# 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 2.60e-01 3seb b.40.2.2,d.15.6.1 59140,59141 1m93A 55 8.99e-01 e.1.1.1 91235 1sqsA 242 1.13e+00 c.23.5.5 98968 1repC 251 1.50e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1y96B 85 1.53e+00 2fclA 169 1.87e+00 2afbA 351 2.70e+00 1iz5A 249 2.72e+00 d.131.1.2,d.131.1.2 83834,83835 1ockA 412 2.80e+00 c.117.1.1 86802 1xewY 172 2.98e+00 2bg5A 324 3.38e+00 1c52 131 3.59e+00 1c52 a.3.1.1 15810 2rslA 140 4.10e+00 2rslA c.53.1.1 33345 1k38A 254 4.40e+00 e.3.1.1 84303 1yiyA 429 5.36e+00 1xn5A 146 5.46e+00 1e4mM 501 5.74e+00 1e70M c.1.8.4 59226 1hqz1 141 5.87e+00 1vr7A 142 5.89e+00 1of8A 370 6.49e+00 c.1.10.4 92819 2cxcA 144 6.88e+00 1sr4B 261 7.51e+00 d.151.1.1 105949 2fgtA 417 7.98e+00 1fl2A 310 8.02e+00 1hyuA c.3.1.5,c.3.1.5 59869,59870 1qi9A 556 8.02e+00 1qhbA a.111.1.2 19053 1fhgA 154 9.11e+00 1tlk b.1.1.4 21706 2fkcA 247 1.03e+01 1d2oA 187 1.04e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1wmhB 86 1.05e+01 2g9iA 249 1.12e+01 1e9rA 437 1.13e+01 c.37.1.11 64827 2amhA 207 1.19e+01 1rfeA 162 1.20e+01 2gmqA 118 1.22e+01 1quqB 121 1.25e+01 1quqB b.40.4.3 25305 1wcdJ 441 1.36e+01 1s55A 156 1.36e+01 1uekA 275 1.37e+01 d.14.1.5,d.58.26.5 88483,88484 1bia 321 1.38e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1tt8A 164 1.42e+01 1c7qA 445 1.52e+01 2pgi c.80.1.2 35307 1ft5A 211 1.54e+01 1bvb a.138.1.3 19681 1m4jA 142 1.55e+01 d.109.1.2 78602 2g5dA 422 1.58e+01 1h72C 296 1.60e+01 d.14.1.5,d.58.26.1 60712,60713 1qhlA 227 1.61e+01 1qhlA c.37.1.12 32382 1kqpA 271 1.66e+01 c.26.2.1 72883 1wouA 123 1.66e+01 c.47.1.16 109471 1b25A 619 1.74e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1vjpA 394 1.77e+01 c.2.1.3,d.81.1.3 100828,100829 2b7eA 59 1.77e+01 2gh1A 301 1.80e+01 1nf3C 128 1.82e+01 b.36.1.1 85596 1jfbA 404 1.84e+01 a.104.1.1 66624 1ve0A 134 1.90e+01 2aefA 234 1.92e+01 1w2iA 91 1.98e+01 d.58.10.1 109127 1zhrA 238 2.04e+01 1wrjA 156 2.08e+01 1v0lA 313 2.10e+01 c.1.8.3 108207 1yizA 429 2.11e+01 1ex0A 731 2.12e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1luzA 88 2.13e+01 b.40.4.5 74271 1o1zA 234 2.16e+01 c.1.18.3 86555 1wspA 84 2.19e+01 2culA 232 2.19e+01 1no5A 114 2.21e+01 d.218.1.5 92014 1te7A 103 2.27e+01 1juvA 193 2.29e+01 c.71.1.1 90912 1id0A 152 2.30e+01 d.122.1.3 66111 1o9gA 250 2.36e+01 c.66.1.29 86692 1qlmA 316 2.40e+01 1qlmA d.147.1.1 41765 1cojA 212 2.48e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1ep3B 262 2.48e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1nu4A 97 2.50e+01 d.58.7.1 80731 1wmhA 89 2.51e+01 1qopB 396 2.53e+01 2tysB c.79.1.1 35270 2dfkA 402 2.54e+01 1gd1O 334 2.56e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1vcvA 226 2.65e+01 1n8kA 374 2.70e+01 b.35.1.2,c.2.1.1 80298,80299 2d9rA 104 2.75e+01 1jhsA 188 2.75e+01 d.107.1.1 84172 1eceA 358 2.75e+01 1eceA c.1.8.3 28813 1bby 69 2.76e+01 2bby a.4.5.15 16149 2aq4A 434 2.83e+01 1woqA 267 2.84e+01 c.55.1.10,c.55.1.10 109462,109463 2awpA 198 2.85e+01 2g6tA 306 2.86e+01 1xfcA 384 2.90e+01 1nijA 318 2.92e+01 c.37.1.10,d.237.1.1 85741,85742 1vkuA 100 2.95e+01 a.28.1.1 108690 1mo9A 523 3.01e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 2etxA 209 3.01e+01 1bdfA 235 3.02e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1cby 259 3.12e+01 1cby d.103.1.1 40705 1rh9A 373 3.15e+01 1xtoA 311 3.18e+01 2a15A 139 3.22e+01 1enwA 114 3.23e+01 1enwA a.5.4.1 16291 1vddA 228 3.23e+01 e.49.1.1 108519 1sq9A 397 3.27e+01 b.69.4.1 105889 1d1gA 168 3.28e+01 1d1gA c.71.1.1 34889 1vicA 262 3.28e+01 c.68.1.13 100756 2gfgA 193 3.28e+01 1x74A 360 3.29e+01 1pbjA 125 3.30e+01 d.37.1.1,d.37.1.1 94414,94415 1ma3A 253 3.33e+01 c.31.1.5 78883 1hdoA 206 3.36e+01 1he2A c.2.1.2 60965 1vr4A 103 3.39e+01 1xttA 216 3.39e+01 1h7zA 194 3.40e+01 1qhvA b.21.1.1 60733 1toaA 313 3.42e+01 1toaA c.92.2.2 35598 1r6jA 82 3.47e+01 b.36.1.1 97151 1tiqA 180 3.48e+01 d.108.1.1 107010 2aioA 269 3.52e+01 1vbvA 105 3.61e+01 1ny4A 82 3.62e+01 b.40.4.5 92316 1qx4A 274 3.64e+01 b.43.4.2,c.25.1.1 104624,104625 1wluA 136 3.65e+01 1ri5A 298 3.71e+01 c.66.1.34 97502 1o0yA 260 3.75e+01 c.1.10.1 80756 1ve6A 582 3.77e+01 1wlyA 333 3.79e+01 1fzqA 181 3.80e+01 1hurA c.37.1.8 32060 1duvG 333 3.87e+01 1othA c.78.1.1,c.78.1.1 35228,35229 1kjwA 295 3.88e+01 b.34.2.1,c.37.1.1 68643,68644 1udc 338 3.99e+01 1xel c.2.1.2 29785 2gw6A 123 4.06e+01 1o58A 303 4.08e+01 c.79.1.1 92491 1sn4A 64 4.10e+01 1aho g.3.7.1 44136 2hvm 273 4.11e+01 1cnv c.1.8.5 28985 2bo4A 397 4.15e+01 1i8fA 81 4.18e+01 1i8fA b.38.1.1 61959 1exg 110 4.18e+01 1exg b.2.2.1 22387 1wu3I 161 4.22e+01 1f2tB 148 4.27e+01 1f2tB 1j1yA 136 4.27e+01 d.38.1.5 90776 1jy1A 464 4.30e+01 d.136.1.3,d.136.1.3 67438,67439 1ri6A 343 4.31e+01 b.69.11.1 97503 1dkuA 317 4.33e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1wyxA 69 4.36e+01 1s0pA 176 4.46e+01 a.192.1.1 98300 1hm9A 468 4.48e+01 b.81.1.4,c.68.1.5 65866,65867 1qg8A 255 4.52e+01 1qg8A c.68.1.1 34505 1z52A 470 4.56e+01 1pyfA 312 4.62e+01 c.1.7.1 95334 1t0hA 132 4.64e+01 b.34.2.1 106207 1wkqA 164 4.66e+01 c.97.1.2 109393 8rucI 123 4.69e+01 1rboC d.73.1.1 39629 1ydmA 187 4.70e+01 1w9zA 283 4.73e+01 1ydyA 356 4.74e+01 1s50A 259 4.76e+01 1ej6D 418 4.80e+01 i.7.1.1 45970 1ip9A 85 4.89e+01 1ip9A d.15.2.2 62638 1e0tA 470 4.92e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1xcbA 211 4.96e+01 a.4.5.38,c.2.1.12 109552,109553 1f9vA 347 5.08e+01 1bg2 c.37.1.9 59745 1ur1A 378 5.10e+01 c.1.8.3 99804 1vqoI 162 5.13e+01 1uwzA 136 5.19e+01 c.97.1.1 108081 1zc1A 208 5.21e+01 1bg6 359 5.24e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1ylqA 96 5.25e+01 1u46A 291 5.33e+01 d.144.1.7 107656 1k0fA 277 5.34e+01 c.92.2.2 71974 1ll2A 333 5.39e+01 c.68.1.14 74005 1xvqA 175 5.45e+01 1g291 372 5.61e+01 1g291 1vhxA 150 5.63e+01 c.55.3.8 100712 2fh7A 595 5.64e+01 1vphA 149 5.66e+01 1zpvA 91 5.86e+01 1xdpA 687 5.87e+01 1z4rA 168 5.89e+01 3seb 238 5.98e+01 3seb b.40.2.2,d.15.6.1 25184,37773 2akoA 251 6.11e+01 1vfsA 386 6.13e+01 b.49.2.2,c.1.6.1 108584,108585 1omzA 293 6.15e+01 c.68.1.15 87093 1ej0A 180 6.16e+01 1ej0A c.66.1.2 34179 1cfr 285 6.17e+01 1cfr c.52.1.7 33312 1o98A 511 6.24e+01 c.105.1.1,c.76.1.3 86684,86685 1qysA 106 6.25e+01 k.41.1.1 96603 1p42A 270 6.28e+01 d.14.1.7,d.14.1.7 87754,87755 1zp4A 304 6.29e+01 1zpsA 138 6.33e+01 1mk0A 97 6.34e+01 d.226.1.1 79216 2frnA 278 6.39e+01 1yg6A 193 6.39e+01 1gyxA 76 6.47e+01 d.80.1.1 76387 1bn8A 420 6.52e+01 1pcl b.80.1.1 28022 1azo 232 6.58e+01 1azo c.52.1.14 33329 2ab5A 269 6.66e+01 1yy7A 213 6.70e+01 1vhh 162 6.73e+01 1vhh d.65.1.2 39550 2dddA 225 6.73e+01 1yr2A 741 6.74e+01 1ta3B 303 6.74e+01 c.1.8.3 106732 1xkrA 206 6.80e+01 2cygA 312 6.88e+01 1vqoN 187 6.89e+01 1pvtA 238 6.90e+01 c.74.1.1 95189 1xubA 298 6.90e+01 1uc7A 125 6.95e+01 c.47.1.1 99163 2d1pA 140 6.97e+01 1d4tA 104 6.98e+01 1d4tA d.93.1.1 40537 1bueA 265 6.99e+01 1btl e.3.1.1 42727 2bpa1 426 7.09e+01 2bpa1 1gadO 330 7.10e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 2f5gA 133 7.11e+01 1u9cA 224 7.13e+01 1kwiA 101 7.18e+01 d.17.1.3 77564 1kshA 186 7.18e+01 c.37.1.8 72914 1wojA 214 7.25e+01 1i6lA 328 7.25e+01 c.26.1.1 66041 1sek 378 7.37e+01 1sek e.1.1.1 42675 1a53 247 7.42e+01 1a53 c.1.2.4 28564 1n8jA 186 7.48e+01 c.47.1.10 85401 2bbkL 125 7.52e+01 2bbkL g.21.1.1 44882 1fg7A 356 7.52e+01 1gewA c.67.1.1 59819 1gycA 499 7.60e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 2gvkA 317 7.67e+01 1u3wA 374 7.75e+01 2ajuL 216 7.77e+01 2bw3A 534 7.89e+01 1x8dA 104 7.90e+01 1s6lA 212 7.92e+01 1a99A 344 7.94e+01 1pot c.94.1.1 35812 2fn0A 437 7.95e+01 1qavA 90 8.07e+01 1qauA b.36.1.1 24777 1m7vA 363 8.09e+01 d.174.1.1 78748 1vp2A 208 8.11e+01 1r31A 428 8.16e+01 d.58.20.1,d.179.1.1 96897,96898 1kk8B 139 8.22e+01 a.39.1.5 77430 1j1vA 94 8.26e+01 a.4.12.2 83981 1wqaA 455 8.31e+01 2bwfA 77 8.31e+01 1qlwA 328 8.36e+01 1qlwA c.69.1.15 34722 1t0aA 159 8.42e+01 1b6g 310 8.44e+01 1b6g c.69.1.8 34661 5nul 138 8.53e+01 5nul c.23.5.1 31191 2gzqA 200 8.54e+01 1gqzA 274 8.54e+01 d.21.1.1,d.21.1.1 83311,83312 1k77A 260 8.67e+01 c.1.15.5 72096 2f6hX 419 8.71e+01 1m12A 84 8.76e+01 a.64.1.1 84745 1h8uA 117 8.76e+01 1h8uA d.169.1.1 60793 1k7kA 221 8.81e+01 c.51.4.1 72104