# 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 1top 162 1.04e-02 1ncx a.39.1.5 17223 1ncx 162 1.09e-02 1ncx a.39.1.5 17222 2sas 185 4.18e-02 2sas a.39.1.5 17258 1s29A 92 4.28e-02 unknown_sccs -315 1dmaA 214 4.76e-01 1aerA d.166.1.1 42251 1v8dA 235 6.94e-01 1ggzA 148 7.41e-01 a.39.1.5 70176 1aerA 205 8.98e-01 1aerA d.166.1.1 42249 1upiA 225 1.18e+00 b.82.1.1 -4823 1f7cA 231 2.43e+00 1f7cA a.116.1.1 19107 3ladA 476 2.71e+00 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1kgdA 180 3.80e+00 c.37.1.1 68582 1auiB 169 4.02e+00 1auiB a.39.1.5 17325 1cll 148 4.63e+00 1cll a.39.1.5 17263 1g8iA 190 4.94e+00 1rec a.39.1.5 60363 1dqeA 137 5.09e+00 1dqeA a.39.2.1 17388 1qjtA 99 5.15e+00 1eh2 a.39.1.6 17335 1osa 148 5.18e+00 1cll a.39.1.5 17300 1avsA 90 5.44e+00 1cll a.39.1.5 17226 3cln 148 5.60e+00 1cll a.39.1.5 17286 1k4iA 233 5.74e+00 d.115.1.2 72056 1nmeA 146 5.87e+00 c.17.1.1 85874 1p9kA 79 6.06e+00 unknown_sccs -10238 1pauA 147 6.07e+00 1pauA c.17.1.1 30994 1on2A 142 7.03e+00 a.4.5.24 87103 a.76.1.1 87104 1dy2A 180 7.38e+00 1koe d.169.1.5 42451 1exrA 148 7.41e+00 1cll a.39.1.5 17299 1ltlA 279 8.57e+00 b.40.4.11 84701 1wdcC 156 9.00e+00 1wdcC a.39.1.5 17317 1aihA 170 9.16e+00 1aihA d.163.1.1 42149 1ls8A 142 9.37e+00 a.39.2.1 78176 1dgrC 178 9.64e+00 1dgwA b.82.1.2 28100 1q0uA 219 9.72e+00 c.37.1.19 -7205 1ri5A 298 1.00e+01 unknown_sccs -8063 2mysB 166 1.01e+01 1wdcB a.39.1.5 17308 1gm0A 142 1.04e+01 a.39.2.1 65297 1jfkA 134 1.12e+01 a.39.1.5 66639 1koe 172 1.19e+01 1koe d.169.1.5 42448 1nt4A 391 1.20e+01 c.60.1.2 -7942 1j1iA 296 1.22e+01 c.69.1.10 83977 1s6cA 183 1.27e+01 a.39.1.5 -858 1qhsA 178 1.28e+01 1qhsA c.37.1.3 31938 1dgwA 178 1.32e+01 1dgwA b.82.1.2 28090 1m7jA 484 1.36e+01 b.92.1.6 78732 b.92.1.6 78733 c.1.9.11 78734 1rro 108 1.40e+01 1a75A a.39.1.4 17195 1cauA 181 1.40e+01 1dgwA b.82.1.2 28102 1cd1A 315 1.45e+01 1cd1A b.1.1.2 21579 d.19.1.1 38155 1k94A 165 1.46e+01 a.39.1.8 68333 1dx0A 219 1.46e+01 1b10A d.6.1.1 37324 1rk6A 496 1.48e+01 b.92.1.6 -5087 b.92.1.6 -5088 c.1.9.11 -5435 1zac 90 1.50e+01 1ncx a.39.1.5 17236 1g4yR 148 1.63e+01 1cll a.39.1.5 60252 1uzxA 169 1.70e+01 d.20.1.2 -9409 1iq3A 110 1.76e+01 1iq3A a.39.1.6 62640 1dvbA 191 1.82e+01 1ryt a.25.1.1 16645 g.41.5.1 45244 1qlzA 210 1.88e+01 1b10A d.6.1.1 37309 1hqvA 191 1.89e+01 1hqvA a.39.1.8 61160 1j75A 67 1.89e+01 a.4.5.19 62673 1qavB 115 1.89e+01 1qauA b.36.1.1 24780 1qhxA 178 1.91e+01 1qhsA c.37.1.3 31936 1ek0A 170 2.06e+01 1ctqA c.37.1.8 32076 1w2wA 211 2.08e+01 1m65A 245 2.19e+01 c.6.3.1 84847 1jhfA 202 2.19e+01 a.4.5.2 63057 b.87.1.1 63058 1unnC 115 2.21e+01 unknown_sccs -10216 1uheA 97 2.28e+01 1t0yA 122 2.33e+01 d.15.1.1 -9151 1cbf 285 2.50e+01 1cbf c.90.1.1 35587 1qv1A 195 2.53e+01 a.39.1.5 -830 1jf2A 195 2.56e+01 1ej3A a.39.1.5 62930 1mu5A 471 2.62e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1ryt 190 2.71e+01 1ryt a.25.1.1 16646 g.41.5.1 45245 1s3jA 155 2.73e+01 a.4.5.28 -227 1lla 628 2.76e+01 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.18.3 21861 1pylA 97 2.78e+01 1nuuA 252 2.86e+01 c.26.1.3 86209 1lktA 104 2.87e+01 1lktA b.90.1.1 28398 1mai 131 2.89e+01 1mai b.55.1.1 26951 1i6pA 220 2.91e+01 1ddzA c.53.2.1 61848 1pvaA 110 2.92e+01 1a75A a.39.1.4 17207 1dun 134 2.96e+01 1dun b.85.4.1 28371 1lkoA 191 3.03e+01 a.25.1.1 78063 g.41.5.1 78064 1vheA 373 3.07e+01 unknown_sccs -4280 c.56.5.4 -7890 1kg0C 136 3.16e+01 d.169.1.1 72445 1ak1 310 3.36e+01 1ak1 c.92.1.1 35594 3grs 478 3.45e+01 3grs c.3.1.5 30441 c.3.1.5 30442 d.87.1.1 40152 2eiaB 206 3.52e+01 1eia a.28.3.1 16950 a.73.1.1 18330 1fzpB 123 3.55e+01 1fznD a.4.5.28 19008 1scmB 145 3.57e+01 1wdcB a.39.1.5 17304 1eia 207 3.59e+01 1eia a.28.3.1 16951 a.73.1.1 18331 1jf0A 195 3.62e+01 1ej3A a.39.1.5 62926 1pyoA 167 3.62e+01 c.17.1.1 -7932 2pvbA 107 3.62e+01 1a75A a.39.1.4 17205 1f0lA 535 3.62e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1o50A 157 3.65e+01 d.37.1.1 -9604 d.37.1.1 -9605 1iqpA 327 3.77e+01 a.80.1.1 62649 c.37.1.20 62650 1hmpA 217 3.86e+01 1qk3A c.61.1.1 34075 1l1dA 152 3.88e+01 b.88.1.3 73452 1aohA 147 3.93e+01 1aohA b.2.2.2 22401 5pal 109 3.95e+01 1a75A a.39.1.4 17215 2sns 149 3.96e+01 1snc b.40.1.1 24860 1ll1 590 3.97e+01 1lla a.85.1.1 18488 a.86.1.1 18499 b.1.18.3 21864