# List of top-scoring protein chains for t04-100-30-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 1dzlA 505 6.00e-01 1dzlA b.121.6.1 23586 1a5zA 319 2.27e+00 c.2.1.5,d.162.1.1 30181,42148 2koeA 40 3.03e+00 2px2A 269 3.21e+00 2ewdA 317 3.40e+00 1et0A 269 4.07e+00 1et0A e.17.1.1 43289 1i2kA 269 4.08e+00 e.17.1.1 90661 3gwaA 365 4.14e+00 1oltA 457 4.30e+00 c.1.28.2 93334 3hqfA 181 4.47e+00 3ke3A 379 5.01e+00 3cuzA 532 6.32e+00 1dcoA 104 6.92e+00 1dcpA d.74.1.1 39680 3jq0A 493 7.43e+00 3lwsA 357 7.60e+00 3kucB 81 7.61e+00 1ru0A 105 7.67e+00 d.74.1.1 111937 2eknA 159 8.59e+00 1jlvA 209 9.16e+00 a.45.1.1,c.47.1.5 71729,71730 2zuvA 759 9.31e+00 1amuA 563 9.55e+00 1amuA e.23.1.1 43351 2hb5A 164 9.65e+00 1waaA 93 1.06e+01 1h2rL 534 1.06e+01 1h2rL e.18.1.1 43298 2fxqA 264 1.07e+01 1e3dB 542 1.12e+01 1h2rL e.18.1.1 59189 2gwdA 449 1.13e+01 2k9hA 57 1.17e+01 1tit 98 1.17e+01 1tit 1p2xA 159 1.25e+01 a.40.1.1 104062 1na6A 404 1.28e+01 b.142.1.1,c.52.1.22 91748,91749 2pm7A 399 1.32e+01 2p5mA 83 1.33e+01 d.74.2.1 149254 1c3pA 375 1.36e+01 1c3pA c.42.1.2 32606 1nscA 390 1.41e+01 2qwc b.68.1.1 27591 1p5sA 203 1.46e+01 a.40.1.1 94147 3ir4A 218 1.51e+01 1yymG 313 1.51e+01 d.172.1.1 124232 1qvtA 194 1.53e+01 a.4.1.9,a.121.1.1 104602,104603 1vkdA 338 1.59e+01 b.67.2.4 108644 2pkpA 170 1.61e+01 2oerA 214 1.66e+01 2e85A 159 1.67e+01 1p0kA 349 1.71e+01 c.1.4.1 87648 2fnaA 357 1.72e+01 a.4.5.11,c.37.1.20 133809,133810 3br3A 194 1.80e+01 2vj4A 294 1.82e+01 3d0oA 317 1.82e+01 3btiA 188 1.82e+01 a.4.1.9,a.121.1.1 155566,155567 2b5lC 222 1.88e+01 1uf3A 228 1.95e+01 d.159.1.6 99317 1txvA 452 1.96e+01 1t4wA 196 2.01e+01 b.2.5.2 106427 2pbxA 203 2.08e+01 3bb1A 274 2.14e+01 2ob9A 130 2.18e+01 2gvkA 317 2.21e+01 d.58.4.14 135782 1xiwB 79 2.21e+01 b.1.1.4 115368 1mkkA 96 2.26e+01 g.17.1.1 79240 1v9fA 325 2.30e+01 d.265.1.3 108448 1fyxA 149 2.34e+01 1fyvA c.23.2.1 31128 3d4pA 317 2.34e+01 1jt6A 188 2.38e+01 a.4.1.9,a.121.1.1 67247,67248 2oyrA 258 2.48e+01 c.66.1.55 149078 2o4vA 411 2.51e+01 2i8lA 156 2.54e+01 1y4iA 398 2.58e+01 c.67.1.3 122619 2b69A 343 2.62e+01 c.2.1.2 127974 1thx 115 2.68e+01 1thx 1thxA 115 2.68e+01 c.47.1.1 32732 2rfvA 398 2.68e+01 3f1tA 148 2.71e+01 1fltV 98 2.75e+01 1vpfA g.17.1.1 44751 1dvpA 220 2.76e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 2vdvE 246 2.85e+01 1ypxA 375 2.86e+01 3dnhA 258 2.91e+01 3bqzA 194 2.94e+01 2p4dA 172 2.94e+01 2vdrA 452 2.95e+01 1g7oA 215 3.02e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1wuiL 534 3.09e+01 e.18.1.1 121289 3muqA 237 3.11e+01 3kudB 81 3.14e+01 2vu9A 444 3.18e+01 1ux5A 411 3.22e+01 a.207.1.1 100144 3lahA 188 3.23e+01 1ubkL 534 3.27e+01 e.18.1.1 88422 2inpA 494 3.29e+01 2g7bA 137 3.43e+01 1v93A 296 3.47e+01 c.1.23.1 100532 1gp6A 356 3.51e+01 b.82.2.1 65441 1c1yB 77 3.54e+01 1c1yB d.15.1.5 37618 2nptA 106 3.56e+01 d.15.2.2 138448 1ez4A 318 3.59e+01 c.2.1.5,d.162.1.1 64917,64918 1tu7A 208 3.65e+01 a.45.1.1,c.47.1.5 112653,112654 3hz4A 140 3.66e+01 1vqvA 306 3.66e+01 d.79.4.1,d.139.1.1 114024,114025 1ofwA 296 3.71e+01 a.138.1.1 92850 1gqiA 708 3.75e+01 c.1.8.10,d.92.2.2 76279,76280 3g4eA 297 3.82e+01 3fw3A 266 3.89e+01 1u55A 188 3.98e+01 d.278.1.1 107677 2z4tA 514 3.99e+01 2h8aA 154 4.10e+01 f.56.1.1 147239 2p39A 155 4.11e+01 3lqaG 332 4.12e+01 3lc3B 57 4.19e+01 2fs6A 137 4.23e+01 b.60.1.2 134005 1gnlA 544 4.26e+01 e.26.1.1 70287 3ituA 345 4.42e+01 2onfA 140 4.54e+01 d.227.1.1 148901 2kigA 161 4.60e+01 3b4rA 224 4.77e+01 2wphE 59 4.88e+01 2h6rA 219 4.94e+01 2pd2A 108 4.97e+01 2wkdA 119 5.00e+01 2pbyA 308 5.05e+01 3ccgA 190 5.06e+01 1xx7A 184 5.06e+01 a.211.1.1 116143 1ymkA 175 5.23e+01 c.46.1.1 123699 2qtwB 546 5.30e+01 2hujA 140 5.44e+01 a.24.26.1 136777 1n7zA 334 5.49e+01 b.127.1.1 85380 2z2uA 311 5.56e+01 1xk4C 113 5.81e+01 a.39.1.2 122057 3br2A 194 5.89e+01 1xipA 388 5.95e+01 b.69.14.1 115360 3g7gA 158 5.98e+01 1b35A 260 6.06e+01 1b35A b.121.4.1 23333 2wlwA 165 6.13e+01 2x2dB 165 6.15e+01 3cp8A 641 6.28e+01 1tkeA 224 6.29e+01 d.15.10.1,d.67.1.1 112470,112471 1qnaA 200 6.40e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 3mmiA 386 6.63e+01 2ohdA 151 6.69e+01 2f9cA 334 6.83e+01 b.81.1.7 133158 3h3xQ 549 6.94e+01 2x10A 545 6.99e+01 3k1qI 639 7.00e+01 1mxrA 375 7.01e+01 a.25.1.2 85197 1rkqA 282 7.09e+01 c.108.1.10 97621 2graA 277 7.11e+01 1zg2A 107 7.15e+01 3gocA 237 7.21e+01 2ny1A 317 7.30e+01 d.172.1.1 145703 2wg4A 155 7.35e+01 2o9pA 454 7.40e+01 2cyeA 133 7.40e+01 d.38.1.1 131021 2a2kA 175 7.44e+01 2ysrA 105 7.45e+01 3hv0A 393 7.50e+01 3br5A 194 7.54e+01 2g2cA 167 7.68e+01 c.57.1.1 134535 2rfaA 232 7.77e+01 2e0aA 394 7.81e+01 3c1jA 424 7.82e+01 2v9dA 343 7.90e+01 1u6zA 513 8.00e+01 a.211.1.5,c.55.1.8,c.55.1.8 119608,119609,119610