# 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 1ncx 162 3.27e-02 1ncx a.39.1.5 17222 1top 162 3.44e-02 1ncx a.39.1.5 17223 1s29A 92 6.43e-02 unknown_sccs -315 1ggzA 148 3.38e-01 a.39.1.5 70176 1pyoA 167 1.47e+00 c.17.1.1 -7932 1pauA 147 1.82e+00 1pauA c.17.1.1 30994 1nmeA 146 2.31e+00 c.17.1.1 85874 1nuuA 252 2.76e+00 c.26.1.3 86209 1mfqC 129 3.08e+00 a.36.1.1 79046 1aerA 205 3.09e+00 1aerA d.166.1.1 42249 1dmaA 214 3.44e+00 1aerA d.166.1.1 42251 1al3 324 3.47e+00 1al3 c.94.1.1 35835 1upiA 225 3.56e+00 b.82.1.1 -4823 1cll 148 3.70e+00 1cll a.39.1.5 17263 1osa 148 3.96e+00 1cll a.39.1.5 17300 1kl9A 182 4.27e+00 b.40.4.5 72681 1r6lA 239 4.28e+00 d.14.1.4 -9057 d.101.1.1 -10747 2sas 185 4.38e+00 2sas a.39.1.5 17258 1exrA 148 4.46e+00 1cll a.39.1.5 17299 3cln 148 5.19e+00 1cll a.39.1.5 17286 3ladA 476 6.25e+00 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1zac 90 7.22e+00 1ncx a.39.1.5 17236 1qb2A 109 7.56e+00 1qb2A a.36.1.1 17125 1f7cA 231 7.68e+00 1f7cA a.116.1.1 19107 1kn1A 160 9.84e+00 a.1.1.3 77455 1g4yR 148 1.07e+01 1cll a.39.1.5 60252 1mu5A 471 1.11e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1s6cA 183 1.12e+01 a.39.1.5 -858 1s72G 348 1.34e+01 1qi9A 556 1.36e+01 1qhbA a.111.1.2 19053 1nt4A 391 1.39e+01 c.60.1.2 -7942 1ngkA 128 1.50e+01 a.1.1.1 85673 1allA 160 1.50e+01 1qgwC a.1.1.3 15647 1cp3A 277 1.53e+01 1pauA c.17.1.1 30992 1i8dA 213 1.56e+01 b.43.4.3 61953 b.43.4.3 61954 1kn1B 161 1.58e+01 a.1.1.3 77456 1eq9A 222 1.80e+01 5ptp b.47.1.2 26068 1hcnB 145 1.93e+01 1hcnB g.17.1.4 44810 1dy2A 180 2.04e+01 1koe d.169.1.5 42451 1q0uA 219 2.05e+01 c.37.1.19 -7205 1a1iA 90 2.07e+01 1aayA g.37.1.1 44998 g.37.1.1 44999 g.37.1.1 45000 1izmA 184 2.25e+01 unknown_sccs -1233 1cpcA 162 2.32e+01 1cpcA a.1.1.3 15643 1rgxA 114 2.36e+01 1aayA 90 2.48e+01 1aayA g.37.1.1 45001 g.37.1.1 45002 g.37.1.1 45003 1sedA 117 2.50e+01 1uzpA 162 2.68e+01 g.3.11.1 -12511 g.3.11.1 -12512 g.23.1.1 -12685 1hbkA 94 2.82e+01 1aca a.11.1.1 60887 1s9aA 257 2.91e+01 1a2pA 110 2.92e+01 1b20A d.1.1.2 36140 1liaA 164 3.01e+01 1cpcA a.1.1.3 15661 1iz1A 294 3.06e+01 a.4.5.37 83823 c.94.1.1 83824 1bngA 110 3.08e+01 1b20A d.1.1.2 36184 1brnL 110 3.08e+01 1b20A d.1.1.2 36143 1rro 108 3.11e+01 1a75A a.39.1.4 17195 1ft8E 271 3.17e+01 1ft8E d.58.7.2 39216 1jj2I 145 3.19e+01 1ffkG c.21.1.1 63094 1kgdA 180 3.40e+01 c.37.1.1 68582 1zaaC 87 3.41e+01 1aayA g.37.1.1 45013 g.37.1.1 45014 g.37.1.1 45015 1g6oA 330 3.45e+01 1g6oA c.37.1.11 32430 1ewcA 214 3.56e+01 3seb b.40.2.2 25199 d.15.6.1 37788 1mkyA 439 3.60e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1bh9B 89 3.67e+01 1bh9B a.22.1.3 16485 1gg6C 97 3.70e+01 5ptp 1gd0A 122 3.72e+01 1dptA d.80.1.3 39834 1kqnA 279 3.76e+01 c.26.1.3 77492 1lckA 175 3.77e+01 1lckA b.34.2.1 24552 d.93.1.1 40421 1jhfA 202 3.79e+01 a.4.5.2 63057 b.87.1.1 63058 1rnbA 110 3.79e+01 1b20A d.1.1.2 36196 1jsdB 176 3.85e+01 h.3.1.1 63259