# List of top-scoring protein chains for t04-100-40-40-str2+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 1oshA 232 7.96e-02 a.123.1.1 -1697 1upkA 341 3.51e-01 unknown_sccs -1565 1dz4A 414 4.06e-01 1phd a.104.1.1 18903 1g7oA 215 4.97e-01 1g7oA a.45.1.1 60332 c.47.1.5 60333 1dugA 234 5.20e-01 1b8xA a.45.1.1 17718 c.47.1.5 33012 1io7A 368 5.31e-01 1f4tA a.104.1.1 18971 1qmqA 414 6.47e-01 1phd a.104.1.1 18907 2e2aA 105 7.99e-01 a.7.2.1 88499 6gsvA 217 1.04e+00 1b8xA a.45.1.1 17633 c.47.1.5 32925 2ran 316 1.08e+00 1avc a.65.1.1 18170 1qciA 262 1.18e+00 1qi7A d.165.1.1 42201 1e2aA 105 1.19e+00 1e2aA a.7.2.1 16322 1a8b 318 1.33e+00 1avc a.65.1.1 18171 1s6yA 450 1.53e+00 1nfvA 179 1.87e+00 a.25.1.1 85642 1h6gA 256 2.19e+00 1h6gA a.24.9.1 60669 a.24.9.1 60670 1sctB 151 2.32e+00 3sdhA a.1.1.2 15003 1vin 268 2.33e+00 1vin a.74.1.1 18354 a.74.1.1 18355 1qqeA 292 2.72e+00 1qqeA a.118.8.1 19210 1mhqA 148 3.34e+00 a.118.9.2 84973 1oaoA 674 3.54e+00 e.26.1.2 86744 1q5dA 419 3.68e+00 a.104.1.1 -1454 1obbA 480 4.22e+00 c.2.1.5 86760 d.162.1.2 86761 1uox 296 5.17e+00 1uox 1ew6A 137 5.19e+00 1ewaA a.1.1.2 15637 1kxpD 458 5.26e+00 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 1r4uA 301 5.33e+00 d.96.1.4 -10709 d.96.1.4 -10710 1usuA 260 5.48e+00 unknown_sccs -9045 1aj8A 371 5.56e+00 1aj8A a.103.1.1 18900 1h6pA 203 6.10e+00 a.146.1.1 60690 1r5iD 216 6.12e+00 unknown_sccs -1272 1vls 146 6.38e+00 1vls a.24.2.1 16532 256bA 106 6.54e+00 256bA a.24.3.1 16539 1vjtA 483 6.86e+00 c.2.1.5 -5941 d.162.1.2 -11508 1hl2A 297 7.25e+00 c.1.10.1 83581 1miwA 404 7.97e+00 a.173.1.1 79162 d.218.1.4 79163 1lp8A 254 8.03e+00 d.165.1.1 -11551 1p80A 753 8.19e+00 c.23.16.3 -6547 e.5.1.1 -11840 1h0oA 390 8.37e+00 a.25.1.2 70845 1xsm 390 8.45e+00 1xsm a.25.1.2 16804 1f44A 324 8.77e+00 a.60.9.1 64982 d.163.1.1 64983 1jogA 146 8.95e+00 a.24.16.2 77142 1rj1A 151 8.96e+00 unknown_sccs -753 1bf5A 545 9.23e+00 1bg1A a.47.1.1 17766 b.2.5.5 22460 d.93.1.1 40526 1j1qA 261 9.32e+00 d.165.1.1 -11546 2gsq 202 9.82e+00 1pd21 a.45.1.1 17715 c.47.1.5 33009 1cf9A 753 1.02e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1k32A 1045 1.06e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1dwtA 153 1.10e+01 1a6m a.1.1.2 15190 1n81A 186 1.10e+01 a.185.1.1 85388 1pd21 199 1.12e+01 1pd21 1vjxA 157 1.13e+01 a.25.1.1 -654 1jipA 403 1.16e+01 a.104.1.1 66748 1jk0A 419 1.23e+01 a.25.1.2 63142 4crxA 322 1.23e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1aep 161 1.24e+01 1aep a.63.1.1 18139 1r9dA 787 1.27e+01 1hz4A 373 1.27e+01 a.118.8.2 65960 1mrj 247 1.28e+01 1mrj d.165.1.1 42177 1q5nA 454 1.29e+01 a.127.1.1 -1756 1kgnA 329 1.29e+01 a.25.1.2 68584 1tadA 324 1.32e+01 1cipA a.66.1.1 18194 c.37.1.8 32077 1bj4A 470 1.42e+01 1bj4A c.67.1.4 34479 1qi7A 253 1.43e+01 1qi7A d.165.1.1 42210 1c3cA 429 1.44e+01 1c3cA a.127.1.1 19425 1n97A 389 1.45e+01 a.104.1.1 80335 1o08A 221 1.45e+01 c.108.1.6 86525 1chuA 540 1.49e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1tag 324 1.54e+01 1cipA a.66.1.1 18197 c.37.1.8 32080 1odoA 408 1.54e+01 a.104.1.1 -1463 1qq8A 214 1.57e+01 1qq8A 1v9mA 323 1.57e+01 unknown_sccs -12292 1jfbA 404 1.60e+01 a.104.1.1 66624 1ash 150 1.65e+01 1ash a.1.1.2 15622 1jpzA 473 1.68e+01 a.104.1.1 67069 1mqsA 671 1.69e+01 e.25.1.1 79414 1ewqA 765 1.70e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1euhA 475 1.70e+01 1euhA c.82.1.1 35369 1qgrA 876 1.73e+01 1qgrA a.118.1.1 19119 1mixA 206 1.73e+01 a.11.2.1 79166 b.55.1.5 79167 1r5zA 323 1.73e+01 unknown_sccs -12289 1irdA 141 1.78e+01 a.1.1.2 66286 1cjaA 342 1.79e+01 1cjaA d.144.1.3 41708 1lw9A 164 1.85e+01 d.2.1.3 84727 1fvzA 271 1.88e+01 1fvzA 1eemA 241 1.95e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 1abrA 251 1.97e+01 1mrj d.165.1.1 42196 1a17 166 2.02e+01 1a17 a.118.8.1 19206 1nal1 297 2.08e+01 1nal3 1gvnB 287 2.09e+01 c.37.1.21 76354 1i1iP 681 2.10e+01 1i1iP d.92.1.5 40297 1ee4A 423 2.13e+01 1ee4A a.118.1.1 19128 1lldA 319 2.18e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 1gjnA 153 2.18e+01 a.1.1.2 70191 1f24A 402 2.24e+01 1rom a.104.1.1 18953 1vhnA 318 2.25e+01 c.1.4.1 -5209 1vi0A 206 2.26e+01 a.4.1.9 -206 a.121.1.1 -1659 1bed 181 2.34e+01 1fvkA unknown_sccs -7444 1uddA 226 2.40e+01 1r2fA 319 2.40e+01 1r2fA a.25.1.2 16800 1fm9D 272 2.46e+01 2prgA a.123.1.1 19313 1elkA 157 2.47e+01 1dvpA a.118.9.2 19217 1in6A 334 2.49e+01 1hqcA a.4.5.11 62601 c.37.1.20 62602 1efyA 350 2.51e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1i5nA 146 2.51e+01 1i5nA a.24.10.3 61805 1b4pA 217 2.52e+01 a.45.1.1 83158 c.47.1.5 83159 1qbkB 890 2.56e+01 1qbkB a.118.1.1 19127 1n5uA 585 2.62e+01 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1k0dA 260 2.64e+01 a.45.1.1 67930 c.47.1.5 67931 1ithA 141 2.68e+01 1ithA a.1.1.2 15623 1bu7A 455 2.71e+01 1bu7A a.104.1.1 18937 1eupA 403 2.74e+01 1rom a.104.1.1 18967 1ux5A 411 2.76e+01 unknown_sccs -1768 1rv3A 483 2.76e+01 1qf9A 194 2.77e+01 1zin c.37.1.1 31848 1iv8A 720 2.83e+01 b.71.1.1 76842 c.1.8.1 76843 1eyhA 144 3.00e+01 1eduA a.118.9.1 19214 1h8eA 510 3.01e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1in4A 334 3.04e+01 1hqcA a.4.5.11 62597 c.37.1.20 62598 1pgtA 210 3.07e+01 1pgtA a.45.1.1 17515 c.47.1.5 32809 1j7yA 141 3.13e+01 a.1.1.2 66426 1ccwB 483 3.14e+01 1cb7B c.1.19.2 29646 1m7sA 484 3.18e+01 e.5.1.1 74574 1iomA 377 3.21e+01 a.103.1.1 83698 1bbhA 131 3.32e+01 1bbhA a.24.3.2 16546 1ugpB 226 3.38e+01 1mla 309 3.40e+01 1mla c.19.1.1 31031 d.58.23.1 39383 1v4xA 144 3.43e+01 1c7qA 445 3.44e+01 2pgi c.80.1.2 35307 1qgwC 177 3.46e+01 1qgwC a.1.1.3 15673 1k3yA 221 3.49e+01 a.45.1.1 77245 c.47.1.5 77246 1ireB 228 3.50e+01 b.34.4.4 76770 1gakA 141 3.51e+01 1gakA a.19.1.1 16415 2cb5A 453 3.52e+01 3gcb d.3.1.1 37035 2pil 159 3.58e+01 2pil d.24.1.1 38376 1nb8A 353 3.59e+01 d.3.1.9 80385 1ie9A 259 3.63e+01 1db1A a.123.1.1 62318 1e7aA 585 3.66e+01 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1qjbA 245 3.74e+01 1qjaA a.118.7.1 19202 1n1bA 549 3.80e+01 a.102.4.1 79799 a.128.1.3 79800 1qoyA 318 3.81e+01 1qoyA h.4.4.1 45788 1hkxA 147 3.81e+01 d.17.4.7 83567 1j97A 211 4.00e+01 1f5sA c.108.1.4 62753