# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1nb8A 353 2.05e-40 d.3.1.9 80385 1cd9C 175 1.39e-01 1bgc a.26.1.1 16816 1ubi 76 7.17e-01 1ubi d.15.1.1 37584 1ubq 76 7.90e-01 1ubi d.15.1.1 37585 1d3zA 76 9.78e-01 1ubi d.15.1.1 37592 1bgeB 175 1.62e+00 1bgc a.26.1.1 16824 1ogwA 76 1.69e+00 d.15.1.1 87001 1gm5A 780 3.43e+00 unknown_sccs 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1jf3A 147 3.68e+00 a.1.1.2 71642 1k28A 584 3.95e+00 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1bgc 174 4.34e+00 1bgc a.26.1.1 16822 1b0pA 1231 6.10e+00 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1kekA 1231 6.48e+00 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1b8xA 280 7.06e+00 1b8xA a.45.1.1 17739 c.47.1.5 33033 1hbg 147 7.84e+00 2hbg a.1.1.2 15015 1cuk 203 8.94e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1lm8B 118 1.01e+01 d.15.1.1 74033 1hjp 203 1.13e+01 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1fnnA 389 1.20e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 2hbg 147 1.21e+01 2hbg a.1.1.2 15014 1vcbA 118 1.22e+01 1vcbA d.15.1.1 37603 2ran 316 1.33e+01 1avc a.65.1.1 18170 1a8a 318 1.35e+01 1avc a.65.1.1 18169 1a8b 318 1.43e+01 1avc a.65.1.1 18171 1ha1 184 1.64e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1rf6A 427 1.84e+01 d.68.2.2 -10314 1l3kA 196 1.90e+01 d.58.7.1 73539 d.58.7.1 73540 1dbhA 354 1.93e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1jf2A 195 2.05e+01 1ej3A a.39.1.5 62930 1tltA 319 2.08e+01 1jf4A 147 2.16e+01 a.1.1.2 71643 1q67A 231 2.25e+01 unknown_sccs -4373 1a36A 592 2.25e+01 1a36A a.2.8.1 15715 d.163.1.2 42173 e.15.1.1 43266 1lrzA 426 2.59e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1ae9A 179 2.66e+01 1ae9A d.163.1.1 42153 1kk6A 209 2.83e+01 b.81.1.3 68657 1hfx 123 2.97e+01 3lzt d.2.1.2 36600 1jeqA 609 3.08e+01 1jeqA a.140.2.1 64748 unknown_sccs -4427 unknown_sccs -7991 1r13A 148 3.11e+01 d.169.1.1 -11646 h.1.1.1 -12895 1or4A 178 3.19e+01 a.1.1.2 -91 1dg3A 592 3.22e+01 1dg3A a.114.1.1 19078 c.37.1.8 32153 1kay 381 3.23e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1anxA 319 3.40e+01 1avc a.65.1.1 18161 1jeyA 609 3.41e+01 1jeqA unknown_sccs -4426 unknown_sccs -7990 1d0hA 469 3.56e+01 1a8d b.29.1.6 24265 b.42.4.2 25610 1cr6B 554 3.64e+01 1cr6B c.108.1.2 43338 c.69.1.11 34688 1l1oC 181 3.67e+01 b.40.4.3 73480 1ni3A 392 3.87e+01 c.37.1.8 80531 d.15.10.2 80532 1omiA 248 3.91e+01 a.4.5.4 87079 b.82.3.3 87080 1jj2M 186 3.93e+01 1ffkK c.55.4.1 63098