# 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 1kqqA 139 1.05e+00 a.4.3.1 72885 1c9oA 66 1.51e+00 1mjc b.40.4.5 25325 1vjtA 483 1.61e+00 c.2.1.5,d.162.1.2 100833,100834 1m2eA 135 2.05e+00 c.23.1.5 78478 1dhn 121 2.47e+00 1dhn d.96.1.3 40663 1v3fA 120 2.48e+00 a.4.5.31 100289 1csp 67 2.70e+00 1mjc b.40.4.5 25321 1ts9A 102 3.36e+00 1yyaA 250 3.50e+00 1l6pA 125 3.75e+00 b.1.17.1 73626 1nykA 165 4.17e+00 b.33.1.1 86408 1y14B 171 4.36e+00 1wjnA 97 4.60e+00 1pc0A 61 4.69e+00 b.137.1.1 94426 2fwkA 121 4.87e+00 1vjkA 98 5.07e+00 d.15.3.1 108631 2d9rA 104 5.44e+00 1jpeA 151 5.79e+00 b.1.17.1 77146 1l4zB 136 5.98e+00 d.15.5.1 77704 1xg9A 260 6.09e+00 1zghA 260 6.22e+00 1ig0A 319 6.43e+00 1ig0A b.82.6.1,c.100.1.1 62354,62355 1ev7B 317 6.58e+00 1ev7B c.52.1.9 33316 1o9rA 162 6.73e+00 a.25.1.1 86706 1aipE 405 8.52e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1dcuA 357 8.67e+00 1frpA e.7.1.1 42943 1fsgA 233 8.86e+00 1qk3A c.61.1.1 34029 1xneA 113 8.93e+00 1iawA 317 9.15e+00 c.52.1.9 62126 1yn9A 169 9.31e+00 1exmA 405 9.37e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1pmy 123 9.62e+00 1bqk b.6.1.1 22888 2g9zA 348 9.81e+00 2occB 227 9.93e+00 2occB b.6.1.2,f.17.2.1 23027,43519 1c20A 128 9.94e+00 1c20A a.4.3.1 16079 1yezA 68 1.01e+01 1vjrA 271 1.04e+01 c.108.1.14 100832 1kg0C 136 1.05e+01 d.169.1.1 72445 1em8B 112 1.06e+01 c.126.1.1 90458 1aipA 405 1.22e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1vj0A 380 1.24e+01 b.35.1.2,c.2.1.1 100786,100787 1xw3A 110 1.25e+01 1i18A 97 1.26e+01 b.43.4.3 61520 1eft 405 1.36e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 2c78A 405 1.47e+01 1ha3A 405 1.49e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1v54B 227 1.54e+01 b.6.1.2,f.17.2.1 100322,100323 1xw4X 110 1.54e+01 1yzsA 121 1.63e+01 2fb7A 95 1.69e+01 2b30A 301 1.70e+01 1qk4A 233 1.78e+01 1qk3A c.61.1.1 34037 1yzfA 195 1.80e+01 1f56A 91 1.90e+01 2cbp b.6.1.1 22896 2h6lA 146 1.96e+01 1q4rA 112 1.98e+01 d.58.4.4 95823 1pdkB 157 2.02e+01 1pdkB b.2.3.2 22427 1vybA 238 2.05e+01 d.151.1.1 108897 1yueA 427 2.06e+01 1u04A 771 2.18e+01 b.34.14.1,c.55.3.10 107539,107540 1ev7A 317 2.31e+01 1ev7B c.52.1.9 33315 1fdr 248 2.37e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1pl8A 356 2.40e+01 b.35.1.2,c.2.1.1 94878,94879 1paz 123 2.46e+01 1bqk b.6.1.1 22878 1yo8A 634 2.48e+01 1ujxA 119 2.49e+01 b.26.1.2 99473 1g0oA 283 2.56e+01 1ybvA c.2.1.2 60181 1sacA 204 2.68e+01 1sacA b.29.1.5 24237 1cyw 205 2.75e+01 1cyx b.6.1.2 23024 1bqk 124 2.77e+01 1bqk b.6.1.1 22889 1t3yA 141 2.81e+01 1v5iB 76 2.88e+01 1s5aA 150 2.91e+01 d.17.4.10 98525 1t2lA 141 3.01e+01 1tgoA 773 3.04e+01 1tgoA c.55.3.5,e.8.1.1 33721,43010 1m26A 133 3.08e+01 1qqrA 138 3.09e+01 1bmlC d.15.5.1 37721 1iktA 120 3.11e+01 d.106.1.1 66188 1wqaA 455 3.13e+01 1vfqA 143 3.13e+01 1xe0A 114 3.20e+01 1d4bA 122 3.25e+01 1d4bA d.15.2.1 37638 1m5zA 91 3.25e+01 b.36.1.1 78676 2f1kA 279 3.25e+01 1zx8A 136 3.40e+01 2cwpA 112 3.48e+01 1dbrA 231 3.51e+01 1qk3A c.61.1.1 34041 1cjbA 231 3.52e+01 1qk3A c.61.1.1 34079 1q15A 503 3.56e+01 c.26.2.1,d.153.1.1 95538,95539 1tzpA 255 3.57e+01 d.65.1.3 107520 2ay1A 394 3.63e+01 1ajsA c.67.1.1 34357 1w6uA 302 3.64e+01 2g6fX 59 3.72e+01 1ux6A 350 3.72e+01 b.29.1.16,g.75.1.1 100145,100146 1odfA 290 3.85e+01 c.37.1.6 92782 1gtzA 156 3.92e+01 c.23.13.1 70539 1zesA 125 3.97e+01 1zq1A 438 4.00e+01 2gu2A 312 4.05e+01 1cb0A 283 4.07e+01 1cb0A c.56.2.1 33790 1zx5A 300 4.07e+01 1zeqX 84 4.08e+01 1k0hA 117 4.10e+01 b.106.1.2 71975 1treA 255 4.18e+01 1amk c.1.1.1 28505 1pszA 303 4.20e+01 1toaA c.92.2.2 35600 1o6uA 403 4.21e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1b1cA 181 4.21e+01 1amoA c.23.5.2 31212 1spiA 358 4.22e+01 1frpA e.7.1.1 42939 1bf6A 291 4.26e+01 1pscA c.1.9.3 29065 1i7fA 292 4.27e+01 1i7fA d.193.1.1 61888 2aifA 135 4.34e+01 1fftB 315 4.41e+01 1cyx b.6.1.2,f.17.2.1 23025,43628 1e3jA 352 4.45e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1ku8A 133 4.46e+01 1q53A 112 4.53e+01 d.58.4.4 95858 1b00A 127 4.54e+01 3chy c.23.1.1 31122 1j1lA 290 4.55e+01 b.82.1.12 90766 1yjmA 110 4.62e+01 1e01A 48 4.62e+01 1e01A 1jacA 133 4.74e+01 1jotA 1d0iA 156 4.85e+01 2dhqA c.23.13.1 31383 1ybvA 283 4.87e+01 1ybvA c.2.1.2 29948 1e0gA 48 4.90e+01 1e01A d.7.1.1 37325 1khoA 370 4.90e+01 a.124.1.1,b.12.1.3 72489,72490 1mioB 458 4.99e+01 1qguB c.92.2.3 35602 1ass 159 5.00e+01 1a6dA c.8.5.2 30818 1fo1A 271 5.05e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 2affA 120 5.08e+01 1wi5A 119 5.15e+01 1c9fA 90 5.16e+01 1c9fA d.15.2.1 37639 1kfwA 435 5.21e+01 c.1.8.5,d.26.3.1 77376,77377 1bkcA 255 5.27e+01 1bkcA d.92.1.10 40331 1adwA 123 5.33e+01 1bqk b.6.1.1 22893 1jacC 133 5.33e+01 1jotA 1ccwA 137 5.34e+01 1be1 c.23.6.1 31238 1b1a 137 5.34e+01 1be1 c.23.6.1 31242 1n99A 166 5.46e+01 b.36.1.1,b.36.1.1 85459,85460 2f9hA 129 5.53e+01 1udmA 149 5.70e+01 d.109.1.2 107780 2mhr 118 5.80e+01 2mhr a.24.4.1 16581 1eujA 166 5.82e+01 1eujA b.40.4.4 25316 1j7rA 86 5.82e+01 1j7rA a.39.1.5 62701 1v7lA 163 5.84e+01 1hcz 252 5.85e+01 1hcz b.2.6.1,b.84.2.2 22464,28250 1ahr 146 5.89e+01 1cll a.39.1.5 17287 1o6aA 96 5.94e+01 b.139.1.1 92562 1ugxA 133 5.96e+01 1tud 62 6.05e+01 1tud b.34.2.1 24489 1u1wA 298 6.10e+01 1widA 130 6.10e+01 2pcfB 250 6.28e+01 1hcz i.4.1.1 45911 1fl0A 171 6.29e+01 1eujA b.40.4.4 25315 2b6nA 278 6.29e+01 1wcv1 257 6.30e+01 1wf7A 103 6.32e+01 1f3uB 171 6.32e+01 1f3uB b.65.1.1 27525 1bkcI 256 6.32e+01 1bkcA d.92.1.10 40334 1bkcE 256 6.46e+01 1bkcA d.92.1.10 40333 1zxcA 263 6.57e+01 2ak5A 64 6.64e+01 2dh4A 340 6.70e+01 2fcfA 103 6.71e+01 1qqcA 773 6.74e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1xxqA 161 6.84e+01 1vkwA 218 6.84e+01 d.90.1.2 108695 1ykfA 352 6.88e+01 1pedA b.35.1.2,c.2.1.1 24757,29773 1i81A 83 6.97e+01 1d3bB b.38.1.1 61930 1fr3A 67 6.97e+01 1fr3A b.40.6.1 25436 1j7qA 86 7.07e+01 1j7rA a.39.1.5 62700 1shg 62 7.12e+01 1ckaA b.34.2.1 24493 1myo 118 7.17e+01 2myo d.211.1.1 19174 1asx 159 7.20e+01 1a6dA c.8.5.2 30821 1zlmA 58 7.21e+01 1jtgB 165 7.27e+01 d.98.1.1 67267 2fox 138 7.30e+01 5nul c.23.5.1 31197 1xubA 298 7.31e+01 1mz5A 638 7.36e+01 b.29.1.15,b.68.1.1 79679,79680 1vjnA 220 7.39e+01 d.157.1.4 100825 1w0hA 204 7.42e+01 1vehA 92 7.53e+01 1dbhA 354 7.60e+01 1awe a.87.1.1,b.55.1.1 18514,26967 2g2uB 165 7.60e+01 1d0qA 103 7.67e+01 1d0qA g.41.3.2 45208 1akq 147 7.75e+01 5nul c.23.5.1 31159 2brfA 110 7.77e+01 1whmA 92 7.79e+01 2b5rC 165 7.79e+01 1yl31 118 8.04e+01 1k8tA 510 8.06e+01 e.41.1.1 68316 1a7e 118 8.13e+01 2mhr a.24.4.1 16583 1gm0A 142 8.18e+01 a.39.2.1 65297 5nul 138 8.21e+01 5nul c.23.5.1 31191 1dqeA 137 8.24e+01 1dqeA a.39.2.1 17388 2fx2 147 8.27e+01 1rcf c.23.5.1 31158 1pmlA 86 8.33e+01 5hpgA g.14.1.1 44632 1qhtA 775 8.44e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1fm4A 159 8.45e+01 1bv1 d.129.3.1 76186 1k8qA 377 8.48e+01 c.69.1.6 72177 1iw0A 215 8.50e+01 a.132.1.1 83720 1tgxA 60 8.58e+01 1tgxA g.7.1.1 44398 2amxA 376 8.63e+01 3nll 138 8.68e+01 5nul c.23.5.1 31206 1p90A 145 8.75e+01 c.55.5.2 94377 2cu3A 64 8.77e+01 1nlbH 218 8.79e+01 b.1.1.1,b.1.1.2 80621,80622 1asyA 490 8.86e+01 1b8aA b.40.4.1,d.104.1.1 25242,40763 1bpi 58 8.89e+01 1bpi g.8.1.1 44468 1pwt 61 8.97e+01 1tud b.34.2.1 24490