# List of top-scoring protein chains for t04-100-30-bys 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 1nykA 165 1.26e+00 b.33.1.1 86408 1bquA 215 1.38e+00 1bquA b.1.2.1 22066 b.1.2.1 22067 1j3mA 129 1.39e+00 1hdkA 141 1.66e+00 b.29.1.3 65807 1ux6A 350 2.15e+00 unknown_sccs -3451 unknown_sccs -12886 1senA 164 2.47e+00 1lcl 142 2.73e+00 1lcl b.29.1.3 24216 1avaC 181 3.68e+00 1avaC b.42.4.1 25604 1mhyD 521 3.84e+00 1mhyD a.25.1.2 16780 1uvjA 664 4.51e+00 e.8.1.6 -11964 1meoA 209 4.64e+00 c.65.1.1 79035 1a3k 137 4.74e+00 1a3k b.29.1.3 24218 1mx3A 347 4.84e+00 c.2.1.4 79638 c.23.12.1 79639 1fit 147 5.48e+00 1fit d.13.1.1 37499 1hhsA 664 5.80e+00 1hi0P e.8.1.6 61045 1e5eA 404 5.83e+00 1ibjA c.67.1.3 59265 1exmA 405 5.92e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1oaoC 729 6.09e+00 e.26.1.3 86746 1k8wA 327 7.21e+00 b.122.1.1 83094 unknown_sccs -10143 1nif 340 7.56e+00 1nif b.6.1.3 23048 b.6.1.3 23049 1cf9A 753 7.96e+00 1cf9A c.23.16.3 31441 e.5.1.1 42815 1ejxC 567 8.15e+00 b.92.1.1 83184 c.1.9.2 83185 1ha3A 405 8.64e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1i1nA 226 8.94e+00 c.66.1.7 71102 3daaA 277 8.99e+00 1daaA e.17.1.1 43272 1dkzA 219 9.06e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1wba 175 9.11e+00 1wba b.42.4.1 25591 1c7gA 456 9.22e+00 c.67.1.2 -8153 1c8uA 285 9.59e+00 1c8uA d.38.1.3 38547 d.38.1.3 38548 1h3fA 432 9.63e+00 c.26.1.1 76631 d.66.1.4 76632 1umdA 367 1.00e+01 c.36.1.11 -6969 1eylA 186 1.01e+01 1wba b.42.4.1 25593 1cdy 178 1.03e+01 1cdy b.1.1.1 19719 b.1.1.3 21658 1utcA 363 1.05e+01 a.118.1.4 -1568 b.69.6.1 -4612 1e19A 314 1.07e+01 1b7bA c.73.1.1 34967 2tgi 112 1.12e+01 2tgi g.17.1.2 44777 1k8kD 300 1.12e+01 d.198.2.1 68309 d.198.2.1 68310 1g1cA 99 1.22e+01 b.1.1.4 65078 1dyoA 160 1.26e+01 1dyoA b.18.1.7 23771 1tlk 154 1.28e+01 1tlk b.1.1.4 21707 1th8A 145 1.32e+01 1iwmA 186 1.33e+01 b.125.1.2 83758 1f6fB 210 1.34e+01 1axiB b.1.2.1 22033 b.1.2.1 22034 1e7uA 961 1.37e+01 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1rvkA 382 1.38e+01 c.1.11.2 -5568 d.54.1.1 -9826 1tvdA 116 1.48e+01 1tvdA b.1.1.1 20650 1ex2A 189 1.51e+01 1ex2A c.51.4.2 33225 1oh0A 131 1.51e+01 d.17.4.3 87004 1gr0A 367 1.62e+01 c.2.1.3 70379 d.81.1.3 70380 1m4jA 142 1.68e+01 d.109.1.2 78602 1fjgP 88 1.76e+01 1emwA d.27.1.1 38444 1kcbA 340 1.78e+01 b.6.1.3 -2950 b.6.1.3 -2951 1f37A 110 1.82e+01 1f37A c.47.1.11 33088 1j6rA 214 1.82e+01 d.173.1.2 71598 1j96A 323 1.84e+01 c.1.7.1 71616 1mdoA 393 1.88e+01 c.67.1.4 79013 3tgl 269 1.89e+01 3tgl c.69.1.17 34733 1htrB 329 1.91e+01 1smrA 1p5vA 235 1.92e+01 b.1.11.1 87812 b.7.2.1 87813 1pxvA 183 1.94e+01 d.3.1.1 -8881 1v9yA 167 1.95e+01 1me8A 503 1.98e+01 c.1.5.1 79028 1r3eA 309 2.00e+01 b.122.1.1 -5118 unknown_sccs -10146 1cqxA 403 2.04e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 3tss 194 2.07e+01 1aw7A b.40.2.2 25160 d.15.6.1 37749 1oi1A 221 2.10e+01 b.34.9.3 87037 b.34.9.3 87038 1aw7A 194 2.15e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1snrA 341 2.15e+01 1ukgA 252 2.18e+01 b.29.1.1 -3390 1res 43 2.18e+01 1ret a.4.1.2 16023 1cs1A 386 2.19e+01 1ibjA c.67.1.3 34399 1jeyA 609 2.25e+01 1jeqA unknown_sccs -4426 unknown_sccs -7990 1gpiA 431 2.33e+01 b.29.1.10 65450 1euvB 86 2.33e+01 1a5r d.15.1.1 37598 1k8kC 372 2.35e+01 b.69.4.1 68308 1m2dA 110 2.35e+01 c.47.1.11 78476 1oniA 137 2.36e+01 d.79.1.1 87144 1uwwA 191 2.41e+01 1tif 78 2.44e+01 1tif d.15.8.1 37836 1n3oA 252 2.44e+01 b.29.1.1 79967 1dq3A 454 2.44e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1ub4A 110 2.49e+01 b.34.6.2 88399 1jg1A 235 2.55e+01 c.66.1.7 66661 1kwiA 101 2.58e+01 d.17.1.3 77564 1gpmA 525 2.66e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1nciA 110 2.73e+01 1edhA b.1.6.1 22191 1o7kA 131 2.78e+01 d.189.1.1 81144 1i40A 175 2.79e+01 b.40.5.1 66024 1rz1A 161 2.79e+01 b.45.1.2 -4088 1giqA 413 2.82e+01 d.166.1.1 76224 d.166.1.1 76225 1rypK 198 2.83e+01 d.153.1.4 41879 1ev2E 220 2.85e+01 1cvsC b.1.1.4 21738 b.1.1.4 21739 1i6pA 220 2.93e+01 1ddzA c.53.2.1 61848 1m1cA 680 2.98e+01 e.42.1.1 78395 1fhgA 154 2.98e+01 1tlk b.1.1.4 21706 1lvmA 229 3.00e+01 b.47.1.3 78243 1b8aA 438 3.04e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1p80A 753 3.04e+01 c.23.16.3 -6547 e.5.1.1 -11840 1c96A 753 3.05e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1mvfD 82 3.06e+01 b.129.1.1 85143 1c9oA 66 3.16e+01 1mjc b.40.4.5 25325 1kq6A 141 3.22e+01 d.189.1.1 -9926 1v7zA 260 3.27e+01 unknown_sccs -6353 1gl4B 98 3.30e+01 b.1.1.4 65288 1yacA 208 3.33e+01 1yacA unknown_sccs 31757 1euaA 213 3.35e+01 1fwrA c.1.10.1 29155 1mjc 69 3.40e+01 1mjc b.40.4.5 25319 1htyA 1015 3.52e+01 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 1v6sA 390 3.53e+01 c.86.1.1 -8567 1l7lA 121 3.54e+01 b.18.1.16 77790 1ireB 228 3.56e+01 b.34.4.4 76770 1kjkA 64 3.60e+01 d.10.1.4 72613 1fs1B 141 3.72e+01 1vcbB a.157.1.1 19252 d.42.1.1 38664 1bt0A 76 3.79e+01 1ubi d.15.1.1 37607 1jmaA 290 3.84e+01 b.1.1.1 63177 1iw7C 1119 3.85e+01 e.29.1.1 71474