# 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 1dyqA 234 2.33e-01 3seb b.40.2.2,d.15.6.1 59140,59141 1m93A 55 6.47e-01 e.1.1.1 91235 1sqsA 242 9.03e-01 c.23.5.5 98968 1repC 251 1.11e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1y96B 85 1.41e+00 2fclA 169 1.94e+00 1xewY 172 1.96e+00 2afbA 351 2.03e+00 2bg5A 324 2.33e+00 1ockA 412 2.66e+00 c.117.1.1 86802 1c52 131 2.70e+00 1c52 a.3.1.1 15810 1iz5A 249 2.77e+00 d.131.1.2,d.131.1.2 83834,83835 1k38A 254 3.61e+00 e.3.1.1 84303 2rslA 140 3.73e+00 2rslA c.53.1.1 33345 1hqz1 141 3.95e+00 1yiyA 429 4.30e+00 1e9rA 437 4.96e+00 c.37.1.11 64827 1vr7A 142 4.98e+00 1xn5A 146 5.00e+00 1e4mM 501 5.33e+00 1e70M c.1.8.4 59226 2cxcA 144 5.58e+00 2fgtA 417 5.78e+00 1s55A 156 6.58e+00 1h72C 296 7.28e+00 d.14.1.5,d.58.26.1 60712,60713 1qi9A 556 7.31e+00 1qhbA a.111.1.2 19053 1fhgA 154 7.39e+00 1tlk b.1.1.4 21706 1tt8A 164 7.67e+00 2fkcA 247 8.44e+00 1wmhB 86 8.98e+00 2g9iA 249 9.87e+00 2amhA 207 9.87e+00 1d2oA 187 1.06e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1bia 321 1.12e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1vjpA 394 1.17e+01 c.2.1.3,d.81.1.3 100828,100829 1sr4B 261 1.19e+01 d.151.1.1 105949 1of8A 370 1.24e+01 c.1.10.4 92819 1ft5A 211 1.29e+01 1bvb a.138.1.3 19681 1uekA 275 1.29e+01 d.14.1.5,d.58.26.5 88483,88484 2g5dA 422 1.32e+01 1nf3C 128 1.33e+01 b.36.1.1 85596 1kqpA 271 1.35e+01 c.26.2.1 72883 1quqB 121 1.36e+01 1quqB b.40.4.3 25305 1rfeA 162 1.37e+01 1c7qA 445 1.37e+01 2pgi c.80.1.2 35307 1qhlA 227 1.39e+01 1qhlA c.37.1.12 32382 2b7eA 59 1.43e+01 1b25A 619 1.44e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1wouA 123 1.45e+01 c.47.1.16 109471 1ve0A 134 1.46e+01 1wcdJ 441 1.46e+01 1zhrA 238 1.57e+01 2aefA 234 1.57e+01 2gmqA 118 1.59e+01 2gh1A 301 1.60e+01 2culA 232 1.67e+01 1v0lA 313 1.69e+01 c.1.8.3 108207 1jfbA 404 1.69e+01 a.104.1.1 66624 1yizA 429 1.70e+01 1wrjA 156 1.72e+01 1qlmA 316 1.76e+01 1qlmA d.147.1.1 41765 1no5A 114 1.77e+01 d.218.1.5 92014 1luzA 88 1.84e+01 b.40.4.5 74271 1qopB 396 2.05e+01 2tysB c.79.1.1 35270 1o1zA 234 2.06e+01 c.1.18.3 86555 1vkuA 100 2.10e+01 a.28.1.1 108690 1woqA 267 2.14e+01 c.55.1.10,c.55.1.10 109462,109463 1te7A 103 2.16e+01 2dfkA 402 2.17e+01 1wmhA 89 2.18e+01 1m4jA 142 2.18e+01 d.109.1.2 78602 2aq4A 434 2.24e+01 1nu4A 97 2.26e+01 d.58.7.1 80731 1vcvA 226 2.27e+01 2d9rA 104 2.30e+01 1cojA 212 2.31e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1n8kA 374 2.32e+01 b.35.1.2,c.2.1.1 80298,80299 1r6jA 82 2.36e+01 b.36.1.1 97151 2etxA 209 2.36e+01 1jhsA 188 2.37e+01 d.107.1.1 84172 1juvA 193 2.38e+01 c.71.1.1 90912 1id0A 152 2.40e+01 d.122.1.3 66111 1toaA 313 2.41e+01 1toaA c.92.2.2 35598 1x74A 360 2.42e+01 1o9gA 250 2.43e+01 c.66.1.29 86692 1bby 69 2.43e+01 2bby a.4.5.15 16149 1ep3B 262 2.54e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 2g6tA 306 2.54e+01 1xtoA 311 2.55e+01 1xfcA 384 2.58e+01 1ny4A 82 2.62e+01 b.40.4.5 92316 2gw6A 123 2.63e+01 2a15A 139 2.65e+01 2gfgA 193 2.69e+01 1h7zA 194 2.74e+01 1qhvA b.21.1.1 60733 1enwA 114 2.77e+01 1enwA a.5.4.1 16291 1d1gA 168 2.79e+01 1d1gA c.71.1.1 34889 1tiqA 180 2.84e+01 d.108.1.1 107010 1vddA 228 2.88e+01 e.49.1.1 108519 1vicA 262 2.88e+01 c.68.1.13 100756 1wspA 84 2.89e+01 1cby 259 2.95e+01 1cby d.103.1.1 40705 1z52A 470 2.97e+01 1rh9A 373 3.00e+01 1eceA 358 3.05e+01 1eceA c.1.8.3 28813 1wlyA 333 3.07e+01 1ma3A 253 3.15e+01 c.31.1.5 78883 1hdoA 206 3.16e+01 1he2A c.2.1.2 60965 1ri5A 298 3.20e+01 c.66.1.34 97502 1sn4A 64 3.20e+01 1aho g.3.7.1 44136 1i8fA 81 3.21e+01 1i8fA b.38.1.1 61959 1bdfA 235 3.24e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1pbjA 125 3.24e+01 d.37.1.1,d.37.1.1 94414,94415 1duvG 333 3.25e+01 1othA c.78.1.1,c.78.1.1 35228,35229 1wluA 136 3.26e+01 1udc 338 3.26e+01 1xel c.2.1.2 29785 1wu3I 161 3.28e+01 1o0yA 260 3.30e+01 c.1.10.1 80756 1sq9A 397 3.41e+01 b.69.4.1 105889 1gd1O 334 3.47e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 2bo4A 397 3.50e+01 1e0tA 470 3.60e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1fzqA 181 3.62e+01 1hurA c.37.1.8 32060 1dkuA 317 3.62e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 2hvm 273 3.62e+01 1cnv c.1.8.5 28985 1xvqA 175 3.65e+01 1jy1A 464 3.73e+01 d.136.1.3,d.136.1.3 67438,67439 1h09A 338 3.73e+01 b.109.1.1,c.1.8.8 83420,83421 1ip9A 85 3.76e+01 1ip9A d.15.2.2 62638 1xcbA 211 3.78e+01 a.4.5.38,c.2.1.12 109552,109553 1wyxA 69 3.80e+01 2awpA 198 3.82e+01 1s0pA 176 3.83e+01 a.192.1.1 98300 1pyfA 312 3.83e+01 c.1.7.1 95334 1fl2A 310 3.85e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1uwzA 136 3.90e+01 c.97.1.1 108081 1vfsA 386 3.99e+01 b.49.2.2,c.1.6.1 108584,108585 1ve6A 582 3.99e+01 1hm9A 468 4.00e+01 b.81.1.4,c.68.1.5 65866,65867 1k0fA 277 4.06e+01 c.92.2.2 71974 1ydmA 187 4.07e+01 1f2tB 148 4.08e+01 1f2tB 1j1yA 136 4.08e+01 d.38.1.5 90776 1ydyA 356 4.13e+01 1ej6D 418 4.13e+01 i.7.1.1 45970 1kjwA 295 4.14e+01 b.34.2.1,c.37.1.1 68643,68644 1bg6 359 4.20e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 2c7hA 86 4.21e+01 1ur1A 378 4.21e+01 c.1.8.3 99804 1qg8A 255 4.24e+01 1qg8A c.68.1.1 34505 1u46A 291 4.27e+01 d.144.1.7 107656 1zc1A 208 4.38e+01 1s50A 259 4.40e+01 1qx4A 274 4.40e+01 b.43.4.2,c.25.1.1 104624,104625 1ylqA 96 4.52e+01 1f9vA 347 4.67e+01 1bg2 c.37.1.9 59745 1xdpA 687 4.71e+01 1ll2A 333 4.71e+01 c.68.1.14 74005 1vr4A 103 4.79e+01 3seb 238 4.84e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1zpvA 91 4.90e+01 1yr2A 741 5.07e+01 1zpsA 138 5.09e+01 8rucI 123 5.10e+01 1rboC d.73.1.1 39629 1gyxA 76 5.10e+01 d.80.1.1 76387 1vqoI 162 5.17e+01 1z4rA 168 5.17e+01 1g291 372 5.18e+01 1g291 1wqaA 455 5.23e+01 1k7jA 206 5.24e+01 d.115.1.1 72103 2asbA 251 5.27e+01 1vphA 149 5.34e+01 1mk0A 97 5.34e+01 d.226.1.1 79216 2f5gA 133 5.36e+01 1cfr 285 5.38e+01 1cfr c.52.1.7 33312 1o98A 511 5.41e+01 c.105.1.1,c.76.1.3 86684,86685 1vhxA 150 5.42e+01 c.55.3.8 100712 2dddA 225 5.47e+01 2akoA 251 5.51e+01 1wkqA 164 5.52e+01 c.97.1.2 109393 1t0aA 159 5.53e+01 1yg6A 193 5.57e+01 1qlwA 328 5.57e+01 1qlwA c.69.1.15 34722 1p42A 270 5.66e+01 d.14.1.7,d.14.1.7 87754,87755 1zp4A 304 5.71e+01 1qysA 106 5.71e+01 k.41.1.1 96603 1o58A 303 5.73e+01 c.79.1.1 92491 1bn8A 420 5.79e+01 1pcl b.80.1.1 28022 2d1pA 140 5.82e+01 1vhh 162 5.85e+01 1vhh d.65.1.2 39550 1uc7A 125 5.92e+01 c.47.1.1 99163 2fn0A 437 5.98e+01 2frnA 278 5.99e+01 1ta3B 303 6.10e+01 c.1.8.3 106732 1mo9A 523 6.15e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1wojA 214 6.15e+01 1vp2A 208 6.17e+01 1d4tA 104 6.20e+01 1d4tA d.93.1.1 40537 2cygA 312 6.27e+01 1kwiA 101 6.33e+01 d.17.1.3 77564 1gadO 330 6.35e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 1sek 378 6.42e+01 1sek e.1.1.1 42675 1vqoN 187 6.44e+01 1xubA 298 6.46e+01 1bueA 265 6.58e+01 1btl e.3.1.1 42727 2ab5A 269 6.62e+01 2fh7A 595 6.65e+01 1ys4A 354 6.67e+01 1di2A 69 6.69e+01 1di2A d.50.1.1 38780 1omzA 293 6.75e+01 c.68.1.15 87093 1u3wA 374 6.84e+01 1aohA 147 6.87e+01 1aohA b.2.2.2 22401 2gvkA 317 6.87e+01 1kk8B 139 6.92e+01 a.39.1.5 77430 1n8jA 186 6.92e+01 c.47.1.10 85401 1j1vA 94 7.26e+01 a.4.12.2 83981 5nul 138 7.38e+01 5nul c.23.5.1 31191 2f6hX 419 7.41e+01 1fg7A 356 7.41e+01 1gewA c.67.1.1 59819 2bw3A 534 7.51e+01 1gqzA 274 7.52e+01 d.21.1.1,d.21.1.1 83311,83312 1a8q 274 7.55e+01 1brt c.69.1.12 34702 2g50A 530 7.56e+01 1e9gA 286 7.60e+01 1wgjA b.40.5.1 59393 1xreA 217 7.66e+01 1nijA 318 7.68e+01 c.37.1.10,d.237.1.1 85741,85742 1m12A 84 7.69e+01 a.64.1.1 84745 1regX 122 7.73e+01 1regX d.58.27.1 39406 1ex0A 731 7.75e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1x8dA 104 7.76e+01 1avqA 228 7.76e+01 1avqA c.52.1.13 33326 1i6lA 328 7.83e+01 c.26.1.1 66041 1t0hA 132 7.85e+01 b.34.2.1 106207 1xkrA 206 7.91e+01 1tdzA 272 7.91e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1k77A 260 7.94e+01 c.1.15.5 72096 1lba 146 7.96e+01 1lba d.118.1.1 41062 2ajuL 216 7.97e+01 1bdmA 327 7.99e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1wwiA 148 8.04e+01 2bwfA 77 8.04e+01 1u9cA 224 8.05e+01 1b6g 310 8.09e+01 1b6g c.69.1.8 34661 1gycA 499 8.20e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1a99A 344 8.22e+01 1pot c.94.1.1 35812 1vbvA 105 8.26e+01 1kshA 186 8.31e+01 c.37.1.8 72914 1lq9A 112 8.37e+01 d.58.4.3 78129 2ewcA 126 8.38e+01 1azo 232 8.43e+01 1azo c.52.1.14 33329 1dqzA 280 8.44e+01 1dqyA c.69.1.3 34638 1r31A 428 8.45e+01 d.58.20.1,d.179.1.1 96897,96898 1q8bA 105 8.48e+01 d.58.4.6 96201 1u55A 188 8.54e+01 d.278.1.1 107677 1x6mA 196 8.72e+01 1s29A 92 8.72e+01 a.4.5.46 98373 2c78A 405 8.75e+01 1qavA 90 8.77e+01 1qauA b.36.1.1 24777 2atrA 138 8.84e+01 1hruA 188 8.88e+01 1hruA d.115.1.1 40926 1ob8A 135 8.89e+01 1k7hA 476 8.90e+01 c.76.1.1 72101