# List of top-scoring protein chains for t2k-100-30-bys-scores 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 3lmmA 583 4.54e-04 1m2rA 327 3.55e+00 d.144.1.7 84760 2zo4A 317 4.00e+00 2eo0A 147 4.14e+00 1hh1A 143 4.42e+00 1gefA c.52.1.18 61036 3ckwA 304 5.11e+00 1f6bA 198 5.62e+00 c.37.1.8 64986 1kshA 186 6.25e+00 c.37.1.8 72914 2eisA 133 7.94e+00 1x9nA 688 8.17e+00 a.235.1.1,b.40.4.6,d.142.2.1 115002,115003,115004 1om1A 332 8.25e+00 d.144.1.7 93347 1vlmA 219 9.91e+00 c.66.1.41 108836 1fnoA 417 1.02e+01 d.58.19.1,c.56.5.4 70145,75841 1mvfD 82 1.03e+01 b.129.1.1 85143 1urjA 1136 1.04e+01 e.58.1.1 113410 2a6tA 271 1.07e+01 a.242.1.1,d.113.1.7 126309,126310 2f1nA 262 1.12e+01 d.151.1.1 132782 2oxgA 108 1.13e+01 3a7iA 303 1.21e+01 2qkmB 266 1.30e+01 3k1wA 341 1.35e+01 1hw7A 255 1.37e+01 1i7fA d.193.1.1 61297 3g6zA 341 1.57e+01 3gokA 334 1.58e+01 2dj5A 133 1.65e+01 c.92.1.3 131536 3hmiA 292 1.67e+01 2hqyA 305 1.67e+01 d.108.1.4,d.108.1.4 147365,147366 1yzgA 179 1.81e+01 c.37.1.8 124276 1b5fA 239 1.83e+01 1smrA b.50.1.2 26836 2q66A 525 1.91e+01 a.160.1.1,d.218.1.3,d.58.16.1 150057,150058,150059 1k20A 310 1.91e+01 c.107.1.1 68027 2fltA 149 1.93e+01 1mkyA 439 1.95e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 3d8pA 163 2.01e+01 1gz8A 299 2.06e+01 d.144.1.7 83405 1jpcA 109 2.09e+01 b.78.1.1 27986 3cgxA 242 2.26e+01 1hrnA 337 2.26e+01 1smrA b.50.1.2 26869 3fhrA 336 2.32e+01 1an7A 136 2.37e+01 1seiA d.140.1.1 41465 3lahA 188 2.43e+01 3silA 379 2.44e+01 b.68.1.1 27542 1ok8A 394 2.53e+01 b.1.18.4,f.10.1.1 93236,93237 3bwuC 205 2.59e+01 b.1.11.1,b.7.2.1 155699,155700 1y56B 382 2.60e+01 1htrB 329 2.63e+01 1smrA 1xtlA 175 2.69e+01 1bvoA 175 2.77e+01 1a3qA b.2.5.3 22457 3a6sA 129 2.84e+01 3eehA 125 2.85e+01 2fm8A 135 2.88e+01 d.198.1.1 133767 3cjiC 284 3.00e+01 2p5dA 147 3.05e+01 1vmeA 410 3.05e+01 c.23.5.1,d.157.1.3 108893,108894 1yvuA 706 3.09e+01 b.34.14.1,c.55.3.10 124120,124121 2qtfA 364 3.13e+01 3cx2A 108 3.17e+01 2ztjA 382 3.24e+01 3er7A 131 3.30e+01 d.17.4.24 158191 2cxcA 144 3.45e+01 3a9iA 376 3.49e+01 1zj6A 187 3.50e+01 c.37.1.8 125145 1lybB 241 3.53e+01 1smrA 1u55A 188 3.53e+01 d.278.1.1 107677 1fvrA 327 3.73e+01 d.144.1.7 60047 3efyA 195 3.79e+01 3bixA 574 3.81e+01 2zpmA 91 3.82e+01 3c5xA 402 3.82e+01 1s4iA 175 3.89e+01 3id4A 93 3.96e+01 1fa0A 537 3.98e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1gd7A 109 4.01e+01 b.40.4.4 60441 2vwkA 773 4.11e+01 c.55.3.5,e.8.1.1 153677,153678 2b0vA 153 4.13e+01 d.113.1.1 127650 1gycA 499 4.27e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 2wczA 139 4.29e+01 1n1tA 641 4.36e+01 b.29.1.15,b.68.1.1 79821,79822 1af6A 421 4.46e+01 2mprA f.4.3.2 43772 1fzyA 149 4.47e+01 d.20.1.1 65072 1v10A 521 4.51e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 2apr 325 4.52e+01 2er7E 2aprA 325 4.52e+01 b.50.1.2 26819 1kmmA 424 4.60e+01 1adjA c.51.1.1,d.104.1.1 33174,40723 1xtmA 175 4.63e+01 830cA 168 4.74e+01 1ck7A d.92.1.11 40400 1o20A 427 4.76e+01 c.82.1.1 86556 1mz5A 638 4.76e+01 b.29.1.15,b.68.1.1 79679,79680 1kcxA 518 4.86e+01 b.92.1.3,c.1.9.6 90953,90954 2qpzA 103 4.93e+01 3flpA 217 5.00e+01 1opjA 293 5.04e+01 d.144.1.7 87230 1pf5A 131 5.10e+01 d.79.1.1 94604 1vkdA 338 5.17e+01 b.67.2.4 108644 2e6cA 244 5.18e+01 1ln1A 214 5.22e+01 d.129.3.2 74038 1r2jA 366 5.23e+01 a.29.3.1,e.6.1.1 96869,96870 1ztxE 108 5.25e+01 b.1.18.4 125658 3ix7A 134 5.29e+01 2hhpA 530 5.31e+01 a.160.1.1,d.218.1.3,d.58.16.1 136503,136504,136505 3fqgA 360 5.34e+01 2pofA 227 5.40e+01 d.13.1.4 149719 2wcwA 139 5.42e+01 2ivsA 314 5.43e+01 1v2bA 177 5.46e+01 d.107.1.2 108279 1rypJ 204 5.50e+01 d.153.1.4 41878 1to2E 281 5.52e+01 c.41.1.1 112595 1m2oB 190 5.71e+01 c.37.1.8 78485 1h8eG 272 5.72e+01 1e79G c.49.2.1 60756 2a8eA 220 5.73e+01 d.296.1.1 126397 3gkuA 225 5.74e+01 2dxqA 150 5.83e+01 2p25A 126 5.91e+01 3blzA 128 5.91e+01 d.17.4.14 155403 3h0dA 155 5.94e+01 3l3uA 163 5.97e+01 1nn6A 228 5.97e+01 b.47.1.2 85893 2bnmA 198 6.04e+01 a.35.1.3,b.82.1.10 128835,128836 1wcuA 153 6.05e+01 1izcA 339 6.09e+01 c.1.12.5 83838 3crxA 343 6.24e+01 4crxA a.60.9.1,d.163.1.1 18101,42161 3ednA 299 6.24e+01 1vprA 374 6.26e+01 b.60.1.7 120066 2h17A 181 6.26e+01 3a0yA 152 6.27e+01 2f7lA 455 6.30e+01 1zc1A 208 6.32e+01 1qhtA 775 6.35e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 3e15A 312 6.49e+01 2r3iA 298 6.52e+01 3id3A 89 6.56e+01 1rypH 205 6.67e+01 d.153.1.4 41876 2pkfA 334 6.71e+01 3ftqA 274 6.73e+01 2hjeA 221 6.77e+01 d.110.6.3 147294 1lvmA 229 6.82e+01 b.47.1.3 78243 3k6fA 100 6.83e+01 1viiA 36 6.95e+01 a.14.1.1 16378 1hl9A 449 7.06e+01 b.71.1.3,c.1.8.11 90650,90651 3g7eA 203 7.11e+01 1cfyA 143 7.13e+01 1cof d.109.1.2 40858 3dzwA 109 7.25e+01 3i6sA 649 7.30e+01 1hdfA 102 7.42e+01 1ag4 b.11.1.1 23627 2reiA 318 7.46e+01 3glaA 100 7.55e+01 1vd6A 224 7.55e+01 c.1.18.3 119991 3kg7A 293 7.57e+01 1kvnA 104 7.64e+01 d.201.1.1 73066 3cryA 188 7.67e+01 3grnA 153 7.78e+01 3hx9A 124 7.80e+01 1rf6A 427 7.80e+01 d.68.2.2 97366 1q1oA 98 7.84e+01 d.15.2.2 95596 2w5yA 192 7.86e+01 2w02A 620 7.97e+01