# 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 1irxA 523 4.46e-01 a.97.1.2 71378 c.26.1.1 71379 1bxeA 113 1.74e+00 1bxeA d.55.1.1 38898 1t3uA 104 2.34e+00 unknown_sccs -9325 1on2A 142 3.84e+00 a.4.5.24 87103 a.76.1.1 87104 1dulA 69 4.46e+00 1dulA a.36.1.1 17121 1exqA 154 4.88e+00 1b9dA c.55.3.2 33646 1iv0A 98 5.21e+00 unknown_sccs -7667 1b9dA 163 7.27e+00 1b9dA c.55.3.2 33649 1hyvA 166 7.84e+00 1b9dA c.55.3.2 61424 1i4jA 110 9.12e+00 d.55.1.1 76734 1gcvB 136 1.09e+01 1cg5B a.1.1.2 15589 1agdB 99 1.17e+01 1agdB b.1.1.2 20742 1wdcB 156 1.18e+01 1wdcB a.39.1.5 17302 1k5nB 100 1.29e+01 b.1.1.2 77268 1duzB 100 1.35e+01 1agdB b.1.1.2 20671 1i4fB 100 1.36e+01 1agdB b.1.1.2 61689 1ma3A 253 1.39e+01 c.31.1.5 78883 1hq1A 105 1.56e+01 1dulA a.36.1.1 17120 1a7cA 379 1.58e+01 1sek e.1.1.1 42660 1kte 105 1.60e+01 1kte c.47.1.1 32771 1j58A 385 1.73e+01 b.82.1.2 71531 1kk8B 139 1.73e+01 a.39.1.5 77430 1iznB 277 1.74e+01 e.43.1.2 83848 1imvA 398 1.76e+01 e.1.1.1 62591 1hsbB 99 1.79e+01 1agdB b.1.1.2 20737 1lnqA 336 2.02e+01 c.2.1.9 74049 f.14.1.1 74050 2btvA 901 2.07e+01 2btvA e.28.1.1 43376 1jn5A 140 2.13e+01 d.17.4.2 66921 1scmB 145 2.15e+01 1wdcB a.39.1.5 17304 1ixxB 123 2.26e+01 1ixxB d.169.1.1 42336 1nrkA 328 2.28e+01 unknown_sccs -4071 unknown_sccs -10176 1jkgA 140 2.34e+01 d.17.4.2 66795 1bl3A 160 2.36e+01 1b9dA c.55.3.2 33655 1j34B 123 2.37e+01 d.169.1.1 84049 1q48A 134 2.38e+01 unknown_sccs -9776 1jnjA 100 2.40e+01 b.1.1.2 66955 1nbwA 607 2.40e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1qnxA 209 2.72e+01 1qnxA d.111.1.1 40914 1ohgA 282 2.89e+01 d.183.1.1 -11727 1mhqA 148 3.06e+01 a.118.9.2 84973 1bfa 134 3.23e+01 1bea a.52.1.2 17827 1vcbC 160 3.38e+01 1vcbC b.3.3.1 22535 1ef8A 261 3.43e+01 1ef8A c.14.1.3 30921 1fiuA 286 3.49e+01 1fiuA c.52.1.10 33317 1fh6A 282 3.57e+01 1fh6A 1jqeA 292 3.57e+01 c.66.1.19 71789 2vsgA 358 3.74e+01 2vsgA h.4.1.1 45780 1kjvB 100 3.85e+01 b.1.1.2 77423