# List of top-scoring protein chains for T0507.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 1cozA 129 9.65e-20 1cozA c.26.1.2 31598 2b7lA 132 6.10e-19 1qjcA 158 7.74e-16 1b6tA c.26.1.3 63328 1h1tA 159 7.82e-16 c.26.1.3 83458 1vlhA 173 8.36e-16 c.26.1.3 108824 1od6A 160 1.75e-14 c.26.1.3 86836 1kamA 194 2.22e-14 c.26.1.3 72254 1o6bA 169 7.53e-14 c.26.1.3 92564 1yumA 242 8.96e-13 1k4mA 213 5.46e-12 c.26.1.3 77258 1tfuA 157 6.76e-12 c.26.1.3 106859 2h29A 189 9.97e-09 1f9aA 168 6.00e-07 1f9aA c.26.1.3 31602 2qjoA 341 1.10e-05 2qjtA 352 2.63e-05 1lw7A 365 3.62e-05 c.26.1.3,c.37.1.1 74295,74296 1mrzA 293 5.87e-05 b.43.5.1,c.26.1.3 91452,91453 1m8fA 181 1.45e-04 c.26.1.3 84873 1ej2A 181 1.99e-04 1f9aA c.26.1.3 59414 1m8jA 181 2.10e-04 c.26.1.3 84875 1m8gA 181 2.25e-04 c.26.1.3 84874 1kqnA 279 4.57e-04 c.26.1.3 77492 1kkuA 279 4.58e-04 c.26.1.3 72661 1gzuA 290 4.67e-04 c.26.1.3 70822 1nuuA 252 1.01e-03 c.26.1.3 86209 1ihoA 283 1.03e-01 1ihoA c.26.1.4 62390 2ejcA 280 2.12e-01 1v8fA 276 2.61e-01 c.26.1.4 100503 2a84A 300 6.71e-01 c.26.1.4 126389 1hybA 181 8.09e-01 1f9aA c.26.1.3 61399 1m8kA 181 8.10e-01 c.26.1.3 84876 2asbA 251 9.27e-01 b.40.4.5,d.52.3.1,d.52.3.1 127244,127245,127246 1pw5A 253 1.72e+00 c.108.1.14 95199 1vjrA 271 1.82e+00 c.108.1.14 100832 1ufvA 276 1.85e+00 c.26.1.4 88487 1xxeA 282 3.09e+00 d.14.1.7,d.14.1.7 116157,116158 2go3A 267 3.36e+00 d.14.1.7,d.14.1.7 135422,135423 1p42A 270 3.44e+00 d.14.1.7,d.14.1.7 87754,87755 2j65A 271 3.44e+00 d.14.1.7,d.14.1.7 138074,138075 2jt2A 274 3.49e+00 2f6rA 281 5.05e+00 1tycA 319 5.94e+00 c.26.1.1 31568 2ip1A 432 6.23e+00 1tyaE 319 6.48e+00 2ts1 c.26.1.1 31570 4ts1A 319 6.94e+00 2ts1 c.26.1.1 31565 1jhdA 396 8.65e+00 b.122.1.3,c.26.1.5 66712,66713 2gl5A 410 8.92e+00 c.1.11.2,d.54.1.1 135336,135337 1tydE 319 9.16e+00 2ts1 c.26.1.1 31567 2ts1A 419 9.24e+00 c.26.1.1 31564 1w15A 153 1.24e+01 b.7.1.2 109041 2e3xA 427 1.25e+01 1tybE 319 1.26e+01 2ts1 c.26.1.1 31569 2bo4A 397 1.41e+01 c.68.1.18 128869 2azxA 477 1.52e+01 c.26.1.1 127616 2v6bA 304 1.52e+01 1r6tA 477 1.54e+01 a.16.1.3,c.26.1.1 97160,97161 2r4vA 247 1.54e+01 2perA 267 1.55e+01 1jnsA 92 1.64e+01 d.26.1.1 84185 1r6uA 437 1.64e+01 c.26.1.1 97163 1i8aA 189 1.92e+01 1i82A b.1.9.2 61951 2e1mB 130 2.02e+01 1vbnA 318 2.03e+01 1wq4A 321 2.03e+01 2yxnA 322 2.03e+01 1x8xA 322 2.12e+01 1vbmA 318 2.12e+01 1j34A 129 2.25e+01 d.169.1.1 84048 1k0rA 366 2.36e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 67961,67962,67963,67964 2pu9A 110 2.56e+01 2o1wA 506 2.63e+01 1dj7A 117 2.66e+01 1dj7A g.36.1.1 44997 2pvgA 108 2.69e+01 2puoA 109 2.80e+01 1xb8A 128 2.91e+01 b.6.1.1 115064 2j3tC 145 2.92e+01 1mhyB 395 2.96e+01 1mtyB a.25.1.2 16781 1xvbC 389 3.21e+01 a.25.1.2 122346 1xmgC 388 3.25e+01 a.25.1.2 122155 1mtyB 384 3.26e+01 1mtyB a.25.1.2 16740 1ulhA 390 3.32e+01 c.26.1.1 99557 2dr2A 384 3.32e+01 c.26.1.1 131653 1o5tA 378 3.32e+01 c.26.1.1 103891 2quhA 477 3.33e+01 1s0uA 408 3.35e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1p22B 145 3.39e+01 a.157.1.1,d.42.1.1 87717,87718 2z0dB 125 3.41e+01 d.15.1.3 140096 1ojgA 136 3.42e+01 d.110.6.1 93128 2z0eB 129 3.50e+01 d.15.1.3 140097 1mmoB 384 3.62e+01 1mtyB a.25.1.2 16768 2pa4A 323 3.64e+01 1xb3A 128 3.64e+01 b.6.1.1 115060 1nlfA 279 3.67e+01 c.37.1.11 85850 1e19A 314 3.77e+01 1b7bA c.73.1.1 34967 1wehA 171 3.88e+01 c.129.1.1 114551 1qapA 296 3.93e+01 1qpoA c.1.17.1,d.41.2.1 29559,38595 1l3iA 192 3.95e+01 c.66.1.22 77676 2psnA 434 4.04e+01 2pezA 179 4.09e+01 2ofwA 208 4.15e+01 2d87A 128 4.18e+01 2fljA 134 4.24e+01 1ftpA 133 4.38e+01 1hmt b.60.1.2 27199 1sg9A 282 4.44e+01 c.66.1.30 105526 1nv8A 284 4.47e+01 c.66.1.30 86224 2eboA 74 4.50e+01 2eboA h.3.2.1 45754 1vq1A 294 4.51e+01 c.66.1.30 120067 2o1uA 666 4.51e+01 1ijlA 123 4.52e+01 a.133.1.2 66163 1budA 197 4.70e+01 1atlA d.92.1.9 40328 1bswA 197 4.82e+01 1atlA d.92.1.9 40329 1vysX 364 4.87e+01 c.1.4.1 108907 1vyrA 364 4.89e+01 c.1.4.1 108906 1vypX 364 4.91e+01 c.1.4.1 108905 2h8lA 252 4.98e+01 2ji5A 227 5.06e+01 1iruD 248 5.06e+01 d.153.1.4 71355 2cbiA 594 5.12e+01 a.246.1.1,c.1.8.10,d.92.2.3 130179,130180,130181 2yxdA 183 5.19e+01 2j62A 594 5.25e+01 2pbpA 258 5.29e+01 1pumA 249 5.36e+01 d.165.1.1 104314 1h3fA 432 5.38e+01 c.26.1.1,d.66.1.4 76631,76632 2nysA 176 5.47e+01 1baiA 124 5.52e+01 2rspB b.50.1.1 26773 2pidA 356 5.53e+01 1vsaH 163 5.53e+01 1ql6A 298 5.65e+01 1cdkA d.144.1.7 41636 2briA 225 5.73e+01 c.73.1.3 128999 3c3pA 210 5.76e+01 2ofxA 207 5.76e+01 1phkA 298 5.76e+01 d.144.1.7 41635 2ev1A 222 5.83e+01 2bmuA 226 5.83e+01 c.73.1.3 128813 1cdzA 96 5.86e+01 1cdzA c.15.1.1 30925 3d6vA 314 5.87e+01 2bazA 142 5.89e+01 2abbA 364 5.92e+01 c.1.4.1 126517 1jnyA 435 5.93e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1y33I 64 5.99e+01 3d7wA 254 6.00e+01 2pggA 774 6.02e+01 2dc1A 236 6.09e+01 2phkA 277 6.11e+01 1cdkA d.144.1.7 41637 1lc5A 364 6.31e+01 c.67.1.1 73827 1zzmA 259 6.47e+01 c.1.9.12 125911 1x18X 292 6.50e+01 c.37.1.8,d.52.3.1 121577,121578 1wk9A 146 6.56e+01 b.51.1.1 120977 2c71A 216 6.59e+01 c.6.2.3 130017 1wkaA 147 6.64e+01 b.51.1.1 120978 1s2dA 167 6.68e+01 c.23.14.1 98377 3cswA 285 6.70e+01 1egaA 301 6.71e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 2brxA 244 6.77e+01 c.73.1.3 129028 2tnfA 156 6.80e+01 2tnfA b.22.1.1 23880 1s2lA 167 6.84e+01 c.23.14.1 98390 2obyA 338 6.85e+01 1w55A 371 7.04e+01 c.68.1.13,d.79.5.1 114197,114198 1jilA 420 7.14e+01 c.26.1.1 66745 2j8zA 354 7.17e+01 2tsaA 128 7.19e+01 1nwpA b.6.1.1 22991 2i6oA 161 7.21e+01 1iluA 128 7.29e+01 1nwpA b.6.1.1 22971 2vi7A 177 7.37e+01 2i6jA 161 7.38e+01 2pusA 852 7.48e+01 1peqA 714 7.83e+01 a.98.1.1,c.7.1.2 104131,104132