# List of top-scoring protein chains for T0262.t04-w0.5 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 1ih0A 71 1.34e-01 a.39.1.5 66140 3ctn 76 1.37e-01 1ncx a.39.1.5 17241 1ozsA 73 1.38e-01 a.39.1.5 -828 1fi5A 81 1.42e-01 1ncx a.39.1.5 17252 1top 162 1.43e-01 1ncx a.39.1.5 17223 4tnc 162 1.48e-01 1ncx a.39.1.5 17228 5tnc 162 1.72e-01 1ncx a.39.1.5 17246 2sas 185 2.88e-01 2sas a.39.1.5 17258 1jc2A 76 7.02e-01 a.39.1.5 62862 1on1A 142 7.58e-01 a.4.5.24 87099 a.76.1.1 87100 1tcf 159 7.94e-01 1ncx a.39.1.5 17250 1on2A 142 7.95e-01 a.4.5.24 87103 a.76.1.1 87104 1la0A 161 8.25e-01 a.39.1.5 77864 1dtlA 161 9.01e-01 1ncx a.39.1.5 17229 1aj4 161 9.03e-01 1ncx a.39.1.5 17244 1tnw 162 1.05e+00 1ncx a.39.1.5 17235 1a2xA 159 1.06e+00 1ncx a.39.1.5 17251 1s7aA 103 1.14e+00 unknown_sccs -313 1s6iA 188 1.15e+00 1s29A 92 1.30e+00 unknown_sccs -315 1n25A 368 2.93e+00 c.37.1.20 85264 1oqpA 77 2.95e+00 a.39.1.5 87319 1lam 484 3.16e+00 1lam c.56.5.3 33829 c.50.1.1 33166 1bllE 488 3.19e+00 1lam c.56.5.3 33833 c.50.1.1 33170 1a99A 344 4.20e+00 1pot c.94.1.1 35812 1viaA 175 5.28e+00 c.37.1.2 -7021 1o3uA 135 5.90e+00 a.24.16.3 86615 1fi6A 92 6.14e+00 1iq3A a.39.1.6 59849 1ctaA 36 6.57e+00 1ctdA a.39.1.5 17232 1f4sP 65 8.23e+00 g.38.1.1 64984 1gs0A 351 8.31e+00 a.41.1.1 76323 d.166.1.2 76324 1kdhA 363 9.16e+00 a.60.6.1 72349 a.60.12.1 75882 d.218.1.2 75883 1c07A 95 9.18e+00 1eh2 a.39.1.6 17337 1jmsA 381 9.37e+00 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 1knqA 175 9.93e+00 c.37.1.17 72786 2taaA 478 1.00e+01 7taa b.71.1.1 27780 c.1.8.1 28767 1v25A 541 1.04e+01 1aerB 201 1.05e+01 1aerA d.166.1.1 42250 1aerA 211 1.07e+01 1aerA d.166.1.1 42249 1b2wH 220 1.08e+01 1igtB b.1.1.1 20307 b.1.1.2 21299 1dmaA 214 1.09e+01 1aerA d.166.1.1 42251 1cc1S 283 1.22e+01 2frvA e.19.1.1 43313 1op9A 121 1.30e+01 b.1.1.1 -2315 1ggzA 148 1.35e+01 a.39.1.5 70176 1k9uA 78 1.37e+01 a.39.1.10 84348 7taa 478 1.38e+01 7taa b.71.1.1 27778 c.1.8.1 28765 1kgdA 180 1.47e+01 c.37.1.1 68582 1nhkL 144 1.52e+01 1npk d.58.6.1 39142 1qdbA 473 1.56e+01 1qdbA a.138.1.3 19688 1l8aA 886 1.58e+01 c.36.1.6 73678 c.36.1.10 73677 c.48.1.1 73679 1bg3A 918 1.58e+01 1qhaA c.55.1.3 33491 c.55.1.3 33492 c.55.1.3 33493 c.55.1.3 33494 1cbf 285 1.64e+01 1cbf c.90.1.1 35587 1mq8A 291 1.70e+01 b.1.1.3 79405 b.1.1.4 79406 1j9lA 247 1.81e+01 c.106.1.1 62762 2cbf 234 1.87e+01 1cbf c.90.1.1 35588 1qhaA 917 1.87e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1hkbA 917 1.88e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1j3wA 163 1.89e+01 unknown_sccs -10870 1kexA 155 1.90e+01 b.18.1.2 77350 1czaN 917 1.93e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1dgkN 917 1.93e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1vjlA 164 1.96e+01 unknown_sccs -11117 1mrzA 293 2.02e+01 b.43.5.1 -4048 c.26.1.3 -6616 1pixA 587 2.03e+01 c.14.1.4 -6282 1a8uA 277 2.09e+01 1brt c.69.1.12 34703 1efyA 350 2.12e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1a26 361 2.21e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1fa2A 498 2.31e+01 1byb c.1.8.1 28797 1q6dA 495 2.38e+01 c.1.8.1 -5301 1eapB 216 2.38e+01 1mfa b.1.1.1 20015 b.1.1.2 21069 1iqpA 327 2.38e+01 a.80.1.1 62649 c.37.1.20 62650 1g8iA 190 2.42e+01 1rec a.39.1.5 60363 1fzqA 181 2.45e+01 1hurA c.37.1.8 32060 1broA 277 2.45e+01 1brt c.69.1.12 34700 1jb0B 740 2.46e+01 1jb0A f.29.1.1 62821 1brt 277 2.48e+01 1brt c.69.1.12 34699 1tplA 456 2.53e+01 1ax4A c.67.1.2 34387 1j1dC 133 2.54e+01 h.1.25.2 83965 1uk0A 350 2.61e+01 a.41.1.1 -902 d.166.1.2 -11584 1f71A 67 2.63e+01 1wdcC a.39.1.5 17289 1ash 150 2.66e+01 1ash a.1.1.2 15622 1uptC 170 2.66e+01 c.37.1.8 -7086 1uptA 171 2.67e+01 c.37.1.8 -7085 1jhlH 116 2.68e+01 1mfa b.1.1.1 19967 1nxb 62 2.69e+01 3ebx g.7.1.1 44395 1djqA 729 2.69e+01 2tmdA c.1.4.1 28614 c.3.1.1 30315 c.4.1.1 30600 1o94A 729 2.79e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1ggaA 358 2.82e+01 1dssG c.2.1.3 30002 d.81.1.1 39917 1fw4A 71 2.82e+01 1cll a.39.1.5 60056 1cmf 73 2.87e+01 1cll a.39.1.5 17283 1lnlA 408 2.88e+01 a.86.1.1 84635 b.112.1.1 84636 1mf8A 373 2.97e+01 d.159.1.3 79040 1k4iA 233 3.03e+01 d.115.1.2 72056 1m63A 372 3.04e+01 d.159.1.3 78677 1lpfA 477 3.10e+01 1lvl c.3.1.5 30569 c.3.1.5 30570 d.87.1.1 40206 1o7dA 298 3.17e+01 c.6.2.1 86641 1ryt 190 3.21e+01 1ryt a.25.1.1 16646 g.41.5.1 45245 1lkoA 191 3.22e+01 a.25.1.1 78063 g.41.5.1 78064 1rjqA 496 3.26e+01 b.92.1.6 -5081 b.92.1.6 -5082 c.1.9.11 -5432 1r2uA 89 3.29e+01 1j1eC 180 3.30e+01 h.1.25.2 83971 1wm1A 317 3.31e+01 1qv6A 374 3.35e+01 b.35.1.2 -3665 c.2.1.1 -5689 1jctA 446 3.37e+01 c.1.11.2 62882 d.54.1.1 62883 1a4iA 301 3.39e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1digA 306 3.39e+01 1a4iA c.2.1.7 30282 c.58.1.2 33930 1h5pA 95 3.44e+01 1h5pA d.217.1.1 60642 1e0cA 271 3.48e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1upiA 225 3.56e+01 b.82.1.1 -4823 1jewR 120 3.60e+01 i.6.1.1 66618 1kacB 124 3.61e+01 1neu b.1.1.1 19707 1auiB 169 3.61e+01 1auiB a.39.1.5 17325 1c7gA 456 3.61e+01 c.67.1.2 -8153 1mf8B 170 3.62e+01 a.39.1.5 79041 3ladA 476 3.65e+01 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1rsfA 126 3.65e+01 b.1.1.1 -2321 1rktA 205 3.77e+01 a.4.1.9 -210 a.121.1.1 -1663 1eajA 126 3.82e+01 1f5wA b.1.1.1 59401 1auiA 521 3.83e+01 1auiA d.159.1.3 42085 1sdmA 369 3.89e+01 1ni4B 341 3.92e+01 c.36.1.7 85729 c.48.1.2 85730 1jdfA 446 3.93e+01 c.1.11.2 62897 d.54.1.1 62898 1bfoB 216 3.93e+01 1igtB b.1.1.1 20311 b.1.1.2 21303 1axgA 374 3.99e+01 2ohxA b.35.1.2 24691 c.2.1.1 29707