# 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 1wduA 245 4.46e-01 d.151.1.1 109286 1epxA 370 1.89e+00 1fbaA c.1.10.1 29150 1w1wA 430 2.65e+00 1tqjA 230 3.26e+00 c.1.2.2 107228 1o7tA 309 7.21e+00 c.94.1.1 86645 1pvvA 315 7.44e+00 c.78.1.1,c.78.1.1 95190,95191 1fsz 372 8.26e+00 1fsz c.32.1.1,d.79.2.1 31750,39802 1w6uA 302 8.89e+00 1v6tA 255 9.29e+00 2hvm 273 9.33e+00 1cnv c.1.8.5 28985 1a1s 314 9.52e+00 1othA c.78.1.1,c.78.1.1 35258,35259 1ypxA 375 9.74e+00 1s3zA 165 1.01e+01 d.108.1.1 105250 1xc1A 309 1.01e+01 c.94.1.1 109543 1vr5A 547 1.11e+01 1pbn 289 1.30e+01 1b8oA c.56.2.1 33771 1b7gO 340 1.31e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1z0sA 278 1.32e+01 1xuuA 349 1.39e+01 1a3wA 500 1.52e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 1vhwA 253 1.59e+01 c.56.2.1 100706 2dbbA 151 1.63e+01 2f5gA 133 1.65e+01 1a9t 284 1.69e+01 1b8oA c.56.2.1 33765 1m3uA 264 1.70e+01 c.1.12.8 84784 1jj2L 194 1.70e+01 1ffkI d.12.1.2 63097 1b8bA 605 1.78e+01 1b8bA 1vraB 215 1.81e+01 1a9r 282 1.83e+01 1b8oA c.56.2.1 33767 4lbd 267 1.95e+01 2lbd a.123.1.1 19289 2faoA 309 1.99e+01 1b8oA 284 2.02e+01 1b8oA c.56.2.1 33762 1uayA 242 2.07e+01 c.2.1.2 88390 1r30A 369 2.15e+01 c.1.28.1 96895 1r5tA 142 2.16e+01 c.97.1.1 104812 1ji0A 240 2.18e+01 c.37.1.12 71665 2lbd 267 2.20e+01 2lbd a.123.1.1 19287 1fcyA 236 2.26e+01 2lbd a.123.1.1 19282 2fz4A 237 2.35e+01 3pnp 289 2.38e+01 1b8oA c.56.2.1 33763 1uzmA 247 2.42e+01 1kt6A 183 2.43e+01 b.60.1.1 84466 1kqzA 273 2.47e+01 c.1.8.5 68844 1ojxA 263 2.48e+01 c.1.10.1 93164 1efuB 282 2.49e+01 1efuB d.43.1.1,a.5.2.2,d.43.1.1 38677,58975,58976 1nrjB 218 2.53e+01 c.37.1.8 86125 1e9rA 437 2.71e+01 c.37.1.11 64827 1e69B 322 2.77e+01 1e69B c.37.1.12 32377 2prd 174 2.77e+01 2prd b.40.5.1 25435 1a9s 289 2.79e+01 1b8oA c.56.2.1 33768 1vpqA 273 2.80e+01 1qr6A 584 2.93e+01 1qr6A c.2.1.7,c.58.1.3 30293,33941 1aqb 183 2.94e+01 1aqb b.60.1.1 27084 1cp3A 277 3.03e+01 1pauA c.17.1.1 30992 1k2fA 190 3.23e+01 b.8.1.2 68054 1fbaA 361 3.34e+01 1fbaA c.1.10.1 29120 1sgwA 214 3.38e+01 c.37.1.12 105541 1obwA 175 3.46e+01 2prd b.40.5.1 25416 1zaiA 363 3.50e+01 1gegA 256 3.51e+01 1ybvA c.2.1.2 29888 1jpdX 324 3.52e+01 c.1.11.2,d.54.1.1 67014,67015 1eriA 276 3.53e+01 1ckqA c.52.1.1 33231 1yh3A 256 3.55e+01 1jj7A 260 3.57e+01 c.37.1.12 63114 1m41A 380 3.58e+01 c.1.16.4 78595 1suwA 249 3.64e+01 e.52.1.1 106027 1cl8A 276 3.66e+01 1ckqA c.52.1.1 33230 1eulA 994 3.73e+01 1eulA 1o1xA 155 3.74e+01 c.121.1.1 86553 1u1hA 765 3.79e+01 c.1.22.2,c.1.22.2 107580,107581 1uanA 227 3.99e+01 c.134.1.1 99135 2gnoA 305 4.00e+01 2fliA 220 4.02e+01 2g5cA 281 4.13e+01 1rpxA 230 4.28e+01 1rpxA c.1.2.2 28536 1vjeA 166 4.34e+01 d.185.1.2 100807 2g2dA 193 4.35e+01 1fvaA 217 4.36e+01 1fvaA d.58.28.1 39409 1ckqA 276 4.39e+01 1ckqA c.52.1.1 33229 1auiB 169 4.44e+01 1auiB a.39.1.5 17325 1f8yA 157 4.45e+01 1f8xA c.23.14.1 31395 7odcA 424 4.45e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1innA 166 4.45e+01 1j98A d.185.1.2 62608 1kqyA 273 4.46e+01 c.1.8.5 68843 1zud1 251 4.53e+01 1ald 363 4.57e+01 1fbaA c.1.10.1 29100 1ws0A 156 4.59e+01 1zd9A 188 4.68e+01 1zp4A 304 4.69e+01 1n3bA 216 4.85e+01 c.37.1.1 79959 1w8sA 263 4.89e+01 2cviA 83 4.94e+01 1n3lA 372 5.03e+01 c.26.1.1 79966 1qc9A 276 5.04e+01 1ckqA c.52.1.1 33235 2etjA 250 5.04e+01 1adoA 363 5.06e+01 1fbaA c.1.10.1 29124 1yacA 208 5.28e+01 1yacA c.33.1.3 31757 2u1a 88 5.30e+01 2u1a d.58.7.1 39164 1k7jA 206 5.33e+01 d.115.1.1 72103 1vjvA 415 5.34e+01 d.3.1.9 108632 1vlwA 217 5.39e+01 c.1.10.1 108868 1odkA 235 5.40e+01 c.56.2.1 86863 1pyoA 167 5.44e+01 c.17.1.1 95370 1vcvA 226 5.71e+01 1hbq 183 5.79e+01 1aqb b.60.1.1 27078 1ir6A 424 5.80e+01 c.107.1.2 71342 1d2eA 397 5.81e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1qpsA 261 5.84e+01 1ckqA c.52.1.1 33234 1f0cA 305 5.95e+01 1c8oA e.1.1.1 42676 1gm6A 175 5.97e+01 b.60.1.1 70272 1hbp 183 5.98e+01 1aqb b.60.1.1 27079 1jv4A 162 6.03e+01 b.60.1.1 67343 1bqk 124 6.04e+01 1bqk b.6.1.1 22889 1w3iA 293 6.09e+01 c.1.10.1 109152 1mup 166 6.12e+01 1mup b.60.1.1 27133 1bsjA 168 6.14e+01 1bs4A d.167.1.1 42302 1pk9A 237 6.15e+01 c.56.2.1 94823 1i05A 180 6.16e+01 1mup b.60.1.1 27130 1su4A 994 6.17e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 2aorA 223 6.19e+01 1fa0A 537 6.24e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1g2aA 168 6.25e+01 d.167.1.1 65109 1zndA 174 6.29e+01 1wa3A 205 6.37e+01 1i3cA 149 6.39e+01 c.23.1.1 71112 1ja9A 274 6.43e+01 c.2.1.2 62817 1qy1A 174 6.53e+01 b.60.1.1 96568 2a5dA 175 6.54e+01 1dpe 507 6.61e+01 1dpe c.94.1.1 35799 1ob8A 135 6.65e+01 2eueA 279 6.65e+01 1rybA 212 6.70e+01 c.56.3.1 98098 1bs4A 168 6.76e+01 1bs4A d.167.1.1 42287 1i06A 180 6.80e+01 1mup b.60.1.1 27131 1icjA 168 6.84e+01 1bs4A d.167.1.1 42284 1jkeA 145 6.86e+01 c.110.1.1 66791 1hozA 339 6.88e+01 c.70.1.1 65898 2chnA 716 6.89e+01 1ws6A 171 6.90e+01 1eni 138 6.93e+01 2end a.18.1.1 16403 1o6zA 303 6.93e+01 c.2.1.5,d.162.1.1 81107,81108 1xeoA 168 6.98e+01 1ta3A 274 7.02e+01 c.1.8.5 106731 1ha3A 405 7.03e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 2b4aA 138 7.05e+01 1sjiA 350 7.07e+01 1oyb 400 7.08e+01 1oyc c.1.4.1 28602 2aa1A 144 7.09e+01 2fmpA 335 7.12e+01 1f8xA 157 7.12e+01 1f8xA c.23.14.1 31397 1n5nA 180 7.14e+01 d.167.1.1 85336 1mu5A 471 7.15e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 2choA 716 7.19e+01 1oya 400 7.21e+01 1oyc c.1.4.1 28604 1tcvA 287 7.22e+01 1a4iB 301 7.34e+01 1a4iA c.2.1.7,c.58.1.2 30279,33927 1rpl 251 7.37e+01 1bpyA a.60.12.1,d.218.1.2 75933,75934 1b43A 340 7.40e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1oatA 439 7.47e+01 2dkb c.67.1.4 34461 1cwyA 500 7.48e+01 1cwyA c.1.8.1 28789 2fwtA 125 7.50e+01 1xocA 520 7.55e+01 1em8A 147 7.55e+01 c.128.1.1 90457 1eswA 500 7.55e+01 1cwyA c.1.8.1 59500 1b5tA 275 7.56e+01 1b5tA c.1.23.1 29676 2b4rO 345 7.57e+01 2ucz 165 7.63e+01 1u9aA d.20.1.1 38330 1y0eA 223 7.67e+01 1fvgA 199 7.73e+01 1fvaA d.58.28.1 39408 1hp0A 339 7.77e+01 c.70.1.1 65900 1s72M 194 7.82e+01 d.12.1.2 105332 1efcA 393 7.86e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1df3A 162 7.89e+01 1mup b.60.1.1 27134 1wh5A 80 7.93e+01 1vplA 256 7.94e+01 1zpvA 91 8.01e+01 1k3rA 268 8.11e+01 b.40.4.10,c.116.1.2 72018,72019 1nom 248 8.18e+01 1bpyA a.60.12.1,d.218.1.2 75929,75930 1mrp 309 8.20e+01 1mrp c.94.1.1 35796 1mg7A 417 8.32e+01 d.14.1.6,d.58.26.6 84954,84955 1aocA 175 8.39e+01 1aocA g.17.1.5 44817 1oyc 400 8.41e+01 1oyc c.1.4.1 28603 1avqA 228 8.48e+01 1avqA c.52.1.13 33326 2fckA 181 8.50e+01 2ts1 419 8.50e+01 2ts1 c.26.1.1 31564 1bjt 793 8.55e+01 1bjt e.11.1.1 43249 1fa0B 537 8.60e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39336,75839,75840 1mioB 458 8.68e+01 1qguB c.92.2.3 35602 1vqoM 195 8.68e+01 1mit 69 8.70e+01 1hymA d.40.1.1 38582 1feuA 206 8.84e+01 1feuA b.53.1.1 59801 1r5lA 262 8.94e+01 a.5.3.1,c.13.1.1 97099,97100