# 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 1k30A 368 4.21e-02 c.112.1.1 68067 1smaA 588 1.32e+00 1bvzA b.1.1.5 21854 b.71.1.1 27781 c.1.8.1 28768 1gviA 588 1.35e+00 1fvaA 217 1.86e+00 1fvaA d.58.28.1 39409 1fvgA 199 3.00e+00 1fvaA d.58.28.1 39408 1eq2A 310 3.71e+00 1eq2A c.2.1.2 29814 1a3aC 148 3.76e+00 1a3aA d.112.1.1 40919 1a3aA 148 3.76e+00 1a3aA d.112.1.1 40917 1i50A 1733 4.99e+00 e.29.1.1 61754 1lzjA 292 6.57e+00 1b9lA 120 6.65e+00 1b9lA d.96.1.3 40665 2tnfA 156 7.40e+00 2tnfA b.22.1.1 23880 1lz0A 292 8.31e+00 1gxgA 85 8.60e+00 1apxA 249 1.04e+01 1ryc a.93.1.1 18669 1f6gA 160 1.06e+01 1bl8A f.2.1.11 43656 1cyw 205 1.10e+01 1cyx b.6.1.2 23024 1i58A 189 1.16e+01 1b3qA d.122.1.3 61773 1ew2A 513 1.18e+01 1b8jA c.76.1.1 59525 1i5dA 191 1.19e+01 1b3qA d.122.1.3 61783 1g7rA 594 1.29e+01 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1m5hA 297 1.40e+01 1g7tA 594 1.61e+01 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1g7sA 594 1.61e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1imjA 210 1.79e+01 1e19A 314 1.85e+01 1b7bA c.73.1.1 34967 1jchA 551 2.06e+01 b.101.1.1 66491 b.110.1.1 66492 h.4.9.1 66493 1jchC 551 2.06e+01 b.101.1.1 66495 b.110.1.1 66496 h.4.9.1 66497 1psrA 100 2.22e+01 1psrA a.39.1.2 17180 1am5 324 2.24e+01 1smrA b.50.1.2 26855 1fftB 315 2.28e+01 1cyx b.6.1.2 23025 f.2.1.3 43628 1kmjA 406 2.42e+01 c.67.1.3 68695 1jf9A 408 2.43e+01 1c0nA c.67.1.3 62931 3pgm 241 2.43e+01 1qhfA c.60.1.1 33982 1g6hA 257 2.51e+01 1gajA c.37.1.12 60318 1gajA 257 2.57e+01 1gajA c.37.1.12 60416 1cpt 412 2.79e+01 1cpt a.104.1.1 18968 1aoxA 203 2.90e+01 1aoxA c.62.1.1 34151 1k32A 1045 2.92e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1bjoA 360 2.94e+01 1bjnA c.67.1.4 34471 1cyx 205 2.98e+01 1cyx b.6.1.2 23023 1bjnA 360 3.03e+01 1bjnA c.67.1.4 34469 1tum 129 3.14e+01 1tum d.113.1.1 40922 1mut 129 3.14e+01 1tum d.113.1.1 40921 1f1eA 154 3.16e+01 a.22.1.2 64927 1fzrA 138 3.48e+01 1fzrA c.52.1.17 33336 1b3qA 379 3.58e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1bj7 156 3.70e+01 1bj7 b.60.1.1 27113 1fqvD 149 3.74e+01 1fqvD a.122.1.1 19263 d.42.1.2 38667 1fqvJ 149 3.74e+01 1fqvD a.122.1.1 19266 d.42.1.2 38670 1e3iA 376 3.84e+01 2ohxA b.35.1.2 24741 c.2.1.1 29757 1cfr 285 3.87e+01 1cfr c.52.1.7 33312 1jtaA 361 3.97e+01