# List of top-scoring protein chains for t06-100-30-stride-ebghtl-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.cse.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 2f4qA 346 7.83e-02 2a2pA 129 3.61e-01 1lktA 104 4.18e-01 1lktA b.90.1.1 28398 1yx1A 264 8.46e-01 2c3vA 102 9.86e-01 1tp6A 128 1.15e+00 d.17.4.12 107184 1m93C 41 1.26e+00 1zkdA 387 1.29e+00 3nul 130 2.63e+00 3nul d.110.1.1 40891 1yaxA 153 2.77e+00 1qx4A 274 2.80e+00 b.43.4.2,c.25.1.1 104624,104625 1cqyA 99 2.96e+00 1b9zA b.3.1.1 22527 2cr5A 109 3.88e+00 2fhxA 246 4.25e+00 1vq2A 193 4.78e+00 1ijqA 316 4.96e+00 1ijqA b.68.5.1,g.3.11.1 62506,62507 1ui0A 205 5.08e+00 c.18.1.2 99411 1dcjA 81 5.17e+00 1dcjA d.68.3.3 59115 1tqzA 133 5.39e+00 1vetA 124 5.45e+00 d.110.7.1 108553 1txkA 498 5.49e+00 b.1.18.2,b.30.5.9 107425,107426 1yb3A 175 6.02e+00 1vqoS 85 6.42e+00 1vr9A 213 7.04e+00 2cvzA 289 7.38e+00 1qhoA 686 7.39e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1xvqA 175 7.79e+00 1wm3A 72 7.92e+00 1cdq 77 8.34e+00 1cds g.7.1.3 44459 1qmvA 197 8.38e+00 1qq2A c.47.1.10 33066 1f00I 282 8.43e+00 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 2ghrA 302 8.57e+00 1hw6A 278 8.81e+00 1frb c.1.7.1 61296 2b59B 172 8.87e+00 1umkA 275 8.95e+00 2gcc 70 9.08e+00 2gcc d.10.1.2 37484 1v74A 107 9.17e+00 d.243.1.1 100442 1h6hA 143 9.52e+00 d.189.1.1 65681 1a8q 274 9.75e+00 1brt c.69.1.12 34702 1h4rA 314 9.87e+00 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1xc3A 302 1.02e+01 1szoA 257 1.04e+01 c.14.1.3 106164 2fh5A 185 1.08e+01 3ezmA 101 1.11e+01 3ezmA b.89.1.1 28395 1kllA 130 1.16e+01 d.32.1.2 72720 1hw7A 255 1.17e+01 1i7fA d.193.1.1 61297 1gsa 316 1.18e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1r1qA 100 1.18e+01 d.93.1.1 104763 1qb5D 99 1.21e+01 b.40.2.1 88357 1w9hA 427 1.23e+01 1p6oA 161 1.25e+01 c.97.1.2 94185 1dg9A 157 1.31e+01 1dg9A c.44.1.1 32637 1l0bA 229 1.31e+01 c.15.1.3,c.15.1.3 73391,73392 1byrA 155 1.33e+01 1byrA d.136.1.1 41450 1pm1X 180 1.37e+01 b.60.1.1 104189 1p57A 114 1.38e+01 d.170.1.2 94125 1xwwA 157 1.40e+01 1kb0A 677 1.42e+01 a.3.1.6,b.70.1.1 68378,68379 1zndA 174 1.42e+01 1whzA 70 1.46e+01 1w41A 101 1.47e+01 1wrvA 308 1.50e+01 1lgpA 116 1.53e+01 b.26.1.2 73890 1p2hA 571 1.54e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1ne9A 335 1.55e+01 d.108.1.4,d.108.1.4 91839,91840 1bywA 110 1.62e+01 1bywA d.110.3.6 40912 2cx5A 158 1.64e+01 1ttzA 87 1.69e+01 c.47.1.1 107309 1vemA 516 1.69e+01 2gu3A 136 1.70e+01 1qy1A 174 1.73e+01 b.60.1.1 96568 1xkiA 162 1.75e+01 1zu0A 529 1.85e+01 1l6rA 227 1.86e+01 c.108.1.10 77768 1sqeA 109 1.87e+01 d.58.4.5 105908 1qauA 112 1.87e+01 1qauA b.36.1.1 24779 1kfwA 435 1.96e+01 c.1.8.5,d.26.3.1 77376,77377 1pufB 73 2.02e+01 a.4.1.1 95132 1vkiA 181 2.05e+01 d.116.1.1 108664 2cu3A 64 2.05e+01 1jofA 365 2.06e+01 b.69.10.1 71775 2a4hA 126 2.06e+01 1ffyA 917 2.09e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1cv8 174 2.11e+01 1cv8 d.3.1.1 37089 1bco 327 2.15e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1zbfA 142 2.18e+01 1uhvA 500 2.26e+01 b.71.1.2,c.1.8.3 99402,99403 1xksA 450 2.31e+01 1gt1A 159 2.38e+01 b.60.1.1 90515 1vjvA 415 2.39e+01 d.3.1.9 108632 1sz2A 332 2.43e+01 1o7nA 449 2.44e+01 b.33.1.2,d.129.3.3 81162,81163 1z0wA 207 2.45e+01 1wywA 230 2.47e+01 1fjgP 88 2.50e+01 1emwA d.27.1.1 38444 1iujA 106 2.51e+01 d.58.4.5 90701 1x0rA 249 2.51e+01 1lwdA 413 2.56e+01 c.77.1.1 78265 2ap1A 327 2.57e+01 1qhdA 398 2.58e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1yqtA 538 2.60e+01 1vjfA 180 2.64e+01 d.116.1.1 100809 1e19A 314 2.68e+01 1b7bA c.73.1.1 34967 1ztcA 221 2.70e+01 2cfuA 658 2.73e+01 2aa4A 289 2.77e+01 1am2 199 2.80e+01 1am2 b.86.1.2 28381 2go8A 122 2.81e+01 1wj9A 211 2.85e+01 2a25A 193 2.91e+01 1r77A 103 3.02e+01 2a8eA 220 3.12e+01 1q7fA 286 3.14e+01 b.68.9.1 96036 1k55A 246 3.18e+01 e.3.1.1 68156 1tljA 213 3.19e+01 d.282.1.1 107126 1nrlA 316 3.21e+01 a.123.1.1 92091 1w6sA 599 3.25e+01 2evrA 246 3.30e+01 1xfsA 178 3.32e+01 d.129.3.5 109589 1cuk 203 3.34e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 2esnA 310 3.43e+01 1dmhA 311 3.43e+01 1dmhA b.3.6.1 22633 2crvA 120 3.47e+01 1f2tB 148 3.49e+01 1f2tB 1vggA 161 3.51e+01 1te7A 103 3.64e+01 2db9A 149 3.81e+01 2c4xA 260 3.85e+01 1kpsB 171 3.86e+01 a.118.12.1 68787 1ryaA 160 3.87e+01 d.113.1.5 105122 1vbvA 105 3.88e+01 1vcdA 126 3.93e+01 1k8kA 418 3.95e+01 c.55.1.1,c.55.1.1 68305,68306 2grrB 170 3.95e+01 1xxqA 161 4.01e+01 1sur 215 4.01e+01 1sur c.26.2.2 31620 1ry9A 145 4.14e+01 d.198.1.1 98094 1iwdA 215 4.14e+01 d.3.1.1 83756 1bupA 386 4.22e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1cz6A 25 4.22e+01 j.3.1.3 46072 1oshA 232 4.23e+01 a.123.1.1 93496 2bgcA 238 4.24e+01 1xrkA 124 4.26e+01 1b24A 188 4.28e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1huxA 270 4.29e+01 1huxA c.55.1.5 61278 1z2mA 155 4.29e+01 1bu6O 501 4.37e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1aisA 182 4.37e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1cq0A 28 4.40e+01 j.6.1.1 46108 1ecfA 504 4.45e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1rewC 135 4.48e+01 g.7.1.3 97336 1zosA 230 4.51e+01 1msc 129 4.55e+01 1msc d.85.1.1 40039 1xqaA 113 4.55e+01 1up7A 417 4.58e+01 1y88A 199 4.60e+01 1gmuA 143 4.60e+01 b.107.1.1,d.58.38.1 65335,65336 1b8aA 438 4.61e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1m22A 503 4.64e+01 c.117.1.1 78464 1b0uA 262 4.67e+01 1b0uA c.37.1.12 32370 1pjxA 314 4.68e+01 b.68.6.1 104167 1itbB 315 4.73e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 1v30A 124 4.75e+01 1xkzA 255 4.79e+01 1b9wA 89 4.84e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1mtpB 43 4.84e+01 1gtkA 313 4.88e+01 c.94.1.1,d.50.2.1 76346,76347 1ugiA 84 4.96e+01 1ugiA d.17.5.1 38125 1uocA 289 4.97e+01 c.55.3.9 99686 1tqxA 227 5.03e+01 1qjpA 171 5.07e+01 1bxwA f.4.1.1 43742 1u14A 172 5.07e+01 c.51.4.3 107579 1i07A 60 5.09e+01 1aojA b.34.2.1 61477 2ghpA 292 5.10e+01 1g4wR 383 5.13e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1yp2A 451 5.13e+01 2c6cA 707 5.14e+01 1g5aA 628 5.15e+01 b.71.1.1,c.1.8.1 65152,65153 2afaA 425 5.23e+01 2bjbA 462 5.30e+01 2fnjA 226 5.30e+01 2basA 431 5.30e+01 2bkrA 212 5.32e+01 1c44A 123 5.36e+01 1qndA d.106.1.1 40795 1zboA 210 5.40e+01 1j79A 347 5.41e+01 1j79A c.1.9.4 62675 1x54A 434 5.61e+01 1jtdB 273 5.63e+01 b.69.5.2 67265 1wh5A 80 5.63e+01 1v1aA 309 5.75e+01 c.72.1.1 100249 1j58A 385 5.76e+01 b.82.1.2 71531 2d1uA 104 5.84e+01 2ao9A 155 5.90e+01 1d4oA 184 5.93e+01 1d4oA c.31.1.4 31748 1i76A 163 6.09e+01 1hfc d.92.1.11 61877 1uasA 362 6.10e+01 b.71.1.1,c.1.8.1 88388,88389 2ewcA 126 6.10e+01 1zxmA 400 6.14e+01 1rvkA 382 6.25e+01 c.1.11.2,d.54.1.1 97928,97929 1h9oA 112 6.26e+01 1qadA d.93.1.1 60837 1tedA 393 6.29e+01 c.95.1.2 106807 1ym5A 300 6.34e+01 1cr5A 189 6.47e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1ifqA 138 6.49e+01 1ifqA d.110.4.1 62350 1gpeA 587 6.52e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1twfK 120 6.53e+01 1x6oA 174 6.64e+01 b.34.5.2,b.40.4.5 109493,109494 1nofA 383 6.64e+01 b.71.1.2,c.1.8.3 92020,92021 1un3A 123 6.65e+01 d.5.1.1 99646 1yirA 408 6.71e+01 1ru3A 732 6.73e+01 e.26.1.3 97835 1tmxA 293 6.74e+01 1oxxK 353 6.75e+01 b.40.6.3,c.37.1.12 93715,93716 1oe8A 211 6.81e+01 a.45.1.1,c.47.1.5 86905,86906 1twuA 139 6.83e+01 d.32.1.8 107413 1x6mA 196 6.84e+01 1pvmA 184 6.92e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1voqa 90 6.97e+01 1wdvA 152 6.98e+01 2fdrA 229 7.02e+01 1uu1A 335 7.13e+01 c.67.1.1 99993 1bhe 376 7.14e+01 1bhe b.80.1.3 28030 1iq9A 61 7.21e+01 g.7.1.1 90669 1kaeA 434 7.30e+01 c.82.1.2 72247 1dzkA 157 7.33e+01 1obpA b.60.1.1 27096 1qveA 126 7.34e+01 d.24.1.1 104594 1sr8A 298 7.35e+01 e.54.1.1 105959 2a5hA 416 7.37e+01 1ri9A 102 7.40e+01 b.34.2.1 97506 2bvcA 486 7.40e+01 1jyrA 96 7.41e+01 d.93.1.1 71969 1c0pA 363 7.42e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1z8gA 372 7.48e+01 1m65A 245 7.55e+01 c.6.3.1 84847 2gfoA 396 7.58e+01 2db1A 118 7.59e+01 2bgiA 272 7.62e+01 1j5pA 253 7.65e+01 d.81.1.3,c.2.1.3 71577,83092 1iscA 192 7.65e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1bquA 215 7.69e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 2gclA 261 7.69e+01 1y81A 138 7.71e+01 1kq1A 77 7.72e+01 b.38.1.2 72848 1g8kA 825 7.81e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1xhcA 367 7.81e+01 1c96A 753 7.82e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1ln1A 214 7.83e+01 d.129.3.2 74038 1m0dA 138 7.89e+01 c.52.1.17 74354 1dpgA 485 7.93e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1ccwB 483 7.98e+01 1cb7B c.1.19.2 29646 1whnA 128 8.03e+01 1pl3A 186 8.09e+01 b.1.9.1 88158 1iow 306 8.11e+01 1iow c.30.1.2,d.142.1.1 31713,41481 2jdxA 385 8.12e+01 1jdw d.126.1.2 41139 4tmkA 213 8.12e+01 5tmpA c.37.1.1 31930 1nd4A 264 8.12e+01 d.144.1.6 91815 1h0hA 977 8.28e+01 b.52.2.2,c.81.1.1 76435,76436 1vgmA 378 8.29e+01 2arcA 164 8.31e+01 2arcA b.82.4.1 28148 1jidA 128 8.32e+01 d.201.1.1 66735 1zo2A 129 8.36e+01 1zhvA 134 8.46e+01 1u7pA 164 8.48e+01 1qg7A 67 8.48e+01 1a15A d.9.1.1 37449 1y5oA 115 8.54e+01 1xtpA 254 8.59e+01 1jmxA 494 8.64e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1dpjA 329 8.70e+01 1smrA b.50.1.2 26828 1qwlA 505 8.81e+01 e.5.1.1 96483 1y9wA 140 8.87e+01 1nzjA 298 8.98e+01 c.26.1.1 92377