# List of top-scoring protein chains for T0262.t2k-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 1top 162 3.25e-02 1ncx a.39.1.5 17223 4tnc 162 3.33e-02 1ncx a.39.1.5 17228 5tnc 162 3.60e-02 1ncx a.39.1.5 17246 1ih0A 71 5.20e-02 a.39.1.5 66140 3ctn 76 5.34e-02 1ncx a.39.1.5 17241 1ozsA 73 5.36e-02 a.39.1.5 -828 1fi5A 81 5.60e-02 1ncx a.39.1.5 17252 1jc2A 76 1.30e-01 a.39.1.5 62862 1tcf 159 2.17e-01 1ncx a.39.1.5 17250 1tnw 162 2.43e-01 1ncx a.39.1.5 17235 1a2xA 159 2.61e-01 1ncx a.39.1.5 17251 1la0A 161 3.54e-01 a.39.1.5 77864 1aj4 161 3.85e-01 1ncx a.39.1.5 17244 1dtlA 161 3.86e-01 1ncx a.39.1.5 17229 1s7aA 103 4.43e-01 unknown_sccs -313 2sas 185 4.47e-01 2sas a.39.1.5 17258 1on1A 142 4.58e-01 a.4.5.24 87099 a.76.1.1 87100 1on2A 142 4.87e-01 a.4.5.24 87103 a.76.1.1 87104 1s29A 92 5.64e-01 unknown_sccs -315 1viaA 175 1.13e+00 c.37.1.2 -7021 1s6iA 188 1.23e+00 1a99A 344 1.83e+00 1pot c.94.1.1 35812 1oqpA 77 2.18e+00 a.39.1.5 87319 1ctaA 36 3.26e+00 1ctdA a.39.1.5 17232 1aerB 201 3.83e+00 1aerA d.166.1.1 42250 1aerA 211 3.94e+00 1aerA d.166.1.1 42249 1dmaA 214 4.00e+00 1aerA d.166.1.1 42251 1o3uA 135 4.51e+00 a.24.16.3 86615 1lam 484 4.55e+00 1lam c.56.5.3 33829 c.50.1.1 33166 1bllE 488 4.63e+00 1lam c.56.5.3 33833 c.50.1.1 33170 1n25A 368 5.11e+00 c.37.1.20 85264 1v25A 541 6.43e+00 1gs0A 351 6.43e+00 a.41.1.1 76323 d.166.1.2 76324 1c07A 95 6.93e+00 1eh2 a.39.1.6 17337 1ggzA 148 7.12e+00 a.39.1.5 70176 1k9uA 78 7.29e+00 a.39.1.10 84348 1kexA 155 7.63e+00 b.18.1.2 77350 1knqA 175 7.76e+00 c.37.1.17 72786 1b2wH 220 7.92e+00 1igtB b.1.1.1 20307 b.1.1.2 21299 1efyA 350 8.65e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 1a26 361 8.83e+00 1a26 a.41.1.1 17412 d.166.1.2 42274 1j1dC 133 9.01e+00 h.1.25.2 83965 1nhkL 144 9.16e+00 1npk d.58.6.1 39142 1b33A 160 9.58e+00 1qgwC a.1.1.3 15649 1qdbA 473 9.74e+00 1qdbA a.138.1.3 19688 1djqA 729 9.81e+00 2tmdA c.1.4.1 28614 c.3.1.1 30315 c.4.1.1 30600 1o94A 729 1.01e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1nxb 62 1.06e+01 3ebx g.7.1.1 44395 1cbf 285 1.14e+01 1cbf c.90.1.1 35587 1kdhA 363 1.15e+01 a.60.6.1 72349 a.60.12.1 75882 d.218.1.2 75883 1jmsA 381 1.18e+01 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 2cbf 234 1.22e+01 1cbf c.90.1.1 35588 1ggaA 358 1.25e+01 1dssG c.2.1.3 30002 d.81.1.1 39917 1tplA 456 1.27e+01 1ax4A c.67.1.2 34387 1l8aA 886 1.28e+01 c.36.1.6 73678 c.36.1.10 73677 c.48.1.1 73679 1fi6A 92 1.29e+01 1iq3A a.39.1.6 59849 1f4sP 65 1.30e+01 g.38.1.1 64984 1r2uA 89 1.32e+01 1op9A 121 1.36e+01 b.1.1.1 -2315 1j1eC 180 1.36e+01 h.1.25.2 83971 1c12A 214 1.40e+01 32c2A b.1.1.1 20380 b.1.1.2 21372 1fzqA 181 1.43e+01 1hurA c.37.1.8 32060 1mq8A 291 1.54e+01 b.1.1.3 79405 b.1.1.4 79406 1uk0A 350 1.59e+01 a.41.1.1 -902 d.166.1.2 -11584 1kgdA 180 1.60e+01 c.37.1.1 68582 1f71A 67 1.67e+01 1wdcC a.39.1.5 17289 1kn1A 160 1.67e+01 a.1.1.3 77455 1uptC 170 1.71e+01 c.37.1.8 -7086 1auiB 169 1.71e+01 1auiB a.39.1.5 17325 1uptA 171 1.71e+01 c.37.1.8 -7085 1mf8B 170 1.72e+01 a.39.1.5 79041 1fw4A 71 1.74e+01 1cll a.39.1.5 60056 1cmf 73 1.77e+01 1cll a.39.1.5 17283 1sdmA 369 1.77e+01 9pap 212 1.84e+01 1cs8A d.3.1.1 37006 1nskL 152 1.86e+01 1npk d.58.6.1 39083 1jewR 120 1.94e+01 i.6.1.1 66618 1kacB 124 1.95e+01 1neu b.1.1.1 19707 1jb0B 740 1.97e+01 1jb0A f.29.1.1 62821 1rsfA 126 1.97e+01 b.1.1.1 -2321 1nueA 151 1.99e+01 1npk d.58.6.1 39076 1eajA 126 2.07e+01 1f5wA b.1.1.1 59401 1h5pA 95 2.10e+01 1h5pA d.217.1.1 60642 1jhlH 116 2.26e+01 1mfa b.1.1.1 19967 1khqA 212 2.28e+01 d.3.1.1 -8868 1c7gA 456 2.35e+01 c.67.1.2 -8153 1f1cA 129 2.36e+01 1e29A a.3.1.1 59569 1g8iA 190 2.37e+01 1rec a.39.1.5 60363 1jetA 517 2.38e+01 1jevA c.94.1.1 35718 1v8dA 235 2.41e+01 1cr5A 189 2.41e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1j3wA 163 2.48e+01 unknown_sccs -10870 1fa2A 498 2.52e+01 1byb c.1.8.1 28797 1a4iA 301 2.56e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1digA 306 2.58e+01 1a4iA c.2.1.7 30282 c.58.1.2 33930 1n11A 437 2.58e+01 d.211.1.1 79778 1r6lA 239 2.71e+01 d.14.1.4 -9057 d.101.1.1 -10747 1o7dA 298 2.76e+01 c.6.2.1 86641 1tmf3 232 2.81e+01 1qqp3 1ki0A 253 2.86e+01 g.14.1.1 72493 g.14.1.1 72494 g.14.1.1 72495 1ryt 190 2.86e+01 1ryt a.25.1.1 16646 g.41.5.1 45245 1lkoA 191 2.88e+01 a.25.1.1 78063 g.41.5.1 78064 1uikA 418 2.94e+01 1upiA 225 3.08e+01 b.82.1.1 -4823 1lf9B 674 3.12e+01 a.102.1.5 77924 b.30.5.5 77925 1lf6A 684 3.15e+01 a.102.1.5 77918 b.30.5.5 77919 1rktA 205 3.16e+01 a.4.1.9 -210 a.121.1.1 -1663 1s6cA 183 3.22e+01 a.39.1.5 -858 1eapB 216 3.25e+01 1mfa b.1.1.1 20015 b.1.1.2 21069 1dt9A 437 3.41e+01 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1j9lA 247 3.60e+01 c.106.1.1 62762 1tjbA 18 3.78e+01 1a97A 148 3.85e+01 1nulA c.61.1.1 34023 1qv6A 374 3.89e+01 b.35.1.2 -3665 c.2.1.1 -5689 1pixA 587 3.90e+01 c.14.1.4 -6282 1a98A 152 3.91e+01 1nulA c.61.1.1 34021 1fc3A 120 3.91e+01 1fc3A a.4.6.3 16237 3ebx 62 3.98e+01 3ebx g.7.1.1 44389