# List of top-scoring protein chains for T0206.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 1gr3A 160 1.86e-20 b.22.1.1 65476 1c3hA 137 3.76e-20 1c28A 135 4.28e-20 1c28A b.22.1.1 23857 1o91A 178 4.00e-19 1pk6C 129 8.89e-16 1pk6B 132 5.20e-15 1pk6A 133 3.74e-14 1kd7A 164 6.92e-02 b.22.1.1 77331 1osgA 208 7.10e-02 b.22.1.1 87381 1kxgA 152 7.56e-02 b.22.1.1 73145 1otz 148 8.66e-02 1dg6A 191 9.27e-02 1d4vB b.22.1.1 23883 1jtzX 171 9.45e-02 b.22.1.1 63286 1oqeA 144 9.95e-02 b.22.1.1 87286 1iqaA 160 1.01e-01 b.22.1.1 71274 1du3D 168 1.43e-01 1d4vB b.22.1.1 23888 1d4vB 163 1.51e-01 1d4vB b.22.1.1 23884 1rj8A 164 5.73e-01 1hfuA 503 8.63e-01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1a65A 504 8.68e-01 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1o6uA 403 1.16e+00 1j83A 180 1.25e+00 b.18.1.12 66430 1rj7A 163 1.37e+00 1rewA 114 1.47e+00 1es7A 116 1.48e+00 2tgi g.17.1.2 44786 1tnrA 144 1.70e+00 2tnfA b.22.1.1 23867 1pmd 675 1.82e+00 1pmd d.11.1.1 37491 d.11.1.1 37492 d.175.1.1 42562 e.3.1.1 42771 1pyyA 702 1.88e+00 1qmeA 702 1.88e+00 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1iaiH 219 2.12e+00 1igtB b.1.1.1 20073 b.1.1.2 21105 1hv9A 456 2.17e+00 1fwyA b.81.1.4 28060 c.68.1.5 34518 1d7kA 421 2.20e+00 7odcA b.49.2.3 26486 c.1.6.1 28648 2tnfA 156 2.26e+00 2tnfA b.22.1.1 23880 1rp5A 702 2.90e+00 1reuA 103 3.35e+00 1lwuB 323 4.89e+00 d.171.1.1 74310 h.1.8.1 74311 1jbqA 435 5.05e+00 1oasA c.79.1.1 62850 1aly 146 5.28e+00 1aly b.22.1.1 23856 1nscA 390 5.41e+00 2qwc b.68.1.1 27591 2todA 425 5.85e+00 7odcA b.49.2.3 26489 c.1.6.1 28651 1f3tA 425 5.86e+00 7odcA b.49.2.3 26493 c.1.6.1 28655 1mo9A 523 5.88e+00 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 7odcA 424 5.90e+00 7odcA b.49.2.3 26488 c.1.6.1 28650 1njjA 425 5.93e+00 1tbpA 180 8.36e+00 1ytbA d.129.1.1 41282 d.129.1.1 41283 1ytbA 180 8.36e+00 1ytbA d.129.1.1 41276 d.129.1.1 41277 6paz 123 1.11e+01 1bqk b.6.1.1 22886 1h7dA 49 1.14e+01 j.88.1.1 65701 1py4A 100 1.16e+01 1q55A 880 1.18e+01 2tunA 157 1.22e+01 2tnfA b.22.1.1 23874 1a8mA 157 1.28e+01 2tnfA b.22.1.1 23868 1re3B 313 1.30e+01 1rf1B 313 1.31e+01 1fzcB 328 1.36e+01 3fib d.171.1.1 42460 h.1.8.1 45591 1s7bA 110 1.37e+01 1tnfA 157 1.47e+01 2tnfA b.22.1.1 23871 1frpA 335 1.51e+01 1frpA e.7.1.1 42875 1e3lA 376 1.55e+01 2ohxA b.35.1.2 24745 c.2.1.1 29761 1rdzA 337 1.56e+01 1frpA e.7.1.1 42882 1e3iA 376 1.57e+01 2ohxA b.35.1.2 24741 c.2.1.1 29757 5fbpA 335 1.60e+01 1frpA e.7.1.1 42873 1kz8A 337 1.60e+01 e.7.1.1 77633 1fsaA 337 1.61e+01 1frpA e.7.1.1 42903 1nuyA 337 1.63e+01 e.7.1.1 86213 1deqB 408 1.69e+01 i.9.1.1 45991 1bw3 125 1.72e+01 1bw4 b.52.1.2 26899 2a2uA 181 1.74e+01 1mup b.60.1.1 27135 2pvaA 345 1.78e+01 3pvaA d.153.1.3 41850 3pvaA 335 1.79e+01 3pvaA d.153.1.3 41854 1oniA 138 1.80e+01 d.79.1.1 87144 1fj9A 337 1.82e+01 1frpA e.7.1.1 42907 1levA 337 1.90e+01 e.7.1.1 77911 1ac5 483 1.95e+01 1ac5 c.69.1.5 34653 1jeyB 565 1.97e+01 1jeqB e.31.1.2 62925 1rg9A 383 1.99e+01 4tsvA 150 2.02e+01 2tnfA b.22.1.1 23860 1jv5B 117 2.06e+01 b.1.1.1 67345 1itpA 77 2.13e+01 d.58.3.2 66371 1pc9A 121 2.19e+01 1fv1B 190 2.27e+01 1iakB b.1.1.2 21606 d.19.1.1 38180 1pnuS 113 2.50e+01 i.1.1.1 88216 1nkwS 115 2.55e+01 i.1.1.2 80604 1k2dA 189 2.72e+01 b.1.1.2 84291 d.19.1.1 84292 1el0A 74 2.72e+01 1dokA d.9.1.1 37428 1lnuA 182 2.75e+01 b.1.1.2 74097 d.19.1.1 74098 4paz 123 2.76e+01 1bqk b.6.1.1 22881 1huuA 90 2.76e+01 1huuA a.55.1.1 17897 1mujA 190 2.81e+01 b.1.1.2 79488 d.19.1.1 79489 1buuA 168 2.89e+01 1rtm1 d.169.1.1 42366 h.1.1.1 45388 1gpr 162 2.96e+01 1gpr b.84.3.1 28267 1oziA 99 3.05e+01 1tme2 267 3.09e+01 1aym2 1l7lA 121 3.09e+01 b.18.1.16 77790 1cklA 126 3.24e+01 1cklB g.18.1.1 44851 g.18.1.1 44852 1fdqA 131 3.32e+01 1hmt b.60.1.2 59776 1xgsA 295 3.34e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1lslA 113 3.53e+01 g.60.1.1 78178 g.60.1.1 78179 1su8A 636 3.61e+01 1navA 263 3.61e+01 a.123.1.1 85500 1do1A 154 3.63e+01 1a6m a.1.1.2 15049 1g0oA 283 3.75e+01 1ybvA c.2.1.2 60181 1k25A 685 3.77e+01 d.11.1.1 68033 d.11.1.1 68034 d.175.1.1 68035 e.3.1.1 68036 1aozA 552 3.86e+01 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1pl8A 356 3.88e+01 1ybvA 283 3.90e+01 1ybvA c.2.1.2 29948 2rmcA 182 3.91e+01 2cpl b.62.1.1 27491 1htrB 329 3.93e+01 1smrA 1jl4A 178 3.94e+01 b.1.1.2 63157 d.19.1.1 63158 1d9kC 183 3.98e+01 1iakA b.1.1.2 21627 d.19.1.1 38201