# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 4.48e-18 b.22.1.1 65476 1c3hA 137 6.15e-18 1c28A 135 1.26e-17 1c28A b.22.1.1 23857 1o91A 178 5.24e-17 1pk6C 129 6.17e-14 1pk6B 132 2.79e-13 1pk6A 133 3.37e-13 1dg6A 191 8.87e-03 1d4vB b.22.1.1 23883 1iqaA 160 1.15e-02 b.22.1.1 71274 1d2qA 173 1.17e-02 1d4vB b.22.1.1 23894 1kxgA 152 1.17e-02 b.22.1.1 73145 1d4vB 163 1.18e-02 1d4vB b.22.1.1 23884 1jh5A 144 2.48e-02 b.22.1.1 66697 1rj8A 164 3.14e-02 1aly 146 1.21e-01 1aly b.22.1.1 23856 1tnrA 144 2.33e-01 2tnfA b.22.1.1 23867 1uxzA 131 6.39e-01 1pfo 500 8.30e-01 1pfo f.9.1.1 43826 1smlA 269 8.53e-01 1smlA d.157.1.1 42053 1ktbA 405 9.68e-01 b.71.1.1 72960 c.1.8.1 72961 1m3iA 471 1.20e+00 1tnfA 158 2.01e+00 2tnfA b.22.1.1 23871 1j83A 180 2.42e+00 b.18.1.12 66430 2tnfA 156 2.56e+00 2tnfA b.22.1.1 23880 1k9tA 540 2.76e+00 b.1.18.2 77298 c.1.8.5 77299 d.26.3.1 77300 1edqA 540 3.29e+00 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1cid 177 3.41e+00 1cid b.1.1.1 19740 b.1.1.3 21679 1o6uA 403 3.64e+00 1m3jA 471 4.07e+00 1mv3A 213 4.54e+00 1avk 638 4.77e+00 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1ctn 540 4.90e+00 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1lslA 113 5.10e+00 g.60.1.1 78178 g.60.1.1 78179 1epwA 1290 5.12e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1iqyA 638 6.02e+00 b.30.2.1 76763 d.17.2.1 76764 d.17.2.1 76765 1iw2A 182 6.61e+00 b.60.1.1 71468 4tsvA 150 6.69e+00 2tnfA b.22.1.1 23860 1lf7A 182 7.23e+00 b.60.1.1 73878 1vkdA 338 7.37e+00 1ivwA 638 7.41e+00 b.30.2.1 71456 d.17.2.1 71457 d.17.2.1 71458 3seb 238 7.58e+00 3seb b.40.2.2 25184 d.15.6.1 37773 1ui8A 638 7.60e+00 1j1bA 420 8.10e+00 1pguA 615 8.12e+00 b.69.4.1 88069 b.69.4.1 88070 1a65A 504 8.46e+00 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1nscA 390 9.08e+00 2qwc b.68.1.1 27591 1umhA 184 1.03e+01 1xgsA 295 1.10e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1oniA 137 1.21e+01 d.79.1.1 87144 1hfuA 503 1.22e+01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1rdzA 337 1.23e+01 1frpA e.7.1.1 42882 1plfA 72 1.38e+01 1tvxA d.9.1.1 37373 1kopA 223 1.51e+01 2cba b.74.1.1 27966 4pep 326 1.51e+01 1smrA b.50.1.2 26843 4ubpB 126 1.64e+01 1ubpB b.85.3.1 28345 1ewiA 114 1.65e+01 1ewiA b.40.4.3 25302 1l7lA 121 1.67e+01 b.18.1.16 77790 1tdtA 259 1.67e+01 3tdt b.81.1.2 28055 1ihmA 530 1.72e+01 1ihmA b.121.4.3 62385 1rewA 114 1.74e+01 1qmeA 702 1.75e+01 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1ubpB 122 1.76e+01 1ubpB b.85.3.1 28346 1o04A 500 1.76e+01 c.82.1.1 86508 1hn2A 159 1.80e+01 b.60.1.1 65890 1gt1A 159 1.81e+01 1aop 497 1.81e+01 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 2aop 497 1.86e+01 2aop d.58.36.1 39503 d.58.36.1 39504 d.134.1.1 41427 d.134.1.1 41428 1obpA 159 1.86e+01 1obpA b.60.1.1 27092 1uebA 184 1.88e+01 1ujxA 119 1.95e+01 1gk1B 522 1.96e+01 1ux6A 350 1.97e+01 1qexA 288 1.97e+01 1qexA b.32.1.1 24425 1cklA 126 1.98e+01 1cklB g.18.1.1 44851 g.18.1.1 44852 1pea 385 1.99e+01 1pea c.93.1.1 35662 1duzB 100 2.04e+01 1agdB b.1.1.2 20671 1i4fB 100 2.04e+01 1agdB b.1.1.2 61689 1k5nB 100 2.04e+01 b.1.1.2 77268 1fm2B 520 2.07e+01 1fm2B 1ytbB 180 2.12e+01 1ytbA d.129.1.1 41278 d.129.1.1 41279 2rmcA 182 2.16e+01 2cpl b.62.1.1 27491 1eut 605 2.20e+01 1eut b.1.18.2 21891 b.18.1.1 23712 b.68.1.1 27609 1bxsA 501 2.21e+01 1bpwA c.82.1.1 35357 1agdB 99 2.25e+01 1agdB b.1.1.2 20742 1hsbB 99 2.25e+01 1agdB b.1.1.2 20737 1aorA 605 2.25e+01 1b25A a.110.1.1 19042 d.152.1.1 41794 1mtpA 323 2.29e+01 e.1.1.1 85107 1kdkA 177 2.29e+01 b.29.1.4 72351 1eerB 227 2.34e+01 1eerB b.1.2.1 22011 b.1.2.1 22012 1phm 310 2.37e+01 1phm b.121.1.2 59015 b.121.1.2 59016 1sdwA 314 2.46e+01 1pft 50 2.50e+01 1pft g.41.3.1 45206 1ytbA 180 2.58e+01 1ytbA d.129.1.1 41276 d.129.1.1 41277 1jv1A 505 2.60e+01 c.68.1.5 71892 1h2xA 710 2.64e+01 b.69.7.1 76598 c.69.1.4 76599 1h2wA 710 2.65e+01 b.69.7.1 76596 c.69.1.4 76597 1qfmA 710 2.65e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1dyoA 160 2.67e+01 1dyoA b.18.1.7 23771 1et9A 204 2.68e+01 1an8 b.40.2.2 25204 d.15.6.1 37793 1e8nA 710 2.70e+01 1qfmA b.69.7.1 27675 c.69.1.4 34643 1bak 119 2.72e+01 1bak b.55.1.1 26973 1mrzA 293 2.86e+01 1cs6A 382 2.91e+01 1cs6A b.1.1.4 21760 b.1.1.4 21761 b.1.1.4 21762 b.1.1.4 21763 1ltoA 245 2.95e+01 b.47.1.2 84707 3il8 72 2.95e+01 1tvxA d.9.1.1 37356 1h7dA 49 2.98e+01 j.88.1.1 65701 1jnjA 100 3.03e+01 b.1.1.2 66955 1f6fB 210 3.13e+01 1axiB b.1.2.1 22033 b.1.2.1 22034 1ac5 483 3.17e+01 1ac5 c.69.1.5 34653 1ghj 79 3.18e+01 1ghj b.84.1.1 28232 1or0B 528 3.21e+01 1qy1A 174 3.22e+01 1qubA 319 3.23e+01 1qubA g.18.1.1 44863 g.18.1.1 44864 g.18.1.1 44865 g.18.1.1 44866 g.18.1.1 44867 1bb9 115 3.29e+01 1bb9 b.34.2.1 24554 1vpsA 289 3.34e+01 1vpsA b.121.6.1 23336 1su8A 636 3.36e+01 1jjyA 636 3.37e+01 1jjyA e.26.1.2 63141 1kgqA 274 3.38e+01 b.81.1.2 72447 2tdt 274 3.38e+01 3tdt b.81.1.2 28054 3tdt 274 3.39e+01 3tdt b.81.1.2 28053 1g291 372 3.40e+01 1g291 1nuyA 337 3.49e+01 e.7.1.1 86213 1jjoC 261 3.58e+01 1cx1A 153 3.63e+01 1ulo b.18.1.14 23770 1bmfA 510 3.64e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1bwyA 132 3.67e+01 1hmt b.60.1.2 27172 1vpsB 289 3.71e+01 1vpsA b.121.6.1 23337 1a78A 134 3.72e+01 1c1lA b.29.1.3 24212 1i05A 180 3.80e+01 1mup b.60.1.1 27130 1b35C 282 3.85e+01 1b35C 1s2kA 206 3.91e+01 1pmd 675 3.94e+01 1pmd d.11.1.1 37491 d.11.1.1 37492 d.175.1.1 42562 e.3.1.1 42771 1i06A 180 4.00e+01 1mup b.60.1.1 27131