# List of top-scoring protein chains for T0440.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 2yxoA 267 4.52e-30 1m65A 245 5.39e-15 c.6.3.1 84847 2anuA 255 1.11e-03 c.6.3.1 127058 2hpiA 1220 1.36e-03 2gzxA 265 6.47e-01 3cdkB 219 1.92e+00 1epuA 591 2.11e+00 1dn1A e.25.1.1 43358 1kkoA 413 2.38e+00 c.1.11.2,d.54.1.1 68675,68676 1j30A 144 2.42e+00 a.25.1.1 90806 2e6fA 314 4.42e+00 2djlA 314 4.44e+00 3c3nA 312 5.14e+00 1r1dA 247 5.17e+00 c.69.1.29 96813 2brtA 355 7.72e+00 b.82.2.1 129018 1gp6A 356 7.73e+00 b.82.2.1 65441 2fywA 267 8.13e+00 c.135.1.1 134408 1avaA 403 8.57e+00 1jdc b.71.1.1,c.1.8.1 27797,28784 1vp8A 201 8.61e+00 c.49.1.2 113947 1tz9A 367 8.82e+00 c.1.15.6 107466 3cebA 194 9.33e+00 2pgfA 371 9.37e+00 2q7fA 243 1.18e+01 2nv9A 372 1.33e+01 2nvaA 372 1.35e+01 1jykA 254 1.39e+01 c.68.1.13 67458 1dxeA 256 1.46e+01 1dxeA c.1.12.5 29310 2qt3A 403 1.48e+01 1sjdA 368 1.49e+01 c.1.11.2,d.54.1.1 105632,105633 2g7lA 243 1.50e+01 a.4.1.9,a.121.1.1 134734,134735 1bgxT 832 1.56e+01 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18083,33353,33699,42992 1taqA 832 1.56e+01 a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 2gpiA 91 1.64e+01 2rauA 354 1.65e+01 2hnhA 910 1.68e+01 2hqaA 917 1.68e+01 3c61A 314 1.89e+01 2b4gA 317 1.92e+01 c.1.4.1 127829 1vggA 161 2.10e+01 d.256.1.1 113647 1kczA 413 2.12e+01 c.1.11.2,d.54.1.1 68451,68452 1owfA 99 2.13e+01 a.55.1.1 87487 1ekeA 230 2.16e+01 1ekeA c.55.3.1 33572 3bg1B 442 2.22e+01 1f07A 321 2.25e+01 1ezwA c.1.16.3 59560 1twlA 186 2.33e+01 b.40.5.1 112764 1larA 575 2.34e+01 1larA c.45.1.2,c.45.1.2 32693,32694 3bofA 566 2.40e+01 2e9lA 469 2.42e+01 2ot4A 525 2.51e+01 1udeA 195 2.52e+01 b.40.5.1 99208 3b4uA 294 2.55e+01 2e3dA 302 2.63e+01 1qgoA 264 2.67e+01 1qgoA c.92.1.2 35596 1yrpA 278 2.68e+01 8ca2A 260 2.74e+01 b.74.1.1 27941 2iieA 204 2.74e+01 3bhyA 283 2.77e+01 3bwgA 239 2.84e+01 2jfeX 469 2.85e+01 2acvA 463 2.86e+01 2acwA 465 2.87e+01 2j90A 304 2.99e+01 2vcnA 261 3.00e+01 1m33A 258 3.11e+01 c.69.1.26 78514 1oafA 261 3.12e+01 a.93.1.1 86734 1vluA 468 3.13e+01 c.82.1.1 108864 2vcsA 261 3.14e+01 1x7fA 385 3.14e+01 b.62.1.2,c.1.8.12 109498,109499 2enxA 310 3.15e+01 2cl4X 261 3.15e+01 1zxzA 197 3.23e+01 2vcfX 264 3.24e+01 1apxA 249 3.31e+01 1ryc a.93.1.1 18669 2a27A 321 3.32e+01 1wmkA 321 3.32e+01 1p3y1 194 3.35e+01 2nrqA 159 3.38e+01 1tqhA 247 3.40e+01 c.69.1.29 107225 2v5jA 287 3.41e+01 1rp0A 284 3.54e+01 c.3.1.6 118782 1rtwA 220 3.64e+01 a.132.1.3 97823 2yyuA 246 3.68e+01 2gd9A 189 3.73e+01 2qa0A 519 3.75e+01 1wvqA 167 3.83e+01 2jguA 775 3.93e+01 2j9lA 185 4.06e+01 2iifA 204 4.11e+01 1lp3A 519 4.13e+01 b.121.5.2 74169 2amxA 376 4.15e+01 c.1.9.1 127024 2e5zA 90 4.16e+01 1p3dA 475 4.34e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2rduA 387 4.55e+01 2r5rA 271 4.59e+01 2nzlA 392 4.68e+01 1jn1A 158 4.78e+01 d.79.5.1 71754 3cpgA 282 4.87e+01 2r61A 208 4.99e+01 1mj0A 166 5.04e+01 k.37.1.1 79174 2uubI 128 5.06e+01 2z1kA 475 5.21e+01 1tb3A 352 5.23e+01 c.1.4.1 119205 2o7pA 380 5.25e+01 2g6vA 402 5.36e+01 2a4aA 281 5.51e+01 c.1.10.1 126150 1n0jA 199 5.54e+01 a.2.11.1,d.44.1.1 79740,79741 1xilA 198 5.55e+01 a.2.11.1,d.44.1.1 122014,122015 1qnmA 198 5.61e+01 1avmA a.2.11.1,d.44.1.1 15754,38713 3c3tA 198 5.61e+01 3c3sA 198 5.62e+01 1pl4A 198 5.62e+01 a.2.11.1,d.44.1.1 94854,94855 1em1A 198 5.67e+01 1avmA a.2.11.1,d.44.1.1 15752,38711 1xdcA 198 5.68e+01 a.2.11.1,d.44.1.1 121864,121865 1ja8A 198 5.73e+01 1avmA a.2.11.1,d.44.1.1 62813,62814 2fk8A 318 5.80e+01 c.66.1.18 133648 1szxA 198 5.93e+01 a.2.11.1,d.44.1.1 99049,99050 2eo4A 149 5.97e+01 1pm9A 198 6.03e+01 a.2.11.1,d.44.1.1 94897,94898 1gveB 327 6.04e+01 c.1.7.1 70598 1djuA 388 6.05e+01 1bjwA c.67.1.1 59116 1gdeA 389 6.06e+01 c.67.1.1 60456 1a4iA 301 6.07e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 2gdsA 198 6.10e+01 a.2.11.1,d.44.1.1 135024,135025 1gveA 327 6.13e+01 c.1.7.1 70597 1digA 306 6.15e+01 1a4iA c.2.1.7,c.58.1.2 30282,33930 1tqjA 230 6.16e+01 c.1.2.2 107228 1zrtC 437 6.16e+01 1zuqA 198 6.23e+01 a.2.11.1,d.44.1.1 125683,125684 2adpA 198 6.39e+01 a.2.11.1,d.44.1.1 126591,126592 2fyeA 217 6.46e+01 1l0bA 229 6.47e+01 c.15.1.3,c.15.1.3 73391,73392 1vh8A 170 6.51e+01 d.79.5.1 100647 1m4vA 204 6.52e+01 b.40.2.2,d.15.6.1 74459,74460 1iznA 286 6.59e+01 e.43.1.1 83847 2g6dA 217 6.62e+01 d.3.1.1 134702 1nisA 754 6.66e+01 c.8.2.1,c.83.1.1 30730,35406 1wvwA 278 6.68e+01 8acnA 754 6.74e+01 c.8.2.1,c.83.1.1 30724,35400 1jksA 294 6.78e+01 d.144.1.7 71710 1p4fA 293 6.78e+01 d.144.1.7 104063 2p4kA 198 6.81e+01 a.2.11.1,d.44.1.1 139487,139488 1ezwA 349 6.89e+01 1ezwA c.1.16.3 29558 1luwA 198 6.92e+01 a.2.11.1,d.44.1.1 74267,74268 1zteA 198 6.94e+01 a.2.11.1,d.44.1.1 125641,125642 2z8lA 208 6.97e+01 3bk7A 607 7.00e+01 1kxoA 184 7.08e+01 b.60.1.1 84475 1n0nA 199 7.09e+01 a.2.11.1,d.44.1.1 79750,79751 2pb9A 195 7.10e+01 1zspA 198 7.19e+01 a.2.11.1,d.44.1.1 125612,125613 1ib8A 164 7.40e+01 b.38.2.1,d.52.4.1 71168,71169 2ekmA 162 7.54e+01 1c96A 753 7.58e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1b0mA 753 7.60e+01 1amj c.8.2.1,c.83.1.1 30722,35398 2qagC 418 7.60e+01 7acnA 754 7.62e+01 c.8.2.1,c.83.1.1 30717,35393 1b0jA 754 7.64e+01 1amj c.8.2.1,c.83.1.1 30719,35395 1c97A 753 7.64e+01 1amj c.8.2.1,c.83.1.1 30731,35407 1w63A 618 7.68e+01 i.23.1.1 109192 2bdwA 362 7.74e+01 1in0A 163 7.97e+01 d.58.49.1,d.58.49.1 83694,83695