# 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 1pvuA 154 6.03e-01 3pviA c.52.1.6 33306 1qr4A 186 7.72e-01 1qr4B b.1.2.1 21986 b.1.2.1 21987 3pviA 157 1.11e+00 3pviA c.52.1.6 33300 1aym1 285 1.66e+00 1aym1 2pviA 157 1.72e+00 3pviA c.52.1.6 33302 1qr4B 186 1.79e+00 1qr4B b.1.2.1 21988 b.1.2.1 21989 1k3eA 156 2.18e+00 d.198.1.1 68103 1dkiA 371 2.28e+00 1dkiA d.3.1.1 37090 1oj6A 151 2.34e+00 1e5pA 151 2.75e+00 1bj7 b.60.1.1 59272 1rwsA 77 2.91e+00 1lngA 87 2.93e+00 d.201.1.1 74045 1dk8A 147 3.13e+00 1agrE a.91.1.1 18548 1danU 121 3.36e+00 1boy b.1.2.1 21954 1cojA 212 3.60e+00 1avmA a.2.11.1 15737 d.44.1.1 38734 1tdj 514 3.79e+00 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1c4rA 182 6.51e+00 1c4rA b.29.1.4 24229 1k52A 72 6.52e+00 d.15.7.1 68148 1m4uA 206 7.02e+00 g.17.1.7 78625 1qhtA 775 7.03e+00 1tgoA c.55.3.5 33722 e.8.1.1 43011 4rhv1 289 7.74e+00 1pov1 1gqeA 365 7.75e+00 e.38.1.1 70351 1g8iA 190 7.81e+00 1rec a.39.1.5 60363 1ospO 257 8.23e+00 1ospO b.76.1.1 27971 1se0A 116 9.03e+00 1nukA 183 9.91e+00 1nukA b.18.1.4 23721 1jyaA 130 1.04e+01 d.198.1.1 67453 1lvk 762 1.10e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1lfpA 249 1.10e+01 e.39.1.1 73885 1cpq 129 1.25e+01 1cpq a.24.3.2 16556 1hcnA 92 1.32e+01 1hcnA g.17.1.4 44809 1b56 135 1.44e+01 1hmt b.60.1.2 27183 1us6A 102 1.46e+01 1ap8 213 1.58e+01 1ap8 d.86.1.1 40151 1bdo 80 1.61e+01 1bdo b.84.1.1 28214 1k4nA 192 1.62e+01 d.32.1.5 72059 1e2tA 284 1.64e+01 1e2tA d.3.1.5 37121 1dz7A 92 1.65e+01 1hcnA g.17.1.4 44815 1a68 95 1.74e+01 1t1dA d.42.1.2 38639 1efcA 393 1.74e+01 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1pyoA 167 1.78e+01 1fhoA 119 1.84e+01 1fhoA b.55.1.1 26982 1jj2I 145 1.85e+01 1ffkG c.21.1.1 63094 1pkhA 204 1.86e+01 1nc7A 138 1.86e+01 b.123.1.1 85549 1dchA 104 1.88e+01 1dcpA d.74.1.1 39692 1n2fA 142 1.90e+01 d.227.1.1 79853 1dcpA 104 1.91e+01 1dcpA d.74.1.1 39672 1oghA 204 2.03e+01 b.85.4.1 86994 1b8qA 127 2.09e+01 1qauA b.36.1.1 24781 1imuA 107 2.13e+01 d.204.1.1 66218 1qysA 106 2.21e+01 9apiA 347 2.23e+01 1ovaA e.1.1.1 42630 2bdpA 580 2.24e+01 1xwl c.55.3.5 33709 e.8.1.1 43002 1dcoA 104 2.24e+01 1dcpA d.74.1.1 39680 1gio 125 2.31e+01 7rsa d.5.1.1 37304 1dbhA 354 2.32e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1tgxA 60 2.33e+01 1tgxA g.7.1.1 44398 1gm6A 175 2.35e+01 b.60.1.1 70272 1f93A 104 2.41e+01 1dcpA d.74.1.1 39688 1g6hA 257 2.50e+01 1gajA c.37.1.12 60318 1dq3A 454 2.54e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 3bdpA 580 2.57e+01 1xwl c.55.3.5 33711 e.8.1.1 43004 2stv 195 2.68e+01 2stv b.121.7.1 23287 1hueA 90 2.76e+01 1huuA a.55.1.1 17900 1agi 125 2.82e+01 7rsa d.5.1.1 37303 1hx1B 114 2.86e+01 1hx1B a.7.7.1 61350 1v4sA 455 2.95e+01 1se9A 126 3.00e+01 1qauA 112 3.01e+01 1qauA b.36.1.1 24779 1kt9A 138 3.23e+01 d.113.1.1 72959 1pa7A 130 3.25e+01 1ffkM 148 3.29e+01 1ffkM a.94.1.1 18740 1gajA 257 3.47e+01 1gajA c.37.1.12 60416 1aw0 72 3.50e+01 1aw0 d.58.17.1 39342 1cye 129 3.55e+01 3chy c.23.1.1 31077 1eiwA 111 3.59e+01 1eiwA c.23.3.1 31130 1a62 130 3.60e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1lea 84 3.60e+01 1lea a.4.5.2 16085 1pv9A 348 3.85e+01 1l5xA 280 3.90e+01 c.106.1.1 77718 1d2eA 397 3.93e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1jyhA 157 3.95e+01 d.60.1.3 71956