# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1xngA 268 1.14e-01 1dq3A 454 4.47e-01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1d2eA 397 1.61e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1yhfA 115 2.81e+00 1han 297 3.43e+00 1han d.32.1.3,d.32.1.3 38506,38507 1lkdA 297 3.43e+00 d.32.1.3,d.32.1.3 78059,78060 1wh0A 134 3.66e+00 1pmzA 86 3.94e+00 a.39.1.10 104195 1zn8A 180 4.86e+00 1a6vL 110 5.73e+00 1mfa b.1.1.1 20256 1cgt 684 6.04e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21815,22484,27722,28709 1gg4A 452 6.15e+00 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1lgtA 297 6.46e+00 d.32.1.3,d.32.1.3 77956,77957 1gotB 340 7.47e+00 1tbgA b.69.4.1 27648 1a6uL 108 8.42e+00 1mfa b.1.1.1 20254 1chmA 401 9.63e+00 1chmA c.55.2.1,d.127.1.1 33545,41142 1lrwA 600 9.69e+00 b.70.1.1 91111 1tlyA 278 9.99e+00 f.4.6.1 107143 1oaqL 120 1.02e+01 b.1.1.1 92708 1a6wL 109 1.08e+01 1mfa b.1.1.1 20252 1nezG 128 1.12e+01 b.1.1.1 85592 1q79A 514 1.23e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 2cokA 113 1.28e+01 1d2qA 173 1.33e+01 1d4vB b.22.1.1 23894 1l1jA 239 1.45e+01 b.47.1.1 84516 2azqA 311 1.46e+01 1f6fB 210 1.49e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 1tbgA 340 1.57e+01 1tbgA b.69.4.1 27649 2a2pA 129 1.60e+01 1f5aA 513 1.60e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39337,75835,75836 1k9vF 201 1.68e+01 c.23.16.1 68365 1vqoE 178 1.75e+01 1dg6A 191 1.76e+01 1d4vB b.22.1.1 23883 1xcbA 211 1.76e+01 a.4.5.38,c.2.1.12 109552,109553 1eylA 186 1.85e+01 1wba b.42.4.1 25593 3ait 74 1.91e+01 1hoe b.5.1.1 22835 1zljA 78 1.98e+01 1kp0A 402 1.99e+01 c.55.2.1,d.127.1.1 72834,72835 2bcjB 340 1.99e+01 1qmeA 702 2.01e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1wckA 220 2.02e+01 1bgj 394 2.03e+01 1pbe c.3.1.2,d.16.1.2 30352,37883 1bqhG 129 2.06e+01 1cd8 b.1.1.1 19715 1cj3A 392 2.07e+01 1pbe c.3.1.2,d.16.1.2 30347,37878 2axwA 134 2.14e+01 1b09A 206 2.17e+01 1sacA b.29.1.5 24247 1hgxA 183 2.21e+01 1tc1A c.61.1.1 34027 1kk1A 410 2.24e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1xzoA 174 2.37e+01 1iloA 77 2.38e+01 c.47.1.1 66205 2bwrA 401 2.41e+01 1eal 127 2.43e+01 1hmt b.60.1.2 27227 1gnhA 206 2.44e+01 1sacA b.29.1.5 24252 1hoe 74 2.46e+01 1hoe b.5.1.1 22833 1llwA 1520 2.52e+01 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 1r6vA 671 2.65e+01 2ait 74 2.68e+01 1hoe b.5.1.1 22837 1j83A 180 2.85e+01 b.18.1.12 66430 1hlvA 131 2.88e+01 a.4.1.7,a.4.1.7 65854,65855 1ok0A 74 2.99e+01 b.5.1.1 93191 1e3aB 560 3.03e+01 1ajqB 1theB 260 3.25e+01 1theB d.3.1.1 37057 1theA 260 3.27e+01 1theB d.3.1.1 37056 1bhgA 613 3.32e+01 1bhgA b.1.4.1,b.18.1.5,c.1.8.3 22161,23766,28889 2gpzA 111 3.39e+01 1gpwB 201 3.40e+01 c.23.16.1 65461 1ogsA 497 3.68e+01 b.71.1.2,c.1.8.3 86997,86998 1tnrA 144 3.68e+01 2tnfA b.22.1.1 23867 1jj2E 177 3.71e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1ofdA 1520 3.72e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1pbe 394 3.77e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1h09A 338 3.77e+01 b.109.1.1,c.1.8.8 83420,83421 1ajqB 557 3.84e+01 1ajqB 1gm9B 557 3.84e+01 1gk9B 557 3.84e+01 1gkfB 557 3.84e+01 1gm7B 557 3.84e+01 1yq2A 1024 3.92e+01 1m6yA 301 3.93e+01 a.60.13.1,c.66.1.23 78716,78717 1lvwA 295 3.97e+01 c.68.1.6 84723 1ao7B 100 4.07e+01 1agdB b.1.1.2 20697 1a0rB 340 4.13e+01 1tbgA b.69.4.1 27658 1k2yX 463 4.18e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1s6lA 212 4.19e+01 1rzfL 213 4.22e+01 b.1.1.1,b.1.1.2 98152,98153 1pnkB 557 4.27e+01 1ajqB 1suwA 249 4.29e+01 e.52.1.1 106027 1tul 108 4.37e+01 1tul b.85.5.1 28373 1z0sA 278 4.56e+01 1k0iA 394 4.58e+01 c.3.1.2,d.16.1.2 67942,67943 1wdcB 156 4.60e+01 1wdcB a.39.1.5 17302 1s72E 178 4.73e+01 d.141.1.1,d.141.1.1 105323,105324 2fimA 276 4.81e+01 1p5dX 463 4.84e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1bn6A 294 4.93e+01 1bn6A c.69.1.8 34678 1bn7A 294 4.95e+01 1bn6A c.69.1.8 34677 1b3mA 389 4.98e+01 1b3mA 1dkmA 410 4.99e+01 1dklA c.60.1.2 34000 1fl9A 161 5.02e+01 c.37.1.18 70137 1bc4 111 5.18e+01 1onc d.5.1.1 37279 1zkkA 167 5.24e+01 1d4vB 163 5.53e+01 1d4vB b.22.1.1 23884 1h1aA 191 5.56e+01 b.29.1.11 83450 1u24A 337 5.56e+01 1xnkA 196 5.56e+01 1m07A 111 5.63e+01 d.5.1.1 78328 1xe1A 116 5.68e+01 b.43.3.1 109571 1rsy 152 5.68e+01 1rsy b.7.1.2 23192 2asi 360 5.73e+01 2rmpA b.50.1.2 26824 1el5A 389 5.76e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1l9fA 389 5.78e+01 c.3.1.2,d.16.1.3 73716,73717 1mvpA 124 5.95e+01 2rspB b.50.1.1 26775 1zvnA 99 5.99e+01 1cqwA 295 6.00e+01 1b6g c.69.1.8 34679 2bynA 227 6.04e+01 1edhA 226 6.13e+01 1edhA b.1.6.1,b.1.6.1 22198,22199 1sh0A 510 6.18e+01 e.8.1.4 98876 1ifrA 121 6.21e+01 b.1.16.1 71203 1hv9A 456 6.23e+01 1fwyA b.81.1.4,c.68.1.5 28060,34518 1z6bA 154 6.28e+01 1hfuA 503 6.33e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1opoA 348 6.33e+01 b.121.4.7 87240 1gmyA 261 6.35e+01 d.3.1.1 76236 2b0jA 358 6.56e+01 1goh 639 6.60e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21809,23711,27633 1qk4A 233 6.63e+01 1qk3A c.61.1.1 34037 1mat 264 6.72e+01 1c24A d.127.1.1 41152 1sb2A 133 6.75e+01 1pxfA 111 6.75e+01 b.40.4.4 88341 1scmB 145 6.92e+01 1wdcB a.39.1.5 17304 1amuA 563 6.92e+01 1amuA e.23.1.1 43351 1kk8B 139 6.96e+01 a.39.1.5 77430 1c24A 263 6.99e+01 1c24A d.127.1.1 41148 1vr8A 142 7.05e+01 1xnzA 264 7.20e+01 1ykjA 394 7.26e+01 2b43A 526 7.27e+01 1ml9A 302 7.28e+01 b.85.7.1 79282 1uurA 473 7.43e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1o91A 178 7.49e+01 b.22.1.1 92656 1v70A 105 7.51e+01 1m4vA 204 7.73e+01 b.40.2.2,d.15.6.1 74459,74460 1jtaA 361 7.73e+01 b.80.1.1 71859 2phh 394 7.85e+01 1pbe c.3.1.2,d.16.1.2 30353,37884 1e32A 458 8.10e+01 1e32A b.52.2.3,c.37.1.20,d.31.1.1 59183,59184,59185 1w6sA 599 8.14e+01 1tif 78 8.22e+01 1tif d.15.8.1 37836 1efuA 385 8.23e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1fsgA 233 8.26e+01 1qk3A c.61.1.1 34029 4matA 278 8.27e+01 1c24A d.127.1.1 41150 1ckqA 276 8.42e+01 1ckqA c.52.1.1 33229 1nqeA 594 8.45e+01 f.4.3.3 86027 1efcA 393 8.49e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1pe9A 361 8.51e+01 b.80.1.1 94595 1p5hA 428 8.51e+01 c.123.1.1 87802 1cl8A 276 8.57e+01 1ckqA c.52.1.1 33230 1r26A 125 8.58e+01 c.47.1.1 96847 1cd0A 111 8.59e+01 8fabA b.1.1.1 20559 2matA 264 8.60e+01 1c24A d.127.1.1 41146 1csbB 205 8.76e+01 1theB 1afb1 154 8.78e+01 1rtm1 1gpb 842 8.81e+01 1a8i c.87.1.4 35478 1yhpA 212 8.97e+01