5 98968 1cf7B 95 3.67e+01 1cf7B a.4.5.17 16152 2b7eA 59 3.79e+01 1vkuA 100 3.84e+01 a.28.1.1 108690 1qpbA 563 3.88e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 1u6tA 121 3.89e+01 1snlA 103 3.94e+01 a.39.1.7 105820 1xedA 117 4.01e+01 1n91A 108 4.16e+01 d.206.1.1 80326 1pqxA 91 4.18e+01 d.267.1.1 104296 2fj6A 82 4.22e+01 2as9A 210 4.24e+01 1m5oC 100 4.37e+01 d.58.7.1 78654 1ktjA 129 4.41e+01 b.1.18.7 72974 1zx5A 300 4.48e+01 1rr7A 129 4.53e+01 a.4.1.14 105075 2bv9A 290 4.67e+01 1urnA 97 4.72e+01 1urnA d.58.7.1 39153 1zhvA 134 4.77e+01 1o7dE 126 4.90e+01 1bxlA 181 4.92e+01 1maz f.1.4.1 43396 1ge8A 249 4.95e+01 1plq d.131.1.2,d.131.1.2 41398,41399 1nu4A 97 4.97e+01 d.58.7.1 80731 1audA 101 5.01e+01 1urnA d.58.7.1 39156 1a0rP 245 5.01e+01 1b9yC c.47.1.6 33054 1lwjA 441 5.06e+01 b.71.1.1,c.1.8.1 74303,74304 2fdrA 229 5.09e+01 1u6bA 98 5.16e+01 d.58.7.1 107703 1yf9A 171 5.36e+01 1q48A 134 5.40e+01 d.224.1.2 95783 2d3jA 157 5.44e+01 1cx0A 95 5.46e+01 1urnA d.58.7.1 39158 1ddf 127 5.48e+01 1ddf a.77.1.2 18423 2f4mA 295 5.48e+01 2bby 69 5.64e+01 2bby a.4.5.15 16148 1e0wA 313 5.64e+01 1taxA c.1.8.3 59150 1ibsA 317 5.66e+01 c.61.1.2,c.61.1.2 66107,66108 1bc9 200 5.68e+01 1pbv a.118.3.1 19180 1mzgA 146 5.71e+01 d.224.1.1 79696 1qhlA 227 5.76e+01 1qhlA c.37.1.12 32382 5pal 109 5.80e+01 1a75A a.39.1.4 17215 1bby 69 5.81e+01 2bby a.4.5.15 16149 1jhfA 202 6.09e+01 a.4.5.2,b.87.1.1 63057,63058 2bg5A 324 6.13e+01 1vd2A 89 6.16e+01 d.15.2.2 108517 1mdc 133 6.17e+01 1hmt b.60.1.2 27198 1nhcA 336 6.22e+01 b.80.1.3 91879 2bwbA 46 6.24e+01 1tzaA 134 6.27e+01 b.1.23.1 107468 1tiqA 180 6.49e+01 d.108.1.1 107010 1mioB 458 6.51e+01 1qguB c.92.2.3 35602 2flsA 132 6.54e+01 1gsoA 431 6.60e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1quqB 121 6.74e+01 1quqB b.40.4.3 25305 2tysB 397 6.75e+01 2tysB c.79.1.1 35272 1vqoI 162 6.80e+01 1dkrA 317 6.88e+01 1dkuA c.61.1.2,c.61.1.2 34114,34115 1igs 248 7.05e+01 1a53 c.1.2.4 28565 1a50B 396 7.10e+01 2tysB c.79.1.1 35280 1exg 110 7.40e+01 1exg b.2.2.1 22387 1sek 378 7.42e+01 1sek e.1.1.1 42675 1dkuA 317 7.46e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1egiA 147 7.46e+01 1eggA d.169.1.1 42331 1kq3A 376 7.46e+01 e.22.1.2 68790 1tplA 426 7.49e+01 1ax4A c.67.1.2 34387 1eggA 147 7.51e+01 1eggA d.169.1.1 42333 1a53 247 7.52e+01 1a53 c.1.2.4 28564 1qopB 396 7.58e+01 2tysB c.79.1.1 35270 2br9A 234 7.70e+01 2a33A 215 7.74e+01 1pxeA 63 7.75e+01 g.73.1.1 95286 1v0lA 313 7.82e+01 c.1.8.3 108207 1exrA 148 8.00e+01 1cll a.39.1.5 17299 1oiaA 95 8.04e+01 d.58.7.1 87051 1pms 136 8.05e+01 1awe b.55.1.1 26966 2gw6A 123 8.12e+01 1rwiA 270 8.12e+01 b.68.9.1 97987 1agjA 242 8.14e+01 1agjA b.47.1.1 25827 1kal 29 8.35e+01 g.3.3.1 44077 1jf2A 195 8.53e+01 1ej3A a.39.1.5 62930 1qvaA 223 8.53e+01 1qvaA c.37.1.19 32411 1k8yB 396 8.53e+01 c.79.1.1 72184 1lab 80 8.56e+01 1ghj b.84.1.1 28226 1od8A 313 8.67e+01 c.1.8.3 86838 1in0A 163 8.77e+01 d.58.49.1,d.58.49.1 83694,83695 2aw2A 120 8.98e+01