# List of top-scoring protein chains for 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.soe.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 1yspA 181 1.83e-31 1mkmA 249 1.98e-30 a.4.5.33 79242 d.110.2.2 79243 2o99A 182 2.76e-27 d.110.2.2 138952 1td5A 202 2.81e-27 d.110.2.2 106767 1tf1A 198 3.62e-26 d.110.2.2 106826 1ysqA 193 1.02e-24 2ia2A 265 2.11e-24 2g7uA 257 2.18e-23 2o0yA 260 1.03e-20 3bjnA 165 2.99e-20 1y3hA 307 6.38e-01 1u0tA 307 6.38e-01 e.52.1.1 107567 2pjhB 193 8.96e-01 1vmkA 277 1.10e+00 c.56.2.1 113680 2ciwA 299 2.06e+00 a.39.3.1 130502 a.39.3.1 130503 1e32A 458 2.51e+00 1e32A b.52.2.3 59183 c.37.1.20 59184 d.31.1.1 59185 1j49A 333 2.63e+00 c.2.1.4 71498 c.23.12.1 71499 1j4aA 333 2.65e+00 c.2.1.4 71502 c.23.12.1 71503 1yt3A 375 3.39e+00 a.60.8.3 123992 a.60.8.3 123993 c.55.3.5 123994 2v5hA 321 3.48e+00 2fx0A 201 4.23e+00 a.4.1.9 134269 a.121.1.1 134270 2dgyA 111 4.34e+00 1mg7A 417 4.60e+00 d.14.1.6 84954 d.58.26.6 84955 2jj7A 186 4.75e+00 1mqeA 207 5.27e+00 d.113.1.1 91394 2zc8A 369 5.33e+00 1xxfC 142 6.09e+00 b.16.1.1 116161 1izmA 184 6.11e+00 a.199.1.1 90725 1r7rA 816 6.16e+00 b.52.2.3 97203 c.37.1.20 97204 c.37.1.20 97205 d.31.1.1 97206 3cf2A 806 6.20e+00 2abyA 146 6.24e+00 1i78A 297 6.36e+00 f.4.4.1 66046 2pa8L 92 6.72e+00 1a8pA 258 8.23e+00 b.43.4.2 25654 c.25.1.1 31544 1vr4A 103 8.45e+00 d.230.5.1 120432 1xxdC 142 8.50e+00 b.16.1.1 116155 1xx9C 142 8.69e+00 b.16.1.1 116151 2gtcA 111 8.92e+00 1id0A 152 1.05e+01 d.122.1.3 66111 1zwmA 177 1.18e+01 1e2tA 284 1.22e+01 1e2tA d.3.1.5 37121 1wdwB 385 1.24e+01 c.79.1.1 120917 1v8zA 388 1.26e+01 c.79.1.1 119873 1wubA 178 1.27e+01 b.61.6.1 114891 1fyaA 193 1.32e+01 1derA c.8.5.1 30774 1gc1L 213 1.33e+01 8fabA b.1.1.1 20264 b.1.1.2 21264 1g9mL 214 1.33e+01 32c2A b.1.1.1 20262 b.1.1.2 21262 2mysB 166 1.34e+01 1wdcB a.39.1.5 17308 1dvwA 18 1.35e+01 j.109.1.1 90442 2p90A 319 1.36e+01 1x42A 232 1.40e+01 c.108.1.1 121677 2i8lA 156 1.43e+01 2e85A 159 1.44e+01 2ny1C 214 1.45e+01 b.1.1.1 138766 b.1.1.2 138767 1mxgA 435 1.46e+01 b.71.1.1 85193 c.1.8.1 85194 2edzA 114 1.46e+01 1v5iB 76 1.59e+01 1uz5A 402 1.60e+01 b.85.6.1 100217 b.103.1.1 100218 c.57.1.2 100219 1gl8A 104 1.61e+01 c.47.1.1 65290 2r6uA 148 1.61e+01 2pukC 106 1.62e+01 1fb6A 105 1.63e+01 1thx c.47.1.1 32739 1itpA 77 1.69e+01 d.58.3.2 66371 2qk1A 249 1.73e+01 1svdM 110 1.80e+01 d.73.1.1 119059 1yt5A 258 1.82e+01 2bmxA 195 1.88e+01 c.47.1.10 128817 2qmoA 220 1.92e+01 1n47A 233 1.94e+01 b.29.1.1 79983 1sq5A 308 2.00e+01 c.37.1.6 105882 2d9aA 60 2.01e+01 1esmA 316 2.02e+01 1esmA c.37.1.6 31953 2ra4A 76 2.05e+01 1wu7A 434 2.16e+01 c.51.1.1 121275 d.104.1.1 121276 2a6hA 315 2.22e+01 d.74.3.1 126260 d.181.1.1 126261 1nktA 922 2.22e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 2opaA 61 2.24e+01 1sluA 142 2.28e+01 1sluA b.16.1.1 23685 2omeA 336 2.29e+01 2d0iA 333 2.30e+01 2qkwB 321 2.33e+01 1poiA 317 2.37e+01 1poiA c.124.1.2 34153 2ap2A 115 2.41e+01 8fabA b.1.1.1 20178 2qxyA 142 2.41e+01 1tx2A 297 2.45e+01 c.1.21.1 107420 1roeA 97 2.46e+01 d.15.4.1 37672 2f6qA 280 2.47e+01 c.14.1.3 133055 2i5uA 83 2.53e+01 1wfxA 186 2.57e+01 d.166.1.5 114596 2dfaA 250 2.70e+01 c.6.2.5 131469 1ug1A 92 2.73e+01 b.34.2.1 99360 1dceB 331 2.74e+01 1dceB a.102.4.3 18872 1fpsA 348 2.83e+01 a.128.1.1 19436 1v5dA 386 2.84e+01 a.102.1.2 113537 1ubxA 367 2.96e+01 a.128.1.1 19439 1oelA 547 3.00e+01 1derA a.129.1.1 19452 c.8.5.1 30781 d.56.1.1 38900 1grlA 548 3.00e+01 a.129.1.1 19487 c.8.5.1 30816 d.56.1.1 38935 2gbsA 145 3.02e+01 b.122.1.8 134925 2rfoA 651 3.02e+01 2qx5A 661 3.05e+01 2av5A 120 3.07e+01 1ubyA 367 3.08e+01 a.128.1.1 19435 4rubS 123 3.12e+01 1rboC d.73.1.1 39621 1vbiA 344 3.16e+01 1frgL 217 3.18e+01 8fabA b.1.1.1 19924 b.1.1.2 21018 2f8yA 223 3.24e+01 1ap2A 113 3.24e+01 8fabA b.1.1.1 20182 1mvuA 114 3.31e+01 b.1.1.1 91474 2pceA 386 3.46e+01 2f8xK 256 3.47e+01 2hhiA 204 3.49e+01 3rubS 123 3.51e+01 1rboC d.73.1.1 39616 1k7jA 206 3.52e+01 d.115.1.1 72103 1fmjA 351 3.63e+01 c.37.1.5 59879 2aexA 346 3.67e+01 1zg2A 107 3.76e+01 2qdxA 257 3.77e+01 2dgdA 223 3.77e+01 2ns7A 208 3.81e+01 2q02A 272 3.87e+01 1iurA 88 3.89e+01 a.2.3.1 90704