# 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 1dzlA 505 5.94e-01 1dzlA b.121.6.1 23586 1a5zA 319 2.28e+00 c.2.1.5,d.162.1.1 30181,42148 2koeA 40 3.04e+00 2px2A 269 3.23e+00 2ewdA 317 3.42e+00 1et0A 269 4.11e+00 1et0A e.17.1.1 43289 1i2kA 269 4.11e+00 e.17.1.1 90661 3gwaA 365 4.18e+00 1oltA 457 4.34e+00 c.1.28.2 93334 3hqfA 181 4.51e+00 3ke3A 379 5.06e+00 2frvB 536 5.84e+00 1h2rL e.18.1.1 43291 3cuzA 532 6.40e+00 1dcoA 104 7.01e+00 1dcpA d.74.1.1 39680 3jq0A 493 7.53e+00 3lwsA 357 7.71e+00 3kucB 81 7.72e+00 1ru0A 105 7.77e+00 d.74.1.1 111937 2eknA 159 8.71e+00 1jlvA 209 9.31e+00 a.45.1.1,c.47.1.5 71729,71730 2zuvA 759 9.45e+00 1amuA 563 9.70e+00 1amuA e.23.1.1 43351 2hb5A 164 9.80e+00 1waaA 93 1.07e+01 1h2rL 534 1.08e+01 1h2rL e.18.1.1 43298 2fxqA 264 1.08e+01 1e3dB 542 1.14e+01 1h2rL e.18.1.1 59189 2gwdA 449 1.15e+01 1h2aL 567 1.18e+01 1h2rL e.18.1.1 43299 2k9hA 57 1.19e+01 1tit 98 1.19e+01 1tit 1p2xA 159 1.27e+01 a.40.1.1 104062 1na6A 404 1.30e+01 b.142.1.1,c.52.1.22 91748,91749 2pm7A 399 1.34e+01 2p5mA 83 1.36e+01 d.74.2.1 149254 1c3pA 375 1.39e+01 1c3pA c.42.1.2 32606 1nscA 390 1.43e+01 2qwc b.68.1.1 27591 1p5sA 203 1.49e+01 a.40.1.1 94147 3ir4A 218 1.54e+01 1yymG 313 1.54e+01 d.172.1.1 124232 1qvtA 194 1.56e+01 a.4.1.9,a.121.1.1 104602,104603 1vkdA 338 1.62e+01 b.67.2.4 108644 2pkpA 170 1.64e+01 1vppV 102 1.65e+01 1vpfA g.17.1.1 44753 2oerA 214 1.70e+01 2e85A 159 1.70e+01 1guaB 81 1.74e+01 1c1yB d.15.1.5 37619 1p0kA 349 1.74e+01 c.1.4.1 87648 2fnaA 357 1.75e+01 a.4.5.11,c.37.1.20 133809,133810 3br3A 194 1.84e+01 2vj4A 294 1.86e+01 3d0oA 317 1.86e+01 3btiA 188 1.86e+01 a.4.1.9,a.121.1.1 155566,155567 2b5lC 222 1.93e+01 1uf3A 228 1.99e+01 d.159.1.6 99317 1txvA 452 2.00e+01 1t4wA 196 2.06e+01 b.2.5.2 106427 2pbxA 203 2.13e+01 3bb1A 274 2.19e+01 2ob9A 130 2.23e+01 2gvkA 317 2.26e+01 d.58.4.14 135782 1xiwB 79 2.26e+01 b.1.1.4 115368 1mkkA 96 2.31e+01 g.17.1.1 79240 1v9fA 325 2.35e+01 d.265.1.3 108448 1fyxA 149 2.40e+01 1fyvA c.23.2.1 31128 3d4pA 317 2.40e+01 1jt6A 188 2.44e+01 a.4.1.9,a.121.1.1 67247,67248 1ae1A 273 2.52e+01 1bdb c.2.1.2 29943 2oyrA 258 2.54e+01 c.66.1.55 149078 2o4vA 411 2.57e+01 2i8lA 156 2.61e+01 1y4iA 398 2.65e+01 c.67.1.3 122619 2b69A 343 2.69e+01 c.2.1.2 127974 1thx 115 2.74e+01 1thx 1thxA 115 2.74e+01 c.47.1.1 32732 2rfvA 398 2.75e+01 3f1tA 148 2.78e+01 1fltV 98 2.82e+01 1vpfA g.17.1.1 44751 1dvpA 220 2.84e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 2vdvE 246 2.92e+01 1ypxA 375 2.94e+01 3dnhA 258 2.99e+01 3bqzA 194 3.01e+01 2p4dA 172 3.02e+01 2vdrA 452 3.03e+01 1g7oA 215 3.10e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1wuiL 534 3.17e+01 e.18.1.1 121289 3muqA 237 3.19e+01 3kudB 81 3.23e+01 2vu9A 444 3.26e+01 1ux5A 411 3.31e+01 a.207.1.1 100144 3lahA 188 3.32e+01 1ubkL 534 3.36e+01 e.18.1.1 88422 2inpA 494 3.38e+01 2g7bA 137 3.53e+01 1v93A 296 3.56e+01 c.1.23.1 100532 1gp6A 356 3.61e+01 b.82.2.1 65441 1c1yB 77 3.64e+01 1c1yB d.15.1.5 37618 2nptA 106 3.66e+01 d.15.2.2 138448 1ez4A 318 3.69e+01 c.2.1.5,d.162.1.1 64917,64918 1tu7A 208 3.75e+01 a.45.1.1,c.47.1.5 112653,112654 3hz4A 140 3.76e+01 1vqvA 306 3.77e+01 d.79.4.1,d.139.1.1 114024,114025 1ofwA 296 3.82e+01 a.138.1.1 92850 1gqiA 708 3.86e+01 c.1.8.10,d.92.2.2 76279,76280 3g4eA 297 3.93e+01 1lkxA 697 3.94e+01 c.37.1.9 73981 3fw3A 266 4.00e+01 1u55A 188 4.09e+01 d.278.1.1 107677 2z4tA 514 4.10e+01 1av8A 340 4.11e+01 1xikA a.25.1.2 16796 2h8aA 154 4.22e+01 f.56.1.1 147239 2p39A 155 4.24e+01 9ldtA 332 4.24e+01 3ldh c.2.1.5,d.162.1.1 30154,42121 3lqaG 332 4.24e+01 3lc3B 57 4.31e+01 2fs6A 137 4.35e+01 b.60.1.2 134005 1biqA 375 4.35e+01 1xikA a.25.1.2 16786 1gnlA 544 4.38e+01 e.26.1.1 70287 3ituA 345 4.55e+01 2onfA 140 4.68e+01 d.227.1.1 148901 2kigA 161 4.74e+01 3b4rA 224 4.92e+01 2wphE 59 5.03e+01 2h6rA 219 5.09e+01 2pd2A 108 5.13e+01 2wkdA 119 5.16e+01 1ldnA 316 5.18e+01 1hyhA c.2.1.5,d.162.1.1 30166,42133 2pbyA 308 5.21e+01 3ccgA 190 5.22e+01 1xx7A 184 5.22e+01 a.211.1.1 116143 1ymkA 175 5.40e+01 c.46.1.1 123699 2qtwB 546 5.47e+01 1frvB 536 5.55e+01 1h2rL e.18.1.1 43296 2hujA 140 5.62e+01 a.24.26.1 136777 1n7zA 334 5.67e+01 b.127.1.1 85380 2z2uA 311 5.74e+01 1xk4C 113 6.01e+01 a.39.1.2 122057 3br2A 194 6.08e+01 1xipA 388 6.15e+01 b.69.14.1 115360 3g7gA 158 6.18e+01 1b35A 260 6.26e+01 1b35A b.121.4.1 23333 2wlwA 165 6.34e+01 2x2dB 165 6.36e+01 3cp8A 641 6.49e+01 1tkeA 224 6.50e+01 d.15.10.1,d.67.1.1 112470,112471 1qnaA 200 6.62e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1bde 35 6.67e+01 1bde 3mmiA 386 6.85e+01 2ohdA 151 6.92e+01 2f9cA 334 7.07e+01 b.81.1.7 133158 1p27B 106 7.16e+01 d.58.7.1 93908 3h3xQ 549 7.18e+01 2x10A 545 7.23e+01 3k1qI 639 7.24e+01 1zncA 266 7.25e+01 2cba b.74.1.1 27955 1mxrA 375 7.26e+01 a.25.1.2 85197 1rkqA 282 7.34e+01 c.108.1.10 97621 2graA 277 7.35e+01 1zg2A 107 7.40e+01 3gocA 237 7.47e+01 2ny1A 317 7.56e+01 d.172.1.1 145703 2wg4A 155 7.61e+01 2o9pA 454 7.66e+01 2cyeA 133 7.66e+01 d.38.1.1 131021 2a2kA 175 7.70e+01 1jr3A 373 7.71e+01 a.80.1.1,c.37.1.20 63245,63246 2ysrA 105 7.71e+01 3hv0A 393 7.77e+01 3br5A 194 7.80e+01 1rh2F 165 7.88e+01 1rh2F a.26.1.3 16898 2g2cA 167 7.96e+01 c.57.1.1 134535