# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-scores 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 1dnlA 199 1.55e-30 1ci0A b.45.1.1 25753 1g79A 218 1.77e-30 1ci0A b.45.1.1 25752 1nrgA 261 1.44e-25 b.45.1.1 80694 1t9mA 214 9.17e-22 1ci0A 228 6.49e-20 1ci0A b.45.1.1 25750 1ty9A 222 9.48e-20 1rfeA 162 6.45e-12 2fhqA 141 1.42e-11 2fg9A 178 1.68e-07 1vl7A 157 2.31e-07 b.45.1.1 108732 2asfA 137 1.01e-05 2aq6A 147 1.12e-05 1xxoA 147 1.77e-05 1w9aA 147 1.98e-05 2furA 209 7.86e-04 1w3oA 216 9.75e-03 1axj 122 1.69e-02 1axj b.45.1.1 25749 1xhnA 184 1.72e-02 1flmA 122 5.76e-02 1axj b.45.1.1 25747 1ejeA 192 9.81e-02 1ejeA b.45.1.2 25757 2arzA 247 1.97e-01 2a6sA 84 6.34e-01 1qvcA 145 7.92e-01 3ullA b.40.4.3 25284 1d2dA 59 1.80e+00 1r1bA a.16.1.3 16397 1r1bA 59 2.03e+00 1r1bA a.16.1.3 16396 1jv2B 692 2.16e+00 b.1.15.1,c.62.1.1,d.200.1.1,g.3.11.6,g.3.11.6 67338,67339,67340,67341,67342 1ye8A 178 2.30e+00 2etvA 346 2.92e+00 1l3kA 196 3.08e+00 d.58.7.1,d.58.7.1 73539,73540 1u09A 476 3.21e+00 e.8.1.4 107545 2f9dA 125 3.35e+00 2f4mA 295 3.64e+00 1l1zA 274 3.76e+00 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1r2zA 274 3.76e+00 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 2fcjA 119 3.96e+00 1cklA 126 3.98e+00 1cklB g.18.1.1,g.18.1.1 44851,44852 2cwpA 112 4.21e+00 1ewjA 126 4.54e+00 1ecsA d.32.1.2 59526 1m1hA 248 5.09e+00 b.114.1.1,d.58.42.1 78415,78416 1ha1 184 5.51e+00 1ha1 d.58.7.1,d.58.7.1 39147,39148 1cklB 126 5.53e+00 1cklB g.18.1.1,g.18.1.1 44853,44854 1ryp2 233 5.79e+00 1ryp2 1jdqA 98 5.93e+00 d.68.3.3 66559 1ecsA 126 6.62e+00 1ecsA d.32.1.2 59407 2gukA 120 8.45e+00 1k8vA 40 9.06e+00 j.6.1.1 72182 1xhfA 123 9.61e+00 1lfpA 249 9.92e+00 e.39.1.1 73885 1g0u1 266 1.05e+01 2a6hD 1524 1.12e+01 1lrrA 131 1.33e+01 d.228.1.1 78165 1pft 50 1.47e+01 1pft g.41.3.1 45206 1nrzA 164 1.55e+01 c.38.1.1 86131 2u2fA 85 1.55e+01 2u2fA d.58.7.1 39167 1p27B 106 1.84e+01 d.58.7.1 93908 1eca 136 1.87e+01 1flp a.1.1.2 15209 1ecd 136 1.96e+01 1flp a.1.1.2 15211 1eco 136 2.01e+01 1flp a.1.1.2 15208 2f6kA 307 2.12e+01 1gxuA 91 2.15e+01 d.58.10.1 76378 1cawB 184 2.15e+01 1caxB b.82.1.2 28113 3vub 101 2.20e+01 3vub b.34.6.1 24613 1k66A 149 2.20e+01 c.23.1.1 90941 1xpjA 126 2.31e+01 1wmmA 145 2.36e+01 1gp2G 71 2.37e+01 1tbgE a.137.3.1 19635 2ag5A 246 2.43e+01 1w33A 181 2.66e+01 1ltlA 279 2.77e+01 b.40.4.11 84701 1mku 123 2.78e+01 1poa a.133.1.2 19590 1al0B 120 2.81e+01 1cd3B 1caxB 184 2.87e+01 1caxB b.82.1.2 28105 1btl 263 2.90e+01 1btl e.3.1.1 42691 1i7wB 151 3.00e+01 1i7wB j.71.1.1 61910 1aw8B 91 3.00e+01 1aw8B 1cauB 184 3.12e+01 1caxB b.82.1.2 28103 1umdB 324 3.14e+01 c.36.1.7,c.48.1.2 99600,99601 1gnwA 211 3.26e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1j57A 143 3.29e+01 d.221.1.1 77079 1ta8A 332 3.30e+01 1cqyA 99 3.33e+01 1b9zA b.3.1.1 22527 1ip9A 85 3.52e+01 1ip9A d.15.2.2 62638 1aw8E 91 3.57e+01 1aw8B 2d3dA 88 3.63e+01 1wi6A 88 3.71e+01 1s1hM 132 3.79e+01 i.1.1.1 105165 1jjuA 489 3.88e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66774,66775,66776,66777,66778 2bgiA 272 3.90e+01 1b04A 318 4.04e+01 1b04A d.142.2.2 41579 1j09A 468 4.08e+01 a.97.1.1,c.26.1.1 77025,77026 1m40A 263 4.18e+01 e.3.1.1 74437 1k68A 140 4.26e+01 c.23.1.1 90943 1b97A 244 4.28e+01 1rvaA c.52.1.2 33252 2f8kA 88 4.40e+01 1knqA 175 4.45e+01 c.37.1.17 72786 1gg6B 131 4.51e+01 5ptp 1n3oA 252 4.53e+01 b.29.1.1 79967 1b94A 244 4.58e+01 1rvaA c.52.1.2 33250 1ukgA 252 4.60e+01 b.29.1.1 99489 1ermA 263 4.63e+01 1btl e.3.1.1 42690 1cl4A 60 4.63e+01 1cl4A g.40.1.1 45171 1c25 161 4.71e+01 1c25 c.46.1.1 32698 1wj9A 211 4.73e+01 2g0qA 173 4.77e+01 1z7lA 276 4.78e+01 1fqgA 263 4.87e+01 1btl e.3.1.1 42699 1ibvB 229 4.87e+01 1td5A 202 4.96e+01 d.110.2.2 106767 1oz9A 150 4.96e+01 d.92.1.15 93808 1ko7A 314 4.99e+01 c.98.2.1,c.91.1.2 72797,72798 1p2fA 220 4.99e+01 a.4.6.1,c.23.1.1 87720,87721 2av5A 120 5.11e+01 2etjA 250 5.13e+01 1sacA 204 5.28e+01 1sacA b.29.1.5 24237 1gm6A 175 5.42e+01 b.60.1.1 70272 1iw7C 1119 5.48e+01 e.29.1.1 71474 2a6hC 1119 5.52e+01 1sxl 97 5.56e+01 1b7fA d.58.7.1 39180 1k3sA 113 5.60e+01 d.198.1.1 68120 1pyaB 228 5.71e+01 1pyaB 1pbyA 489 5.80e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1bax 94 5.85e+01 1bax a.61.1.3 18133 1sx5A 244 5.88e+01 c.52.1.2 99023 1rwrA 301 5.89e+01 b.80.1.11 97990 1whxA 111 6.10e+01 1eur 365 6.11e+01 1eut b.68.1.1 27607 1h6fA 193 6.16e+01 b.2.5.4 70901 1puiA 210 6.38e+01 c.37.1.8 88292 1g59A 468 6.62e+01 a.97.1.1,c.26.1.1 60257,60258 2bitX 165 6.69e+01 1f3vA 179 6.72e+01 1f3vA d.58.22.1 39382 2bwrA 401 6.83e+01 1qo0D 196 6.85e+01 1qo0D c.23.1.3 31125 2fxaA 207 6.85e+01 1zeqX 84 6.86e+01 1g4iA 123 7.03e+01 1poa a.133.1.2 60241 1hre 67 7.05e+01 1xdtR g.3.11.1 44300 1hn4A 131 7.08e+01 a.133.1.2 65893 1fjsL 52 7.12e+01 1hcgB g.3.11.1 44226 1hcc 59 7.12e+01 1hfh g.18.1.1 44820 1dt4A 73 7.28e+01 1dt4A d.51.1.1 38799 1b8aA 438 7.50e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1eu3A 210 7.51e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1owlA 484 7.66e+01 a.99.1.1,c.28.1.1 93647,93648 1rvaA 244 7.80e+01 1rvaA c.52.1.2 33240 1vkkA 154 7.83e+01 d.109.1.2 108669 1cr5A 189 7.88e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1gln 468 7.89e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1hae 63 7.90e+01 1xdtR g.3.11.1 44298 1dl6A 58 7.98e+01 1dl6A g.41.3.1 45207 1i3zA 103 8.11e+01 d.93.1.1 83667 1tvjA 166 8.15e+01 2fbiA 142 8.18e+01 1w2iA 91 8.27e+01 d.58.10.1 109127 1yphC 131 8.42e+01 1une 123 8.64e+01 1poa a.133.1.2 19583 1z6eB 52 8.81e+01 1nycA 111 8.91e+01 b.61.2.2 92336 1jjrA 151 8.96e+01 a.140.2.1 66772 1hq1A 105 9.00e+01 1dulA a.36.1.1 17120