# List of top-scoring protein chains for t2k-100-30-str2 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 1cozA 129 2.49e-20 1cozA c.26.1.2 31598 1mrzA 293 7.47e-05 1od6A 160 3.41e-04 c.26.1.3 86836 1b6tA 159 9.73e-04 1b6tA c.26.1.3 31600 1qjcA 158 1.39e-03 1b6tA c.26.1.3 63328 1f9aA 168 9.11e-03 1f9aA c.26.1.3 31602 1ihoA 283 6.68e-02 1ihoA c.26.1.4 62390 1n2eA 300 9.17e-02 c.26.1.4 85268 1mopA 300 1.04e-01 c.26.1.4 85035 1bs0A 384 1.07e-01 1bs0A c.67.1.4 34490 1eny 268 3.43e-01 1eny c.2.1.2 29910 1zid 268 7.53e-01 1eny c.2.1.2 29911 1j6uA 469 7.79e-01 c.5.1.1 77094 c.59.1.1 77095 c.72.2.1 77096 1geqA 248 8.87e-01 2tysA c.1.2.4 28589 1bw9A 356 1.29e+00 1bw9A c.2.1.7 30274 c.58.1.1 33922 1c1dA 355 1.47e+00 1bw9A c.2.1.7 30270 c.58.1.1 33918 1f74A 293 1.59e+00 1nal3 c.1.10.1 29079 1din 236 1.98e+00 1din c.69.1.9 34682 1qdlB 195 2.02e+00 1qdlB c.23.16.1 31437 1k4mA 213 2.10e+00 c.26.1.3 77258 1f6kA 293 2.11e+00 1nal3 c.1.10.1 29081 1ej2A 181 2.20e+00 1f9aA c.26.1.3 59414 1ggvA 232 2.82e+00 1din c.69.1.9 34683 1reqD 637 2.90e+00 1reqB c.1.19.1 29623 c.23.6.1 31250 1cqxA 403 3.24e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1e3jA 352 4.05e+00 1e3jA b.35.1.2 24765 c.2.1.1 29781 1kamA 194 4.13e+00 c.26.1.3 72254 7reqB 637 4.18e+00 1reqB c.1.19.1 29617 c.23.6.1 31244 1a1s 314 4.22e+00 1othA c.78.1.1 35258 c.78.1.1 35259 1oe4A 247 4.55e+00 c.18.1.3 86895 1wetA 340 4.84e+00 1qpzA a.35.1.5 17093 c.93.1.1 35670 1h3fA 432 4.93e+00 c.26.1.1 76631 d.66.1.4 76632 1qh3A 260 4.96e+00 1qh5A d.157.1.2 42059 1eo1A 124 5.01e+00 1eo1A c.55.5.1 33739 1vpwA 340 5.53e+00 1qpzA a.35.1.5 17087 c.93.1.1 35680 1l2tA 235 5.62e+00 c.37.1.12 73514 1odkA 235 5.78e+00 c.56.2.1 86863 1qh5A 260 5.83e+00 1qh5A d.157.1.2 42057 1g24A 211 5.97e+00 1g24A d.166.1.1 42270 1reqB 637 6.07e+00 1reqB c.1.19.1 29621 c.23.6.1 31248 1qpzA 340 6.10e+00 1qpzA a.35.1.5 17097 c.93.1.1 35673 1lrzA 426 6.28e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1dgmA 363 6.97e+00 1bx4A c.72.1.1 34936 1hx1B 114 8.13e+00 1hx1B a.7.7.1 61350 1hg3A 225 8.16e+00 1hg3A c.1.1.1 61025 1j93A 353 8.40e+00 c.1.22.1 66454 2tpsA 227 8.42e+00 2tpsA c.1.3.1 28591 1qhsA 178 8.67e+00 1qhsA c.37.1.3 31938 1jbkA 195 9.04e+00 c.37.1.20 71631 1qhxA 178 9.24e+00 1qhsA c.37.1.3 31936 1j24A 143 9.32e+00 c.52.1.20 84008 1kp0A 402 9.90e+00 c.55.2.1 72834 d.127.1.1 72835 1l8qA 324 1.05e+01 a.4.12.2 77809 c.37.1.20 77810 1g6oA 330 1.10e+01 1g6oA c.37.1.11 32430 1n2zA 245 1.10e+01 c.92.2.2 79865 1huvA 380 1.10e+01 c.1.4.1 61277 1nbmG 272 1.11e+01 1e1qG c.49.2.1 33161 1ixkA 315 1.13e+01 3pghA 587 1.16e+01 1cqeA a.93.1.2 18726 g.3.11.1 44269 1h61A 364 1.21e+01 1oyc c.1.4.1 60657 2anhA 446 1.23e+01 1b8jA c.76.1.1 35004 1efdN 266 1.23e+01 1efdN c.92.2.1 35597 1m6nA 802 1.25e+01 a.162.1.1 78697 a.172.1.1 78698 c.37.1.19 78699 c.37.1.19 78700 1gvoA 364 1.30e+01 c.1.4.1 76357 1dzfA 215 1.30e+01 1dzfA c.52.3.1 33344 d.78.1.1 39753 1wab 232 1.31e+01 1wab c.23.10.3 31341 1evlA 401 1.32e+01 1qf6A c.51.1.1 33202 d.104.1.1 40751 1e1qG 272 1.34e+01 1e1qG c.49.2.1 33162 1bmfG 272 1.36e+01 1e1qG c.49.2.1 33160 1es9A 232 1.38e+01 1wab c.23.10.3 31340 1im5A 180 1.38e+01 c.33.1.2 66211 1j4aA 333 1.38e+01 c.2.1.4 71502 c.23.12.1 71503 1gvfA 286 1.40e+01 c.1.10.2 70599 1bx4A 345 1.42e+01 1bx4A c.72.1.1 34935 1o5iA 249 1.50e+01 1a4mA 349 1.52e+01 1a4mA c.1.9.1 29014 1add 349 1.56e+01 1a4mA c.1.9.1 29020 1elyA 449 1.60e+01 1b8jA c.76.1.1 35028 1b8jA 449 1.61e+01 1b8jA c.76.1.1 34992 1ed8A 449 1.62e+01 1b8jA c.76.1.1 34988 1kh5A 449 1.65e+01 c.76.1.1 72475 1bt0A 76 1.68e+01 1ubi d.15.1.1 37607 1k3lA 221 1.70e+01 a.45.1.1 77229 c.47.1.5 77230 1l7mA 211 1.81e+01 c.108.1.4 73664 1ltqA 301 1.82e+01 c.108.1.9 78208 c.37.1.1 78209 1js1X 324 1.82e+01 c.78.1.1 71834 c.78.1.1 71835 1alkA 449 1.84e+01 1b8jA c.76.1.1 34994 1a53 247 1.90e+01 1a53 c.1.2.4 28564 1gseA 221 1.91e+01 1pgtA a.45.1.1 17667 c.47.1.5 32961 1jnrB 150 1.93e+01 d.58.1.5 66969 1k3yA 221 1.98e+01 a.45.1.1 77245 c.47.1.5 77246 1elqA 390 1.99e+01 1elqA c.67.1.3 34436 1eluA 390 1.99e+01 1elqA c.67.1.3 34434 1yal 218 2.01e+01 1cs8A d.3.1.1 37025 1eucA 311 2.02e+01 2scuA c.2.1.8 30311 c.23.4.1 31139 1eudA 311 2.02e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1eswA 500 2.12e+01 1cwyA c.1.8.1 59500 1e32A 458 2.12e+01 1e32A b.52.2.3 59183 c.37.1.20 59184 d.31.1.1 59185 1eluB 390 2.13e+01 1elqA c.67.1.3 34435 1lssA 140 2.17e+01 c.2.1.9 74246 1dkgD 383 2.18e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1j1iA 296 2.23e+01 c.69.1.10 83977 1f8fA 371 2.27e+01 b.35.1.2 83246 c.2.1.1 83247 1j97A 211 2.30e+01 1f5sA c.108.1.4 62753 1f5sA 211 2.30e+01 1f5sA c.108.1.4 59656 1kanA 253 2.30e+01 1knyA a.24.16.1 75878 d.218.1.1 75879 1mj5A 302 2.33e+01 1eziA 228 2.34e+01 1eyrA c.68.1.3 34512 1fkx 349 2.40e+01 1a4mA c.1.9.1 29018 1pymA 295 2.44e+01 1pymA c.1.12.7 29308 1me4A 215 2.49e+01 d.3.1.1 79023 1f2aA 215 2.50e+01 1cs8A d.3.1.1 37040 3gcb 470 2.53e+01 3gcb d.3.1.1 37032 1gcb 454 2.59e+01 3gcb d.3.1.1 37034 1eyrA 228 2.61e+01 1eyrA c.68.1.3 34514 1lvhA 221 2.69e+01 c.108.1.6 74282 1gvnB 287 2.70e+01 c.37.1.21 76354 1a6r 471 2.76e+01 3gcb d.3.1.1 37033 1knvA 293 2.77e+01 c.52.1.7 68707 1owxA 121 2.81e+01 d.58.7.1 87494 1hjzA 192 2.81e+01 c.50.1.2 83520 1iyeA 309 2.97e+01 e.17.1.1 83786 1qorA 327 2.98e+01 1qorA b.35.1.2 24766 c.2.1.1 29782 1me3A 215 3.02e+01 d.3.1.1 79022 2ae2A 260 3.08e+01 1bdb c.2.1.2 29945 1iz0A 302 3.22e+01 b.35.1.2 83821 c.2.1.1 83822 1o08A 221 3.25e+01 c.108.1.6 86525 1a3gA 308 3.30e+01 1daaA e.17.1.1 43286 1jlnA 297 3.37e+01 1pty c.45.1.2 63172 1ad1A 266 3.39e+01 1aj2 c.1.21.1 29668 1m6dA 214 3.50e+01 d.3.1.1 84849 1scfA 273 3.52e+01 1exzA a.26.1.2 16873 1cwyA 500 3.57e+01 1cwyA c.1.8.1 28789 1v39 322 3.57e+01 3mag c.66.1.25 34206 1vp9 322 3.57e+01 3mag c.66.1.25 34210 1lfwA 470 3.57e+01 c.56.5.4 77942 d.58.19.1 77943 1qgiA 259 3.57e+01 1qgiA d.2.1.7 37001 1lki 180 3.58e+01 1lki a.26.1.1 16829 1cv2A 296 3.65e+01 1bn6A c.69.1.8 34680 1qsgA 265 3.69e+01 1eny c.2.1.2 29935 1iz7A 295 3.69e+01 c.69.1.8 76982 1dik 874 3.69e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1ubq 76 3.72e+01 1ubi d.15.1.1 37585 1tig 94 3.75e+01 1tig d.68.1.1 39566 1igs 248 3.75e+01 1a53 c.1.2.4 28565 1hqcA 324 3.75e+01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1a5t 334 3.78e+01 1a5t a.80.1.1 18450 c.37.1.20 32423 1e7wA 291 3.81e+01 c.2.1.2 59373 1ae1A 273 3.82e+01 1bdb c.2.1.2 29943 1ogwA 76 3.82e+01 d.15.1.1 87001 1vrtA 560 3.83e+01 1rthA c.55.3.1 33574 e.8.1.2 43023 1d3zA 76 3.83e+01 1ubi d.15.1.1 37592 1be1 137 3.89e+01 1be1 c.23.6.1 31237 1c14A 262 3.89e+01 1eny c.2.1.2 29927 1hh1A 143 3.95e+01 1gefA c.52.1.18 61036 1kgnA 329 3.98e+01 a.25.1.2 68584 1vpt 348 4.00e+01 3mag c.66.1.25 34207