# List of top-scoring protein chains for t2k-w0.5-1-str2-0.1-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 2.01e-07 2ahrA 259 4.46e-07 a.100.1.10,c.2.1.6 126775,126776 2graA 277 1.28e-06 2h78A 302 1.36e-06 1vpdA 299 1.40e-06 a.100.1.1,c.2.1.6 113951,113952 2rcyA 262 1.52e-06 2izzA 322 1.79e-06 1pgjA 478 2.16e-06 a.100.1.1,c.2.1.6 18783,30195 2i76A 276 2.26e-06 1yb4A 295 3.38e-06 2cvzA 289 4.55e-06 a.100.1.1,c.2.1.6 130890,130891 2pgd 482 4.80e-06 2f1kA 279 1.36e-05 a.100.1.12,c.2.1.6 132772,132773 2pgdA 482 1.37e-05 a.100.1.1,c.2.1.6 18778,30190 2p4qA 497 2.77e-05 1evyA 366 5.80e-05 a.100.1.6,c.2.1.6 18811,30215 1txgA 335 7.20e-05 a.100.1.6,c.2.1.6 112775,112776 1bg6A 359 8.27e-05 a.100.1.5,c.2.1.6 18810,30214 1x0vA 354 0.000106 2g5cA 281 0.000148 a.100.1.12,c.2.1.6 134646,134647 1z82A 335 0.000152 3c24A 286 0.000157 1bg6 359 0.000332 1i36A 264 0.000660 a.100.1.8,c.2.1.6 71108,71109 2b0jA 358 0.000751 a.100.1.11,c.2.1.6 127639,127640 1np3A 338 0.001598 a.100.1.2,c.2.1.6 85946,85947 1gpjA 404 0.001618 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2pv7A 298 0.002464 2hdhA 293 0.008134 a.100.1.3,c.2.1.6 18795,30199 1jayA 212 0.009364 c.2.1.6 66478 2dpoA 319 0.01040 1zcjA 463 0.01042 1nytA 271 0.01125 c.2.1.7,c.58.1.5 86417,86418 1f0yA 302 0.01285 a.100.1.3,c.2.1.6 18793,30197 1mv8A 436 0.01934 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1p77A 272 0.02682 c.2.1.7,c.58.1.5 94214,94215 2eggA 297 0.03899 2d5cA 263 0.05363 2nloA 302 0.05921 1ks9A 291 0.06817 a.100.1.7,c.2.1.6 68857,68858 2hk9A 275 0.06867 2ew2A 316 0.07634 1zejA 293 0.1006 1npyA 271 0.1255 c.2.1.7,c.58.1.5 85995,85996 1npdA 288 0.1278 c.2.1.7,c.58.1.5 80681,80682 1d4fA 431 0.1398 c.2.1.4,c.23.12.3 30110,31370 1ff9A 450 0.1406 c.2.1.3,d.81.1.2 30039,39954 2nadA 393 0.1661 c.2.1.4,c.23.12.1 30090,31350 1dljA 402 0.1757 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 0.2027 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1b3rA 431 0.2062 c.2.1.4,c.23.12.3 30106,31366 1wwkA 307 0.2081 1j4aA 333 0.2159 c.2.1.4,c.23.12.1 71502,71503 1mx3A 347 0.2303 c.2.1.4,c.23.12.1 79638,79639 2g76A 335 0.2349 2axqA 467 0.2575 2nacA 393 0.2637 c.2.1.4,c.23.12.1 30088,31348 2nvwA 479 0.2646 c.2.1.3,d.81.1.5 138665,138666 1dxy 333 0.2767 1gdhA 320 0.2782 c.2.1.4,c.23.12.1 30095,31355 2o3jA 481 0.3361 2dbqA 334 0.3371 1nvtA 287 0.3655 c.2.1.7,c.58.1.5 86270,86271 1xdwA 331 0.3872 1tltA 319 0.3942 c.2.1.3,d.81.1.5 107135,107136 1dxyA 333 0.4001 c.2.1.4,c.23.12.1 30094,31354 1pjcA 361 0.4136 c.2.1.4,c.23.12.2 30101,31361 1yrlA 491 0.4327 2eklA 313 0.4399 1ygyA 529 0.4551 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2gcgA 330 0.4601 1vi2A 300 0.4631 c.2.1.7,c.58.1.5 100726,100727 2j6iA 364 0.4669 2pi1A 334 0.4803 2o7sA 523 0.4861 2dldA 337 0.5053 c.2.1.4,c.23.12.1 30099,31359 2o4cA 380 0.5385 2fssA 365 0.5392 2cukA 311 0.5621 2ho3A 325 0.6194 2p2sA 336 0.6657 1qp8A 303 0.6676 c.2.1.4,c.23.12.1 30092,31352 1li4A 432 0.6935 c.2.1.4,c.23.12.3 84616,84617 1lssA 140 0.7389 c.2.1.9 74246 1a7aA 432 0.7849 c.2.1.4,c.23.12.3 30104,31364 2d0iA 333 0.7869 1qmgA 524 0.8773 a.100.1.2,c.2.1.6 18785,30182 2o4uX 334 0.8910 1sc6A 404 0.9208 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1psdA 409 1.005 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1h6dA 433 1.067 c.2.1.3,d.81.1.5 65656,65657 1luaA 287 1.072 c.2.1.7,c.58.1.4 78216,78217 1zh8A 340 1.083 c.2.1.3,d.81.1.5 125077,125078 2qytA 317 1.092 2glxA 332 1.117 3ceaA 346 1.124 1rydA 387 1.134 c.2.1.3,d.81.1.5 118801,118802 2q4eA 362 1.149 1ofgA 381 1.213 c.2.1.3,d.81.1.5 30064,39979 3c85A 183 1.221 2g1uA 155 1.228 1l7dA 384 1.266 c.2.1.4,c.23.12.2 77774,77775 1omoA 322 1.355 c.2.1.13 104017 1v8bA 479 1.389 c.2.1.4,c.23.12.3 113564,113565 1xeaA 323 1.397 c.2.1.3,d.81.1.5 109572,109573 1ceqA 316 1.442 c.2.1.5,d.162.1.1 30163,42130 1ldg 316 1.497 3c1aA 315 1.523 2vojA 371 1.590 2ixaA 444 1.704 1vllA 334 1.752 c.2.1.13 108834 2vhxA 377 1.788 1xwfA 431 1.946 c.2.1.4,c.23.12.3 122392,122393 1uufA 369 2.056 b.35.1.2,c.2.1.1 100006,100007 6ldhA 329 2.104 c.2.1.5,d.162.1.1 30161,42128 1x7dA 350 2.206 c.2.1.13 114927 1ez4A 318 2.474 c.2.1.5,d.162.1.1 64917,64918 2gptA 523 2.573 1guzA 310 2.800 c.2.1.5,d.162.1.1 65586,65587 1uxjA 309 2.949 c.2.1.5,d.162.1.1 108112,108113 1e3jA 352 2.978 b.35.1.2,c.2.1.1 24765,29781 1gcuA 295 2.991 c.2.1.3,d.81.1.4 30063,39978 1lsuA 147 3.313 c.2.1.9 74250 1bw9A 356 3.707 c.2.1.7,c.58.1.1 30274,33922 2cdcA 366 3.948 2hsdA 253 4.457 c.2.1.2 29866 1hyhA 309 4.489 c.2.1.5,d.162.1.1 30150,42117 2i6tA 303 4.522 1pjqA 457 4.558 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1hdcA 253 4.646 c.2.1.2 29862 1a5zA 319 5.352 c.2.1.5,d.162.1.1 30181,42148 2v7pA 310 5.887 1ur5A 309 5.921 c.2.1.5,d.162.1.1 99807,99808 1c1dA 355 5.963 c.2.1.7,c.58.1.1 30270,33918 1ldnA 316 6.144 c.2.1.5,d.162.1.1 30166,42133 1t2dA 322 6.179 c.2.1.5,d.162.1.1 99084,99085 1yqdA 366 7.428 1f06A 320 7.579 c.2.1.3,d.81.1.3 59556,59557 1pl8A 356 7.877 b.35.1.2,c.2.1.1 94878,94879 2cf5A 357 7.949 1id1A 153 8.065 c.2.1.9 62286 1vjtA 483 8.836 c.2.1.5,d.162.1.2 100833,100834 2aefA 234 8.962 2h6eA 344 8.970 1lluA 342 9.571 b.35.1.2,c.2.1.1 91064,91065 1sayA 361 9.632 c.2.1.4,c.23.12.2 30102,31362 1pzgA 331 9.722 c.2.1.5,d.162.1.1 95425,95426 1vl8A 267 10.11 c.2.1.2 108733 1bdb 277 10.28 1lnqA 336 10.33 c.2.1.9,d.286.1.1,f.14.1.1 111576,111577,74050 2gdzA 267 10.37 c.2.1.2 135043 1xhlA 297 10.47 c.2.1.2 109591 2d8aA 348 10.54 9ldtA 332 10.60 c.2.1.5,d.162.1.1 30154,42121 1xseA 295 10.92 c.2.1.2 115925 2hmvA 144 11.32 c.2.1.9 136615 2b5wA 357 11.54 2ewdA 317 12.27 2q49A 359 13.02 c.2.1.3,d.81.1.1 139831,139832 3bioA 304 13.43 1xg5A 279 13.83 c.2.1.2 115277 2ph5A 480 13.85 2bkaA 242 13.87 c.2.1.2 128666 2g17A 337 13.97 c.2.1.3,d.81.1.1 134512,134513 1a71A 374 13.99 b.35.1.2,c.2.1.1 24673,29689 2r00A 336 14.01 1b0aA 288 14.07 c.2.1.7,c.58.1.2 30286,33934 1ydeA 270 14.25 c.2.1.2 122980 1u8xX 472 15.01 c.2.1.5,d.162.1.2 107741,107742 1x7gA 261 15.13 c.2.1.2 114929 1kyqA 274 15.39 c.2.1.11,e.37.1.1 73281,73282 1lehA 364 15.57 c.2.1.7,c.58.1.1 30268,33916 1h2bA 359 15.67 b.35.1.2,c.2.1.1 90543,90544 1xu9A 286 16.06 c.2.1.2 116052 1lc0A 294 16.19 c.2.1.3,d.81.1.4 73823,73824 1q7bA 244 16.22 c.2.1.2 96026 1yb1A 272 16.28 c.2.1.2 116599 1edoA 244 16.78 c.2.1.2 29896 1hxhA 253 17.03 c.2.1.2 76725 2r6jA 318 17.40 1nffA 260 17.41 c.2.1.2 80457 1kevA 351 17.48 b.35.1.2,c.2.1.1 24749,29765 2bgkA 278 17.97 c.2.1.2 128480 1xkqA 280 18.03 c.2.1.2 115417 1axeA 374 18.25 b.35.1.2,c.2.1.1 24681,29697 2gz1A 366 18.28 c.2.1.3,d.81.1.1 135887,135888 2a4kA 263 18.28 c.2.1.2 126156 1y8qB 640 18.62 1lldA 319 18.72 c.2.1.5,d.162.1.1 30177,42144 2pnfA 248 19.11 1iy8A 267 19.15 c.2.1.2 83774 2czcA 334 19.32 d.81.1.1 131044 2c2xA 281 19.58 1yxmA 303 19.87 c.2.1.2 124192 1a4iA 301 19.99 c.2.1.7,c.58.1.2 30278,33926 1vknA 351 20.16 c.2.1.3,d.81.1.1 108676,108677 1e6wA 260 20.22 c.2.1.2 59326 1h7xA 1025 20.36 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 1k2wA 256 20.61 c.2.1.2 90927 1b26A 416 20.68 c.2.1.7,c.58.1.1 30232,33880 1sbyA 254 20.86 c.2.1.2 118930 1cydA 244 20.92 c.2.1.2 29825 1y5mA 276 21.04 c.2.1.2 122645 1y8qA 346 21.46 1ja9A 274 21.85 c.2.1.2 62817 1y1pA 342 21.89 c.2.1.2 122550 1axgA 374 21.93 b.35.1.2,c.2.1.1 24691,29707 1hwyA 501 22.00 c.2.1.7,c.58.1.1 30262,33910 1gegA 256 22.41 c.2.1.2 29888 1jqbA 351 22.42 b.35.1.2,c.2.1.1 77151,77152 1w6uA 302 22.68 c.2.1.2 114288 2cfcA 250 23.54 2yyyA 343 23.76 2ag5A 246 23.86 c.2.1.2 126719 1h5qA 265 24.06 c.2.1.2 60643 1pedA 351 24.14 b.35.1.2,c.2.1.1 24753,29769 1b3bA 415 24.60 c.2.1.7,c.58.1.1 30244,33892 1gtmA 419 24.87 c.2.1.7,c.58.1.1 30223,33871 1y9aA 360 25.28 1spxA 278 25.49 c.2.1.2 98958 1b8pA 329 25.69 c.2.1.5,d.162.1.1 30147,42114 1e3sA 261 25.73 c.2.1.2 59201 2c07A 285 25.75 c.2.1.2 129577 2ouiA 360 25.76 1ee2A 373 26.43 b.35.1.2,c.2.1.1 24663,29679 3cc8A 230 26.75 1bdmA 327 27.05 c.2.1.5,d.162.1.1 30137,42104 1vl6A 388 27.17 c.2.1.7,c.58.1.3 108724,108725 2ef0A 301 27.31 2gn4A 344 27.74 1obbA 480 28.82 c.2.1.5,d.162.1.2 86760,86761 1f8fA 371 28.87 b.35.1.2,c.2.1.1 83246,83247 1zk4A 251 28.95 c.2.1.2 125176 1s6yA 450 30.17 c.2.1.5,d.162.1.2 105314,105315 1zemA 262 30.43 c.2.1.2 124984 1y81A 138 30.87 c.2.1.8 122731 2pd6A 264 31.91 3ldh 330 31.95 i.12.1.1 46015 2d59A 144 32.05 c.2.1.8 131266 1drw 273 33.47 2jhfA 374 33.93 b.35.1.2,c.2.1.1 138314,138315 2ew8A 249 34.34 c.2.1.2 132447 2o23A 265 34.71 c.2.1.2 138884 2ae2A 260 35.47 c.2.1.2 29945 1xcbA 211 35.49 a.4.5.38,c.2.1.12 109552,109553 2jahA 247 35.64 1vj0A 380 36.07 b.35.1.2,c.2.1.1 100786,100787 1iukA 140 36.26 c.2.1.8 83712 1jw9B 249 36.40 c.111.1.1 67377 2ph3A 245 37.09 1n5dA 288 38.36 c.2.1.2 80030 1e5dA 402 38.39 c.23.5.1,d.157.1.3 31208,42061 1d7oA 297 41.00 c.2.1.2 29907 1ys4A 354 41.12 1gteA 1025 41.30 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 1g0oA 283 41.33 c.2.1.2 60181 1ml4A 308 41.53 c.78.1.1,c.78.1.1 79255,79256 1x1tA 260 41.92 c.2.1.2 121597 1nvmB 312 42.80 c.2.1.3,d.81.1.1 86251,86252 1yovA 537 43.11 c.111.1.2 123785 1vm6A 228 43.49 d.81.1.3,c.2.1.3 108877,118631 1ykfA 352 43.51 b.35.1.2,c.2.1.1 24757,29773 1mjfA 281 44.16 c.66.1.17 79198 1ybvA 283 44.47 c.2.1.2 29948 1cf2O 337 45.96 c.2.1.3,d.81.1.1 29994,39909 2dt5A 211 46.98 a.4.5.38,c.2.1.12 131708,131709 1he2A 206 48.21 c.2.1.2 60966 3bkwA 243 48.64 1vqwA 457 49.29 c.3.1.5,c.3.1.5 114028,114029 1h7wA 1025 50.40 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 1dapA 320 50.43 c.2.1.3,d.81.1.3 30053,39968 2bd0A 244 51.95 c.2.1.2 128321 2gasA 307 52.13 1hwxA 501 52.56 c.2.1.7,c.58.1.1 30250,33898 1pwxA 254 52.56 c.2.1.2 95262 1qo0D 196 53.22 c.23.1.3 31125 1qydA 313 53.89 c.2.1.2 96583 1s2oA 244 54.25 c.108.1.10 118846 1fmcA 255 54.98 c.2.1.2 29856 1xgkA 352 55.01 c.2.1.2 115286 1ae1A 273 56.33 c.2.1.2 29943 1othA 321 56.39 c.78.1.1,c.78.1.1 35260,35261 1cjcA 460 56.57 c.3.1.1,c.4.1.1 30319,30604 2p91A 285 56.66 1u3wA 374 56.73 b.35.1.2,c.2.1.1 113013,113014 2gv8A 447 57.28 c.3.1.5,c.3.1.5 135759,135760 1l8qA 324 58.06 a.4.12.2,c.37.1.20 77809,77810 1enp 312 59.44 3csuA 310 59.61 c.78.1.1,c.78.1.1 35094,35095 2r0cA 549 59.64 1x13A 401 60.75 1p0fA 373 61.90 b.35.1.2,c.2.1.1 87642,87643 2hq1A 247 62.11 2a9fA 398 63.08 1gcoA 261 63.20 c.2.1.2 29884 2dc1A 236 63.81 1hdoA 206 63.99 c.2.1.2 60965 1l9cA 389 64.78 c.3.1.2,d.16.1.3 77815,77816 2zbwA 335 65.03 1wmaA 276 65.31 c.2.1.2 121042 1p3dA 475 65.48 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2fr1A 486 66.36 c.2.1.2,c.2.1.2 133961,133962 1qycA 308 66.60 c.2.1.2 96581 1yvvA 336 66.63 2o57A 297 66.76 2c29D 337 66.82 2gf3A 389 67.03 c.3.1.2,d.16.1.3 135070,135071 1o6zA 303 70.06 c.2.1.5,d.162.1.1 81107,81108 1fl2A 310 70.57 c.3.1.5,c.3.1.5 59869,59870 2bi7A 384 73.81 2ohxA 374 74.12 b.35.1.2,c.2.1.1 24669,29685 1p9lA 245 74.63 c.2.1.3,d.81.1.3 94393,94394 1uh5A 329 75.65 c.2.1.2 107840 1k6xA 352 75.92 c.2.1.2 68238 1o54A 277 76.54 c.66.1.13 92482 1ykjA 394 76.89 1b16A 254 77.76 c.2.1.2 29875 2nwqA 272 78.54 2yqzA 263 78.55 1pg5A 299 79.37 c.78.1.1,c.78.1.1 104146,104147 2bmaA 470 79.98 1up6A 416 80.38 c.2.1.5,d.162.1.2 107976,107977 2d1yA 256 80.62 c.2.1.2 131151 2i6uA 307 82.00 1wpgA 994 82.94 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 114806,114807,114808,114809 2c5aA 379 85.31 c.2.1.2 129894 2blnA 305 85.38 b.46.1.1,c.65.1.1 128734,128735 2qa1A 500 85.51 1dhr 241 87.21 2ekpA 239 87.60 1x1eA 239 88.54 3c96A 415 89.83