# List of top-scoring protein chains for t2k-w0.5-1-o_sep-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 1.33e-08 2ahrA 259 3.67e-08 a.100.1.10,c.2.1.6 126775,126776 2h78A 302 1.08e-07 1vpdA 299 1.18e-07 a.100.1.1,c.2.1.6 113951,113952 2rcyA 262 1.50e-07 2graA 277 1.87e-07 2izzA 322 2.16e-07 2i76A 276 2.79e-07 1pgjA 478 2.87e-07 a.100.1.1,c.2.1.6 18783,30195 1yb4A 295 3.04e-07 2cvzA 289 3.58e-07 a.100.1.1,c.2.1.6 130890,130891 2pgd 482 4.99e-07 2pgdA 482 2.22e-06 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 3.75e-06 2f1kA 279 3.85e-06 a.100.1.12,c.2.1.6 132772,132773 1evyA 366 1.62e-05 a.100.1.6,c.2.1.6 18811,30215 1x0vA 354 1.80e-05 3c24A 286 2.27e-05 1txgA 335 3.00e-05 a.100.1.6,c.2.1.6 112775,112776 1bg6A 359 3.47e-05 a.100.1.5,c.2.1.6 18810,30214 2g5cA 281 3.72e-05 a.100.1.12,c.2.1.6 134646,134647 1z82A 335 4.90e-05 1i36A 264 0.000102 a.100.1.8,c.2.1.6 71108,71109 1bg6 359 0.000147 2b0jA 358 0.000179 a.100.1.11,c.2.1.6 127639,127640 1np3A 338 0.000407 a.100.1.2,c.2.1.6 85946,85947 1gpjA 404 0.000613 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2pv7A 298 0.001092 1jayA 212 0.005258 c.2.1.6 66478 1nytA 271 0.006339 c.2.1.7,c.58.1.5 86417,86418 2hdhA 293 0.006942 a.100.1.3,c.2.1.6 18795,30199 2dpoA 319 0.007247 1zcjA 463 0.008633 1f0yA 302 0.009454 a.100.1.3,c.2.1.6 18793,30197 1mv8A 436 0.01173 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1p77A 272 0.01255 c.2.1.7,c.58.1.5 94214,94215 1zejA 293 0.01873 2d5cA 263 0.02178 2eggA 297 0.02249 2nloA 302 0.03644 2ew2A 316 0.05263 1npyA 271 0.05393 c.2.1.7,c.58.1.5 85995,85996 2hk9A 275 0.05961 1ks9A 291 0.06940 a.100.1.7,c.2.1.6 68857,68858 1npdA 288 0.08139 c.2.1.7,c.58.1.5 80681,80682 1d4fA 431 0.1060 c.2.1.4,c.23.12.3 30110,31370 1ff9A 450 0.1109 c.2.1.3,d.81.1.2 30039,39954 1wwkA 307 0.1303 2nadA 393 0.1361 c.2.1.4,c.23.12.1 30090,31350 1dljA 402 0.1413 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1b3rA 431 0.1508 c.2.1.4,c.23.12.3 30106,31366 1j4aA 333 0.1516 c.2.1.4,c.23.12.1 71502,71503 1dxy 333 0.1526 1pjcA 361 0.1659 c.2.1.4,c.23.12.2 30101,31361 2o7sA 523 0.1761 1dliA 402 0.1956 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1xdwA 331 0.2083 1lssA 140 0.2115 c.2.1.9 74246 1nvtA 287 0.2164 c.2.1.7,c.58.1.5 86270,86271 2nacA 393 0.2320 c.2.1.4,c.23.12.1 30088,31348 2o3jA 481 0.2340 2axqA 467 0.2427 1mx3A 347 0.2550 c.2.1.4,c.23.12.1 79638,79639 1gdhA 320 0.2641 c.2.1.4,c.23.12.1 30095,31355 2g76A 335 0.2771 2dbqA 334 0.2812 1dxyA 333 0.2942 c.2.1.4,c.23.12.1 30094,31354 2pi1A 334 0.3257 2nvwA 479 0.3654 c.2.1.3,d.81.1.5 138665,138666 2g1uA 155 0.3797 2dldA 337 0.4192 c.2.1.4,c.23.12.1 30099,31359 1qp8A 303 0.4320 c.2.1.4,c.23.12.1 30092,31352 2gcgA 330 0.4370 2j6iA 364 0.4409 1yrlA 491 0.4465 2fssA 365 0.4743 1vi2A 300 0.5134 c.2.1.7,c.58.1.5 100726,100727 1ygyA 529 0.5237 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1li4A 432 0.5333 c.2.1.4,c.23.12.3 84616,84617 2o4cA 380 0.5605 2ho3A 325 0.5812 3c85A 183 0.6159 2cukA 311 0.6280 1a7aA 432 0.6891 c.2.1.4,c.23.12.3 30104,31364 1luaA 287 0.6974 c.2.1.7,c.58.1.4 78216,78217 2d0iA 333 0.7374 1l7dA 384 0.8415 c.2.1.4,c.23.12.2 77774,77775 2vojA 371 1.040 1psdA 409 1.081 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1v8bA 479 1.081 c.2.1.4,c.23.12.3 113564,113565 2vhxA 377 1.107 2eklA 313 1.167 2qytA 317 1.196 1qmgA 524 1.199 a.100.1.2,c.2.1.6 18785,30182 2o4uX 334 1.296 1omoA 322 1.354 c.2.1.13 104017 1tltA 319 1.477 c.2.1.3,d.81.1.5 107135,107136 1ldg 316 1.610 1sc6A 404 1.645 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1xwfA 431 1.653 c.2.1.4,c.23.12.3 122392,122393 1ceqA 316 1.688 c.2.1.5,d.162.1.1 30163,42130 1ofgA 381 1.724 c.2.1.3,d.81.1.5 30064,39979 1lsuA 147 1.807 c.2.1.9 74250 2p2sA 336 1.830 1xeaA 323 1.983 c.2.1.3,d.81.1.5 109572,109573 1rydA 387 2.045 c.2.1.3,d.81.1.5 118801,118802 1x7dA 350 2.055 c.2.1.13 114927 2ixaA 444 2.114 2gptA 523 2.221 1uufA 369 2.234 b.35.1.2,c.2.1.1 100006,100007 1e3jA 352 2.398 b.35.1.2,c.2.1.1 24765,29781 1h6dA 433 2.466 c.2.1.3,d.81.1.5 65656,65657 2q4eA 362 2.531 2glxA 332 2.590 1vllA 334 2.715 c.2.1.13 108834 1guzA 310 2.788 c.2.1.5,d.162.1.1 65586,65587 1zh8A 340 3.084 c.2.1.3,d.81.1.5 125077,125078 3ceaA 346 3.113 1ez4A 318 3.147 c.2.1.5,d.162.1.1 64917,64918 6ldhA 329 3.246 c.2.1.5,d.162.1.1 30161,42128 1gcuA 295 3.960 c.2.1.3,d.81.1.4 30063,39978 2hsdA 253 3.981 c.2.1.2 29866 1id1A 153 4.414 c.2.1.9 62286 2cdcA 366 4.769 1pl8A 356 4.871 b.35.1.2,c.2.1.1 94878,94879 1hdcA 253 4.923 c.2.1.2 29862 2d8aA 348 5.069 1sayA 361 5.340 c.2.1.4,c.23.12.2 30102,31362 1bw9A 356 5.402 c.2.1.7,c.58.1.1 30274,33922 2hmvA 144 5.472 c.2.1.9 136615 1hyhA 309 5.658 c.2.1.5,d.162.1.1 30150,42117 1bdb 277 5.978 2v7pA 310 6.298 1ldnA 316 6.423 c.2.1.5,d.162.1.1 30166,42133 2bkaA 242 6.522 c.2.1.2 128666 2gdzA 267 7.049 c.2.1.2 135043 3c1aA 315 7.118 1lluA 342 7.289 b.35.1.2,c.2.1.1 91064,91065 1vl8A 267 7.716 c.2.1.2 108733 1a5zA 319 7.826 c.2.1.5,d.162.1.1 30181,42148 1t2dA 322 7.911 c.2.1.5,d.162.1.1 99084,99085 1uxjA 309 8.004 c.2.1.5,d.162.1.1 108112,108113 1kevA 351 8.141 b.35.1.2,c.2.1.1 24749,29765 1yqdA 366 8.276 2i6tA 303 8.312 1pjqA 457 8.332 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1kyqA 274 8.476 c.2.1.11,e.37.1.1 73281,73282 1c1dA 355 8.540 c.2.1.7,c.58.1.1 30270,33918 2r6jA 318 8.567 1f8fA 371 9.106 b.35.1.2,c.2.1.1 83246,83247 1a71A 374 9.461 b.35.1.2,c.2.1.1 24673,29689 1jqbA 351 9.472 b.35.1.2,c.2.1.1 77151,77152 2aefA 234 9.556 1vjtA 483 9.890 c.2.1.5,d.162.1.2 100833,100834 1f06A 320 10.16 c.2.1.3,d.81.1.3 59556,59557 1pzgA 331 10.24 c.2.1.5,d.162.1.1 95425,95426 1h2bA 359 10.48 b.35.1.2,c.2.1.1 90543,90544 1xseA 295 10.71 c.2.1.2 115925 1a4iA 301 10.84 c.2.1.7,c.58.1.2 30278,33926 1hxhA 253 10.96 c.2.1.2 76725 2ouiA 360 10.99 1pedA 351 11.08 b.35.1.2,c.2.1.1 24753,29769 2cf5A 357 11.10 2zbwA 335 11.46 2a4kA 263 11.77 c.2.1.2 126156 1yb1A 272 11.90 c.2.1.2 116599 1axeA 374 12.26 b.35.1.2,c.2.1.1 24681,29697 1ykfA 352 12.47 b.35.1.2,c.2.1.1 24757,29773 1xhlA 297 12.51 c.2.1.2 109591 1xg5A 279 12.55 c.2.1.2 115277 2q49A 359 12.64 c.2.1.3,d.81.1.1 139831,139832 1x7gA 261 12.77 c.2.1.2 114929 1edoA 244 12.94 c.2.1.2 29896 1q7bA 244 13.03 c.2.1.2 96026 1y9aA 360 13.21 1axgA 374 13.43 b.35.1.2,c.2.1.1 24691,29707 1lnqA 336 13.44 c.2.1.9,d.286.1.1,f.14.1.1 111576,111577,74050 2r00A 336 13.70 1xu9A 286 13.74 c.2.1.2 116052 1spxA 278 13.81 c.2.1.2 98958 2h6eA 344 13.90 1y81A 138 13.97 c.2.1.8 122731 1e6wA 260 14.14 c.2.1.2 59326 2b5wA 357 14.28 2c2xA 281 14.35 1vj0A 380 14.73 b.35.1.2,c.2.1.1 100786,100787 1h7xA 1025 14.91 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 1ydeA 270 15.48 c.2.1.2 122980 2ag5A 246 16.04 c.2.1.2 126719 1b0aA 288 16.10 c.2.1.7,c.58.1.2 30286,33934 1sbyA 254 16.16 c.2.1.2 118930 1u3wA 374 16.32 b.35.1.2,c.2.1.1 113013,113014 1nffA 260 16.67 c.2.1.2 80457 1ja9A 274 17.05 c.2.1.2 62817 1y8qB 640 17.23 2pnfA 248 17.25 1ur5A 309 17.70 c.2.1.5,d.162.1.1 99807,99808 1xkqA 280 17.71 c.2.1.2 115417 1e3sA 261 17.94 c.2.1.2 59201 1gegA 256 18.07 c.2.1.2 29888 1p0fA 373 18.69 b.35.1.2,c.2.1.1 87642,87643 1ee2A 373 19.05 b.35.1.2,c.2.1.1 24663,29679 1iukA 140 19.23 c.2.1.8 83712 2d59A 144 19.26 c.2.1.8 131266 1lehA 364 20.55 c.2.1.7,c.58.1.1 30268,33916 2gn4A 344 21.09 1kolA 398 21.16 b.35.1.2,c.2.1.1 77474,77475 1y8qA 346 22.04 1y5mA 276 22.19 c.2.1.2 122645 1mjfA 281 23.11 c.66.1.17 79198 2c07A 285 23.15 c.2.1.2 129577 1vl6A 388 23.35 c.2.1.7,c.58.1.3 108724,108725 1jw9B 249 23.50 c.111.1.1 67377 2bgkA 278 23.56 c.2.1.2 128480 1yxmA 303 23.62 c.2.1.2 124192 1vqwA 457 23.96 c.3.1.5,c.3.1.5 114028,114029 1h5qA 265 23.98 c.2.1.2 60643 2cfcA 250 23.99 1n5dA 288 25.02 c.2.1.2 80030 1he2A 206 25.10 c.2.1.2 60966 1gteA 1025 25.11 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 9ldtA 332 25.21 c.2.1.5,d.162.1.1 30154,42121 1k2wA 256 25.35 c.2.1.2 90927 1qydA 313 25.41 c.2.1.2 96583 1y1pA 342 25.63 c.2.1.2 122550 1u8xX 472 25.81 c.2.1.5,d.162.1.2 107741,107742 3bkwA 243 26.03 2ewdA 317 26.11 1iy8A 267 26.34 c.2.1.2 83774 2gz1A 366 26.40 c.2.1.3,d.81.1.1 135887,135888 1b26A 416 26.55 c.2.1.7,c.58.1.1 30232,33880 1w6uA 302 26.68 c.2.1.2 114288 2o23A 265 26.74 c.2.1.2 138884 1b16A 254 27.54 c.2.1.2 29875 2jhfA 374 27.61 b.35.1.2,c.2.1.1 138314,138315 1fmcA 255 27.65 c.2.1.2 29856 1lc0A 294 27.81 c.2.1.3,d.81.1.4 73823,73824 1ebdA 455 28.17 c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1s2oA 244 29.03 c.108.1.10 118846 1h7wA 1025 29.86 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 1cydA 244 30.39 c.2.1.2 29825 2ef0A 301 30.57 2gasA 307 30.57 1zemA 262 31.48 c.2.1.2 124984 1g0oA 283 31.76 c.2.1.2 60181 1zk4A 251 32.29 c.2.1.2 125176 2g17A 337 32.56 c.2.1.3,d.81.1.1 134512,134513 2jahA 247 32.94 1trbA 320 33.91 c.3.1.5,c.3.1.5 30529,30530 1b3bA 415 33.92 c.2.1.7,c.58.1.1 30244,33892 1s6yA 450 34.33 c.2.1.5,d.162.1.2 105314,105315 1lldA 319 35.33 c.2.1.5,d.162.1.1 30177,42144 2ph3A 245 35.38 1edzA 320 36.09 c.2.1.7,c.58.1.2 30287,33935 1ml4A 308 36.11 c.78.1.1,c.78.1.1 79255,79256 1vm6A 228 36.27 d.81.1.3,c.2.1.3 108877,118631 1ybvA 283 36.40 c.2.1.2 29948 3cc8A 230 36.53 2z1nA 260 36.95 1yovA 537 36.98 c.111.1.2 123785 2o57A 297 37.28 1drw 273 37.35 2ew8A 249 37.75 c.2.1.2 132447 2dt5A 211 38.31 a.4.5.38,c.2.1.12 131708,131709 3bioA 304 39.76 2pd6A 264 40.16 1n8kA 374 40.33 b.35.1.2,c.2.1.1 80298,80299 1gcoA 261 41.04 c.2.1.2 29884 3csuA 310 41.75 c.78.1.1,c.78.1.1 35094,35095 2qa1A 500 41.95 2yyyA 343 42.29 1x1tA 260 42.43 c.2.1.2 121597 2c5aA 379 43.65 c.2.1.2 129894 1d7oA 297 43.69 c.2.1.2 29907 1obbA 480 44.23 c.2.1.5,d.162.1.2 86760,86761 1gtmA 419 44.48 c.2.1.7,c.58.1.1 30223,33871 1zud1 251 44.85 1e5dA 402 45.26 c.23.5.1,d.157.1.3 31208,42061 1xcbA 211 45.44 a.4.5.38,c.2.1.12 109552,109553 1othA 321 46.04 c.78.1.1,c.78.1.1 35260,35261 1wmaA 276 46.08 c.2.1.2 121042 2i6uA 307 46.84 2q1sA 377 48.06 2r0cA 549 48.51 1rlmA 271 48.55 c.108.1.10 111860 3ladA 476 49.11 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1qycA 308 50.33 c.2.1.2 96581 1pwxA 254 50.35 c.2.1.2 95262 1l8qA 324 50.42 a.4.12.2,c.37.1.20 77809,77810 1mo9A 523 50.93 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 2dc1A 236 50.95 1fl2A 310 51.24 c.3.1.5,c.3.1.5 59869,59870 1xgkA 352 51.28 c.2.1.2 115286 1trb 320 51.48 1qo0D 196 51.82 c.23.1.3 31125 2czcA 334 52.53 d.81.1.1 131044 1ae1A 273 55.44 c.2.1.2 29943 2ohxA 374 55.90 b.35.1.2,c.2.1.1 24669,29685 3grs 478 55.92 2h7mA 269 55.93 c.2.1.2 136219 1yb5A 351 56.82 b.35.1.2,c.2.1.1 116601,116602 2ae2A 260 57.93 c.2.1.2 29945 2ph5A 480 58.28 1udcA 338 58.74 c.2.1.2 29785 1zmdA 474 60.19 1zk7A 467 60.45 1hdoA 206 61.00 c.2.1.2 60965 1dhr 241 61.03 1wpgA 994 62.21 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 114806,114807,114808,114809 1b8pA 329 63.26 c.2.1.5,d.162.1.1 30147,42114 2hoqA 241 63.95 3ldh 330 64.75 i.12.1.1 46015 1hwyA 501 65.87 c.2.1.7,c.58.1.1 30262,33910 1enp 312 66.14 1k6xA 352 66.96 c.2.1.2 68238 1ee9A 320 67.39 c.2.1.7,c.58.1.2 30288,33936 1ek6A 348 68.04 c.2.1.2 29800 2a9fA 398 70.55 2bd0A 244 71.25 c.2.1.2 128321 1dapA 320 71.27 c.2.1.3,d.81.1.3 30053,39968 1lvl 458 71.30 2p91A 285 71.33 1rsgA 516 71.40 1bgvA 449 72.22 c.2.1.7,c.58.1.1 30217,33865 2bi7A 384 72.30 2hq1A 247 72.88 2fr1A 486 73.19 c.2.1.2,c.2.1.2 133961,133962 1bdmA 327 74.46 c.2.1.5,d.162.1.1 30137,42104 3cggA 195 74.98 2gv8A 447 75.05 c.3.1.5,c.3.1.5 135759,135760 1ekxA 311 75.32 c.78.1.1,c.78.1.1 35088,35089 1p3dA 475 76.60 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2d1yA 256 76.70 c.2.1.2 131151 1o54A 277 77.21 c.66.1.13 92482 1vknA 351 77.34 c.2.1.3,d.81.1.1 108676,108677 1rkqA 282 77.81 c.108.1.10 97621 1x1eA 239 78.13 1qrrA 394 78.80 c.2.1.2 29824 2q46A 253 80.10 c.2.1.2 139825 1cf2O 337 80.32 c.2.1.3,d.81.1.1 29994,39909 1l7mA 211 80.53 c.108.1.4 73664 1ykjA 394 80.82 1m1nB 522 82.13 c.92.2.3 78418 2nxcA 254 83.08 c.66.1.39 138739 1kpgA 287 84.17 c.66.1.18 68735 1up6A 416 84.32 c.2.1.5,d.162.1.2 107976,107977 3c96A 415 85.03 1uh5A 329 85.15 c.2.1.2 107840 1y56A 493 85.58 1ooeA 236 85.59 c.2.1.2 87196 1xa0A 328 86.15 b.35.1.2,c.2.1.1 115021,115022 1orrA 347 86.25 c.2.1.2 93460 2hrdA 253 87.28 2c29D 337 87.51 1up7A 417 89.61 c.2.1.5,d.162.1.2 113374,113375