# 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 1d2oA 187 1.51e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1hyuA 521 1.70e+00 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1zynA 202 2.33e+00 1d2pA 373 2.58e+00 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1repC 251 2.98e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1esfA 233 3.22e+00 3seb b.40.2.2,d.15.6.1 25146,37735 1pczA 191 6.65e+00 1ytbA d.129.1.1,d.129.1.1 41292,41293 1d3uA 181 6.67e+00 1ytbA d.129.1.1,d.129.1.1 41290,41291 1xwvA 129 7.01e+00 1ghtA 105 7.77e+00 2rslA c.53.1.1 60526 1wspA 84 7.95e+00 1aisA 182 8.11e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1qdlB 195 8.63e+00 1qdlB c.23.16.1 31437 1y96B 85 1.02e+01 1vlqA 337 1.06e+01 c.69.1.25 108848 2ewrA 170 1.09e+01 2adoA 196 1.11e+01 1svpA 161 1.14e+01 1svpA b.47.1.3 26384 2rslA 140 1.23e+01 2rslA c.53.1.1 33345 1dyqA 234 1.32e+01 3seb b.40.2.2,d.15.6.1 59140,59141 2fclA 169 1.50e+01 2etxA 209 1.58e+01 1agnA 373 1.61e+01 2ohxA b.35.1.2,c.2.1.1 24737,29753 1ld4A 264 1.61e+01 i.6.1.1 77886 1hrkA 359 1.62e+01 1hrkA c.92.1.1 61228 2snv 151 1.85e+01 1svpA b.47.1.3 26394 1m93A 55 2.01e+01 e.1.1.1 91235 1pnsC 206 2.02e+01 i.1.1.1 88170 1nsyA 271 2.06e+01 2nsyA c.26.2.1 31614 1gdtA 183 2.11e+01 2rslA a.4.1.2,c.53.1.1 16021,33348 1snlA 103 2.17e+01 a.39.1.7 105820 5gcnA 166 2.25e+01 1yghA d.108.1.1 40807 1fjgC 239 2.37e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 1ih8A 271 2.39e+01 2nsyA c.26.2.1 62377 1ma3A 253 2.42e+01 c.31.1.5 78883 1j5eC 239 2.46e+01 d.52.3.1,d.53.1.1 71544,71545 1cf7B 95 2.49e+01 1cf7B a.4.5.17 16152 1rr7A 129 2.72e+01 a.4.1.14 105075 2bwbA 46 2.83e+01 1vkuA 100 2.89e+01 a.28.1.1 108690 1m5oC 100 2.94e+01 d.58.7.1 78654 1iz5A 249 3.00e+01 d.131.1.2,d.131.1.2 83834,83835 2nsyA 271 3.08e+01 2nsyA c.26.2.1 31612 1xhfA 123 3.13e+01 1o7dE 126 3.19e+01 1pms 136 3.19e+01 1awe b.55.1.1 26966 1agjA 242 3.23e+01 1agjA b.47.1.1 25827 1ydmA 187 3.25e+01 1kqpA 271 3.39e+01 c.26.2.1 72883 1ktjA 129 3.40e+01 b.1.18.7 72974 1audA 101 3.41e+01 1urnA d.58.7.1 39156 1mdc 133 3.66e+01 1hmt b.60.1.2 27198 1urnA 97 3.68e+01 1urnA d.58.7.1 39153 1utiA 58 3.73e+01 b.34.2.1 99962 2b7eA 59 3.75e+01 1u6bA 98 3.95e+01 d.58.7.1 107703 1z6oA 212 4.07e+01 1x4tA 92 4.14e+01 1nu4A 97 4.17e+01 d.58.7.1 80731 1cx0A 95 4.29e+01 1urnA d.58.7.1 39158 2d3jA 157 4.33e+01 2gw6A 123 4.46e+01 1kq3A 376 4.48e+01 e.22.1.2 68790 1lab 80 4.49e+01 1ghj b.84.1.1 28226 1wjbA 55 4.68e+01 1wjcA a.4.10.1 16265 1ibsA 317 4.70e+01 c.61.1.2,c.61.1.2 66107,66108 1qvaA 223 4.71e+01 1qvaA c.37.1.19 32411 2apsA 162 4.75e+01 1yaiA b.1.8.1 22298 1zx5A 300 4.90e+01 1a0rP 245 5.02e+01 1b9yC c.47.1.6 33054 1vqoL 165 5.03e+01 2flsA 132 5.09e+01 1kyqA 274 5.14e+01 c.2.1.11,e.37.1.1 73281,73282 1wr1B 58 5.26e+01 2fdrA 229 5.33e+01 2bby 69 5.37e+01 2bby a.4.5.15 16148 2tysB 397 5.38e+01 2tysB c.79.1.1 35272 1bby 69 5.42e+01 2bby a.4.5.15 16149 1knzA 164 5.57e+01 e.34.1.1 68709 1jj2K 164 5.57e+01 1ffkJ c.12.1.1 63096 1s72L 165 5.68e+01 c.12.1.1 105331 1dkrA 317 5.71e+01 1dkuA c.61.1.2,c.61.1.2 34114,34115 1sqsA 242 5.75e+01 c.23.5.5 98968 1lwjA 441 5.88e+01 b.71.1.1,c.1.8.1 74303,74304 1v5nA 89 5.94e+01 g.49.1.3 108380 1a50B 396 6.04e+01 2tysB c.79.1.1 35280 1gsoA 431 6.18e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1dkuA 317 6.32e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1qopB 396 6.32e+01 2tysB c.79.1.1 35270 1zpsA 138 6.51e+01 5pal 109 6.51e+01 1a75A a.39.1.4 17215 1k8yB 396 6.57e+01 c.79.1.1 72184 1wwhA 119 6.64e+01 1gh6A 114 6.66e+01 a.2.3.1 65191 2as9A 210 6.71e+01 1qorA 327 6.93e+01 1qorA b.35.1.2,c.2.1.1 24766,29782 1mioB 458 6.94e+01 1qguB c.92.2.3 35602 1oiaA 95 7.40e+01 d.58.7.1 87051 1e0wA 313 7.42e+01 1taxA c.1.8.3 59150 1ucrA 78 7.47e+01 a.4.5.45 99188 1vgvA 384 7.48e+01 c.87.1.3 100608 1qhlA 227 7.59e+01 1qhlA c.37.1.12 32382 1quqB 121 7.59e+01 1quqB b.40.4.3 25305 1in0A 163 7.76e+01 d.58.49.1,d.58.49.1 83694,83695 1gyxA 76 7.84e+01 d.80.1.1 76387 1focA 132 8.05e+01 1c52 a.3.1.1 15812 1bksB 397 8.18e+01 2tysB c.79.1.1 35285 1exrA 148 8.29e+01 1cll a.39.1.5 17299 1f6dA 376 8.36e+01 1f6dA c.87.1.3 35467 1vr8A 142 8.38e+01 1nhcA 336 8.39e+01 b.80.1.3 91879 1w2yA 229 8.82e+01 a.204.1.1 109140 1jbuL 63 8.87e+01 1hcgB g.3.11.1 62857 2b33A 140 9.00e+01