# List of top-scoring protein chains for t2k.100-30-stride-ebghtl 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 1l0qA 391 6.00e-10 b.1.3.1 77644 b.69.2.3 77645 2c4xA 260 1.41e-07 1b4rA 80 1.14e-03 1b4rA b.1.3.1 22072 1wgoA 123 1.55e-03 b.1.3.1 114618 2iouG 535 1.19e-01 1fsoA 139 2.14e-01 1rhoA b.1.18.8 60007 2kpnA 103 5.23e-01 1rhoA 145 6.92e-01 1rhoA b.1.18.8 21899 3c12A 138 8.95e-01 2yrlA 102 9.86e-01 1kmtA 141 1.79e+00 b.1.18.8 77442 3ejjX 289 2.15e+00 3h6jA 438 2.22e+00 3bgaA 1010 2.33e+00 3cjjA 219 2.81e+00 2jllA 389 2.83e+00 2w38A 438 3.17e+00 2ghsA 326 3.27e+00 b.68.6.1 135209 1cvsC 225 3.33e+00 1cvsC b.1.1.4 21726 b.1.1.4 21727 1d2pA 373 3.51e+00 1d2oA b.3.5.1 22629 b.3.5.1 22630 b.3.5.1 22631 b.3.5.1 22632 2wjyA 800 4.58e+00 3f7qA 234 4.61e+00 1wit 93 4.73e+00 1wit 1hnf 182 4.91e+00 1qa9A 1hnfA 182 4.91e+00 b.1.1.1 19741 b.1.1.3 21680 1d2oA 187 5.07e+00 1d2oA b.3.5.1 22625 b.3.5.1 22626 3ecrA 364 5.14e+00 1ds6B 180 5.30e+00 1rhoA b.1.18.8 21898 3f7rA 249 5.69e+00 3hi7A 731 5.74e+00 1ev2E 220 5.76e+00 1cvsC b.1.1.4 21738 b.1.1.4 21739 3f7pC 248 5.87e+00 2gm6A 208 6.43e+00 b.82.1.19 147130 1zq1A 438 6.50e+00 b.38.3.1 125489 c.88.1.1 125490 3duiA 135 7.10e+00 2huhA 147 7.31e+00 b.7.5.1 147405 1yrzA 528 7.56e+00 b.29.1.23 123948 b.67.2.1 123949 2x10A 545 7.65e+00 3d48R 211 7.71e+00 b.1.2.1 157289 b.1.2.1 157290 1pguA 615 8.06e+00 b.69.4.1 88069 b.69.4.1 88070 1io1A 398 8.20e+00 1io1A e.32.1.1 62611 2j43A 219 8.39e+00 b.3.1.3 147864 b.3.1.3 147865 1fnhA 271 8.42e+00 1fnhA b.1.2.1 21976 b.1.2.1 21977 b.1.2.1 21978 1ctn 540 8.48e+00 1ctn 3l5iA 290 8.56e+00 1v8hA 107 8.75e+00 b.1.18.19 119870 2w18A 356 8.85e+00 3mmyA 368 8.97e+00 1vqoB 338 9.17e+00 b.43.3.2 120363 3l5jA 288 9.44e+00 3ii1A 535 9.57e+00 1dabA 539 9.76e+00 1dabA b.80.1.7 28049 2h1tA 188 9.91e+00 b.178.1.1 147215 1itbB 315 9.97e+00 1itbB b.1.1.4 21720 b.1.1.4 21721 b.1.1.4 21722 1ofzA 312 1.01e+01 b.68.8.1 86978 2et1A 201 1.02e+01 b.82.1.2 132351 3greA 437 1.10e+01 1vjuA 309 1.13e+01 d.248.1.1 100835 2hz7A 851 1.14e+01 3g12A 128 1.16e+01 1qg3A 195 1.18e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 2bwrA 401 1.21e+01 1lox 662 1.21e+01 1lox 1loxA 662 1.21e+01 a.119.1.2 19238 b.12.1.1 23638 1fjgK 129 1.25e+01 1fjfK c.55.4.1 33733 2x41A 721 1.25e+01 2x42A 721 1.25e+01 1kdj 102 1.31e+01 1plc 1kdjA 102 1.31e+01 b.6.1.1 22864 3kstA 306 1.34e+01 1fi2A 201 1.39e+01 1fi2A b.82.1.2 59845 1zupA 315 1.40e+01 c.55.3.11 125681 1q55A 880 1.42e+01 i.20.1.1 95862 2rghA 571 1.42e+01 2q9oA 559 1.43e+01 b.6.1.3 150149 b.6.1.3 150150 b.6.1.3 150151 2dd7A 216 1.45e+01 3hxjA 330 1.48e+01 2uvfA 608 1.52e+01 3a5xA 494 1.53e+01 2bk8A 97 1.57e+01 2z5wA 136 1.57e+01 1jwhA 337 1.60e+01 d.144.1.7 71913 3l5hA 589 1.60e+01 1wckA 220 1.67e+01 1n6eA 1071 1.67e+01 b.36.1.3 80149 b.68.7.1 80150 b.69.9.1 80151 c.14.1.2 80152 1jj2B 337 1.77e+01 1ffkB b.43.3.2 63086 1k9tA 540 1.80e+01 b.1.18.2 77298 c.1.8.5 77299 d.26.3.1 77300 2a6zA 222 1.88e+01 b.29.1.13 126319 2p0mA 662 1.89e+01 a.119.1.2 149136 b.12.1.1 149137 3besR 250 1.91e+01 2gk6A 624 1.93e+01 2ux7A 122 1.96e+01 2va4A 192 1.99e+01 2bvyA 475 1.99e+01 b.1.18.2 129301 c.1.8.3 129302 3fw6A 534 2.00e+01 2wn6A 463 2.02e+01 1ymiA 334 2.05e+01 3hr5B 226 2.05e+01 3bp6B 202 2.07e+01 2vqeK 129 2.07e+01 c.55.4.1 153435 1n9pA 207 2.08e+01 b.1.18.16 80343 1td4A 115 2.15e+01 b.85.2.1 112389 1gt7A 274 2.20e+01 c.74.1.1 70398 1sqsA 242 2.23e+01 c.23.5.5 98968 1f6fB 210 2.24e+01 1axiB b.1.2.1 22033 b.1.2.1 22034 2uubK 129 2.24e+01 c.55.4.1 139942 2uxtA 451 2.25e+01 2wk2A 540 2.29e+01 1f00I 282 2.31e+01 1f00I b.1.14.1 22368 b.1.14.1 22369 d.169.1.3 42439 1edqA 540 2.32e+01 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1h6lA 353 2.32e+01 b.68.3.1 60687 1sq9A 397 2.37e+01 b.69.4.1 105889 1qqhA 144 2.38e+01 1dtoA b.91.1.1 28404 1yifA 533 2.42e+01 b.29.1.23 123283 b.67.2.1 123284 2wlzA 548 2.43e+01 1s4uX 407 2.44e+01 b.69.4.1 112027 2ih8A 559 2.45e+01 b.6.1.3 137407 b.6.1.3 137408 b.6.1.3 137409 1xf1A 926 2.50e+01 3eifA 936 2.50e+01 2pooA 355 2.51e+01 1qlgA b.68.3.1 27626 3d9aH 210 2.52e+01 1bqk 124 2.53e+01 1bqk 1bqkA 124 2.53e+01 b.6.1.1 22889 1qlgA 355 2.53e+01 1qlgA b.68.3.1 27627 1ejeA 192 2.57e+01 1ejeA b.45.1.2 25757 3dkhA 559 2.57e+01 2zr1B 267 2.59e+01 2v9lA 274 2.61e+01 1ojrA 274 2.67e+01 c.74.1.1 93147 1ecsA 126 2.68e+01 1ecsA d.32.1.2 59407 3ejvA 179 2.68e+01 d.17.4.28 158181 1pmyA 123 2.72e+01 b.6.1.1 22888 3grwA 241 2.73e+01 1bev1 281 2.76e+01 1aym1 1gzwA 134 2.84e+01 b.29.1.3 90535 1w6nA 134 2.86e+01 b.29.1.3 114275 2iepA 192 2.86e+01 3khfA 99 2.87e+01 2bgzA 299 2.88e+01 2v90A 96 2.93e+01 3c75H 426 2.94e+01 2bcmA 165 2.94e+01 1tfpA 130 2.96e+01 1etb1 b.3.4.1 22623 3bp5B 202 2.97e+01 1np1A 184 2.98e+01 1np1A b.60.1.1 27155 1wwcA 118 2.99e+01 1wwcA b.1.1.4 21778 3fv3A 339 2.99e+01 3gb3A 235 3.01e+01 3h51A 156 3.05e+01 2v8qA 157 3.06e+01 d.129.6.2 152781 1dceA 567 3.11e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 2egeA 75 3.17e+01 1zgsA 447 3.17e+01 1r0uA 148 3.17e+01 b.60.1.5 96741 1u58A 253 3.19e+01 b.1.1.2 144387 d.19.1.1 144388 2hqsA 415 3.20e+01 b.68.4.1 136662 c.51.2.1 136663 2vxsH 225 3.24e+01 2wj5A 101 3.28e+01 1po0A 751 3.30e+01 f.4.3.3 94960 3f2zA 159 3.32e+01 2dg1A 333 3.37e+01 b.68.6.1 131493 1jaeA 471 3.42e+01 b.71.1.1 27773 c.1.8.1 28760 3iytA 1263 3.43e+01 3b9eA 584 3.46e+01 3mb7A 331 3.48e+01 2volA 207 3.48e+01 1tueB 218 3.50e+01 b.91.1.1 107324 1ospO 257 3.51e+01 1ospO b.76.1.1 27971 3bqcA 335 3.54e+01 d.144.1.7 155497 2jixB 225 3.55e+01 b.1.2.1 148107 b.1.2.1 148108 2q2iA 116 3.56e+01 2pvrA 334 3.57e+01 d.144.1.7 149893 1mspA 126 3.59e+01 1mspA b.1.11.2 22333 2vc8A 84 3.62e+01 3gc3A 385 3.65e+01 2bz6H 254 3.68e+01 b.47.1.2 129552 2wd6A 349 3.68e+01 1zvfA 176 3.79e+01 b.82.1.20 146029 2d1eA 248 3.80e+01 3i94A 248 3.80e+01 3holA 509 3.81e+01 3hhrB 203 3.81e+01 1axiB b.1.2.1 22005 b.1.2.1 22006 2q2hA 131 3.82e+01 1eut 605 3.86e+01 1eut 3e0gA 483 3.87e+01 3k2mC 101 3.89e+01 3m4wA 295 3.94e+01 1pz5B 220 3.98e+01 b.1.1.1 95403 b.1.1.2 95404 2z3zA 706 3.99e+01