# List of top-scoring protein chains for t2k-w0.5 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 1lnrI 134 9.56e-01 1e79G 272 2.51e+00 1e79G c.49.2.1 33158 1h8eG 272 2.51e+00 1e79G c.49.2.1 60756 1e1qG 272 2.51e+00 1e1qG c.49.2.1 33162 1bmfG 272 2.51e+00 1e1qG c.49.2.1 33160 1nbmG 272 2.51e+00 1e1qG c.49.2.1 33161 1fo0A 116 2.82e+00 1tvdA b.1.1.1 20610 1a2zA 220 2.85e+00 1a2zA c.56.4.1 33794 1kufA 203 4.48e+00 1whi 122 4.63e+00 1whi b.39.1.1 24810 1qoiA 177 5.32e+00 2cpl b.62.1.1 27490 3adk 195 7.71e+00 1zin c.37.1.1 31885 1kynB 235 7.85e+00 1au8A 224 8.32e+00 1a7s b.47.1.2 26291 1cghA 224 8.32e+00 1a7s b.47.1.2 26290 1dcjA 81 8.33e+00 1dcjA d.68.3.1 59115 1kv7A 488 8.77e+00 b.6.1.3 68873 b.6.1.3 68874 b.6.1.3 68875 1b77A 228 9.97e+00 1b77A d.131.1.2 41362 d.131.1.2 41363 1bruP 241 1.07e+01 5ptp b.47.1.2 26273 1mabB 479 1.21e+01 1skyE a.69.1.1 18312 b.49.1.1 26477 c.37.1.11 32357 1ja9A 274 1.22e+01 c.2.1.2 62817 1fpwA 190 1.25e+01 1rec a.39.1.5 17329 1eg0J 171 1.30e+01 1rl6A i.1.1.1 45816 1de4C 640 1.36e+01 1cx8B a.48.2.1 17779 c.8.4.1 30760 c.56.5.5 33848 1kq5A 159 1.37e+01 b.80.5.1 68795 1rl6A 177 1.38e+01 1rl6A d.141.1.1 41473 d.141.1.1 41474 1k4zA 159 1.41e+01 2tbs 222 1.48e+01 5ptp b.47.1.2 26009 1cx8A 639 1.48e+01 1cx8B a.48.2.1 17782 c.8.4.1 30763 c.56.5.5 33851 1cx8B 639 1.48e+01 1cx8B a.48.2.1 17783 c.8.4.1 30764 c.56.5.5 33852 1xvaA 292 1.55e+01 1xvaA c.66.1.5 34183 1bhjA 292 1.55e+01 1xvaA c.66.1.5 34189 2ahjC 206 1.73e+01 2ahjA d.149.1.1 41773 2ahjA 206 1.73e+01 2ahjA d.149.1.1 41772 1ahjA 207 1.74e+01 2ahjA d.149.1.1 41774 487dJ 164 1.88e+01 1rl6A i.1.1.2 45837 1jsbA 73 1.91e+01 d.15.3.2 67223 1d2gA 292 1.91e+01 1xvaA c.66.1.5 34187 1ao6A 585 1.91e+01 1bj5 a.126.1.1 19354 a.126.1.1 19355 a.126.1.1 19356 1e7aA 585 1.91e+01 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1bj5 585 1.91e+01 1bj5 a.126.1.1 19369 a.126.1.1 19370 a.126.1.1 19371 1bke 581 1.92e+01 1bj5 a.126.1.1 19387 a.126.1.1 19388 a.126.1.1 19389 1g7kA 234 1.97e+01 1ggxA d.22.1.1 38371 1a0jA 223 2.07e+01 5ptp b.47.1.2 26002 1j96A 323 2.18e+01 1ihiA 323 2.18e+01 c.1.7.1 66142 1sfe 180 2.20e+01 1sfe a.4.2.1 16073 c.55.7.1 33748 3hmgA 328 2.21e+01 1hgeA b.19.1.2 23825 1delA 241 2.22e+01 1dekA c.37.1.1 31844 1ggxA 223 2.24e+01 1ggxA d.22.1.1 38367 1dekA 241 2.39e+01 1dekA c.37.1.1 31842 1bebA 162 2.43e+01 1bebA b.60.1.1 27115 1cx1A 153 2.44e+01 1ulo b.18.1.6 23770 1hj8A 222 2.50e+01 b.47.1.2 65844 2staE 222 2.52e+01 5ptp b.47.1.2 26007 1bit 237 2.61e+01 5ptp b.47.1.2 26008 1i88A 389 2.61e+01 c.95.1.2 66070 c.95.1.2 66071 1d4m2 261 2.62e+01 1aym2 1gx8A 162 2.66e+01 1e4iA 447 2.74e+01 1e70M c.1.8.4 59225 1tr1A 447 2.76e+01 1e70M c.1.8.4 28957 1bgaA 447 2.76e+01 1e70M c.1.8.4 28961 1bggA 448 2.76e+01 1e70M c.1.8.4 28953 1qfhA 212 2.76e+01 1qfhA b.1.1.5 21893 b.1.1.5 21894 1im8A 244 2.84e+01 c.66.1.14 66212 2virC 282 2.87e+01 1hgeA b.19.1.2 23812 1cg1A 431 2.89e+01 1adeA c.37.1.10 32223 1kkfA 432 2.92e+01 1jj2P 95 2.96e+01 1ffkN b.34.5.1 63101 1ffkN 95 2.96e+01 1ffkN b.34.5.1 24606 2vitC 282 2.96e+01 1hgeA b.19.1.2 23808 1koe 172 2.96e+01 1koe d.169.1.5 42448 1nbmE 480 2.98e+01 1skyE a.69.1.1 18291 b.49.1.1 26456 c.37.1.11 32336 1adeA 431 3.00e+01 1adeA c.37.1.10 32213 1qf5A 431 3.00e+01 1adeA c.37.1.10 32212 1cg4A 431 3.01e+01 1adeA c.37.1.10 32228 1nbmD 480 3.01e+01 1skyE a.69.1.1 18290 b.49.1.1 26455 c.37.1.11 32335 1h8eD 482 3.01e+01 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1qgvA 142 3.02e+01 1qgvA c.47.1.8 33056 1e79D 482 3.05e+01 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1dy1A 188 3.06e+01 1koe d.169.1.5 42450 2pfkC 302 3.07e+01 3pfk c.89.1.1 35579 2pfkD 305 3.09e+01 3pfk c.89.1.1 35580 1cg3A 431 3.14e+01 1adeA c.37.1.10 32219 1pfkA 320 3.16e+01 3pfk c.89.1.1 35575 2pfkA 320 3.16e+01 3pfk c.89.1.1 35577 2visC 282 3.17e+01 1hgeA b.19.1.2 23807 1f5nA 592 3.28e+01 1dg3A a.114.1.1 19077 c.37.1.8 32152 1dg3A 592 3.28e+01 1dg3A a.114.1.1 19078 c.37.1.8 32153 1fv1E 190 3.33e+01 1iakB b.1.1.2 21608 d.19.1.1 38182 1aa7A 158 3.42e+01 1aa7A a.95.1.1 18741 1hgeA 328 3.44e+01 1hgeA b.19.1.2 23816 2viuA 328 3.46e+01 1hgeA b.19.1.2 23797 1hghA 328 3.46e+01 1hgeA b.19.1.2 23804 2hrvA 142 3.47e+01 2hrvA b.47.1.4 26429 1jxlA 352 3.48e+01 e.8.1.5 67419 2hmgA 328 3.49e+01 1hgeA b.19.1.2 23828 1ea3A 164 3.50e+01 1aa7A a.95.1.1 59398 1fiqC 763 3.51e+01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1kcvL 214 3.58e+01 1cj5A 162 3.60e+01 1bebA b.60.1.1 27124 1bsoA 162 3.62e+01 1bebA b.60.1.1 27122 1kigH 241 3.64e+01 5ptp b.47.1.2 26346 1av4 638 3.86e+01 1a2vA b.30.2.1 24411 d.17.2.1 38049 d.17.2.1 38050 1jx4A 352 3.87e+01 e.8.1.5 67405 1hcnB 145 3.94e+01 1hcnB g.17.1.4 44810 1jjkA 245 3.96e+01 1dbtA c.1.2.3 63122 1lbvA 252 3.98e+01