# List of top-scoring protein chains for t2k-100-30-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.soe.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 1e54A 332 3.60e-24 1e54A f.4.3.1 59258 2fgqX 332 7.28e-24 f.4.3.1 133439 1hxxA 340 5.29e-19 2omf f.4.3.1 61385 2j1nA 346 5.36e-19 2omf 340 5.69e-19 2omf 2por 301 2.75e-05 2por 2porA 301 2.75e-05 f.4.3.1 43759 3prn 289 5.52e-02 3prn 3prnA 289 5.52e-02 f.4.3.1 43761 1prn 289 6.72e-02 3prn 1wiwA 290 1.40e+00 c.80.1.1 114681 1jfxA 217 1.67e+00 c.1.8.8 62943 1jetA 517 1.90e+00 1jevA c.94.1.1 35718 1aj8A 371 4.21e+00 1aj8A a.103.1.1 18900 1hl2A 297 6.04e+00 c.1.10.1 83581 2a9gA 418 6.40e+00 d.126.1.4 126435 2gufA 594 7.37e+00 f.4.3.3 135736 2hjpA 290 7.44e+00 1fdyA 297 7.64e+00 1nal3 c.1.10.1 29071 2h98A 313 7.78e+00 2o4vA 411 8.20e+00 1nowA 507 8.75e+00 c.1.8.6,d.92.2.1 85936,85937 1rxxA 421 9.56e+00 d.126.1.4 98061 1yizA 429 1.02e+01 c.67.1.1 123375 1nal3 297 1.04e+01 1nal3 2i53A 258 1.08e+01 1nal1 297 1.10e+01 1nal3 2dpyA 438 1.19e+01 2fp8A 322 1.29e+01 1p4tA 155 1.36e+01 f.4.1.1 87779 1ryaA 160 1.44e+01 d.113.1.5 105122 1j3bA 529 1.76e+01 c.91.1.1,c.109.1.1 77071,77072 1cb8A 678 1.84e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1aorA 605 1.92e+01 1b25A a.110.1.1,d.152.1.1 19042,41794 2f7bA 233 1.93e+01 2fvgA 340 1.97e+01 b.49.3.1,c.56.5.4 134201,134202 1jj2L 194 2.02e+01 1ffkI d.12.1.2 63097 2z1dA 372 2.07e+01 1a76 326 2.11e+01 1a76 1a76A 326 2.11e+01 a.60.7.1,c.120.1.2 18091,33361 1xkwA 665 2.14e+01 2jc5A 259 2.48e+01 1ynaA 194 2.85e+01 b.29.1.11 24335 2nt0A 497 2.87e+01 b.71.1.2,c.1.8.3 138561,138562 1qfgA 725 2.93e+01 1by5A f.4.3.3 43803 2fvkA 559 2.99e+01 b.92.1.3,c.1.9.6 134204,134205 1j96A 323 3.00e+01 c.1.7.1 71616 2uxwA 607 3.01e+01 1phm 310 3.03e+01 1phm 2q8gA 407 3.09e+01 3mddA 385 3.13e+01 3mdeA a.29.3.1,e.6.1.1 16592,42853 3c2qA 345 3.20e+01 2yxxA 386 3.20e+01 2bdeA 470 3.21e+01 c.108.1.23 128335 1pvxA 194 3.26e+01 1axkA b.29.1.11 24341 3mdeA 385 3.36e+01 3mdeA a.29.3.1,e.6.1.1 16594,42855 1nvtA 287 3.39e+01 c.2.1.7,c.58.1.5 86270,86271 1y3nA 490 3.40e+01 c.94.1.1 122597 1vqoM 195 3.43e+01 d.12.1.2 120374 3b96A 587 3.44e+01 2i62A 265 3.53e+01 2thiA 379 3.54e+01 2thiA c.94.1.1 35794 1jcfA 344 3.67e+01 c.55.1.1,c.55.1.1 62878,62879 2ivfB 352 3.71e+01 2hr7A 486 3.74e+01 1ptvA 321 3.80e+01 1pty c.45.1.2 32665 2e6fA 314 3.80e+01 1i69A 219 3.94e+01 c.94.1.1 61825 1i6aA 219 3.96e+01 c.94.1.1 61827 1rocA 155 4.01e+01 b.1.22.1 97673 2djlA 314 4.17e+01 2biwA 490 4.25e+01 1rhi3 236 4.25e+01 1aym3 1sdwA 314 4.31e+01 b.121.1.2,b.121.1.2 98810,98811 2fcpA 723 4.32e+01 1by5A f.4.3.3 43802 2f71A 298 4.56e+01 c.45.1.2 133070 2i8tA 167 4.67e+01 3thiA 371 4.68e+01 2thiA c.94.1.1 35792 1jx2B 315 4.69e+01 c.37.1.8 67404 1egdA 396 4.95e+01 3mdeA a.29.3.1,e.6.1.1 16596,42857 1qd5A 275 4.96e+01 1qd5A f.4.2.1 43748 2ddxA 333 5.04e+01 1xw8A 252 5.18e+01 c.6.2.5 116111 1e9lA 377 5.18e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1qwlA 505 5.20e+01 e.5.1.1 96483 1dpeA 507 5.27e+01 c.94.1.1 35799 2b4gA 317 5.30e+01 c.1.4.1 127829 1qfxA 460 5.32e+01 1qfxA c.60.1.2 33994 2a0uA 383 5.33e+01 1dppA 507 5.43e+01 1dpe c.94.1.1 35800 2cxaA 256 5.62e+01 d.108.1.6 130993 1by5A 714 5.65e+01 1by5A f.4.3.3 43800 2gsmA 566 5.72e+01 f.24.1.1 135589 2douA 376 5.81e+01 1vf8A 377 5.85e+01 c.1.8.5,d.26.3.1 120029,120030 1i0hA 205 5.86e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 1zzmA 259 5.96e+01 c.1.9.12 125911 2h9aB 310 5.97e+01 1e70M 501 5.99e+01 1e70M c.1.8.4 28926 1vb3A 428 6.03e+01 c.79.1.1 119942 1q2wA 308 6.05e+01 b.47.1.4 88355 1j78A 458 6.09e+01 a.126.1.1,a.126.1.1,a.126.1.1 66397,66398,66399 1g5hA 454 6.15e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1pty 321 6.16e+01 1pty 1qd6C 240 6.19e+01 1qd5A 2nutA 769 6.20e+01 2ebn 289 6.29e+01 2ebn 2ebnA 289 6.29e+01 c.1.8.5 28990 1qba 858 6.40e+01 1qba 2hyvA 308 6.42e+01 2dy1A 665 6.42e+01 1f0xA 571 6.47e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 2amdA 311 6.48e+01 1nqeA 594 6.58e+01 f.4.3.3 86027 1yt5A 258 6.63e+01 2qgzA 308 6.68e+01 2jqyA 280 6.69e+01 2iwvA 281 6.82e+01 1s1pA 331 6.94e+01 c.1.7.1 98350 1qsgA 265 6.94e+01 1eny c.2.1.2 29935 1o97C 264 6.97e+01 c.26.2.3 81232 2dfbA 190 6.98e+01 b.29.1.11 131470 2imgA 151 7.02e+01 1u8vA 490 7.13e+01 a.29.3.1,e.6.1.1 113196,113197 1tqnA 486 7.14e+01 a.104.1.1 107238 1kxpD 458 7.30e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1w7bA 339 7.32e+01 a.65.1.1 114317 1m6jA 261 7.34e+01 c.1.1.1 78693 1e4mM 501 7.36e+01 1e70M c.1.8.4 59226 1ix9A 205 7.37e+01 a.2.11.1,d.44.1.1 76899,76900 1ej1A 190 7.41e+01 1ejhA d.86.1.1 40144 1ar1A 558 7.66e+01 2occA f.24.1.1 43618 1bxwA 172 7.74e+01 1bxwA f.4.1.1 43743 1nbaA 264 7.76e+01 1nbaA c.33.1.3 31753 1eeoA 321 7.82e+01 1pty c.45.1.2 32655 2hxmA 223 7.86e+01 c.18.1.1 136857 1ouvA 273 7.89e+01 a.118.18.1 93570