# 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.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 1.32e-24 1e54A f.4.3.1 59258 2fgqX 332 2.87e-24 f.4.3.1 133439 2j1nA 346 7.68e-21 1hxxA 340 2.28e-20 2omf f.4.3.1 61385 2omf 340 3.67e-20 2omf 2porA 301 1.29e-04 f.4.3.1 43759 2por 301 1.38e-04 2por 1wiwA 290 9.72e-02 c.80.1.1 114681 3prnA 289 5.34e-01 f.4.3.1 43761 3prn 289 5.64e-01 3prn 1prn 289 9.74e-01 3prn 1wcdJ 441 4.90e+00 b.121.4.9 120887 1vb3A 428 5.86e+00 c.79.1.1 119942 1jetA 517 6.32e+00 1jevA c.94.1.1 35718 1ryaA 160 6.63e+00 d.113.1.5 105122 1qwlA 505 6.66e+00 e.5.1.1 96483 1rxxA 421 7.49e+00 d.126.1.4 98061 2a9gA 418 7.70e+00 d.126.1.4 126435 2dpyA 438 7.99e+00 1p4tA 155 8.88e+00 f.4.1.1 87779 1rhi3 236 9.07e+00 1aym3 1nowA 507 9.72e+00 c.1.8.6,d.92.2.1 85936,85937 2rdpA 150 1.06e+01 1a8d 452 1.07e+01 1a8d 1a8dA 452 1.10e+01 b.29.1.6,b.42.4.2 24262,25607 1e4mM 501 1.12e+01 1e70M c.1.8.4 59226 2df7A 458 1.19e+01 b.121.4.9 131449 1lci 550 1.35e+01 1lci 2dy1A 665 1.36e+01 1e70M 501 1.40e+01 1e70M c.1.8.4 28926 1phkA 298 1.42e+01 d.144.1.7 41635 1csh 435 1.45e+01 1csh 1cshA 435 1.45e+01 a.103.1.1 18880 1diwA 441 1.45e+01 1a8d b.29.1.6,b.42.4.2 24264,25609 1d0hA 469 1.69e+01 1a8d b.29.1.6,b.42.4.2 24265,25610 1ymmA 191 1.95e+01 b.1.1.2,d.19.1.1 123701,123702 1aqdA 192 2.05e+01 1iakA b.1.1.2,d.19.1.1 21585,38159 2obiA 183 2.10e+01 2i8tA 167 2.14e+01 2iciA 227 2.15e+01 2gufA 594 2.19e+01 f.4.3.3 135736 1i78A 297 2.19e+01 f.4.4.1 66046 1qd6C 240 2.21e+01 1qd5A 1qd5A 275 2.25e+01 1qd5A f.4.2.1 43748 1afsA 323 2.32e+01 1frb c.1.7.1 28694 2jc5A 259 2.46e+01 1yizA 429 2.54e+01 c.67.1.1 123375 1vf8A 377 2.61e+01 c.1.8.5,d.26.3.1 120029,120030 2dj0A 137 2.67e+01 2hjpA 290 2.74e+01 1zz1A 369 2.77e+01 1oywA 523 2.80e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1ea5A 537 2.84e+01 2bce c.69.1.1 34592 2douA 376 2.87e+01 1a6aA 176 2.88e+01 1iakA b.1.1.2,d.19.1.1 21615,38189 1ml4A 308 3.08e+01 c.78.1.1,c.78.1.1 79255,79256 2o23A 265 3.12e+01 c.2.1.2 138884 1kxpD 458 3.13e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 2fvgA 340 3.19e+01 b.49.3.1,c.56.5.4 134201,134202 2bdeA 470 3.24e+01 c.108.1.23 128335 2yxxA 386 3.26e+01 1qsgA 265 3.42e+01 1eny c.2.1.2 29935 1c14A 262 3.50e+01 1eny c.2.1.2 29927 1j78A 458 3.52e+01 a.126.1.1,a.126.1.1,a.126.1.1 66397,66398,66399 1cqqA 180 3.55e+01 1cqqA b.47.1.4 26422 1cb8A 678 3.66e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1f74A 293 3.70e+01 1nal3 c.1.10.1 29079 2iwvA 281 3.72e+01 2h98A 313 3.73e+01 1kmoA 774 3.79e+01 f.4.3.3 72753 2jqyA 280 4.02e+01 1phm 310 4.06e+01 1phm 2ogiA 196 4.10e+01 1po0A 751 4.19e+01 f.4.3.3 94960 1w9iA 770 4.29e+01 2agkA 260 4.34e+01 1e9lA 377 4.34e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1qg6A 261 4.35e+01 1eny c.2.1.2 29919 1qfxA 460 4.37e+01 1qfxA c.60.1.2 33994 1mjcA 69 4.50e+01 b.40.4.5 25319 1aorA 605 4.62e+01 1b25A a.110.1.1,d.152.1.1 19042,41794 2a0uA 383 4.65e+01 1xgsA 295 4.82e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1jcfA 344 4.82e+01 c.55.1.1,c.55.1.1 62878,62879 1f0xA 571 4.92e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1vhwA 253 5.00e+01 c.56.2.1 100706 1y3nA 490 5.14e+01 c.94.1.1 122597 1yiqA 689 5.19e+01 1w7bA 339 5.21e+01 a.65.1.1 114317 1ms9A 648 5.33e+01 b.29.1.15,b.68.1.1 85088,85089 1zq6A 359 5.72e+01 1nqeA 594 5.78e+01 f.4.3.3 86027 2f1cX 286 5.79e+01 2hyvA 308 6.01e+01 1omwA 689 6.09e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 3c2qA 345 6.17e+01 2uurA 245 6.18e+01 1i6aA 219 6.27e+01 c.94.1.1 61827 2p0wA 324 6.45e+01 2r98A 456 6.69e+01 2cjeA 268 6.78e+01 1y80A 210 6.78e+01 1yi9A 309 6.81e+01 b.121.1.2,b.121.1.2 123276,123277 2gf3A 389 6.85e+01 c.3.1.2,d.16.1.3 135070,135071 1a76 326 6.96e+01 1a76 1a76A 326 6.96e+01 a.60.7.1,c.120.1.2 18091,33361 1yxaA 398 7.01e+01 1bkzA 135 7.21e+01 1a3k b.29.1.3 24202 1nofA 383 7.26e+01 b.71.1.2,c.1.8.3 92020,92021 1by5A 714 7.34e+01 1by5A f.4.3.3 43800 2j3wA 142 7.35e+01 d.110.4.3 137981 2hdwA 367 7.37e+01 1w6sA 599 7.56e+01 b.70.1.1 114284 1hl2A 297 7.72e+01 c.1.10.1 83581 1mjc 69 7.72e+01 1mjc 1l9cA 389 7.89e+01 c.3.1.2,d.16.1.3 77815,77816 1oktA 211 7.93e+01 a.45.1.1,c.47.1.5 93272,93273 2e84A 556 7.93e+01