# List of top-scoring protein chains for t2k-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 1i74A 309 1.51e-17 1i74A c.107.1.1 61867 1wpnA 188 1.91e-17 c.107.1.1 114826 2eb0A 307 2.25e-16 1k20A 310 2.35e-16 c.107.1.1 68027 1ir6A 424 9.18e-13 c.107.1.2 71342 2qb7A 397 3.94e-08 2psdA 318 1.34e-01 2nydA 370 4.55e-01 1z5vA 474 5.18e-01 1d4oA 184 5.65e-01 1d4oA c.31.1.4 31748 1fpzA 212 6.22e-01 1fpzA c.45.1.1 59976 2i8lA 156 6.40e-01 2e85A 159 1.03e+00 1ofuA 320 1.11e+00 c.32.1.1,d.79.2.1 86972,86973 1ys4A 354 1.30e+00 1rvv1 154 1.32e+00 1rvv1 1lvaA 258 1.51e+00 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1h4pA 408 1.56e+00 c.1.8.3 90617 2qgnA 322 2.31e+00 1clc 639 2.48e+00 1clc 1clcA 639 2.48e+00 a.102.1.2,b.1.18.2 18835,21872 1mj5A 302 2.51e+00 c.69.1.8 91285 2nq5A 755 2.72e+00 2o8nA 265 2.77e+00 1es6A 296 2.94e+00 1es6A b.31.1.1,b.31.1.1 83048,83049 2q8nA 460 2.96e+00 1xttA 216 3.03e+00 c.61.1.1 122300 1w5fA 353 3.80e+00 c.32.1.1,d.79.2.1 114247,114248 1vdmA 153 3.94e+00 c.61.1.1 119994 2gojA 197 4.25e+00 2ejaA 338 4.34e+00 1cqwA 295 4.56e+00 1b6g c.69.1.8 34679 2c4nA 250 4.63e+00 c.108.1.14 129837 1v8bA 479 4.64e+00 c.2.1.4,c.23.12.3 113564,113565 1jaeA 471 4.66e+00 b.71.1.1,c.1.8.1 27773,28760 1jixA 351 4.73e+00 1c3jA c.87.1.1 63081 1ve3A 227 4.79e+00 c.66.1.43 120010 1k66A 149 4.89e+00 c.23.1.1 90941 3cs3A 277 4.95e+00 1bg6 359 4.98e+00 1bg6 1bg6A 359 4.98e+00 a.100.1.5,c.2.1.6 18810,30214 2dwuA 276 4.98e+00 2az4A 429 5.04e+00 d.157.1.10 127597 1iz7A 295 5.06e+00 c.69.1.8 76982 3b46A 447 5.26e+00 3c3pA 210 5.49e+00 1xqwA 293 5.78e+00 2iccA 119 6.05e+00 3brsA 289 6.11e+00 1khtA 192 6.71e+00 c.37.1.1 84401 2gptA 523 6.83e+00 2bdeA 470 6.90e+00 c.108.1.23 128335 1p15A 253 7.07e+00 c.45.1.2 93894 1cv2A 296 7.28e+00 1bn6A c.69.1.8 34680 2p1gA 249 7.72e+00 2d5cA 263 7.73e+00 1bn6A 294 7.75e+00 1bn6A c.69.1.8 34678 1fsz 372 7.78e+00 1fsz 1u5tA 233 7.82e+00 a.4.5.54,a.4.5.54 107684,107685 2awpA 198 8.14e+00 2bvwA 362 8.14e+00 1bvwA c.6.1.1 30666 1fztA 211 8.54e+00 1qhfA c.60.1.1 60158 1p5jA 372 8.56e+00 c.79.1.1 104067 2pbzA 320 8.70e+00 1c3jA 351 8.74e+00 1c3jA c.87.1.1 35459 1o0wA 252 9.68e+00 a.149.1.1,d.50.1.1 80751,80752 2fn9A 290 9.71e+00 1wvgA 359 9.80e+00 c.2.1.2 121339 1b5tA 275 9.81e+00 1b5tA c.1.23.1 29676 1ypxA 375 9.89e+00 2ijzA 428 9.94e+00 2ax3A 502 1.01e+01 c.72.1.4,c.104.1.1 127477,127478 1zp4A 304 1.02e+01 2r85A 334 1.02e+01 1r4wA 226 1.03e+01 c.47.1.13 97050 1ws0A 156 1.05e+01 1eqcA 394 1.05e+01 1cz1A c.1.8.3 28811 1cz1A 394 1.06e+01 1cz1A c.1.8.3 28839 1e58A 249 1.11e+01 1qhfA c.60.1.1 59262 1f0nA 285 1.12e+01 1dqyA c.69.1.3 34636 1jetA 517 1.16e+01 1jevA c.94.1.1 35718 1bn7A 294 1.17e+01 1bn6A c.69.1.8 34677 1p7gA 222 1.18e+01 a.2.11.1,d.44.1.1 94223,94224 1mc0A 368 1.23e+01 d.110.2.1,d.110.2.1 78937,78938 1wkvA 389 1.23e+01 c.79.1.1 120989 1mtzA 293 1.26e+01 c.69.1.7 79467 1vmeA 410 1.30e+01 c.23.5.1,d.157.1.3 108893,108894 1li4A 432 1.30e+01 c.2.1.4,c.23.12.3 84616,84617 1ivnA 190 1.31e+01 c.23.10.5 83719 2cmgA 262 1.31e+01 2hhjA 267 1.35e+01 c.60.1.1 136497 2jbwA 386 1.35e+01 1klxA 138 1.40e+01 a.118.18.1 77440 2p67A 341 1.40e+01 1nrwA 288 1.43e+01 c.108.1.10 86128 2o7sA 523 1.49e+01 2yzkA 178 1.52e+01 2anuA 255 1.53e+01 c.6.3.1 127058 2g30A 258 1.57e+01 b.1.10.1,d.105.1.1 134546,134547 2btoA 473 1.58e+01 1jpnA 296 1.59e+01 a.24.13.1,c.37.1.10 67039,67040 2po1B 277 1.64e+01 1pv1A 299 1.64e+01 c.69.1.34 111639 2pc8A 400 1.67e+01 1fqvA 336 1.67e+01 1fqvA a.158.1.1,c.10.1.3 19254,30856 2d6yA 202 1.68e+01 a.4.1.9,a.121.1.1 131313,131314 1iuqA 367 1.70e+01 c.112.1.1 90703 1xwfA 431 1.72e+01 c.2.1.4,c.23.12.3 122392,122393 2q8uA 336 1.73e+01 2ivyA 101 1.73e+01 1d4fA 431 1.77e+01 1b3rA c.2.1.4,c.23.12.3 30110,31370 1eps 427 1.79e+01 1eps 1wqaA 455 1.81e+01 2ewrA 170 1.87e+01 d.218.1.11 132493 1bvwA 360 1.88e+01 1bvwA c.6.1.1 30668 2d59A 144 1.89e+01 c.2.1.8 131266 2r6r1 338 1.91e+01 2i7cA 283 1.93e+01 2ei9A 240 1.93e+01 2vh3A 113 1.95e+01 1va0A 239 1.96e+01 c.90.1.1 119899 2hw6A 307 1.99e+01 1wkcA 184 2.01e+01 c.124.1.6 114724 1q74A 303 2.04e+01 c.134.1.1 96019 1m2oB 190 2.04e+01 c.37.1.8 78485 2hk9A 275 2.12e+01 1e42A 258 2.14e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 2dtvA 397 2.16e+01 1b3rA 431 2.26e+01 1b3rA c.2.1.4,c.23.12.3 30106,31366 1qguB 519 2.28e+01 1qguB c.92.2.3 35626 1jp4A 308 2.30e+01 1jp4A e.7.1.1 63223 1dliA 402 2.36e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 2iksA 293 2.38e+01 3bilA 348 2.38e+01 1uouA 474 2.41e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 2jcbA 200 2.41e+01 2oryA 346 2.42e+01 1n4aA 252 2.43e+01 c.92.2.2 85317 2astB 336 2.47e+01 a.158.1.1,c.10.1.3 127273,127274 2pocA 367 2.50e+01 2qsfX 171 2.51e+01 2p8tA 200 2.53e+01 1ng1 294 2.53e+01 1ng1 1ywfA 296 2.57e+01 c.45.1.5 124144 1qo2A 241 2.58e+01 1qo2A c.1.2.1 28533 2zg5A 397 2.60e+01 1sluA 142 2.62e+01 1sluA b.16.1.1 23685 1rcb 129 2.62e+01 1rcb 1a7aA 432 2.63e+01 1b3rA c.2.1.4,c.23.12.3 30104,31364 2ip2A 334 2.63e+01 1r4xA 275 2.65e+01 b.1.10.3,d.105.1.2 97054,97055 1ribA 375 2.65e+01 1xikA a.25.1.2 16788 2z1yA 397 2.67e+01 2a5dA 175 2.67e+01 c.37.1.8 126172 2q46A 253 2.73e+01 c.2.1.2 139825 1uuqA 440 2.74e+01 c.1.8.3 100015 2a2aA 321 2.75e+01 1zp2A 235 2.76e+01 1kkcA 221 2.76e+01 a.2.11.1,d.44.1.1 68660,68661 2fvgA 340 2.77e+01 b.49.3.1,c.56.5.4 134201,134202 2o5hA 136 2.78e+01 1ls1A 295 2.79e+01 a.24.13.1,c.37.1.10 78170,78171 1dljA 402 2.85e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1t5jA 313 2.86e+01 a.209.1.1 99125 1wlsA 328 2.88e+01 1ki9A 192 2.89e+01 c.37.1.1 84404 1mngA 203 2.94e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 2r79A 283 2.95e+01 2igbA 179 2.96e+01 1oc7A 364 2.99e+01 c.6.1.1 86794 2onsA 314 2.99e+01 1xxlA 239 3.01e+01 c.66.1.41 116203 2h0qA 261 3.01e+01 1agrE 205 3.02e+01 1agrE a.91.1.1 18538 2f7lA 455 3.03e+01 1go4A 205 3.04e+01 d.135.1.1 70292 1npyA 271 3.14e+01 c.2.1.7,c.58.1.5 85995,85996 1tplA 426 3.17e+01 1ax4A c.67.1.2 34387 2q14A 410 3.18e+01 1ls6A 295 3.20e+01 c.37.1.5 91115 1lmeA 176 3.20e+01 d.167.1.1 84629 1x3mA 415 3.20e+01 c.55.1.2,c.55.1.2 121664,121665 2e1zA 415 3.22e+01 1j1uA 306 3.25e+01 c.26.1.1 83980 1pv5A 264 3.28e+01 d.251.1.1 95150 1k30A 368 3.30e+01 c.112.1.1 68067 2vfxA 206 3.33e+01 1xq6A 253 3.36e+01 c.2.1.2 115829 2gcgA 330 3.40e+01 1kq3A 376 3.43e+01 e.22.1.2 68790 2fclA 169 3.44e+01 d.218.1.11 133273 2fhzA 109 3.50e+01 d.311.1.1 133505 1llpA 343 3.50e+01 a.93.1.1 18578 2qvbA 297 3.53e+01 2rgqA 144 3.54e+01 1guxB 152 3.54e+01 1guxB a.74.1.3 18389 2ikqA 270 3.58e+01 1m22A 503 3.60e+01 c.117.1.1 78464 1f6bA 198 3.60e+01 c.37.1.8 64986 1jztA 246 3.65e+01 c.104.1.1 63319 1c7gA 456 3.65e+01 c.67.1.2 90415 1jeoA 180 3.71e+01 c.80.1.3 66611 1hziA 129 3.74e+01 1rcb a.26.1.2 61449 1dxy 333 3.77e+01 1dxy 1dxyA 333 3.77e+01 c.2.1.4,c.23.12.1 30094,31354 1b7aA 186 3.79e+01 1a44 b.17.1.1 23705 1ktbA 405 3.85e+01 b.71.1.1,c.1.8.1 72960,72961 3c5vA 316 3.87e+01 1wndA 495 3.89e+01 c.82.1.1 114751 1fuiA 591 3.90e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1maz 221 3.93e+01 1maz 2rb7A 364 3.97e+01 2cjpA 328 3.99e+01 1f2dA 341 4.07e+01 1f2dA c.79.1.1 35298 2v03A 303 4.12e+01 1aisB 200 4.21e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1pz1A 333 4.24e+01 c.1.7.1 95390 2akzA 439 4.26e+01 c.1.11.1,d.54.1.1 126944,126945 2p0lA 288 4.33e+01 1g3nC 257 4.33e+01 1bu2A a.74.1.1,a.74.1.1 18366,18367 1q1aA 289 4.34e+01 c.31.1.5 95561 2p5iA 288 4.34e+01 1n2zA 245 4.35e+01 c.92.2.2 79865 1souA 194 4.38e+01 c.124.1.6 105858 2qa1A 500 4.38e+01 2o2iA 300 4.40e+01 1d3uB 201 4.43e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 1cg5A 141 4.46e+01 1abwA a.1.1.2 15406 1vimA 200 4.48e+01 c.80.1.3 100758 2d48A 129 4.49e+01 1ve5A 311 4.50e+01 c.79.1.1 120013 2q0xA 335 4.52e+01 2bvyA 475 4.52e+01 b.1.18.2,c.1.8.3 129301,129302 1a5zA 319 4.54e+01 c.2.1.5,d.162.1.1 30181,42148 2j0fA 482 4.60e+01 1q8fA 313 4.66e+01 c.70.1.1 96203 1ro0A 216 4.66e+01 d.264.1.2 97664 1zzwA 149 4.68e+01 2q0lA 311 4.68e+01 1qh8B 519 4.70e+01 1qguB c.92.2.3 35634 1fmjA 351 4.76e+01 c.37.1.5 59879 1mwvA 714 4.76e+01 a.93.1.3,a.93.1.3 85161,85162 1xeoA 168 4.83e+01 d.167.1.1 121913 1g7sA 594 4.86e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 2ez2A 456 4.86e+01 1biqA 375 4.89e+01 1xikA a.25.1.2 16786 2c81A 418 5.00e+01 2ozpA 345 5.03e+01 2gn0A 342 5.04e+01 1lfkA 398 5.08e+01 a.104.1.1 77926 1pzdA 322 5.09e+01 b.1.10.3,d.105.1.2 95413,95414 1lam 484 5.10e+01 1lam 1lamA 484 5.10e+01 c.50.1.1,c.56.5.3 33166,33829 2jhpA 644 5.11e+01 2ikkA 173 5.11e+01 2ra8A 362 5.11e+01 2v7pA 310 5.18e+01 1d2nA 272 5.20e+01 1d2nA c.37.1.20 32428 1ddfA 127 5.28e+01 a.77.1.2 18423 1wqsA 173 5.37e+01 1qtrA 317 5.41e+01 1qtrA c.69.1.7 34660 1y6hA 177 5.43e+01 d.167.1.1 116505 2qtsA 438 5.49e+01 1wm1A 317 5.56e+01 c.69.1.7 109405 1g6sA 427 5.60e+01 1eps d.68.2.2 39584 16pk 415 5.66e+01 16pk 16pkA 415 5.66e+01 c.86.1.1 35454 2a3nA 355 5.67e+01 1ejjA 511 5.70e+01 1ejjA c.105.1.1,c.76.1.3 59422,59423 1noyA 388 5.72e+01 1clqA c.55.3.5 33713 1n0nA 199 5.76e+01 a.2.11.1,d.44.1.1 79750,79751 2pndA 119 5.77e+01 3c3dA 311 5.82e+01 1mxrA 375 5.90e+01 a.25.1.2 85197 2ealA 148 5.90e+01 1av8A 340 5.92e+01 1xikA a.25.1.2 16796 2fh7A 595 5.97e+01 2nv2A 294 6.00e+01 2r00A 336 6.01e+01 1kn3A 183 6.05e+01 b.17.1.1 72764 1egzA 291 6.06e+01 7a3hA c.1.8.3 28828 2qs7A 144 6.08e+01 2h2wA 312 6.09e+01 2obwA 258 6.09e+01 2e18A 257 6.12e+01 1ydyA 356 6.19e+01 c.1.18.3 123006 2rgmA 481 6.22e+01 1eyrA 228 6.27e+01 1eyrA c.68.1.13 34514 1gnwA 211 6.28e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1z5zA 271 6.29e+01 c.37.1.19 124499 2e1mC 181 6.32e+01 1rtqA 299 6.36e+01 c.56.5.4 97819 2jfzA 255 6.38e+01 1rovA 857 6.42e+01 a.119.1.1,b.12.1.1 97674,97675 1vi6A 208 6.43e+01 c.23.15.1 100736 1hv8A 367 6.44e+01 1hv8A c.37.1.19,c.37.1.19 32405,32406 1jeqA 609 6.49e+01 1jeqA a.140.2.1,b.131.1.1,c.62.1.3 64748,90366,90367 8abp 306 6.60e+01 8abp 8abpA 306 6.60e+01 c.93.1.1 35647 2fhxA 246 6.63e+01 1bs4A 168 6.64e+01 1bs4A d.167.1.1 42287 1q8yA 373 6.65e+01 d.144.1.7 96234 3ldh 330 6.66e+01 3ldh i.12.1.1 46015 2gj8A 172 6.66e+01 c.37.1.8 135270 2q00A 129 6.71e+01 1ym5A 300 6.74e+01 1pl4A 198 6.77e+01 a.2.11.1,d.44.1.1 94854,94855 2qedA 258 6.78e+01 1tuoA 464 6.79e+01 2avdA 219 6.79e+01 c.66.1.1 127377 2qybA 181 6.80e+01 1k1xA 659 6.84e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1yxyA 234 6.90e+01 c.1.2.5 124203 1qh8A 478 6.94e+01 1qguA c.92.2.3 35633 2iqyA 190 6.97e+01 1b80A 351 6.99e+01 1arv a.93.1.1 18579 2omkA 231 7.12e+01 1b74A 254 7.16e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1qi9A 556 7.18e+01 1qhbA a.111.1.2 19053 2bogX 286 7.18e+01 2yxdA 183 7.18e+01 1fnnA 389 7.20e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1hwyA 501 7.22e+01 1hwyA c.2.1.7,c.58.1.1 30262,33910 1ru8A 232 7.24e+01 c.26.2.1 97849 1chmA 401 7.27e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 2anpA 291 7.29e+01 c.56.5.4 127056 2iz6A 176 7.30e+01 1im4A 221 7.32e+01 e.8.1.7 62581 2f20A 240 7.34e+01 d.303.1.1 132791 2rdpA 150 7.36e+01 1m7bA 184 7.36e+01 c.37.1.8 74572 2o1rA 81 7.37e+01 1hf2A 210 7.38e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1s3jA 155 7.41e+01 a.4.5.28 98437 3b2nA 133 7.43e+01 2eh6A 375 7.46e+01 1kicA 339 7.47e+01 c.70.1.1 72510 1mi4A 427 7.49e+01 d.68.2.2 79141 1y56B 382 7.57e+01 3ci6A 171 7.59e+01 3b9gA 328 7.59e+01 1g7rA 594 7.65e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25716,25717,31034,32149 1zh2A 121 7.72e+01 c.23.1.1 125069 1sazA 381 7.73e+01 c.55.1.2,c.55.1.2 118925,118926 2hmcA 344 7.74e+01 1my6A 199 7.77e+01 a.2.11.1,d.44.1.1 85232,85233 1rpnA 335 7.77e+01 c.2.1.2 97708 2vouA 397 7.80e+01 1kpgA 287 7.82e+01 c.66.1.18 68735 1ps9A 671 7.86e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1ao0A 459 7.87e+01 1ecfB c.61.1.1,d.153.1.1 34049,41816 2gpjA 252 7.89e+01 2ge3A 170 7.89e+01 d.108.1.1 135044 2b33A 140 7.90e+01 d.79.1.1 127765