# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1.57e-16 b.22.1.1 65476 1c3hA 137 2.84e-16 1c28A 135 4.16e-16 1c28A b.22.1.1 23857 1o91A 178 1.56e-15 1pk6C 129 9.51e-13 1pk6B 132 3.46e-12 1pk6A 133 3.78e-12 1d2qA 173 1.66e-02 1d4vB b.22.1.1 23894 1iqaA 160 2.09e-02 b.22.1.1 71274 1rj8A 164 2.24e-02 1d4vB 163 2.67e-02 1d4vB b.22.1.1 23884 1dg6A 191 3.61e-02 1d4vB b.22.1.1 23883 1kxgA 152 1.59e-01 b.22.1.1 73145 1aly 146 2.15e-01 1aly b.22.1.1 23856 1jh5A 144 3.17e-01 b.22.1.1 66697 1tnrA 144 4.77e-01 2tnfA b.22.1.1 23867 1tnfA 158 4.78e-01 2tnfA b.22.1.1 23871 1smlA 269 9.16e-01 1smlA d.157.1.1 42053 1o6uA 403 9.26e-01 2tnfA 156 1.52e+00 2tnfA b.22.1.1 23880 1uxzA 131 1.77e+00 1m3iA 471 1.92e+00 1avk 638 2.56e+00 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1pfo 500 2.95e+00 1pfo f.9.1.1 43826 1ktbA 405 3.05e+00 b.71.1.1 72960 c.1.8.1 72961 1iqyA 638 3.31e+00 b.30.2.1 76763 d.17.2.1 76764 d.17.2.1 76765 1m3jA 471 3.63e+00 4tsvA 150 4.83e+00 2tnfA b.22.1.1 23860 1sdwA 314 5.10e+00 1cid 177 5.56e+00 1cid b.1.1.1 19740 b.1.1.3 21679 1rdzA 337 6.21e+00 1frpA e.7.1.1 42882 1j83A 180 6.96e+00 b.18.1.12 66430 1phm 310 7.04e+00 1phm b.121.1.2 59015 b.121.1.2 59016 1pguA 615 7.30e+00 b.69.4.1 88069 b.69.4.1 88070 6prcH 258 7.47e+00 6prcH b.41.1.1 25457 f.23.10.1 43436 1vkdA 338 7.93e+00 1dxrH 258 8.24e+00 6prcH b.41.1.1 25456 f.23.10.1 43433 1epwA 1290 9.04e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1ux6A 350 9.40e+00 2aop 497 9.55e+00 2aop d.58.36.1 39503 d.58.36.1 39504 d.134.1.1 41427 d.134.1.1 41428 1aop 497 9.56e+00 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1lf7A 182 1.00e+01 b.60.1.1 73878 1l7lA 121 1.02e+01 b.18.1.16 77790 1dymA 402 1.04e+01 1celA b.29.1.10 24304 1ojjA 402 1.04e+01 1ujxA 119 1.09e+01 1bak 119 1.12e+01 1bak b.55.1.1 26973 1ui8A 638 1.15e+01 1omwA 689 1.16e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1oniA 137 1.18e+01 d.79.1.1 87144 3seb 238 1.22e+01 3seb b.40.2.2 25184 d.15.6.1 37773 1ewiA 114 1.24e+01 1ewiA b.40.4.3 25302 1kz8A 337 1.37e+01 e.7.1.1 77633 1rmg 422 1.38e+01 1rmg b.80.1.3 28029 1kopA 223 1.40e+01 2cba b.74.1.1 27966 1ivwA 638 1.46e+01 b.30.2.1 71456 d.17.2.1 71457 d.17.2.1 71458 1hn2A 159 1.54e+01 b.60.1.1 65890 1obpA 159 1.61e+01 1obpA b.60.1.1 27092 1jv1A 505 1.62e+01 c.68.1.5 71892 1ju3A 583 1.65e+01 b.18.1.13 67300 c.69.1.21 67301 1iw2A 182 1.66e+01 b.60.1.1 71468 1gt1A 159 1.67e+01 1gk1B 522 1.92e+01 1bxsA 501 1.95e+01 1bpwA c.82.1.1 35357 1ahpA 797 1.98e+01 1a8i c.87.1.4 35544 1nwwA 149 2.03e+01 d.17.4.8 86306 2vsgA 358 2.05e+01 2vsgA h.4.1.1 45780 1byqA 228 2.15e+01 1yer d.122.1.1 41100 1yer 228 2.16e+01 1yer d.122.1.1 41101 1lslA 113 2.18e+01 g.60.1.1 78178 g.60.1.1 78179 1fm2B 520 2.31e+01 1fm2B 2rmcA 182 2.32e+01 2cpl b.62.1.1 27491 1tdtA 259 2.32e+01 3tdt b.81.1.2 28055 1pmd 675 2.33e+01 1pmd d.11.1.1 37491 d.11.1.1 37492 d.175.1.1 42562 e.3.1.1 42771 1eylA 186 2.39e+01 1wba b.42.4.1 25593 1kgqA 274 2.40e+01 b.81.1.2 72447 1k9tA 540 2.40e+01 b.1.18.2 77298 c.1.8.5 77299 d.26.3.1 77300 1g291 372 2.40e+01 1g291 1frpA 335 2.51e+01 1frpA e.7.1.1 42875 1d6zA 727 2.56e+01 1oacA b.30.2.1 24394 d.17.2.1 38015 d.17.2.1 38016 d.82.1.1 40007 1ng2A 193 2.57e+01 b.34.2.1 85660 b.34.2.1 85661 1xgsA 295 2.62e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1gxuA 91 2.63e+01 d.58.10.1 76378 1hs6A 611 2.64e+01 1hs6A a.118.1.7 61233 b.98.1.1 61234 d.92.1.13 61235 1pft 50 2.76e+01 1pft g.41.3.1 45206 1uebA 184 2.82e+01 2cab 261 2.84e+01 2cba b.74.1.1 27906 1qmeA 702 2.86e+01 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1bpoA 494 2.93e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1oq1A 223 2.94e+01 1i1qA 520 2.95e+01 1qdlA d.161.1.1 61543 1eut 605 3.00e+01 1eut b.1.18.2 21891 b.18.1.1 23712 b.68.1.1 27609 1duzB 100 3.01e+01 1agdB b.1.1.2 20671 1mv3A 213 3.01e+01 1il8A 72 3.06e+01 1tvxA d.9.1.1 37365 2tdt 274 3.13e+01 3tdt b.81.1.2 28054 1ctn 540 3.16e+01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 3tdt 274 3.18e+01 3tdt b.81.1.2 28053 1ov3A 138 3.18e+01 b.34.2.1 87451 b.34.2.1 87452 1oacA 727 3.18e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1qy1A 174 3.23e+01 1hsbB 99 3.34e+01 1agdB b.1.1.2 20737 1ge9A 184 3.50e+01 1dd5A d.67.3.1 60463 1cdwA 179 3.53e+01 1ytbA d.129.1.1 41212 d.129.1.1 41213 1pea 385 3.55e+01 1pea c.93.1.1 35662 1agdB 99 3.55e+01 1agdB b.1.1.2 20742 1nuyA 337 3.59e+01 e.7.1.1 86213 1mup 166 3.62e+01 1mup b.60.1.1 27133 3il8 72 3.64e+01 1tvxA d.9.1.1 37356 1jjoC 261 3.64e+01 1df3A 162 3.72e+01 1mup b.60.1.1 27134 4ubpB 126 3.78e+01 1ubpB b.85.3.1 28345 1o04A 500 3.79e+01 c.82.1.1 86508 1pcxA 810 3.86e+01 1rewA 114 3.89e+01 1g8jB 133 3.93e+01 1g8jB b.33.1.1 24439 1ld4A 264 3.94e+01 i.6.1.1 77886 1jv4A 162 3.99e+01 b.60.1.1 67343