# 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 2fneA 117 6.22e-12 1bfeA 119 3.17e-11 1pdr b.36.1.1 24775 2fe5A 94 3.41e-11 1pdr 99 3.47e-11 1pdr b.36.1.1 24771 1tp5A 119 3.65e-11 1be9A 119 4.96e-11 1pdr b.36.1.1 24774 2fcfA 103 2.70e-10 1qavA 90 4.93e-10 1qauA b.36.1.1 24777 2h2bA 107 5.19e-10 1q3oA 109 6.60e-10 b.36.1.1 95700 1g9oA 91 6.67e-10 1pdr b.36.1.1 60400 1i92A 91 6.69e-10 1pdr b.36.1.1 61990 1n7eA 97 7.45e-10 b.36.1.1 91691 1i16 130 1.13e-09 1i16 b.36.1.2 24787 1ihjA 98 1.30e-09 1pdr b.36.1.1 62382 1l6oA 95 3.14e-09 b.36.1.1 84534 1v5lA 103 3.38e-09 b.36.1.1 108378 1n7fA 97 3.91e-09 b.36.1.1 91692 1wf7A 103 3.97e-09 2h3lA 103 4.00e-09 2f0aA 98 5.39e-09 1mfgA 95 5.77e-09 b.36.1.1 79043 1qauA 112 1.83e-08 1qauA b.36.1.1 24779 1nf3C 128 2.21e-08 b.36.1.1 85596 1qavB 115 2.53e-08 1qauA b.36.1.1 24780 1b8qA 127 4.29e-08 1qauA b.36.1.1 24781 1m5zA 91 4.41e-08 b.36.1.1 78676 1kwaA 88 5.05e-08 1kwaA b.36.1.1 24772 1n99A 166 5.05e-08 b.36.1.1,b.36.1.1 85459,85460 1kwaB 88 1.04e-07 1kwaA b.36.1.1 24773 2f5yA 91 5.95e-07 1r6jA 82 2.13e-05 b.36.1.1 97151 1fc6A 388 2.18e-05 1fc6A b.36.1.3,c.14.1.2 64738,64739 1nteA 82 2.44e-05 b.36.1.1 86163 1lcyA 325 2.39e-04 b.36.1.4,b.47.1.1 73834,73835 1ky9B 448 1.04e-03 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1te0A 318 1.98e-03 1ky9A 448 4.25e-03 b.36.1.4,b.47.1.1 73198,73199 1sotA 320 1.19e-02 b.36.1.4,b.47.1.1 105852,105853 1y8tA 324 6.31e-01 2a6tA 271 3.96e+00 2bh4X 134 5.16e+00 1cv8 174 6.77e+00 1cv8 d.3.1.1 37089 1cis 66 8.87e+00 2sniI k.1.1.1 46375 1db3A 372 9.66e+00 1db3A c.2.1.2 29813 1d6tA 117 1.03e+01 1a6f d.14.1.2 37565 1rypL 212 1.17e+01 d.153.1.4 41880 1bx4A 345 1.18e+01 1bx4A c.72.1.1 34935 2d4pA 141 1.26e+01 1g65K 211 1.28e+01 d.153.1.4 41907 1koe 172 1.42e+01 1koe d.169.1.5 42448 1a6f 119 1.43e+01 1a6f d.14.1.2 37564 1t3qB 788 1.62e+01 d.41.1.1,d.133.1.1 106369,106370 2sniI 83 1.75e+01 2sniI d.40.1.1 38573 2iu4A 336 1.87e+01 1dpuA 99 2.08e+01 1dpuA a.4.5.16 16150 1z1dA 103 2.13e+01 1p99A 295 2.18e+01 c.94.1.1 94384 1b6cB 342 2.19e+01 1b6cB d.144.1.7 41673 1to2I 64 2.38e+01 1cot 129 2.40e+01 1ycc a.3.1.1 15899 2axcA 264 2.47e+01 1kw4A 89 2.55e+01 a.60.1.2 73077 1hl6A 165 2.64e+01 d.58.7.1 83609 1a22A 180 2.68e+01 1huw a.26.1.1 16833 1coaI 64 2.75e+01 2sniI d.40.1.1 38574 1bp3A 191 2.85e+01 1huw a.26.1.1 16838 1sw5A 275 3.15e+01 c.94.1.1 106069 1xewY 172 3.16e+01 1t6t1 118 3.17e+01 1fxlA 167 3.18e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1l1dA 152 3.19e+01 b.88.1.3 73452 2cc0A 195 3.21e+01 1wqsA 173 3.28e+01 1se8A 301 3.41e+01 b.40.4.3 105448 1jjtA 228 3.44e+01 1a7tA d.157.1.1 63139 1lw6I 64 3.58e+01 d.40.1.1 74294 1f2fA 104 3.61e+01 1fmk d.93.1.1 40455 1r6xA 395 3.91e+01 b.122.1.3,c.26.1.5 97167,97168 1dax 64 4.14e+01 1fxd d.58.1.4 38996 2f1wA 158 4.14e+01 2brfA 110 4.26e+01 1ah1 129 4.32e+01 1ah1 b.1.1.1 20652 1txnA 328 4.37e+01 2h03A 291 4.43e+01 1d1nA 99 4.46e+01 1d1nA b.43.3.1 25718 1zckA 154 4.47e+01 1ql3A 99 4.51e+01 1ycc a.3.1.1 15822 1rl4A 188 4.69e+01 d.167.1.1 97636 1rxdA 159 4.72e+01 1j08A 226 4.73e+01 c.47.1.2,c.47.1.2 83855,83856 3sxlA 184 4.78e+01 1b7fA d.58.7.1,d.58.7.1 39173,39174 1xdyA 298 4.78e+01 1fxrA 64 4.92e+01 1fxd d.58.1.4 38993 1rm6A 769 4.97e+01 1q67A 231 5.09e+01 b.55.1.7 95960 1nwbA 124 5.11e+01 b.124.1.1 86296 155c 135 5.21e+01 1ycc a.3.1.1 15900 2fojA 155 5.24e+01 1kgsA 225 5.28e+01 a.4.6.1,c.23.1.1 68596,68597 1b7fA 168 5.32e+01 1b7fA d.58.7.1,d.58.7.1 39169,39170 1x6vA 630 5.49e+01 1sw5B 275 5.55e+01 c.94.1.1 106070 1mk4A 157 5.56e+01 d.108.1.1 84979 1dg6A 191 5.56e+01 1d4vB b.22.1.1 23883 1pueE 89 5.56e+01 1awcA a.4.5.21 16165 1dfd 64 5.58e+01 1fxd d.58.1.4 38995 1earA 147 5.60e+01 b.107.1.1,d.58.38.1 64875,64876 1jhfA 202 5.60e+01 a.4.5.2,b.87.1.1 63057,63058 1eb0A 147 5.61e+01 b.107.1.1,d.58.38.1 64890,64891 1x24A 180 5.67e+01 1ordA 730 5.67e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31274,34503,41124 1qo0D 196 5.73e+01 1qo0D c.23.1.3 31125 2sxl 88 5.86e+01 1b7fA d.58.7.1 39179 1yhuB 144 5.88e+01 1a8l 226 5.90e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1z6nA 167 5.91e+01 1xtmA 175 5.95e+01 1vpqA 273 6.03e+01 1a3lH 218 6.04e+01 1mfa b.1.1.1,b.1.1.2 20241,21253 1h3qA 140 6.05e+01 d.110.4.3 76652 1yy6A 155 6.07e+01 1jnyA 435 6.10e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1qbiA 454 6.19e+01 1c9uA b.68.2.1 27619 1zclA 180 6.24e+01 1shaA 104 6.40e+01 1fmk d.93.1.1 40424 1axiA 191 6.42e+01 1huw a.26.1.1 16832 1shbA 104 6.47e+01 1fmk d.93.1.1 40425 1evlA 401 6.47e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1wvhA 134 6.49e+01 1bxeA 113 6.49e+01 1bxeA d.55.1.1 38898 1f3z 161 6.56e+01 1gpr b.84.3.1 28273 1vjyA 303 6.62e+01 d.144.1.7 108633 2cu1A 103 6.66e+01 1y7rA 133 6.71e+01 1ggrA 168 6.74e+01 1gpr b.84.3.1 28279 1pvmA 184 6.99e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1py5A 326 7.07e+01 d.144.1.7 104389 1glaF 168 7.11e+01 1gpr b.84.3.1 28274 2b4aA 138 7.21e+01 2aa4A 289 7.36e+01 1avaC 181 7.42e+01 1avaC b.42.4.1 25604 1ionA 243 7.42e+01 c.37.1.10 62633 1q48A 134 7.55e+01 d.224.1.2 95783 1an0A 190 7.55e+01 1ctqA c.37.1.8 32066 1i8lC 126 7.62e+01 1ah1 b.1.1.1 61974 7reqB 637 7.64e+01 1reqB c.1.19.1,c.23.6.1 29617,31244 1rurH 218 7.68e+01 b.1.1.1,b.1.1.2 97879,97880 1m9nA 613 7.69e+01 c.24.1.3,c.97.2.1 78870,78871 35c8H 217 7.72e+01 8fabA b.1.1.1,b.1.1.2 20297,21289 1xo5A 183 7.75e+01 1p35A 299 7.81e+01 1p35A b.28.1.1 23925 2ajuH 219 7.81e+01 1unkA 87 7.94e+01 1cei a.28.2.1 16935 2ccmA 191 7.99e+01 1cei 94 8.02e+01 1cei a.28.2.1 16939 2gwnA 452 8.03e+01 1xtlA 175 8.09e+01 1yjmA 110 8.15e+01 1vgmA 378 8.24e+01 1pk1B 89 8.47e+01 1r13A 148 8.55e+01 d.169.1.1,h.1.1.1 96782,96783 2hc1A 291 8.65e+01 1s4iA 175 8.68e+01 1reqD 637 8.68e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 1wbiA 129 8.71e+01 1qf6A 642 8.75e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 2bsjA 133 8.75e+01 1y55X 126 8.83e+01 1reqB 637 8.85e+01 1reqB c.1.19.1,c.23.6.1 29621,31248