# List of top-scoring protein chains for t04-100-40-40-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 1l0iA 78 8.70e-08 a.28.1.1 77643 1f80D 81 1.71e-05 1acp a.28.1.1 59686 1jr2A 286 6.02e-02 c.113.1.1 67111 1j0aA 325 2.40e-01 c.79.1.1 83871 1hrkA 359 4.90e-01 1hrkA c.92.1.1 61228 1eg5A 384 5.05e-01 1ecxA c.67.1.3 34429 1h5wA 309 5.17e-01 e.27.1.1 65635 1jj2W 91 8.65e-01 1ffkU d.29.1.1 63108 1s72X 92 8.66e-01 1ijgA 309 9.04e-01 1fouA e.27.1.1 62493 1vcbA 118 1.26e+00 1vcbA d.15.1.1 37603 1lm8B 118 1.35e+00 d.15.1.1 74033 1pufB 73 2.05e+00 a.4.1.1 -192 1dlwA 116 2.25e+00 1dlyA a.1.1.1 14982 1nar 290 2.26e+00 1nar c.1.8.5 28988 1fiqB 350 2.36e+00 1fiqB d.87.2.1 40229 d.145.1.3 41760 1pi1A 185 2.80e+00 unknown_sccs -762 1o22A 170 2.90e+00 d.238.1.1 86557 1p4wA 99 3.04e+00 a.4.6.2 87783 1a41 234 3.16e+00 1a41 d.163.1.2 42174 1rt8A 513 3.26e+00 1gx1A 160 3.26e+00 d.79.5.1 70675 1j6wA 175 3.56e+00 1j98A d.185.1.2 62663 1nv8A 284 3.74e+00 c.66.1.30 86224 1o08A 221 3.78e+00 c.108.1.6 86525 1qyiA 384 3.88e+00 unknown_sccs -6836 1hw1A 239 3.98e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1hzpA 335 4.04e+00 1hn9A c.95.1.1 61455 c.95.1.1 61456 1or0A 160 4.11e+00 d.153.1.2 -11415 1rpnA 335 4.24e+00 c.2.1.2 -5759 3kvt 115 4.54e+00 1t1dA d.42.1.2 38642 1fnnA 389 4.66e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1iyhA 198 4.88e+00 a.45.1.1 83790 c.47.1.5 83791 1clxA 347 4.97e+00 1taxA c.1.8.3 28899 1pd21 199 4.98e+00 1pd21 1p3jA 217 5.16e+00 c.37.1.1 -6996 g.41.2.1 -12769 1gd0A 122 5.62e+00 1dptA d.80.1.3 39834 1d2zA 108 5.71e+00 1d2zA a.77.1.2 18437 1rw2A 152 5.77e+00 unknown_sccs -1645 1s3eA 520 5.83e+00 c.3.1.2 -6022 d.16.1.5 -9242 1d02A 202 6.06e+00 1d02A c.52.1.8 33313 1aisB 200 6.17e+00 1aisB a.74.1.2 18384 a.74.1.2 18385 1elqA 390 6.36e+00 1elqA c.67.1.3 34436 1mlwA 301 6.49e+00 d.178.1.1 79289 1mpgA 282 6.58e+00 1mpgA a.96.1.3 18747 d.129.1.2 41296 1jqeA 292 6.77e+00 c.66.1.19 71789 1qgoA 264 6.79e+00 1qgoA c.92.1.2 35596 1vpt 348 6.93e+00 3mag c.66.1.25 34207 1tc5A 194 6.99e+00 1f0lA 535 7.04e+00 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1g291 372 7.23e+00 1g291 1v97A 1332 7.59e+00 1e4yA 214 7.63e+00 1zin c.37.1.1 31901 g.41.2.1 45181 1pq4A 291 8.04e+00 c.92.2.2 -8633 1af7 274 8.26e+00 1af7 a.58.1.1 17928 c.66.1.8 34203 1ojaA 520 8.41e+00 c.3.1.2 -6000 d.16.1.5 -9220 1fm2A 169 8.62e+00 1fm2A d.153.1.2 59877 1h05A 146 8.74e+00 c.23.13.1 76433 1eluA 390 9.01e+00 1elqA c.67.1.3 34434 1b72B 87 9.02e+00 1akhA a.4.1.1 16001 1nu5A 370 9.15e+00 c.1.11.2 -5565 d.54.1.1 -9823 1iktA 120 9.26e+00 d.106.1.1 66188 1jidA 128 9.42e+00 d.201.1.1 66735 1odfA 290 9.54e+00 c.37.1.6 -7045 1dd9A 338 1.01e+01 1dd9A e.13.1.1 43254 1ufmA 84 1.02e+01 1pq1A 196 1.03e+01 f.1.4.1 -12055 1pzxA 289 1.04e+01 c.119.1.1 -8623 1t8hA 277 1.05e+01 1n7hA 381 1.05e+01 c.2.1.2 80250 2napA 723 1.05e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1fo4A 1332 1.05e+01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1oxsC 353 1.06e+01 b.40.6.3 87519 c.37.1.12 87520 1mrp 309 1.07e+01 1mrp c.94.1.1 35796 1zin 217 1.09e+01 1zin c.37.1.1 31915 g.41.2.1 45178 1qlmA 316 1.09e+01 1qlmA d.147.1.1 41765 1vjrA 271 1.12e+01 unknown_sccs -6853 1qczA 169 1.13e+01 1qczA c.23.8.1 31276 1hdr 244 1.13e+01 1dhr c.2.1.2 29837 1lmb3 92 1.14e+01 1lmb3 1io7A 368 1.16e+01 1f4tA a.104.1.1 18971 1b9mA 265 1.16e+01 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1ka2A 499 1.17e+01 d.92.1.5 77305 1o4vA 183 1.18e+01 c.23.8.1 86628 1eqfA 280 1.25e+01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1vhvA 268 1.26e+01 c.90.1.1 -8619 1r6dA 337 1.27e+01 c.2.1.2 -5757 1hnjA 317 1.28e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1f08A 148 1.30e+01 1f08A d.89.1.2 59564 2vsgA 358 1.30e+01 2vsgA h.4.1.1 45780 1egaA 301 1.36e+01 1egaA c.37.1.8 32150 d.52.3.1 38836 1v39 322 1.38e+01 3mag c.66.1.25 34206 2dhqA 146 1.40e+01 2dhqA c.23.13.1 31382 1a0p 290 1.41e+01 1a0p a.60.9.1 18105 d.163.1.1 42165 1e8yA 966 1.42e+01 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1dpgA 485 1.42e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1dptA 117 1.43e+01 1dptA d.80.1.3 39862 1ejbA 168 1.44e+01 1rvv1 c.16.1.1 59417 1nbwB 117 1.47e+01 c.51.3.2 80396 1rkqA 282 1.48e+01 c.108.1.10 -6847 1cby 259 1.50e+01 1cby d.103.1.1 40705 1hfoA 113 1.50e+01 d.80.1.3 61006 1ccwA 137 1.53e+01 1be1 c.23.6.1 31238 1o50A 157 1.54e+01 d.37.1.1 -9604 d.37.1.1 -9605 1b25A 619 1.55e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1b4fA 82 1.60e+01 1b4fA a.60.1.2 17934 1idrA 136 1.61e+01 1dlyA a.1.1.1 62301 1o97C 264 1.62e+01 c.26.2.3 81232 1gz6A 319 1.62e+01 c.2.1.2 76410 1pl8A 356 1.63e+01 b.35.1.2 -3716 c.2.1.1 -5740 1sra 151 1.63e+01 1sra a.39.1.3 17190 1oeyA 83 1.63e+01 d.15.2.2 -9162 1e43A 483 1.64e+01 1bli b.71.1.1 59217 c.1.8.1 59218 1rkuA 206 1.69e+01 unknown_sccs -6823 1fthA 122 1.70e+01 d.150.1.2 60028 1wod 233 1.73e+01 1wod c.94.1.1 35832 1f2rI 100 1.75e+01 1c9fA d.15.2.1 37641 1ow4A 129 1.76e+01 a.39.2.1 -876 1jk0A 419 1.77e+01 a.25.1.2 63142 1exbA 332 1.77e+01 1qrqA c.1.7.1 28666 3mag 307 1.79e+01 3mag c.66.1.25 34205 1s72P 149 1.81e+01 1dhr 241 1.81e+01 1dhr c.2.1.2 29832 1dp4A 435 1.83e+01 1dp4A c.93.1.1 35710 1h6dA 433 1.89e+01 c.2.1.3 65656 d.81.1.5 65657 1nbwA 607 1.91e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1jqnA 883 1.93e+01 c.1.12.3 77159 1ofgA 381 1.93e+01 1ofgA c.2.1.3 30064 d.81.1.5 39979 1jj2O 148 1.93e+01 1ffkM a.94.1.1 63100 1ad4A 266 1.96e+01 1aj2 c.1.21.1 29670 1i50J 70 1.98e+01 a.4.11.1 61764 1thtA 305 2.00e+01 1thtA c.69.1.13 34711 1dbwA 126 2.01e+01 1dbwA c.23.1.1 31095 1q0uA 219 2.03e+01 c.37.1.19 -7205 1cjaA 342 2.05e+01 1cjaA d.144.1.3 41708 1otfA 62 2.05e+01 1otfA d.80.1.1 39820 1f5mA 180 2.07e+01 1f5mB d.110.2.1 40895 1khyA 148 2.07e+01 a.174.1.1 77410 1uc2A 481 2.09e+01 unknown_sccs -11725 1vh7A 265 2.09e+01 c.1.2.1 -5159 1jhfA 202 2.10e+01 a.4.5.2 63057 b.87.1.1 63058 1n91A 108 2.12e+01 d.206.1.1 80326 1p0yA 444 2.15e+01 a.166.1.1 87654 b.85.7.3 87655 1fdr 248 2.16e+01 1fdr b.43.4.2 25653 c.25.1.1 31543 1s6yA 450 2.18e+01 1vp9 322 2.18e+01 3mag c.66.1.25 34210 1ngr 85 2.22e+01 1ngr a.77.1.2 18422 1mwwA 128 2.24e+01 unknown_sccs -10451 1it2A 146 2.26e+01 a.1.1.2 66365 1l6rA 227 2.28e+01 c.108.1.10 77768 1nnvA 110 2.28e+01 unknown_sccs -9309 1oxxK 353 2.30e+01 b.40.6.3 -3969 c.37.1.12 -7187 1j79A 347 2.30e+01 1j79A c.1.9.4 62675 1ek6A 348 2.35e+01 1xel c.2.1.2 29800 1d1vA 444 2.37e+01 1nseA d.174.1.1 59101 1ubi 76 2.37e+01 1ubi d.15.1.1 37584 1mzjA 339 2.38e+01 c.95.1.1 79700 c.95.1.1 79701 1lssA 140 2.39e+01 c.2.1.9 74246 1rpjA 288 2.39e+01 2dri c.93.1.1 35656 1l5wA 796 2.40e+01 c.87.1.4 73605 1hrdA 449 2.43e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1b0xA 94 2.43e+01 1b4fA a.60.1.2 17933 1fiy 883 2.43e+01 1fiy c.1.12.3 29307 1d1gA 168 2.46e+01 1d1gA c.71.1.1 34889 2rslA 140 2.49e+01 2rslA c.53.1.1 33345 1p5sA 203 2.49e+01 a.40.1.1 -900 1pwhA 327 2.52e+01 c.79.1.1 -8524 1amf 233 2.53e+01 1wod c.94.1.1 35833 1k3pA 426 2.58e+01 a.103.1.1 77237 1ewkA 490 2.58e+01 1ewkA c.93.1.1 35712 1nnwA 252 2.61e+01 d.159.1.5 80674 1cg5B 141 2.64e+01 1cg5B a.1.1.2 15585 1gnlA 544 2.64e+01 e.26.1.1 70287 1gewA 356 2.65e+01 1gewA c.67.1.1 60470 1div 149 2.66e+01 1div d.99.1.1 40692 d.100.1.1 40693 1r72A 211 2.67e+01 unknown_sccs -215 unknown_sccs -5981 1fm0D 81 2.69e+01 1fmaD d.15.3.1 37642 1f2dA 341 2.70e+01 1f2dA c.79.1.1 35298 1sjwA 144 2.70e+01 unknown_sccs -9296 1em8B 112 2.77e+01 unknown_sccs -6364 1qmyA 167 2.79e+01 1qmyA d.3.1.2 37094 1iapA 211 2.79e+01 a.91.1.1 62119 1pinA 163 2.80e+01 1pinA b.72.1.1 27802 d.26.1.1 38431 1dw0A 112 2.81e+01 1dw0A a.3.1.1 15911 1ogwA 76 2.82e+01 d.15.1.1 87001 1ecfA 504 2.83e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1ku1A 230 2.85e+01 a.118.3.1 72996 1nd4A 264 2.88e+01 d.144.1.6 -11381 1cqxA 403 2.88e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1j7lA 264 2.89e+01 d.144.1.6 62697 1k9sA 237 2.90e+01 c.56.2.1 68359 1q15A 503 2.91e+01 c.26.2.1 -6625 d.153.1.1 -11400 1j3vA 289 2.92e+01 a.100.1.1 -1303 c.2.1.6 -5947 1nstA 325 2.92e+01 1nstA c.37.1.5 31951 1n2eA 300 2.99e+01 c.26.1.4 85268 1nz0A 118 3.01e+01 d.14.1.2 86433 1o4sA 389 3.02e+01 c.67.1.1 86620 2pfkA 320 3.03e+01 3pfk c.89.1.1 35577 1jc4A 148 3.04e+01 1jc4A d.32.1.4 62863 1kq6A 141 3.10e+01 d.189.1.1 -9926 1po5A 476 3.16e+01 a.104.1.1 -1467 1bgvA 449 3.24e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1mqoA 227 3.29e+01 1dzkA 157 3.31e+01 1obpA b.60.1.1 27096 1oyjA 231 3.31e+01 a.45.1.1 87597 c.47.1.5 87598 1bzyA 217 3.32e+01 1qk3A c.61.1.1 34071 1vom 762 3.33e+01 1lvk b.34.3.1 24577 c.37.1.9 32174 1opr 213 3.35e+01 1opr c.61.1.1 34091 1l8bA 190 3.37e+01 d.86.1.1 73683 1atg 231 3.37e+01 1atg c.94.1.1 35834 1m1zA 513 3.41e+01 c.26.2.1 78457 d.153.1.1 78458 1r1dA 247 3.41e+01 unknown_sccs -8335 1i24A 404 3.42e+01 c.2.1.2 83663 1q16C 225 3.44e+01 unknown_sccs -12324 1kr7A 110 3.46e+01 a.1.1.4 72890 3cla 213 3.47e+01 3cla c.43.1.1 32610 1oxjA 173 3.53e+01 a.60.1.2 87517 a.118.1.13 87518 1dxrC 336 3.54e+01 6prcC a.138.1.2 19670 1orrA 347 3.55e+01 c.2.1.2 -5776 1f1zA 273 3.56e+01 1f1zA a.4.5.27 16081 c.52.1.16 33334 1rb9 53 3.65e+01 1rb9 g.41.5.1 45214 1qd9A 124 3.67e+01 1qu9A d.79.1.1 39758 1lh0A 213 3.68e+01 c.61.1.1 73896 1gcuA 295 3.69e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1viaA 175 3.73e+01 c.37.1.2 -7021 1uzcA 71 3.77e+01 a.159.2.1 -339 1ekeA 230 3.78e+01 1ekeA c.55.3.1 33572 1d0cA 444 3.78e+01 d.174.1.1 64769 1om4A 422 3.87e+01 d.174.1.1 87067 1ed5A 444 3.88e+01 1nseA d.174.1.1 42530 1a3c 181 3.89e+01 1a3c c.61.1.1 34095 1j8uA 325 3.91e+01 d.178.1.1 71611 2bc2A 227 3.96e+01 1a7tA d.157.1.1 42031 4pah 308 3.97e+01 4pah d.178.1.1 42576 1d8dA 377 3.98e+01 1ft1A a.118.6.1 19185