# List of top-scoring protein chains for t06-100-30-str2-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 2fbnA 198 3.33e-03 1na3A 91 3.51e-03 k.38.1.1 85481 1elwA 118 5.87e-03 1a17 a.118.8.1 19207 1ihgA 370 7.72e-02 2cpl a.118.8.1,b.62.1.1 62380,62381 1hz4A 373 8.44e-02 a.118.8.2 65960 1oshA 232 1.32e-01 a.123.1.1 93496 2ff4A 388 3.14e-01 1txgA 335 5.40e-01 1tujA 123 1.00e+00 1x0lA 333 1.04e+00 1mswD 883 1.15e+00 e.8.1.3 79427 1za0A 275 1.32e+00 1w36B 1180 1.63e+00 1dc1A 323 2.03e+00 1dc1A c.52.1.11 33321 1f6fA 199 2.10e+00 1f6fA a.26.1.1 16839 1upvA 257 2.14e+00 1ovlA 271 2.27e+00 a.123.1.1 87455 2gtrA 261 2.56e+00 1n46A 258 2.89e+00 a.123.1.1 85315 1lfpA 249 3.22e+00 e.39.1.1 73885 1jb0A 755 3.23e+00 1jb0A f.29.1.1 62820 2gaiA 633 3.30e+00 1elrA 131 3.67e+00 1a17 a.118.8.1 19209 1xnfA 275 3.87e+00 2dg5A 366 4.10e+00 1x46A 150 4.14e+00 1hh8A 213 4.15e+00 1e96B a.118.8.1 61042 1mlwA 301 4.93e+00 d.178.1.1 79289 1l3pA 102 4.94e+00 a.24.17.1 84520 1wm1A 317 5.48e+00 c.69.1.7 109405 3lynA 136 5.67e+00 1lis a.19.1.1 16413 1vlgA 176 5.82e+00 a.25.1.1 108816 1w79A 489 6.40e+00 1r9dA 787 6.44e+00 c.7.1.1 104865 2f3yA 148 7.03e+00 2cqsA 842 7.08e+00 2a2mA 258 7.60e+00 1ek9A 428 7.77e+00 1ek9A f.5.1.1 43809 1ydiA 263 8.06e+00 2lisA 136 8.09e+00 1lis a.19.1.1 16405 1lk9A 448 8.94e+00 c.67.1.1 78057 1nrgA 261 8.95e+00 b.45.1.1 80694 2c2aA 258 9.09e+00 1tw9A 206 9.35e+00 a.45.1.1,c.47.1.5 107381,107382 2bl0C 142 1.03e+01 1vkuA 100 1.05e+01 a.28.1.1 108690 1fnnA 389 1.07e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1mtyG 162 1.10e+01 1mtyG a.23.3.1 16498 1u14A 172 1.16e+01 c.51.4.3 107579 2d2yA 145 1.20e+01 1m7vA 363 1.22e+01 d.174.1.1 78748 1ggzA 148 1.22e+01 a.39.1.5 70176 1khoA 370 1.24e+01 a.124.1.1,b.12.1.3 72489,72490 1lw1A 177 1.25e+01 a.152.1.1 74290 1pb6A 212 1.30e+01 a.4.1.9,a.121.1.1 88017,88018 1paqA 189 1.31e+01 a.118.1.14 94413 1lvaA 258 1.32e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 2etbA 256 1.37e+01 1yarA 233 1.37e+01 1xkpC 143 1.48e+01 1sqnA 261 1.49e+01 a.123.1.1 105944 1ve0A 134 1.53e+01 1eemA 241 1.56e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1ux5A 411 1.57e+01 a.207.1.1 100144 1vf1A 229 1.57e+01 1uhgA 385 1.62e+01 e.1.1.1 88491 1zx4A 192 1.63e+01 1exrA 148 1.63e+01 1cll a.39.1.5 17299 2c6cA 707 1.65e+01 1z82A 335 1.66e+01 1ic2A 81 1.67e+01 h.1.5.1 62247 1zejA 293 1.68e+01 1wy6A 172 1.69e+01 1wdcC 156 1.79e+01 1wdcC a.39.1.5 17317 1w0dA 337 1.83e+01 1orjA 130 1.84e+01 a.24.19.1 93456 2crbA 97 1.85e+01 1v54E 109 1.91e+01 a.118.11.1 100326 1rx0A 393 1.92e+01 a.29.3.1,e.6.1.1 98007,98008 1w53A 84 1.94e+01 a.186.1.2 109175 2ethA 154 1.94e+01 1bx4A 345 2.04e+01 1bx4A c.72.1.1 34935 1su8A 636 2.06e+01 e.26.1.2 98999 1ho8A 480 2.06e+01 1ho8A a.118.1.9 61107 2awiA 317 2.10e+01 1p68A 102 2.17e+01 k.8.1.1 94158 1pu6A 218 2.22e+01 a.96.1.5 95123 1gu9A 177 2.24e+01 a.152.1.1 65540 1guxA 218 2.24e+01 1guxA a.74.1.3 18388 1xo0A 324 2.25e+01 1j8uA 325 2.33e+01 d.178.1.1 71611 1ka2A 499 2.33e+01 d.92.1.5 77305 2az0A 73 2.36e+01 1p4kA 295 2.51e+01 d.153.1.5 87772 1aisB 200 2.52e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1clc 639 2.53e+01 1clc a.102.1.2,b.1.18.2 18835,21872 1uhkA 191 2.54e+01 1at3A 247 2.55e+01 1at3A b.57.1.1 27021 2g0dA 409 2.56e+01 1xg7A 250 2.58e+01 1xdzA 240 2.58e+01 1qlpA 394 2.60e+01 1ovaA e.1.1.1 42628 1zsqA 528 2.60e+01 1cby 259 2.64e+01 1cby d.103.1.1 40705 1xteA 154 2.65e+01 1mla 309 2.67e+01 1mla c.19.1.1,d.58.23.1 31031,39383 2bnxA 386 2.71e+01 1vjoA 393 2.74e+01 c.67.1.3 100827 1dvkA 173 2.76e+01 1dvkA a.72.1.1 18319 1wz9A 375 2.78e+01 1i5nA 146 2.84e+01 1i5nA a.24.10.3 61805 1anf 370 2.86e+01 4mbp c.94.1.1 35776 1ow4A 129 2.95e+01 a.39.2.1 93628 1t07A 94 3.05e+01 d.279.1.1 106196 1izcA 339 3.06e+01 c.1.12.5 83838 1xtpA 254 3.09e+01 2d29A 387 3.10e+01 2d3dA 88 3.12e+01 1fcyA 236 3.15e+01 2lbd a.123.1.1 19282 2sqcA 631 3.15e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 2g3bA 208 3.22e+01 2g7gA 213 3.22e+01 1k3yA 221 3.29e+01 a.45.1.1,c.47.1.5 77245,77246 1jogA 146 3.33e+01 a.24.16.2 77142 1wlmA 151 3.33e+01 2g7sA 194 3.35e+01 1epxA 370 3.37e+01 1fbaA c.1.10.1 29150 1bolA 222 3.38e+01 1bolA d.124.1.1 41120 1x91A 153 3.40e+01 1dceB 331 3.54e+01 1dceB a.102.4.3 18872 2c4bA 143 3.55e+01 1knyA 253 3.59e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 2abqA 306 3.59e+01 2b6cA 220 3.60e+01 1io2A 213 3.62e+01 1ekeA c.55.3.1 62612 1r0dA 206 3.63e+01 a.216.1.1 104715 3gcb 470 3.64e+01 3gcb d.3.1.1 37032 1r9kA 172 3.65e+01 a.168.1.1 104869 1nznA 126 3.65e+01 a.118.8.1 92382 1ug7A 128 3.65e+01 a.24.24.1 107824 1evsA 187 3.75e+01 1evsA a.26.1.1 16845 1w5tA 412 3.76e+01 1lyvA 306 3.76e+01 c.45.1.2 74348 1a2pA 110 3.80e+01 1b20A d.1.1.2 36140 1yrcA 414 3.86e+01 1tuaA 191 3.93e+01 d.51.1.1,d.51.1.1 107321,107322 1vpdA 299 3.94e+01 1up8A 598 4.07e+01 a.111.1.2 99710 1dqeA 137 4.08e+01 1dqeA a.39.2.1 17388 1ga3A 113 4.14e+01 1ga3A a.26.1.2 60411 1zy4A 303 4.15e+01 1zaiA 363 4.22e+01 1j1qA 261 4.23e+01 d.165.1.1 90768 1yc9A 442 4.25e+01 1bc5A 269 4.27e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1syyA 346 4.35e+01 a.25.1.2 106126 1t1dA 100 4.35e+01 1t1dA d.42.1.2 38637 2afdA 88 4.44e+01 1es9A 232 4.47e+01 1wab c.23.10.3 31340 1w5qA 337 4.51e+01 1af7 274 4.51e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 2cohA 202 4.60e+01 1wdyA 285 4.63e+01 1musA 477 4.68e+01 c.55.3.4 79494 1ppjF 110 4.68e+01 f.27.1.1 104262 1uesA 191 4.77e+01 a.2.11.1,d.44.1.1 107798,107799 1nc5A 373 4.85e+01 a.102.1.6 85548 1joyA 67 4.89e+01 1joyA a.30.2.1 16991 1sk7A 198 4.90e+01 a.132.1.2 105671 1b06A 210 4.95e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1gvjA 146 5.02e+01 a.4.5.21 90525 1ornA 226 5.02e+01 a.96.1.1 87342 1f7uA 607 5.09e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 2abk 211 5.16e+01 2abk a.96.1.1 18743 2d2sA 235 5.18e+01 1u6zA 513 5.18e+01 1iy8A 267 5.23e+01 c.2.1.2 83774 1kxpD 458 5.34e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1or4A 178 5.36e+01 a.1.1.2 93447 2c5uA 375 5.45e+01 1cpt 412 5.52e+01 1cpt a.104.1.1 18968 1gtkA 313 5.52e+01 c.94.1.1,d.50.2.1 76346,76347 1fjgT 106 5.53e+01 1fjfT a.7.6.1 16338 1zgyA 272 5.53e+01 1u2eA 289 5.65e+01 1jb9A 316 5.69e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1ntyA 311 5.69e+01 a.87.1.1,b.55.1.1 103873,103874 1yixA 265 5.69e+01 1pmi 440 5.72e+01 1pmi b.82.1.3 28114 1uzbA 516 5.76e+01 c.82.1.1 100220 256bA 106 5.83e+01 256bA a.24.3.1 16539 1rzsA 61 5.89e+01 a.35.1.2 105139 1ca1 370 5.91e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1f08A 148 5.97e+01 1f08A d.89.1.2 59564 1knvA 293 6.00e+01 c.52.1.7 68707 2mhr 118 6.00e+01 2mhr a.24.4.1 16581 1qo0D 196 6.07e+01 1qo0D c.23.1.3 31125 1s1fA 406 6.11e+01 1ustA 93 6.25e+01 a.4.5.13 99884 1ng6A 148 6.26e+01 a.182.1.1 85670 2bjkA 516 6.28e+01 1qbjA 81 6.33e+01 1qbjA a.4.5.19 16155 1cjwA 166 6.36e+01 1cjwA d.108.1.1 40818 1wvvA 265 6.36e+01 1s3eA 520 6.50e+01 c.3.1.2,d.16.1.5 98426,98427 1i36A 264 6.50e+01 a.100.1.8,c.2.1.6 71108,71109 1w7jB 151 6.59e+01 1ty9A 222 6.69e+01 2aq9A 262 6.70e+01 1k87A 669 6.72e+01 a.176.1.1,c.1.23.2 77286,77287 1gpjA 404 6.75e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1ytvA 366 6.82e+01 1qb2A 109 6.87e+01 1qb2A a.36.1.1 17125 2fldA 165 6.87e+01 1nt2A 210 6.90e+01 c.66.1.3 86149 1nz6A 101 6.99e+01 a.2.3.1 86441 1v54A 514 7.00e+01 f.24.1.1 100321 1pyoB 105 7.09e+01 1mvcA 240 7.21e+01 a.123.1.1 79499 1vkeA 133 7.23e+01 a.152.1.2 108650 2bo4A 397 7.26e+01 1pl5A 142 7.42e+01 h.1.23.1 104186 1knqA 175 7.42e+01 c.37.1.17 72786 1u61A 138 7.42e+01 a.149.1.1 107696 1e4iA 447 7.49e+01 1e70M c.1.8.4 59225 1zybA 232 7.51e+01 1gqaA 130 7.52e+01 a.24.3.2 76275 2absA 383 7.55e+01 1n83A 270 7.55e+01 a.123.1.1 80276 1k3xA 262 7.65e+01 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 2bl2A 156 7.70e+01 1lk5A 229 7.73e+01 c.124.1.4,d.58.40.1 73960,73961 1rxdA 159 7.82e+01 1dvoA 152 7.85e+01 1dvoA a.136.1.1 19623 1t5oA 351 7.86e+01 c.124.1.5 106459 1gwuA 309 7.86e+01 a.93.1.1 83351 1my6A 199 7.88e+01 a.2.11.1,d.44.1.1 85232,85233 2cw9A 194 7.98e+01 1avsA 90 7.99e+01 1cll a.39.1.5 17226 1bdb 277 8.03e+01 1bdb c.2.1.2 29874 1ehyA 294 8.08e+01 1ehyA c.69.1.11 34693 1pl4A 198 8.10e+01 a.2.11.1,d.44.1.1 94854,94855 1pa2A 306 8.13e+01 1bgp a.93.1.1 18693 1cxc 124 8.15e+01 1ycc a.3.1.1 15890 1gk9B 557 8.19e+01 1csn 298 8.31e+01 1csn d.144.1.7 41664 2cruA 118 8.34e+01 2ex4A 241 8.38e+01 1gvhA 396 8.45e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1umwA 237 8.51e+01 d.223.1.2,d.223.1.2 99631,99632 1omrA 201 8.52e+01 a.39.1.5 93349 1kkhA 317 8.55e+01 d.14.1.5,d.58.26.3 72645,72646 2fmpA 335 8.57e+01 2ffeA 311 8.59e+01 1rq6A 62 8.69e+01 2fa8A 105 8.69e+01 1qgdA 662 8.74e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1mvfD 82 8.74e+01 b.129.1.1 85143 1np3A 338 8.82e+01 a.100.1.2,c.2.1.6 85946,85947 1ugpB 226 8.83e+01 b.34.4.4 107832 1f0yA 302 8.87e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1gvnA 90 8.90e+01 a.8.2.1 76353 1hn0A 1021 8.93e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1pjxA 314 8.95e+01 b.68.6.1 104167 1iruK 201 8.95e+01 d.153.1.4 71362