# List of top-scoring protein chains for t2k-w0.5-1-o_notor2-0.1-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 1yqgA 263 1.17e-08 2ahrA 259 3.26e-08 a.100.1.10,c.2.1.6 126775,126776 2h78A 302 9.06e-08 1vpdA 299 9.15e-08 a.100.1.1,c.2.1.6 113951,113952 2rcyA 262 1.37e-07 2graA 277 1.64e-07 2izzA 322 1.92e-07 1pgjA 478 2.73e-07 a.100.1.1,c.2.1.6 18783,30195 1yb4A 295 2.88e-07 2i76A 276 2.91e-07 2cvzA 289 3.61e-07 a.100.1.1,c.2.1.6 130890,130891 2pgd 482 5.24e-07 2pgdA 482 2.16e-06 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 3.41e-06 2f1kA 279 3.48e-06 a.100.1.12,c.2.1.6 132772,132773 1evyA 366 1.49e-05 a.100.1.6,c.2.1.6 18811,30215 1x0vA 354 1.74e-05 1txgA 335 2.53e-05 a.100.1.6,c.2.1.6 112775,112776 3c24A 286 2.63e-05 1bg6A 359 2.95e-05 a.100.1.5,c.2.1.6 18810,30214 2g5cA 281 3.36e-05 a.100.1.12,c.2.1.6 134646,134647 1z82A 335 4.00e-05 1i36A 264 8.99e-05 a.100.1.8,c.2.1.6 71108,71109 1bg6 359 0.000138 2b0jA 358 0.000151 a.100.1.11,c.2.1.6 127639,127640 1np3A 338 0.000368 a.100.1.2,c.2.1.6 85946,85947 1gpjA 404 0.000533 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2pv7A 298 0.000963 1jayA 212 0.004650 c.2.1.6 66478 1nytA 271 0.005423 c.2.1.7,c.58.1.5 86417,86418 2hdhA 293 0.005567 a.100.1.3,c.2.1.6 18795,30199 2dpoA 319 0.006368 1zcjA 463 0.007584 1f0yA 302 0.007618 a.100.1.3,c.2.1.6 18793,30197 1mv8A 436 0.008011 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1p77A 272 0.009781 c.2.1.7,c.58.1.5 94214,94215 1zejA 293 0.01503 2eggA 297 0.01858 2d5cA 263 0.01893 2nloA 302 0.03276 1npyA 271 0.03799 c.2.1.7,c.58.1.5 85995,85996 2hk9A 275 0.04127 2ew2A 316 0.04410 1ks9A 291 0.05976 a.100.1.7,c.2.1.6 68857,68858 1npdA 288 0.07989 c.2.1.7,c.58.1.5 80681,80682 1ff9A 450 0.08394 c.2.1.3,d.81.1.2 30039,39954 1dljA 402 0.09376 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1d4fA 431 0.09904 c.2.1.4,c.23.12.3 30110,31370 2nadA 393 0.1107 c.2.1.4,c.23.12.1 30090,31350 2o3jA 481 0.1199 1wwkA 307 0.1239 1j4aA 333 0.1239 c.2.1.4,c.23.12.1 71502,71503 1dliA 402 0.1272 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1dxy 333 0.1372 1b3rA 431 0.1542 c.2.1.4,c.23.12.3 30106,31366 2o7sA 523 0.1599 1pjcA 361 0.1628 c.2.1.4,c.23.12.2 30101,31361 2axqA 467 0.1687 1lssA 140 0.1739 c.2.1.9 74246 1nvtA 287 0.1830 c.2.1.7,c.58.1.5 86270,86271 1xdwA 331 0.1930 1gdhA 320 0.1936 c.2.1.4,c.23.12.1 30095,31355 2nacA 393 0.2009 c.2.1.4,c.23.12.1 30088,31348 1mx3A 347 0.2164 c.2.1.4,c.23.12.1 79638,79639 2g76A 335 0.2274 2dbqA 334 0.2399 1dxyA 333 0.2555 c.2.1.4,c.23.12.1 30094,31354 2pi1A 334 0.2819 2nvwA 479 0.2943 c.2.1.3,d.81.1.5 138665,138666 1yrlA 491 0.3281 2dldA 337 0.3878 c.2.1.4,c.23.12.1 30099,31359 2gcgA 330 0.3924 2fssA 365 0.3939 2j6iA 364 0.3941 1ygyA 529 0.3979 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1qp8A 303 0.4296 c.2.1.4,c.23.12.1 30092,31352 2g1uA 155 0.4472 1vi2A 300 0.4821 c.2.1.7,c.58.1.5 100726,100727 2o4cA 380 0.4837 1li4A 432 0.5079 c.2.1.4,c.23.12.3 84616,84617 2ho3A 325 0.5740 1a7aA 432 0.5933 c.2.1.4,c.23.12.3 30104,31364 2cukA 311 0.5962 2d0iA 333 0.6078 3c85A 183 0.6432 1l7dA 384 0.7120 c.2.1.4,c.23.12.2 77774,77775 1luaA 287 0.7275 c.2.1.7,c.58.1.4 78216,78217 1qmgA 524 0.7938 a.100.1.2,c.2.1.6 18785,30182 1tltA 319 0.8410 c.2.1.3,d.81.1.5 107135,107136 1v8bA 479 0.8436 c.2.1.4,c.23.12.3 113564,113565 1psdA 409 0.8921 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 2qytA 317 0.9246 2vojA 371 0.9350 1omoA 322 1.014 c.2.1.13 104017 2vhxA 377 1.053 1sc6A 404 1.233 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2eklA 313 1.234 1ceqA 316 1.240 c.2.1.5,d.162.1.1 30163,42130 1ldg 316 1.257 2gptA 523 1.321 2o4uX 334 1.413 1xwfA 431 1.419 c.2.1.4,c.23.12.3 122392,122393 1ofgA 381 1.489 c.2.1.3,d.81.1.5 30064,39979 1xeaA 323 1.610 c.2.1.3,d.81.1.5 109572,109573 1lsuA 147 1.638 c.2.1.9 74250 1x7dA 350 1.680 c.2.1.13 114927 2p2sA 336 1.732 1rydA 387 1.798 c.2.1.3,d.81.1.5 118801,118802 2ixaA 444 1.899 1uufA 369 1.911 b.35.1.2,c.2.1.1 100006,100007 1vllA 334 1.964 c.2.1.13 108834 1h6dA 433 2.009 c.2.1.3,d.81.1.5 65656,65657 1e3jA 352 2.025 b.35.1.2,c.2.1.1 24765,29781 2glxA 332 2.224 1guzA 310 2.268 c.2.1.5,d.162.1.1 65586,65587 2q4eA 362 2.300 1zh8A 340 2.306 c.2.1.3,d.81.1.5 125077,125078 1ez4A 318 2.506 c.2.1.5,d.162.1.1 64917,64918 6ldhA 329 2.527 c.2.1.5,d.162.1.1 30161,42128 3ceaA 346 2.635 2hsdA 253 3.127 c.2.1.2 29866 1hdcA 253 3.518 c.2.1.2 29862 1gcuA 295 3.584 c.2.1.3,d.81.1.4 30063,39978 1sayA 361 3.600 c.2.1.4,c.23.12.2 30102,31362 2cdcA 366 3.911 1bw9A 356 4.165 c.2.1.7,c.58.1.1 30274,33922 1hyhA 309 4.198 c.2.1.5,d.162.1.1 30150,42117 1id1A 153 4.214 c.2.1.9 62286 1pl8A 356 4.236 b.35.1.2,c.2.1.1 94878,94879 2d8aA 348 4.300 3c1aA 315 4.495 1pjqA 457 4.832 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1ldnA 316 5.157 c.2.1.5,d.162.1.1 30166,42133 2v7pA 310 5.698 1bdb 277 5.748 1uxjA 309 5.805 c.2.1.5,d.162.1.1 108112,108113 1c1dA 355 5.866 c.2.1.7,c.58.1.1 30270,33918 2hmvA 144 6.027 c.2.1.9 136615 1t2dA 322 6.034 c.2.1.5,d.162.1.1 99084,99085 2i6tA 303 6.126 2bkaA 242 6.161 c.2.1.2 128666 2aefA 234 6.179 1lluA 342 6.206 b.35.1.2,c.2.1.1 91064,91065 1a5zA 319 6.890 c.2.1.5,d.162.1.1 30181,42148 2r6jA 318 6.900 1kyqA 274 7.076 c.2.1.11,e.37.1.1 73281,73282 1yqdA 366 7.440 2gdzA 267 7.656 c.2.1.2 135043 1vjtA 483 7.743 c.2.1.5,d.162.1.2 100833,100834 1kevA 351 7.969 b.35.1.2,c.2.1.1 24749,29765 1vl8A 267 8.126 c.2.1.2 108733 1pzgA 331 8.161 c.2.1.5,d.162.1.1 95425,95426 1jqbA 351 8.424 b.35.1.2,c.2.1.1 77151,77152 2cf5A 357 8.424 1h2bA 359 8.521 b.35.1.2,c.2.1.1 90543,90544 1f06A 320 8.682 c.2.1.3,d.81.1.3 59556,59557 1y81A 138 9.258 c.2.1.8 122731 1f8fA 371 9.636 b.35.1.2,c.2.1.1 83246,83247 2ouiA 360 9.716 2h6eA 344 9.98 2a4kA 263 10.13 c.2.1.2 126156 1a71A 374 10.15 b.35.1.2,c.2.1.1 24673,29689 1pedA 351 10.74 b.35.1.2,c.2.1.1 24753,29769 1a4iA 301 10.75 c.2.1.7,c.58.1.2 30278,33926 1xseA 295 11.36 c.2.1.2 115925 1q7bA 244 11.58 c.2.1.2 96026 1lnqA 336 11.60 c.2.1.9,d.286.1.1,f.14.1.1 111576,111577,74050 2q49A 359 11.82 c.2.1.3,d.81.1.1 139831,139832 1x7gA 261 11.87 c.2.1.2 114929 1ykfA 352 11.97 b.35.1.2,c.2.1.1 24757,29773 1axgA 374 12.00 b.35.1.2,c.2.1.1 24691,29707 1hxhA 253 12.16 c.2.1.2 76725 1yb1A 272 12.27 c.2.1.2 116599 1ur5A 309 12.85 c.2.1.5,d.162.1.1 99807,99808 2r00A 336 13.00 1vj0A 380 13.01 b.35.1.2,c.2.1.1 100786,100787 1axeA 374 13.05 b.35.1.2,c.2.1.1 24681,29697 2b5wA 357 13.29 1xhlA 297 13.38 c.2.1.2 109591 1y8qB 640 13.71 1xg5A 279 13.78 c.2.1.2 115277 1e6wA 260 13.81 c.2.1.2 59326 1edoA 244 13.85 c.2.1.2 29896 1y9aA 360 13.93 1mjfA 281 14.03 c.66.1.17 79198 1nffA 260 14.15 c.2.1.2 80457 1ydeA 270 14.60 c.2.1.2 122980 2c2xA 281 14.72 1h7xA 1025 15.13 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1iukA 140 15.65 c.2.1.8 83712 1spxA 278 15.68 c.2.1.2 98958 1vl6A 388 15.74 c.2.1.7,c.58.1.3 108724,108725 1xu9A 286 15.88 c.2.1.2 116052 1sbyA 254 16.08 c.2.1.2 118930 1y8qA 346 16.16 1jw9B 249 16.28 c.111.1.1 67377 1u8xX 472 16.61 c.2.1.5,d.162.1.2 107741,107742 2ag5A 246 16.95 c.2.1.2 126719 1b0aA 288 17.05 c.2.1.7,c.58.1.2 30286,33934 2zbwA 335 17.10 1xkqA 280 17.21 c.2.1.2 115417 2d59A 144 17.28 c.2.1.8 131266 2pnfA 248 17.30 1he2A 206 17.36 c.2.1.2 60966 1u3wA 374 17.61 b.35.1.2,c.2.1.1 113013,113014 1e3sA 261 17.62 c.2.1.2 59201 1gegA 256 18.04 c.2.1.2 29888 2gz1A 366 18.12 c.2.1.3,d.81.1.1 135887,135888 1ja9A 274 18.45 c.2.1.2 62817 2gn4A 344 18.51 9ldtA 332 19.28 c.2.1.5,d.162.1.1 30154,42121 2cfcA 250 19.32 1ee2A 373 19.39 b.35.1.2,c.2.1.1 24663,29679 1p0fA 373 19.54 b.35.1.2,c.2.1.1 87642,87643 1gteA 1025 20.13 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1qydA 313 20.56 c.2.1.2 96583 1y1pA 342 20.89 c.2.1.2 122550 1n5dA 288 20.95 c.2.1.2 80030 2g17A 337 21.32 c.2.1.3,d.81.1.1 134512,134513 1vqwA 457 21.61 c.3.1.5,c.3.1.5 114028,114029 2bgkA 278 21.63 c.2.1.2 128480 2ewdA 317 21.66 1lc0A 294 21.90 c.2.1.3,d.81.1.4 73823,73824 1b26A 416 22.78 c.2.1.7,c.58.1.1 30232,33880 2c07A 285 23.85 c.2.1.2 129577 1lehA 364 24.06 c.2.1.7,c.58.1.1 30268,33916 3bkwA 243 24.45 3cc8A 230 24.64 1y5mA 276 25.11 c.2.1.2 122645 1h7wA 1025 25.58 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1s6yA 450 25.66 c.2.1.5,d.162.1.2 105314,105315 1yxmA 303 25.81 c.2.1.2 124192 2gasA 307 25.82 1b16A 254 26.45 c.2.1.2 29875 1k2wA 256 26.87 c.2.1.2 90927 1w6uA 302 26.96 c.2.1.2 114288 1h5qA 265 27.03 c.2.1.2 60643 1b3bA 415 27.22 c.2.1.7,c.58.1.1 30244,33892 1obbA 480 27.32 c.2.1.5,d.162.1.2 86760,86761 2o23A 265 27.34 c.2.1.2 138884 1cydA 244 27.45 c.2.1.2 29825 1kolA 398 27.71 b.35.1.2,c.2.1.1 77474,77475 1hwyA 501 27.77 c.2.1.7,c.58.1.1 30262,33910 1ml4A 308 27.82 c.78.1.1,c.78.1.1 79255,79256 1iy8A 267 27.98 c.2.1.2 83774 2yyyA 343 28.06 1zk4A 251 28.32 c.2.1.2 125176 1fmcA 255 28.40 c.2.1.2 29856 2ef0A 301 28.58 1lldA 319 29.37 c.2.1.5,d.162.1.1 30177,42144 1drw 273 30.61 2czcA 334 31.22 d.81.1.1 131044 1yovA 537 31.23 c.111.1.2 123785 3bioA 304 31.29 1vm6A 228 31.77 d.81.1.3,c.2.1.3 108877,118631 1zud1 251 32.09 2jahA 247 32.30 1zemA 262 32.31 c.2.1.2 124984 3csuA 310 32.31 c.78.1.1,c.78.1.1 35094,35095 2o57A 297 32.50 1s2oA 244 32.63 c.108.1.10 118846 2pd6A 264 32.76 1g0oA 283 32.96 c.2.1.2 60181 2dt5A 211 33.40 a.4.5.38,c.2.1.12 131708,131709 1ebdA 455 33.54 c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1xcbA 211 34.12 a.4.5.38,c.2.1.12 109552,109553 1edzA 320 34.59 c.2.1.7,c.58.1.2 30287,33935 1vknA 351 35.23 c.2.1.3,d.81.1.1 108676,108677 1wpgA 994 35.46 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 114806,114807,114808,114809 2ew8A 249 36.09 c.2.1.2 132447 1qycA 308 37.20 c.2.1.2 96581 1qo0D 196 37.22 c.23.1.3 31125 2ph5A 480 38.40 2jhfA 374 38.79 b.35.1.2,c.2.1.1 138314,138315 2ph3A 245 39.13 1ybvA 283 39.16 c.2.1.2 29948 1e5dA 402 39.30 c.23.5.1,d.157.1.3 31208,42061 1rlmA 271 39.44 c.108.1.10 111860 3ldh 330 40.02 i.12.1.1 46015 2qa1A 500 40.63 2c5aA 379 40.88 c.2.1.2 129894 1x1tA 260 41.34 c.2.1.2 121597 2r0cA 549 41.42 1d7oA 297 41.54 c.2.1.2 29907 1othA 321 41.90 c.78.1.1,c.78.1.1 35260,35261 1gtmA 419 41.95 c.2.1.7,c.58.1.1 30223,33871 1hdoA 206 42.30 c.2.1.2 60965 1gcoA 261 42.50 c.2.1.2 29884 1xgkA 352 42.54 c.2.1.2 115286 2q1sA 377 44.19 1l8qA 324 44.31 a.4.12.2,c.37.1.20 77809,77810 2a9fA 398 45.07 1p3dA 475 45.66 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1n8kA 374 47.02 b.35.1.2,c.2.1.1 80298,80299 2dc1A 236 47.02 1cf2O 337 47.47 c.2.1.3,d.81.1.1 29994,39909 1pwxA 254 47.67 c.2.1.2 95262 2z1nA 260 48.95 1yb5A 351 49.20 b.35.1.2,c.2.1.1 116601,116602 1wmaA 276 49.42 c.2.1.2 121042 1mo9A 523 49.90 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1trbA 320 51.29 c.3.1.5,c.3.1.5 30529,30530 1dapA 320 52.32 c.2.1.3,d.81.1.3 30053,39968 2i6uA 307 52.90 1bdmA 327 53.53 c.2.1.5,d.162.1.1 30137,42104 3ladA 476 55.27 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1ekxA 311 55.50 c.78.1.1,c.78.1.1 35088,35089 2h7mA 269 56.64 c.2.1.2 136219 1b8pA 329 57.16 c.2.1.5,d.162.1.1 30147,42114 1k6xA 352 58.78 c.2.1.2 68238 1ek6A 348 59.38 c.2.1.2 29800 1qrrA 394 59.85 c.2.1.2 29824 2ae2A 260 60.69 c.2.1.2 29945 2q46A 253 60.77 c.2.1.2 139825 1fl2A 310 62.30 c.3.1.5,c.3.1.5 59869,59870 1dhr 241 62.37 2fr1A 486 62.92 c.2.1.2,c.2.1.2 133961,133962 2gv8A 447 63.56 c.3.1.5,c.3.1.5 135759,135760 3c96A 415 64.11 1bgvA 449 64.22 c.2.1.7,c.58.1.1 30217,33865 1zk7A 467 64.35 2gf3A 389 65.38 c.3.1.2,d.16.1.3 135070,135071 2bi7A 384 65.54 1kpgA 287 66.85 c.66.1.18 68735 1udcA 338 66.85 c.2.1.2 29785 8atcA 310 67.63 c.78.1.1,c.78.1.1 35132,35133 1ae1A 273 68.28 c.2.1.2 29943 1zmdA 474 68.56 1enp 312 68.68 1m1nB 522 70.43 c.92.2.3 78418 2d1yA 256 70.45 c.2.1.2 131151 1ee9A 320 71.71 c.2.1.7,c.58.1.2 30288,33936 1up6A 416 71.90 c.2.1.5,d.162.1.2 107976,107977 1x1eA 239 71.97 2ohxA 374 72.34 b.35.1.2,c.2.1.1 24669,29685 1l9cA 389 72.41 c.3.1.2,d.16.1.3 77815,77816 1ykjA 394 72.49 2hoqA 241 72.64 1acmA 310 73.22 c.78.1.1,c.78.1.1 35180,35181 2hq1A 247 73.32 1rsgA 516 73.60 1orrA 347 73.72 c.2.1.2 93460 1x13A 401 74.54 1xxlA 239 74.67 c.66.1.41 116203 1up7A 417 74.75 c.2.1.5,d.162.1.2 113374,113375 1lvl 458 77.56 2bd0A 244 78.66 c.2.1.2 128321 1kdgA 546 78.80 c.3.1.2,d.16.1.1 77337,77338 1o54A 277 79.24 c.66.1.13 92482 1drwA 273 79.97 c.2.1.3,d.81.1.3 30057,39972 2p91A 285 81.58 1uh5A 329 82.88 c.2.1.2 107840 1rkqA 282 83.43 c.108.1.10 97621 2cmdA 312 83.53 c.2.1.5,d.162.1.1 30135,42102 1hwxA 501 84.04 c.2.1.7,c.58.1.1 30250,33898 2i8aA 252 85.37 2nwqA 272 86.35 1reoA 486 86.94 c.3.1.2,d.16.1.5 97325,97326 1y56A 493 86.99 1l7mA 211 87.35 c.108.1.4 73664