# List of top-scoring protein chains for t2k-w0.5-1-CB_burial_14_7-0.3-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. # #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 SCOP_domain SCOP_suid 5S 5N 12S 12S 10N 2gcgA 330 0.000198 1wwkA 307 0.000216 2pi1A 334 0.000320 1gdhA 320 0.000325 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.000334 c.2.1.4,c.23.12.1 30088,31348 2fssA 365 0.000352 2nadA 393 0.000411 c.2.1.4,c.23.12.1 30090,31350 2cukA 311 0.000412 2j6iA 364 0.000434 2eklA 313 0.000438 1dxyA 333 0.000449 c.2.1.4,c.23.12.1 30094,31354 2dldA 337 0.000463 c.2.1.4,c.23.12.1 30099,31359 1b3rA 431 0.000470 c.2.1.4,c.23.12.3 30106,31366 2g76A 335 0.000474 1pjcA 361 0.000531 c.2.1.4,c.23.12.2 30101,31361 1mx3A 347 0.000552 c.2.1.4,c.23.12.1 79638,79639 1xdwA 331 0.000552 2dbqA 334 0.000587 1dxy 333 0.000591 1psdA 409 0.000633 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1ygyA 529 0.000707 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2d0iA 333 0.000760 1qp8A 303 0.000947 c.2.1.4,c.23.12.1 30092,31352 1j4aA 333 0.000978 c.2.1.4,c.23.12.1 71502,71503 1sc6A 404 0.001051 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2vhxA 377 0.001080 2o4cA 380 0.001144 1sayA 361 0.001230 c.2.1.4,c.23.12.2 30102,31362 1a7aA 432 0.001262 c.2.1.4,c.23.12.3 30104,31364 1d4fA 431 0.001288 c.2.1.4,c.23.12.3 30110,31370 2vojA 371 0.001436 1l7dA 384 0.002203 c.2.1.4,c.23.12.2 77774,77775 1xwfA 431 0.003029 c.2.1.4,c.23.12.3 122392,122393 1v8bA 479 0.003460 c.2.1.4,c.23.12.3 113564,113565 1x13A 401 0.005375 1li4A 432 0.005528 c.2.1.4,c.23.12.3 84616,84617 1gpjA 404 0.1036 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1vpdA 299 0.2489 a.100.1.1,c.2.1.6 113951,113952 2qrlA 394 0.3199 1np3A 338 0.4673 a.100.1.2,c.2.1.6 85946,85947 2f1kA 279 1.335 a.100.1.12,c.2.1.6 132772,132773 3c24A 286 1.503 1uufA 369 1.841 b.35.1.2,c.2.1.1 100006,100007 1yb4A 295 2.037 2cvzA 289 2.199 a.100.1.1,c.2.1.6 130890,130891 1nytA 271 2.207 c.2.1.7,c.58.1.5 86417,86418 1bw9A 356 2.247 c.2.1.7,c.58.1.1 30274,33922 2h78A 302 2.301 1luaA 287 2.433 c.2.1.7,c.58.1.4 78216,78217 2b5wA 357 2.457 1lluA 342 2.573 b.35.1.2,c.2.1.1 91064,91065 2g5cA 281 2.733 a.100.1.12,c.2.1.6 134646,134647 1e3jA 352 2.768 b.35.1.2,c.2.1.1 24765,29781 1c1dA 355 2.907 c.2.1.7,c.58.1.1 30270,33918 1kolA 398 2.941 b.35.1.2,c.2.1.1 77474,77475 1bg6A 359 2.987 a.100.1.5,c.2.1.6 18810,30214 2hcyA 347 3.203 1kevA 351 3.345 b.35.1.2,c.2.1.1 24749,29765 1pl8A 356 3.484 b.35.1.2,c.2.1.1 94878,94879 1ykfA 352 3.608 b.35.1.2,c.2.1.1 24757,29773 2cf5A 357 3.960 1jvbA 347 4.288 b.35.1.2,c.2.1.1 77181,77182 1bg6 359 4.292 2pv7A 298 4.426 2d5cA 263 4.510 1jqbA 351 4.534 b.35.1.2,c.2.1.1 77151,77152 1f8fA 371 4.585 b.35.1.2,c.2.1.1 83246,83247 1vj0A 380 4.601 b.35.1.2,c.2.1.1 100786,100787 1h2bA 359 4.968 b.35.1.2,c.2.1.1 90543,90544 1lehA 364 5.435 c.2.1.7,c.58.1.1 30268,33916 1xa0A 328 5.619 b.35.1.2,c.2.1.1 115021,115022 2nloA 302 5.680 2h6eA 344 5.873 2cdcA 366 5.879 2pgd 482 6.563 2eihA 343 6.635 1pedA 351 6.656 b.35.1.2,c.2.1.1 24753,29769 1pgjA 478 7.461 a.100.1.1,c.2.1.6 18783,30195 1p77A 272 7.654 c.2.1.7,c.58.1.5 94214,94215 1axeA 374 7.687 b.35.1.2,c.2.1.1 24681,29697 1yqdA 366 7.766 2dtxA 264 7.861 2eggA 297 8.145 1u3wA 374 8.352 b.35.1.2,c.2.1.1 113013,113014 1hdcA 253 8.669 c.2.1.2 29862 1qorA 327 8.738 b.35.1.2,c.2.1.1 24766,29782 1tt7A 330 8.770 b.35.1.2,c.2.1.1 112623,112624 1ee2A 373 8.824 b.35.1.2,c.2.1.1 24663,29679 1a71A 374 8.946 b.35.1.2,c.2.1.1 24673,29689 1yb5A 351 8.974 b.35.1.2,c.2.1.1 116601,116602 1i36A 264 9.416 a.100.1.8,c.2.1.6 71108,71109 1o5iA 249 9.424 c.2.1.2 92499 2hsdA 253 9.498 c.2.1.2 29866 1ydeA 270 9.592 c.2.1.2 122980 2ouiA 360 10.17 1o89A 345 10.20 b.35.1.2,c.2.1.1 92644,92645 1cydA 244 10.22 c.2.1.2 29825 1axgA 374 10.24 b.35.1.2,c.2.1.1 24691,29707 1dhr 241 10.32 1uzmA 247 10.55 c.2.1.2 119811 2d8aA 348 10.69 2hk9A 275 10.69 1y5mA 276 10.83 c.2.1.2 122645 1uluA 261 11.07 c.2.1.2 113292 1xseA 295 11.16 c.2.1.2 115925 1yb1A 272 11.21 c.2.1.2 116599 1xu9A 286 11.42 c.2.1.2 116052 1y9aA 360 11.44 2c0cA 362 11.54 1qg6A 261 11.71 c.2.1.2 29919 1iz0A 302 11.81 b.35.1.2,c.2.1.1 83821,83822 1c14A 262 11.83 c.2.1.2 29927 2ag5A 246 11.98 c.2.1.2 126719 1ae1A 273 12.00 c.2.1.2 29943 2p4qA 497 12.03 1ybvA 283 12.46 c.2.1.2 29948 1qsgA 265 12.73 c.2.1.2 29935 1g0oA 283 12.95 c.2.1.2 60181 1p0fA 373 12.95 b.35.1.2,c.2.1.1 87642,87643 1n5dA 288 13.06 c.2.1.2 80030 2nm0A 253 13.24 2jhfA 374 13.34 b.35.1.2,c.2.1.1 138314,138315 1hxhA 253 13.47 c.2.1.2 76725 1bdb 277 13.57 2pgdA 482 13.66 a.100.1.1,c.2.1.6 18778,30190 1ff9A 450 13.77 c.2.1.3,d.81.1.2 30039,39954 1xhlA 297 13.95 c.2.1.2 109591 1xg5A 279 14.20 c.2.1.2 115277 1q7bA 244 14.28 c.2.1.2 96026 1vi2A 300 14.82 c.2.1.7,c.58.1.5 100726,100727 1jayA 212 14.97 c.2.1.6 66478 1nffA 260 15.10 c.2.1.2 80457 2c2xA 281 15.19 1npdA 288 15.34 c.2.1.7,c.58.1.5 80681,80682 1spxA 278 15.41 c.2.1.2 98958 1b0aA 288 16.14 c.2.1.7,c.58.1.2 30286,33934 1n8kA 374 16.78 b.35.1.2,c.2.1.1 80298,80299 2o3jA 481 16.78 1mv8A 436 17.08 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2c07A 285 17.15 c.2.1.2 129577 1zemA 262 17.33 c.2.1.2 124984 1zk4A 251 17.41 c.2.1.2 125176 1iy8A 267 17.45 c.2.1.2 83774 1hwxA 501 17.60 c.2.1.7,c.58.1.1 30250,33898 2pnfA 248 17.62 2cfcA 250 17.70 1enp 312 17.79 2graA 277 17.82 2gdzA 267 18.05 c.2.1.2 135043 1vl8A 267 18.43 c.2.1.2 108733 1evyA 366 18.50 a.100.1.6,c.2.1.6 18811,30215 2ohxA 374 18.59 b.35.1.2,c.2.1.1 24669,29685 1xkqA 280 18.61 c.2.1.2 115417 1wmaA 276 18.63 c.2.1.2 121042 1ooeA 236 18.72 c.2.1.2 87196 2a4kA 263 18.85 c.2.1.2 126156 2bgkA 278 18.99 c.2.1.2 128480 1yxmA 303 19.35 c.2.1.2 124192 1sbyA 254 19.84 c.2.1.2 118930 2hq1A 247 19.89 2jfgA 445 19.92 c.5.1.1,c.59.1.1,c.72.2.1 138306,138307,138308 1a4iA 301 20.12 c.2.1.7,c.58.1.2 30278,33926 2ae2A 260 20.51 c.2.1.2 29945 2fwmX 250 20.54 2dm6A 333 20.56 b.35.1.2,c.2.1.1 131567,131568 2d1yA 256 20.69 c.2.1.2 131151 2jahA 247 20.82 2p91A 285 20.95 1b16A 254 21.00 c.2.1.2 29875 1b3bA 415 21.14 c.2.1.7,c.58.1.1 30244,33892 1ja9A 274 21.51 c.2.1.2 62817 1dljA 402 21.53 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1d7oA 297 21.88 c.2.1.2 29907 1x7gA 261 22.15 c.2.1.2 114929 1yrlA 491 22.40 2ew8A 249 22.72 c.2.1.2 132447 1e3sA 261 23.49 c.2.1.2 59201 2nwqA 272 23.88 1bgvA 449 24.06 c.2.1.7,c.58.1.1 30217,33865 1x1eA 239 24.19 1gu7A 364 24.54 b.35.1.2,c.2.1.1 83321,83322 1geeA 261 25.32 c.2.1.2 90509 1f0yA 302 25.49 a.100.1.3,c.2.1.6 18793,30197 1k89 449 25.56 1h5qA 265 25.91 c.2.1.2 60643 1fmcA 255 25.96 c.2.1.2 29856 1zcjA 463 26.01 1he2A 206 26.68 c.2.1.2 60966 1fl2A 310 26.74 c.3.1.5,c.3.1.5 59869,59870 1x0vA 354 26.83 1pwxA 254 27.09 c.2.1.2 95262 1k2wA 256 27.11 c.2.1.2 90927 2o7sA 523 27.38 1vllA 334 27.45 c.2.1.13 108834 1eny 268 27.70 1dliA 402 27.90 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 2h7mA 269 28.38 c.2.1.2 136219 1txgA 335 28.48 a.100.1.6,c.2.1.6 112775,112776 1omoA 322 28.80 c.2.1.13 104017 1vl6A 388 29.12 c.2.1.7,c.58.1.3 108724,108725 1b26A 416 29.15 c.2.1.7,c.58.1.1 30232,33880 1npyA 271 29.38 c.2.1.7,c.58.1.5 85995,85996 1w6uA 302 30.79 c.2.1.2 114288 2bmaA 470 31.02 1qydA 313 31.74 c.2.1.2 96583 1gcoA 261 32.54 c.2.1.2 29884 2hdhA 293 33.00 a.100.1.3,c.2.1.6 18795,30199 1x1tA 260 33.59 c.2.1.2 121597 2o23A 265 33.85 c.2.1.2 138884 2axqA 467 34.10 2dpoA 319 34.31 2ekpA 239 34.44 1nvtA 287 34.66 c.2.1.7,c.58.1.5 86270,86271 1zmtA 254 34.83 c.2.1.2 125363 2hmvA 144 35.23 c.2.1.9 136615 1wlyA 333 35.27 1hrdA 449 35.28 c.2.1.7,c.58.1.1 30219,33867 2pd6A 264 35.29 1lssA 140 35.57 c.2.1.9 74246 1e6wA 260 35.58 c.2.1.2 59326 2gn4A 344 35.97 1guzA 310 36.19 c.2.1.5,d.162.1.1 65586,65587 2bkaA 242 36.83 c.2.1.2 128666 1gtmA 419 37.47 c.2.1.7,c.58.1.1 30223,33871 2r6jA 318 37.95 1ldg 316 37.98 1q1rA 431 38.40 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1ceqA 316 38.44 c.2.1.5,d.162.1.1 30163,42130 1lsuA 147 39.34 c.2.1.9 74250 2gptA 523 39.47 2ahrA 259 39.91 a.100.1.10,c.2.1.6 126775,126776 2q46A 253 40.21 c.2.1.2 139825 2ef0A 301 41.07 1xq6A 253 41.69 c.2.1.2 115829 2yquA 455 42.24 1d7yA 408 42.86 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1edoA 244 43.20 c.2.1.2 29896 1gegA 256 43.65 c.2.1.2 29888 1a5zA 319 43.92 c.2.1.5,d.162.1.1 30181,42148 2b0jA 358 44.79 a.100.1.11,c.2.1.6 127639,127640 1x7dA 350 44.81 c.2.1.13 114927 2z1nA 260 44.90 1uayA 242 44.90 c.2.1.2 88390 2ex4A 241 45.54 c.66.1.42 132516 1nhp 447 47.77 1dl5A 317 48.62 c.66.1.7,d.197.1.1 64720,64721 1hwyA 501 49.26 c.2.1.7,c.58.1.1 30262,33910 1vj1A 363 49.47 b.35.1.2,c.2.1.1 100794,100795 2v7pA 310 50.12 1xhcA 367 50.68 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1lvl 458 51.03 1pzgA 331 51.29 c.2.1.5,d.162.1.1 95425,95426 2gasA 307 51.45 2j3hA 345 53.13 1edzA 320 53.48 c.2.1.7,c.58.1.2 30287,33935 2ph3A 245 54.29 1zmdA 474 54.77 1y1pA 342 54.99 c.2.1.2 122550 3c85A 183 55.70 1hdoA 206 55.95 c.2.1.2 60965 1ne2A 200 56.26 c.66.1.32 85586 2o57A 297 58.11 3ladA 476 58.20 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1jg1A 235 58.82 c.66.1.7 66661 1t2dA 322 59.67 c.2.1.5,d.162.1.1 99084,99085 1jw9B 249 59.72 c.111.1.1 67377 1othA 321 59.89 c.78.1.1,c.78.1.1 35260,35261 2p2sA 336 60.53 1im8A 244 61.41 c.66.1.14 66212 1zmoA 244 61.42 1zud1 251 61.45 1trb 320 61.58 1ebdA 455 62.09 c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 2g1uA 155 63.34 2exxA 306 64.60 2c29D 337 65.06 2ewdA 317 65.12 1zk7A 467 65.39 1nhsA 447 65.51 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2ixaA 444 65.56 1o54A 277 66.04 c.66.1.13 92482 1z82A 335 66.14 1wxxA 382 66.34 b.122.1.9,c.66.1.51 121418,121419 1ez4A 318 67.28 c.2.1.5,d.162.1.1 64917,64918 1mo9A 523 67.40 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 3cc8A 230 68.53 1f8rA 498 68.77 c.3.1.2,d.16.1.5 30410,37974 1nhpA 447 69.48 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1zejA 293 70.61 9ldtA 332 71.21 c.2.1.5,d.162.1.1 30154,42121 1ur5A 309 71.58 c.2.1.5,d.162.1.1 99807,99808 1kpgA 287 71.72 c.66.1.18 68735 2i6tA 303 72.64 2r9zA 463 72.77 1qmgA 524 73.50 a.100.1.2,c.2.1.6 18785,30182 1hyuA 521 73.81 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1qguA 478 73.98 c.92.2.3 35625 1trbA 320 74.94 c.3.1.5,c.3.1.5 30529,30530 6ldhA 329 75.94 c.2.1.5,d.162.1.1 30161,42128 1yqzA 438 76.12 1ml4A 308 76.76 c.78.1.1,c.78.1.1 79255,79256 2ew2A 316 77.04 1lldA 319 77.46 c.2.1.5,d.162.1.1 30177,42144 2izzA 322 78.18 8atcA 310 78.49 c.78.1.1,c.78.1.1 35132,35133 2i6uA 307 78.63 1pvvA 315 78.81 c.78.1.1,c.78.1.1 95190,95191 1xdiA 499 79.04 c.3.1.5,d.87.1.1 115160,115161 1gesA 450 79.12 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1cjcA 460 79.43 c.3.1.1,c.4.1.1 30319,30604 1jtvA 327 80.99 c.2.1.2 84230 2c5aA 379 80.99 c.2.1.2 129894 1hyhA 309 81.54 c.2.1.5,d.162.1.1 30150,42117 1uh5A 329 81.63 c.2.1.2 107840 2zbwA 335 82.16 1oaa 259 85.09 2i6gA 199 85.60 c.66.1.44 137096 1uxjA 309 86.05 c.2.1.5,d.162.1.1 108112,108113 1acmA 310 87.41 c.78.1.1,c.78.1.1 35180,35181 1fds 327 87.49 1zsyA 357 87.87 1e7wA 291 88.34 c.2.1.2 59373 2a35A 215 88.42 c.2.1.2 126072 2p8jA 209 89.08