# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1eg7A 557 4.03e-55 1eg7A c.37.1.10 32241 1a4iB 301 6.22e-33 1a4iA c.2.1.7 30279 c.58.1.2 33927 1diaA 306 1.90e-32 1a4iA c.2.1.7 30280 c.58.1.2 33928 1a4iA 301 2.20e-32 1a4iA c.2.1.7 30278 c.58.1.2 33926 2c2xA 281 1.69e-30 1edzA 320 3.56e-22 1ee9A c.2.1.7 30287 c.58.1.2 33935 1ee9A 320 3.79e-22 1ee9A c.2.1.7 30288 c.58.1.2 33936 1v8bA 479 1.61e-04 1d4fA 431 1.77e-04 1b3rA c.2.1.4 30110 c.23.12.3 31370 1li4A 432 2.59e-04 c.2.1.4 84616 c.23.12.3 84617 1a7aA 432 2.71e-04 1b3rA c.2.1.4 30104 c.23.12.3 31364 1xwfA 431 3.00e-04 1b3rA 431 5.37e-04 1b3rA c.2.1.4 30106 c.23.12.3 31366 1o5iA 249 1.12e-03 c.2.1.2 92499 1pjcA 361 7.34e-03 1sayA c.2.1.4 30101 c.23.12.2 31361 1sayA 361 7.94e-03 1sayA c.2.1.4 30102 c.23.12.2 31362 1mldA 314 1.05e-02 2cmd c.2.1.5 30122 d.162.1.1 42089 1pjbA 361 1.14e-02 1sayA c.2.1.4 30103 c.23.12.2 31363 1o89A 345 1.83e-02 b.35.1.2 92644 c.2.1.1 92645 1qp8A 303 1.95e-02 1qp8A c.2.1.4 30092 c.23.12.1 31352 1luaA 287 2.14e-02 c.2.1.7 78216 c.58.1.4 78217 1cydA 244 2.58e-02 1cydA c.2.1.2 29825 1xhlA 297 4.27e-02 c.2.1.2 109591 1vcoA 550 4.40e-02 c.23.16.1 108508 c.37.1.10 108509 1xdwA 331 5.03e-02 1j4aA 333 5.07e-02 c.2.1.4 71502 c.23.12.1 71503 1vpdA 299 5.13e-02 1vl6A 388 6.75e-02 c.2.1.7 108724 c.58.1.3 108725 1lu9A 287 7.70e-02 c.2.1.7 78210 c.58.1.4 78211 1gpjA 404 8.01e-02 a.151.1.1 65451 c.2.1.7 65452 d.58.39.1 65453 1y5mA 276 8.26e-02 2a9fA 398 9.57e-02 2cy0A 263 1.09e-01 1ae1A 273 1.10e-01 1bdb c.2.1.2 29943 1xu9A 286 1.13e-01 1dxy 333 1.29e-01 1dxy c.2.1.4 30094 c.23.12.1 31354 1wxdA 263 1.38e-01 1jbwA 428 1.42e-01 c.59.1.2 62860 c.72.2.2 62861 1vknA 351 1.46e-01 c.2.1.3 108676 d.81.1.1 108677 1fecA 490 1.48e-01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 2bgkA 278 2.15e-01 1xkqA 280 2.39e-01 2ae2A 260 2.49e-01 1bdb c.2.1.2 29945 1q7bA 244 2.66e-01 c.2.1.2 96026 1uag 437 2.97e-01 4uagA c.5.1.1 30653 c.59.1.1 33954 c.72.2.1 34957 1xseA 295 3.24e-01 1uzmA 247 3.93e-01 1h5qA 265 4.39e-01 1cydA c.2.1.2 60643 3uagA 437 4.44e-01 4uagA c.5.1.1 30652 c.59.1.1 33953 c.72.2.1 34956 1spxA 278 4.49e-01 c.2.1.2 98958 1u9jA 358 4.67e-01 1nhs 447 4.69e-01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1nhp 447 5.07e-01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1z7bA 358 5.14e-01 1pvvA 315 5.30e-01 c.78.1.1 95190 c.78.1.1 95191 1a1s 314 5.48e-01 1othA c.78.1.1 35258 c.78.1.1 35259 4uagA 437 5.54e-01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1bdb 277 5.57e-01 1bdb c.2.1.2 29874 1joa 447 5.85e-01 1nhp c.3.1.5 30563 c.3.1.5 30564 d.87.1.1 40203 1mnaA 298 6.13e-01 c.69.1.22 79322 1rkxA 357 6.77e-01 c.2.1.2 97631 1g5pA 289 7.65e-01 1cp2A c.37.1.10 32253 2b69A 343 7.83e-01 1geeA 261 8.23e-01 c.2.1.2 90509 1psdA 409 8.29e-01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1gcoA 261 8.38e-01 1ybvA c.2.1.2 29884 2cmd 312 8.56e-01 2cmd c.2.1.5 30135 d.162.1.1 42102 1o4vA 183 8.58e-01 c.23.8.1 86628 1ceqA 316 9.09e-01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1w9hA 427 9.11e-01 1t2dA 322 9.44e-01 c.2.1.5 99084 d.162.1.1 99085 1g0oA 283 9.56e-01 1ybvA c.2.1.2 60181 2tysB 397 9.67e-01 2tysB c.79.1.1 35272 1x13A 401 1.06e+00 1txgA 335 1.10e+00 1vl8A 267 1.11e+00 c.2.1.2 108733 1uayA 242 1.18e+00 c.2.1.2 88390 1sc6A 404 1.20e+00 1ybvA 283 1.21e+00 1ybvA c.2.1.2 29948 1hxhA 253 1.22e+00 c.2.1.2 76725 1e5mA 416 1.28e+00 1dd8A c.95.1.1 58973 c.95.1.1 58974 1kvs 338 1.33e+00 1xel c.2.1.2 29799 1vi2A 300 1.34e+00 c.2.1.7 100726 c.58.1.5 100727 1i24A 404 1.35e+00 c.2.1.2 83663 1ionA 243 1.37e+00 c.37.1.10 62633 1edoA 244 1.41e+00 1ybvA c.2.1.2 29896 2bllA 345 1.45e+00 1qopB 396 1.54e+00 2tysB c.79.1.1 35270 1nxqA 251 1.60e+00 c.2.1.2 86388 1qwgA 251 1.64e+00 c.1.27.1 96473 2bmaA 470 1.64e+00 1nytA 271 1.77e+00 c.2.1.7 86417 c.58.1.5 86418 1zmtA 254 1.82e+00 1k8yB 396 1.83e+00 c.79.1.1 72184 1fmcA 255 1.85e+00 1cydA c.2.1.2 29856 2c07A 285 1.98e+00 1w78A 422 2.02e+00 1mx3A 347 2.03e+00 c.2.1.4 79638 c.23.12.1 79639 1ldg 316 2.03e+00 1ceqA c.2.1.5 30165 d.162.1.1 42132 1fp6A 289 2.04e+00 1cp2A c.37.1.10 32243 1rj9A 304 2.09e+00 a.24.13.1 97553 c.37.1.10 97554 1nipA 289 2.21e+00 1cp2A c.37.1.10 32263 1zk4A 251 2.21e+00 1f0yA 302 2.40e+00 2hdhA a.100.1.3 18793 c.2.1.6 30197 1qydA 313 2.44e+00 c.2.1.2 96583 1ys4A 354 2.47e+00 1dliA 402 2.50e+00 1dliA a.100.1.4 18809 c.2.1.6 30213 c.26.3.1 31622 2wsyB 396 2.56e+00 2tysB c.79.1.1 35288 1bksB 397 2.57e+00 2tysB c.79.1.1 35285 1wcv1 257 2.61e+00 1vimA 200 2.64e+00 c.80.1.3 100758 1yrlA 491 2.84e+00 1jayA 212 2.91e+00 c.2.1.6 66478 1udc 338 3.00e+00 1xel c.2.1.2 29785 1udb 338 3.03e+00 1xel c.2.1.2 29787 1xa0A 328 3.11e+00 1g3qA 237 3.17e+00 1hyqA c.37.1.10 60237 1w3jA 468 3.23e+00 c.1.8.4 109156 1e3sA 261 3.26e+00 1e6wA c.2.1.2 59201 1m6eX 359 3.29e+00 c.66.1.35 91188 1xel 338 3.50e+00 1xel c.2.1.2 29786 1hyeA 313 3.52e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1np3A 338 3.57e+00 a.100.1.2 85946 c.2.1.6 85947 1j6uA 469 3.62e+00 c.5.1.1 77094 c.59.1.1 77095 c.72.2.1 77096 1fyeA 229 3.62e+00 1fyeA c.23.16.4 31477 1npdA 288 3.63e+00 c.2.1.7 80681 c.58.1.5 80682 1fy2A 229 3.65e+00 1fyeA c.23.16.4 31478 1f0lA 535 3.68e+00 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1aa6 715 4.00e+00 2napA b.52.2.2 26916 c.81.1.1 35324 1p77A 272 4.06e+00 c.2.1.7 94214 c.58.1.5 94215 1vjnA 220 4.12e+00 d.157.1.4 100825 1ve6A 582 4.17e+00 1fgs 428 4.19e+00 1fgs c.59.1.2 33959 c.72.2.2 34962 1qrrA 394 4.35e+00 1qrrA c.2.1.2 29824 1xg5A 279 4.42e+00 2ag5A 246 4.48e+00 1q1gA 276 4.57e+00 c.56.2.1 95574 1gegA 256 4.59e+00 1ybvA c.2.1.2 29888 1lqtA 456 4.61e+00 c.3.1.1 74198 c.4.1.1 74199 2hdhA 293 4.61e+00 2hdhA a.100.1.3 18795 c.2.1.6 30199 1evyA 366 4.62e+00 1evyA a.100.1.6 18811 c.2.1.6 30215 2pgd 482 4.66e+00 2pgd a.100.1.1 18778 c.2.1.6 30190 1pwxA 254 4.69e+00 c.2.1.2 95262 1qycA 308 4.73e+00 c.2.1.2 96581 1wqaA 455 4.84e+00 1bg6 359 4.89e+00 1bg6 a.100.1.5 18810 c.2.1.6 30214 1z82A 335 5.06e+00 1rpnA 335 5.19e+00 c.2.1.2 97708 1wvgA 359 5.20e+00 2udpA 338 5.20e+00 1xel c.2.1.2 29791 1gz6A 319 5.29e+00 c.2.1.2 76410 1tt7A 330 5.32e+00 1e6wA 260 5.49e+00 1e6wA c.2.1.2 59326 1yi8A 351 5.56e+00 1w6uA 302 5.58e+00 1jaxA 212 5.81e+00 c.2.1.6 66476 1cp2A 269 5.83e+00 1cp2A c.37.1.10 32269 1he2A 206 5.84e+00 1he2A c.2.1.2 60966 1iy8A 267 5.89e+00 c.2.1.2 83774 1p3dA 475 5.94e+00 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1p9rA 418 6.03e+00 c.37.1.11 94399 1hdcA 253 6.22e+00 1e6wA c.2.1.2 29862 1aogA 485 6.26e+00 3grs c.3.1.5 30517 c.3.1.5 30518 d.87.1.1 40190 1qfcA 306 6.63e+00 1uteA d.159.1.1 42077 1ooeA 236 6.64e+00 c.2.1.2 87196 1hdoA 206 7.01e+00 1he2A c.2.1.2 60965 1uluA 261 7.21e+00 1jztA 246 7.55e+00 c.104.1.1 63319 1c1dA 355 7.75e+00 1bw9A c.2.1.7 30270 c.58.1.1 33918 2hsdA 253 7.81e+00 1e6wA c.2.1.2 29866 1a16 440 8.01e+00 1az9 c.55.2.1 33548 d.127.1.1 41165 1wdtA 665 8.21e+00 1yxmA 303 8.21e+00 1pj5A 830 8.38e+00 b.44.2.1 94742 c.3.1.2 94743 d.16.1.5 94744 d.250.1.1 94745 1jeoA 180 8.58e+00 c.80.1.3 66611 1dljA 402 8.73e+00 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1uz1A 468 9.07e+00 1j0aA 325 9.25e+00 c.79.1.1 83871 1h6gA 256 9.70e+00 1h6gA a.24.9.1 60669 a.24.9.1 60670 2bijA 305 9.95e+00 1q1rA 431 1.00e+01 c.3.1.5 95600 c.3.1.5 95601 d.87.1.1 95602 1nnsA 326 1.00e+01 c.88.1.1 85910 1hyhA 309 1.01e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1zbqA 327 1.02e+01 1jixA 351 1.02e+01 1c3jA c.87.1.1 63081 1ja9A 274 1.03e+01 c.2.1.2 62817 1az9 457 1.03e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 1aoxA 203 1.08e+01 1aoxA c.62.1.1 34151 2b1xA 470 1.10e+01 1iq0A 592 1.10e+01 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 1wovA 250 1.13e+01 1n7hA 381 1.14e+01 c.2.1.2 80250 1co6A 107 1.14e+01 1ycc a.3.1.1 15894 1hgxA 183 1.15e+01 1tc1A c.61.1.1 34027 1jg7A 351 1.16e+01 1c3jA c.87.1.1 62945 1wl9A 440 1.17e+01 1oasA 322 1.19e+01 1oasA c.79.1.1 35293 2bv5A 282 1.19e+01 1h2bA 359 1.20e+01 b.35.1.2 90543 c.2.1.1 90544 1bw9A 356 1.21e+01 1bw9A c.2.1.7 30274 c.58.1.1 33922 9gafA 295 1.22e+01 1apyA d.153.1.5 42008 1k89 449 1.24e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 2bsxA 253 1.24e+01 1jkfA 533 1.25e+01 c.2.1.3 71700 d.81.1.3 71701 1gy8A 397 1.26e+01 c.2.1.2 83376 1okjA 251 1.29e+01 c.55.1.9 103998 c.55.1.9 103999 1l7dA 384 1.29e+01 c.2.1.4 77774 c.23.12.2 77775 1hu4A 288 1.30e+01 1hu4A 1v7pC 200 1.31e+01 c.62.1.1 108408 1vj0A 380 1.32e+01 b.35.1.2 100786 c.2.1.1 100787 1m3sA 186 1.35e+01 c.80.1.3 78573 1n5dA 288 1.36e+01 c.2.1.2 80030 1tx2A 297 1.36e+01 c.1.21.1 107420 1xmpA 170 1.36e+01 1dq3A 454 1.37e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1h3nA 878 1.42e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1zowA 313 1.43e+01 1i3kA 348 1.44e+01 1xel c.2.1.2 61595 1c4oA 664 1.44e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1ff9A 450 1.46e+01 1ff9A c.2.1.3 30039 d.81.1.2 39954 1dl5A 317 1.49e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1avsA 90 1.51e+01 1cll a.39.1.5 17226 1trb 320 1.51e+01 1trb c.3.1.5 30529 c.3.1.5 30530 1xygD 359 1.52e+01 1obbA 480 1.53e+01 c.2.1.5 86760 d.162.1.2 86761 1a88A 275 1.54e+01 1brt c.69.1.12 34707 1htwA 158 1.55e+01 c.37.1.18 71083 1lbvA 252 1.57e+01 e.7.1.1 73813 1wmbA 260 1.58e+01 1ng4A 390 1.60e+01 c.3.1.2 85666 d.16.1.3 85667 1hyqA 263 1.62e+01 1hyqA c.37.1.10 61412 2nacA 393 1.63e+01 2nadA c.2.1.4 30088 c.23.12.1 31348 1n57A 291 1.65e+01 c.23.16.2 85328 1rifA 282 1.65e+01 c.37.1.23 97507 1vecA 206 1.68e+01 c.37.1.19 100575 1t2aA 375 1.68e+01 c.2.1.2 99078 1cf2O 337 1.70e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1qb4A 883 1.75e+01 c.1.12.3 74640 1f2dA 341 1.82e+01 1f2dA c.79.1.1 35298 1u3wA 374 1.83e+01 1tn4 159 1.83e+01 1ncx a.39.1.5 17248 1b73A 254 1.84e+01 1b74A c.78.2.1 35266 c.78.2.1 35267 1udxA 416 1.86e+01 b.117.1.1 99228 c.37.1.8 99229 d.242.1.1 99230 1wmaA 276 1.87e+01 1w5fA 353 1.90e+01 1ixh 321 1.91e+01 1ixh c.94.1.1 35761 1qrqA 325 1.98e+01 1qrqA c.1.7.1 28667 1c96A 753 1.99e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1l0wA 580 1.99e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1pbtA 244 2.00e+01 c.124.1.1 94416 1yloA 348 2.01e+01 1ryiA 382 2.02e+01 1v71A 323 2.02e+01 1f48A 589 2.04e+01 1f48A c.37.1.10 32280 c.37.1.10 32281 1agx 331 2.05e+01 4pgaA c.88.1.1 35564 1yqdA 366 2.05e+01 1e5xA 486 2.09e+01 c.79.1.1 59283 1j0dA 341 2.13e+01 c.79.1.1 83902 1gqyA 475 2.15e+01 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1b74A 254 2.16e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1kplA 473 2.17e+01 f.20.1.1 68782 1fiy 883 2.18e+01 1fiy c.1.12.3 29307 1yobA 179 2.18e+01 1ek6A 348 2.22e+01 1xel c.2.1.2 29800 1pl8A 356 2.22e+01 b.35.1.2 94878 c.2.1.1 94879 1zsxA 347 2.24e+01 1u8xX 472 2.24e+01 c.2.1.5 107741 d.162.1.2 107742 1p1jA 533 2.26e+01 c.2.1.3 87687 d.81.1.3 87688 2ajtA 500 2.30e+01 1dcs 311 2.31e+01 1dcs b.82.2.1 28124 1is2A 661 2.31e+01 a.29.3.2 71382 a.29.3.2 71383 e.6.1.2 71384 1jtvA 327 2.33e+01 c.2.1.2 84230 1wd5A 208 2.33e+01 1tzjA 338 2.35e+01 2an1A 292 2.35e+01 1zmdA 474 2.38e+01 1j8mF 297 2.38e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1vhuA 211 2.40e+01 c.50.1.2 100703 1fdi 715 2.42e+01 2napA b.52.2.2 26918 c.81.1.1 35326 1pzgA 331 2.50e+01 c.2.1.5 95425 d.162.1.1 95426 1oc2A 348 2.50e+01 c.2.1.2 92765 1guzA 310 2.52e+01 c.2.1.5 65586 d.162.1.1 65587 1fcjA 322 2.53e+01 1oasA c.79.1.1 35289 1qh8A 478 2.56e+01 1qguA c.92.2.3 35633 1hjzA 192 2.57e+01 c.50.1.2 83520 1ujnA 348 2.62e+01 e.22.1.1 99460 1xmbA 418 2.65e+01 1o0wA 252 2.66e+01 a.149.1.1 80751 d.50.1.1 80752 1uxjA 309 2.66e+01 c.2.1.5 108112 d.162.1.1 108113 1ni4A 365 2.67e+01 c.36.1.11 85728 6acn 754 2.68e+01 1amj c.8.2.1 30721 c.83.1.1 35397 2tpt 440 2.72e+01 1brwA a.46.2.1 17759 c.27.1.1 31623 d.41.3.1 38621 1jqnA 883 2.73e+01 c.1.12.3 77159 1jscA 630 2.73e+01 c.31.1.3 67224 c.36.1.5 67225 c.36.1.9 67226 1npyA 271 2.73e+01 c.2.1.7 85995 c.58.1.5 85996 1jalA 363 2.74e+01 c.37.1.8 84138 d.15.10.2 84139 1c0pA 363 2.75e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1gci 269 2.75e+01 1gci c.41.1.1 32503 1li5B 461 2.77e+01 a.27.1.1 73914 c.26.1.1 73915 1m33A 258 2.78e+01 c.69.1.26 78514 1uteA 313 2.79e+01 1uteA d.159.1.1 42078 1fdo 715 2.79e+01 2napA b.52.2.2 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