# List of top-scoring protein chains for t04-100-30-CB_burial_14_7-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.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 1ir6A 424 2.49e-25 c.107.1.2 71342 1i74A 309 2.83e-21 1i74A c.107.1.1 61867 1k20A 310 1.99e-20 c.107.1.1 68027 1wpnA 188 2.14e-20 c.107.1.1 114826 2eb0A 307 4.79e-20 2qb7A 397 6.13e-13 2p1gA 249 4.75e-01 2v7pA 310 7.37e-01 2aeuA 374 7.95e-01 c.67.1.8 126646 1u2eA 289 1.11e+00 2hd1A 326 1.15e+00 a.211.1.2 136338 1i24A 404 1.25e+00 c.2.1.2 83663 1i2cA 404 1.26e+00 c.2.1.2 83666 1qrrA 394 1.28e+00 1qrrA c.2.1.2 29824 2i8lA 156 1.49e+00 2j4jA 226 1.53e+00 1va4A 279 2.44e+00 c.69.1.12 108458 1brt 277 2.92e+00 1brt 1brtA 277 2.92e+00 c.69.1.12 34699 2pia 321 2.93e+00 2pia 2piaA 321 2.93e+00 b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 2vouA 397 3.13e+00 2e18A 257 3.43e+00 1bxkA 355 3.64e+00 1bxkA c.2.1.2 29803 2iacA 142 3.99e+00 1e6uA 321 4.16e+00 1bsvA c.2.1.2 29805 1ujqA 305 4.30e+00 c.1.12.7 99463 1uxjA 309 4.49e+00 c.2.1.5,d.162.1.1 108112,108113 1ur5A 309 4.74e+00 c.2.1.5,d.162.1.1 99807,99808 2q0xA 335 4.80e+00 3cs3A 277 4.85e+00 2e85A 159 4.87e+00 1d7yA 408 4.87e+00 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 2yysA 286 4.90e+00 1upkA 341 5.07e+00 a.118.1.15 99758 1e7rA 321 5.36e+00 1bsvA c.2.1.2 29808 2o8nA 265 5.40e+00 3bedA 142 5.42e+00 1p5jA 372 5.45e+00 c.79.1.1 104067 1h4pA 408 5.50e+00 c.1.8.3 90617 2gqwA 408 5.97e+00 1reoA 486 6.32e+00 c.3.1.2,d.16.1.5 97325,97326 1ez4A 318 6.42e+00 c.2.1.5,d.162.1.1 64917,64918 1guzA 310 6.99e+00 c.2.1.5,d.162.1.1 65586,65587 3bblA 287 7.09e+00 1pwhA 327 7.12e+00 c.79.1.1 95224 2e5fA 325 7.30e+00 1mumA 295 7.44e+00 c.1.12.7 85108 3c3pA 210 7.71e+00 3bilA 348 7.72e+00 1pq4A 291 7.92e+00 c.92.2.2 94995 6ldhA 329 7.94e+00 c.2.1.5,d.162.1.1 30161,42128 2z6iA 332 7.94e+00 2dplA 308 8.26e+00 1vbiA 344 8.30e+00 2df8A 325 8.44e+00 1r4wA 226 8.53e+00 c.47.1.13 97050 2o6pA 161 8.55e+00 2iyfA 430 9.20e+00 2fn9A 290 9.24e+00 2z1mA 345 9.40e+00 2ay1A 394 9.42e+00 1ajsA c.67.1.1 34357 1rvgA 305 9.42e+00 c.1.10.2 97920 2gzmA 267 9.47e+00 2oblA 347 9.60e+00 1c4oA 664 1.04e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1twlA 186 1.04e+01 b.40.5.1 112764 2ejaA 338 1.05e+01 1eq2A 310 1.05e+01 1eq2A c.2.1.2 29814 2q3bA 313 1.10e+01 1sbp 310 1.11e+01 1sbp 1sbpA 310 1.11e+01 c.94.1.1 35760 1q0rA 298 1.15e+01 c.69.1.28 95508 2brxA 244 1.15e+01 c.73.1.3 129028 1jztA 246 1.17e+01 c.104.1.1 63319 2p90A 319 1.22e+01 3d1cA 369 1.24e+01 1eqcA 394 1.27e+01 1cz1A c.1.8.3 28811 3cox 507 1.30e+01 1b8sA 3coxA 507 1.30e+01 c.3.1.2,d.16.1.1 30332,37863 1c0pA 363 1.32e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 2qruA 274 1.33e+01 1p3dA 475 1.34e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1d4oA 184 1.35e+01 1d4oA c.31.1.4 31748 2v8oA 444 1.38e+01 1ovaA 386 1.38e+01 1ovaA e.1.1.1 42619 1lldA 319 1.40e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1broA 277 1.43e+01 1brt c.69.1.12 34700 1qhlA 227 1.48e+01 1qhlA c.37.1.12 32382 1qqsA 174 1.48e+01 1nglA b.60.1.1 27143 1e6wA 260 1.50e+01 1e6wA c.2.1.2 59326 2ozpA 345 1.53e+01 1uhgA 385 1.57e+01 e.1.1.1 88491 1sg6A 393 1.58e+01 e.22.1.1 105522 1b74A 254 1.61e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1f8rA 498 1.61e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 2oocA 113 1.62e+01 2dwuA 276 1.63e+01 1zjjA 263 1.67e+01 1hkhA 279 1.67e+01 c.69.1.12 90628 1jmkC 230 1.69e+01 c.69.1.22 71747 1z5vA 474 1.70e+01 1toaA 313 1.77e+01 1toaA c.92.2.2 35598 2cb9A 244 1.79e+01 3cc8A 230 1.80e+01 2o2yA 349 1.82e+01 c.2.1.2 138894 1vjrA 271 1.83e+01 c.108.1.14 100832 1vj7A 393 1.84e+01 a.211.1.1,d.218.1.8 100801,100802 1qtrA 317 1.97e+01 1qtrA c.69.1.7 34660 2oosA 338 1.99e+01 2nq5A 755 2.02e+01 2qk1A 249 2.02e+01 2acvA 463 2.09e+01 2iidA 498 2.20e+01 c.3.1.2,d.16.1.5 137426,137427 1wakA 397 2.21e+01 1fcdA 401 2.22e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1zetA 388 2.29e+01 d.240.1.1,e.8.1.7 124997,124998 1svdA 473 2.32e+01 c.1.14.1,d.58.9.1 119057,119058 1x7gA 261 2.34e+01 c.2.1.2 114929 1q7gA 359 2.36e+01 c.2.1.3,d.81.1.2 96038,96039 1eny 268 2.37e+01 1eny 2pc8A 400 2.41e+01 1x89A 178 2.42e+01 b.60.1.1 121799 1yqzA 438 2.47e+01 1xvlA 321 2.48e+01 c.92.2.2 122380 2cb0A 333 2.51e+01 1wm1A 317 2.51e+01 c.69.1.7 109405 2h7mA 269 2.52e+01 c.2.1.2 136219 2oo6A 409 2.52e+01 1xg4A 295 2.56e+01 1xdiA 499 2.57e+01 c.3.1.5,d.87.1.1 115160,115161 2au3A 407 2.59e+01 1kdgA 546 2.60e+01 c.3.1.2,d.16.1.1 77337,77338 2p0lA 288 2.61e+01 1a5zA 319 2.61e+01 c.2.1.5,d.162.1.1 30181,42148 2q8nA 460 2.62e+01 1c4xA 285 2.70e+01 1c4xA c.69.1.10 34684 1o4vA 183 2.71e+01 c.23.8.1 86628 1rpnA 335 2.77e+01 c.2.1.2 97708 1j97A 211 2.79e+01 1f5sA c.108.1.4 62753 1azwA 313 2.79e+01 1qtrA c.69.1.7 34658 2a9gA 418 2.80e+01 d.126.1.4 126435 2a5dA 175 2.87e+01 c.37.1.8 126172 2dchX 216 2.87e+01 1l7mA 211 2.88e+01 c.108.1.4 73664 1m4lA 307 2.89e+01 c.56.5.1 78604 2qjcA 262 2.90e+01 1sfxA 109 2.95e+01 a.4.5.50 105505 1dqsA 393 3.07e+01 1dqsA e.22.1.1 43347 2cz9A 350 3.12e+01 3c24A 286 3.12e+01 1wy5A 317 3.14e+01 c.26.2.5,d.229.1.1 121428,121429 2ppyA 265 3.20e+01 1l3iA 192 3.21e+01 c.66.1.22 77676 1uh5A 329 3.23e+01 c.2.1.2 107840 1q1aA 289 3.30e+01 c.31.1.5 95561 2ixdA 242 3.32e+01 2i0oA 304 3.34e+01 1ve3A 227 3.35e+01 c.66.1.43 120010 1gy8A 397 3.37e+01 c.2.1.2 83376 2dejA 350 3.39e+01 2ihiA 395 3.41e+01 1pszA 303 3.46e+01 1toaA c.92.2.2 35600 8abp 306 3.47e+01 8abp 8abpA 306 3.47e+01 c.93.1.1 35647 2bi7A 384 3.49e+01 1pz1A 333 3.51e+01 c.1.7.1 95390 1wkvA 389 3.53e+01 c.79.1.1 120989 2f6rA 281 3.60e+01 2ozvA 260 3.61e+01 2ctc 307 3.65e+01 1aye 1p7gA 222 3.67e+01 a.2.11.1,d.44.1.1 94223,94224 1pswA 348 3.69e+01 c.87.1.7 88287 1rcb 129 3.74e+01 1rcb 1ma3A 253 3.75e+01 c.31.1.5 78883 1zuwA 272 3.75e+01 1j1bA 420 3.78e+01 d.144.1.7 90758 1nni1 174 3.81e+01 1knwA 425 3.82e+01 b.49.2.3,c.1.6.1 90969,90970 2b9hA 353 3.85e+01 2dbbA 151 3.85e+01 1hziA 129 3.94e+01 1rcb a.26.1.2 61449 1d2rA 326 3.98e+01 1d2rB c.26.1.1 31572 1m6iA 493 4.06e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 2vofA 157 4.08e+01 2abk 211 4.10e+01 2abk 2abkA 211 4.10e+01 a.96.1.1 18743 1ebfA 358 4.10e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 2aqjA 538 4.10e+01 1t5jA 313 4.10e+01 a.209.1.1 99125 2d48A 129 4.15e+01 1qf6A 642 4.17e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 2hmaA 376 4.20e+01 2hzbA 333 4.32e+01 c.143.1.1 136911 2f1rA 171 4.39e+01 2jfzA 255 4.39e+01 1wg8A 285 4.45e+01 a.60.13.1,c.66.1.23 114605,114606 2psdA 318 4.47e+01 2d5cA 263 4.48e+01 1jbwA 428 4.49e+01 c.59.1.2,c.72.2.2 62860,62861 1esoA 154 4.53e+01 b.1.8.1 22293 1dg9A 157 4.55e+01 1dg9A c.44.1.1 32637 1xiuA 230 4.55e+01 1s1mA 545 4.56e+01 c.23.16.1,c.37.1.10 105201,105202 3bn0A 112 4.57e+01 1v9nA 360 4.60e+01 1s2dA 167 4.62e+01 c.23.14.1 98377 1j31A 262 4.63e+01 d.160.1.2 90808 2jbvA 546 4.67e+01 1orrA 347 4.76e+01 c.2.1.2 93460 1vi6A 208 4.77e+01 c.23.15.1 100736 4ts1A 319 4.77e+01 2ts1 c.26.1.1 31565 1xhcA 367 4.80e+01 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1uouA 474 4.86e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 2a4xA 138 4.87e+01 d.32.1.2 126166 2f2lA 167 4.93e+01 d.118.1.1 132843 2p54A 267 5.07e+01 a.123.1.1 139497 1xwwA 157 5.10e+01 2cukA 311 5.12e+01 2cftA 298 5.19e+01 2ioyA 283 5.20e+01 2uxwA 607 5.21e+01 2d1vA 108 5.23e+01 2oi2A 292 5.23e+01 2ogxA 276 5.29e+01 3c18A 290 5.32e+01 1vj0A 380 5.34e+01 b.35.1.2,c.2.1.1 100786,100787 2r0bA 154 5.35e+01 1m6yA 301 5.37e+01 a.60.13.1,c.66.1.23 78716,78717 2zihA 347 5.39e+01 1aquA 297 5.45e+01 1aquA c.37.1.5 31942 2o23A 265 5.46e+01 c.2.1.2 138884 1oc2A 348 5.54e+01 c.2.1.2 92765 1wvgA 359 5.55e+01 c.2.1.2 121339 2q7xA 326 5.55e+01 1zmbA 290 5.58e+01 c.23.10.7 125355 1rkxA 357 5.84e+01 c.2.1.2 97631 1ysqA 193 5.88e+01 1i36A 264 5.91e+01 a.100.1.8,c.2.1.6 71108,71109 1enp 312 5.91e+01 1enp 1kllA 130 5.92e+01 d.32.1.2 72720 1q1rA 431 6.01e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 3bwyA 214 6.02e+01 1mngA 203 6.02e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 2ebn 289 6.03e+01 2ebn 2ebnA 289 6.03e+01 c.1.8.5 28990 1xqwA 293 6.04e+01 1moq 368 6.08e+01 1moq 1moqA 368 6.08e+01 c.80.1.1 35302 1h1dA 221 6.22e+01 c.66.1.1 83452 2alzA 390 6.27e+01 d.240.1.1,e.8.1.7 126994,126995 1cuk 203 6.27e+01 1hjp 1cukA 203 6.27e+01 a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 2cmd 312 6.32e+01 2cmd 2cmdA 312 6.32e+01 c.2.1.5,d.162.1.1 30135,42102 2g5cA 281 6.38e+01 a.100.1.12,c.2.1.6 134646,134647 1v8fA 276 6.42e+01 c.26.1.4 100503 2yx6A 121 6.43e+01 2vq3A 215 6.45e+01 2qsfX 171 6.48e+01 2z83A 459 6.50e+01 1zp2A 235 6.51e+01 1pujA 282 6.54e+01 c.37.1.8 88294 1vid 221 6.56e+01 1vid 1zbmA 280 6.56e+01 c.94.1.1 124858 1fgs 428 6.59e+01 1fgs 1vdmA 153 6.59e+01 c.61.1.1 119994 2vchA 480 6.68e+01 2oycA 306 6.71e+01 2oqzA 223 6.71e+01 b.100.1.1 139255 1uj2A 252 6.73e+01 c.37.1.6 99452 1k47A 337 6.75e+01 d.14.1.5,d.58.26.4 72040,72041 2ex0A 399 6.75e+01 c.87.1.9 132494 1li5A 461 6.80e+01 a.27.1.1,c.26.1.1 73912,73913 2f8mA 244 6.85e+01 1fnsA 196 6.94e+01 1auq c.62.1.1 34136 1u1jA 765 7.01e+01 c.1.22.2,c.1.22.2 107590,107591 1mtzA 293 7.01e+01 c.69.1.7 79467 2f9zC 159 7.02e+01 2capA 376 7.13e+01 1r1dA 247 7.14e+01 c.69.1.29 96813 1t98A 287 7.14e+01 a.4.5.65,a.47.6.1 119196,119197 2ocgA 254 7.18e+01 1txgA 335 7.19e+01 a.100.1.6,c.2.1.6 112775,112776 1ijbA 202 7.22e+01 c.62.1.1 71229 1wxaA 116 7.24e+01 d.15.1.5 121395 1f9vA 347 7.30e+01 1bg2 c.37.1.9 59745 1khtA 192 7.30e+01 c.37.1.1 84401 1ct9A 553 7.34e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1i12A 160 7.35e+01 1i21A d.108.1.1 61515 2c4nA 250 7.38e+01 c.108.1.14 129837 2bekA 257 7.38e+01 1xm9A 457 7.40e+01 a.118.1.24 122142 2ppvA 332 7.43e+01 2ovyA 362 7.46e+01 1ydeA 270 7.48e+01 c.2.1.2 122980 1ofcX 304 7.56e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2e7jA 371 7.60e+01 1yzxA 226 7.64e+01 2qs9A 194 7.72e+01 2q0iA 303 7.80e+01 1r7mA 235 7.80e+01 d.95.2.1,d.95.2.1 111713,111714 1tonA 235 7.90e+01 b.47.1.2 26307 2cl5A 221 7.91e+01 c.66.1.1 130570 2e5vA 472 7.91e+01