# List of top-scoring protein chains for t2k-w0.5-1-str4-0.1-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 8.55e-08 2ahrA 259 1.76e-07 a.100.1.10,c.2.1.6 126775,126776 1vpdA 299 3.97e-07 a.100.1.1,c.2.1.6 113951,113952 2h78A 302 4.07e-07 2graA 277 4.91e-07 2rcyA 262 5.65e-07 2izzA 322 5.81e-07 2i76A 276 7.98e-07 1pgjA 478 1.26e-06 a.100.1.1,c.2.1.6 18783,30195 1yb4A 295 1.31e-06 2cvzA 289 1.73e-06 a.100.1.1,c.2.1.6 130890,130891 2pgd 482 3.36e-06 2pgdA 482 8.14e-06 a.100.1.1,c.2.1.6 18778,30190 2f1kA 279 1.00e-05 a.100.1.12,c.2.1.6 132772,132773 2p4qA 497 1.96e-05 1evyA 366 3.95e-05 a.100.1.6,c.2.1.6 18811,30215 1x0vA 354 5.85e-05 3c24A 286 6.46e-05 1txgA 335 6.70e-05 a.100.1.6,c.2.1.6 112775,112776 1bg6A 359 7.93e-05 a.100.1.5,c.2.1.6 18810,30214 2g5cA 281 8.25e-05 a.100.1.12,c.2.1.6 134646,134647 1z82A 335 0.000114 1i36A 264 0.000226 a.100.1.8,c.2.1.6 71108,71109 1bg6 359 0.000247 2b0jA 358 0.000349 a.100.1.11,c.2.1.6 127639,127640 1np3A 338 0.000824 a.100.1.2,c.2.1.6 85946,85947 1gpjA 404 0.001117 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2pv7A 298 0.001388 2hdhA 293 0.004991 a.100.1.3,c.2.1.6 18795,30199 2dpoA 319 0.006439 1mv8A 436 0.007094 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1jayA 212 0.007569 c.2.1.6 66478 1f0yA 302 0.007616 a.100.1.3,c.2.1.6 18793,30197 1zcjA 463 0.008653 1nytA 271 0.01127 c.2.1.7,c.58.1.5 86417,86418 1p77A 272 0.01925 c.2.1.7,c.58.1.5 94214,94215 2eggA 297 0.03092 1zejA 293 0.03129 2d5cA 263 0.03224 2nloA 302 0.03864 1ks9A 291 0.04974 a.100.1.7,c.2.1.6 68857,68858 2ew2A 316 0.05282 1npyA 271 0.06175 c.2.1.7,c.58.1.5 85995,85996 2hk9A 275 0.06208 1dljA 402 0.1034 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2nadA 393 0.1069 c.2.1.4,c.23.12.1 30090,31350 1npdA 288 0.1147 c.2.1.7,c.58.1.5 80681,80682 1d4fA 431 0.1171 c.2.1.4,c.23.12.3 30110,31370 1dliA 402 0.1222 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1ff9A 450 0.1240 c.2.1.3,d.81.1.2 30039,39954 1b3rA 431 0.1387 c.2.1.4,c.23.12.3 30106,31366 2o3jA 481 0.1464 1j4aA 333 0.1589 c.2.1.4,c.23.12.1 71502,71503 2nacA 393 0.1609 c.2.1.4,c.23.12.1 30088,31348 1dxy 333 0.1672 1wwkA 307 0.1735 1gdhA 320 0.1830 c.2.1.4,c.23.12.1 30095,31355 2g76A 335 0.2158 1xdwA 331 0.2478 2axqA 467 0.2505 1mx3A 347 0.2573 c.2.1.4,c.23.12.1 79638,79639 1yrlA 491 0.2629 2dbqA 334 0.3036 2pi1A 334 0.3040 1nvtA 287 0.3065 c.2.1.7,c.58.1.5 86270,86271 2o7sA 523 0.3076 1dxyA 333 0.3147 c.2.1.4,c.23.12.1 30094,31354 1pjcA 361 0.3282 c.2.1.4,c.23.12.2 30101,31361 1tltA 319 0.3366 c.2.1.3,d.81.1.5 107135,107136 1ygyA 529 0.3469 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2nvwA 479 0.3561 c.2.1.3,d.81.1.5 138665,138666 2j6iA 364 0.3587 1vi2A 300 0.3645 c.2.1.7,c.58.1.5 100726,100727 2gcgA 330 0.4054 2dldA 337 0.4063 c.2.1.4,c.23.12.1 30099,31359 1qp8A 303 0.4249 c.2.1.4,c.23.12.1 30092,31352 2cukA 311 0.4476 2fssA 365 0.4480 2o4cA 380 0.4497 2ho3A 325 0.4871 1li4A 432 0.5249 c.2.1.4,c.23.12.3 84616,84617 2p2sA 336 0.6346 2d0iA 333 0.6357 1a7aA 432 0.6453 c.2.1.4,c.23.12.3 30104,31364 1l7dA 384 0.7712 c.2.1.4,c.23.12.2 77774,77775 1qmgA 524 0.7994 a.100.1.2,c.2.1.6 18785,30182 2o4uX 334 0.8085 1psdA 409 0.8214 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1sc6A 404 0.8414 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2q4eA 362 0.8763 1xeaA 323 0.8863 c.2.1.3,d.81.1.5 109572,109573 2glxA 332 0.8942 2qytA 317 0.9420 1xwfA 431 0.9646 c.2.1.4,c.23.12.3 122392,122393 1zh8A 340 0.9662 c.2.1.3,d.81.1.5 125077,125078 1v8bA 479 0.9836 c.2.1.4,c.23.12.3 113564,113565 1lssA 140 0.9872 c.2.1.9 74246 1rydA 387 1.043 c.2.1.3,d.81.1.5 118801,118802 3ceaA 346 1.096 3c85A 183 1.096 1h6dA 433 1.108 c.2.1.3,d.81.1.5 65656,65657 2vojA 371 1.125 2ixaA 444 1.156 1ofgA 381 1.156 c.2.1.3,d.81.1.5 30064,39979 1omoA 322 1.209 c.2.1.13 104017 1luaA 287 1.325 c.2.1.7,c.58.1.4 78216,78217 2vhxA 377 1.331 1vllA 334 1.339 c.2.1.13 108834 2g1uA 155 1.358 2gptA 523 1.396 3c1aA 315 1.575 1x7dA 350 1.629 c.2.1.13 114927 2eklA 313 1.822 1uufA 369 1.843 b.35.1.2,c.2.1.1 100006,100007 1ceqA 316 2.215 c.2.1.5,d.162.1.1 30163,42130 1ldg 316 2.251 1e3jA 352 2.356 b.35.1.2,c.2.1.1 24765,29781 1ez4A 318 2.613 c.2.1.5,d.162.1.1 64917,64918 1bw9A 356 2.828 c.2.1.7,c.58.1.1 30274,33922 6ldhA 329 2.985 c.2.1.5,d.162.1.1 30161,42128 2cdcA 366 2.994 1guzA 310 3.542 c.2.1.5,d.162.1.1 65586,65587 1hdcA 253 3.684 c.2.1.2 29862 1pjqA 457 3.720 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 2hsdA 253 3.948 c.2.1.2 29866 1gcuA 295 3.965 c.2.1.3,d.81.1.4 30063,39978 1c1dA 355 3.967 c.2.1.7,c.58.1.1 30270,33918 1id1A 153 4.488 c.2.1.9 62286 1uxjA 309 4.901 c.2.1.5,d.162.1.1 108112,108113 1lluA 342 5.756 b.35.1.2,c.2.1.1 91064,91065 1a5zA 319 6.340 c.2.1.5,d.162.1.1 30181,42148 1hyhA 309 6.363 c.2.1.5,d.162.1.1 30150,42117 1ldnA 316 6.687 c.2.1.5,d.162.1.1 30166,42133 1vjtA 483 6.754 c.2.1.5,d.162.1.2 100833,100834 2d8aA 348 6.897 2i6tA 303 7.053 1lsuA 147 7.095 c.2.1.9 74250 1pl8A 356 7.118 b.35.1.2,c.2.1.1 94878,94879 1ur5A 309 7.245 c.2.1.5,d.162.1.1 99807,99808 1bdb 277 7.334 2cf5A 357 7.656 2v7pA 310 7.957 1f06A 320 8.428 c.2.1.3,d.81.1.3 59556,59557 2gdzA 267 8.611 c.2.1.2 135043 1vl8A 267 9.084 c.2.1.2 108733 2h6eA 344 9.309 1yqdA 366 9.341 1kyqA 274 9.563 c.2.1.11,e.37.1.1 73281,73282 2bkaA 242 9.579 c.2.1.2 128666 1sayA 361 10.42 c.2.1.4,c.23.12.2 30102,31362 2hmvA 144 10.64 c.2.1.9 136615 1xhlA 297 11.26 c.2.1.2 109591 1yb1A 272 11.56 c.2.1.2 116599 1xseA 295 11.58 c.2.1.2 115925 1a4iA 301 11.68 c.2.1.7,c.58.1.2 30278,33926 1b0aA 288 11.84 c.2.1.7,c.58.1.2 30286,33934 1a71A 374 12.06 b.35.1.2,c.2.1.1 24673,29689 1x7gA 261 12.30 c.2.1.2 114929 3bioA 304 12.30 1lehA 364 12.51 c.2.1.7,c.58.1.1 30268,33916 2r00A 336 12.58 1t2dA 322 12.60 c.2.1.5,d.162.1.1 99084,99085 1hxhA 253 12.66 c.2.1.2 76725 1u8xX 472 12.66 c.2.1.5,d.162.1.2 107741,107742 2r6jA 318 12.68 1h7xA 1025 12.95 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 13.24 c.2.1.2 122980 2aefA 234 13.26 1xg5A 279 13.37 c.2.1.2 115277 2a4kA 263 13.49 c.2.1.2 126156 2g17A 337 13.59 c.2.1.3,d.81.1.1 134512,134513 1h2bA 359 13.72 b.35.1.2,c.2.1.1 90543,90544 1q7bA 244 14.00 c.2.1.2 96026 1edoA 244 14.08 c.2.1.2 29896 1xu9A 286 14.29 c.2.1.2 116052 1f8fA 371 14.58 b.35.1.2,c.2.1.1 83246,83247 1b26A 416 14.89 c.2.1.7,c.58.1.1 30232,33880 1pzgA 331 15.06 c.2.1.5,d.162.1.1 95425,95426 1kevA 351 15.24 b.35.1.2,c.2.1.1 24749,29765 1nffA 260 15.37 c.2.1.2 80457 2bgkA 278 15.43 c.2.1.2 128480 2ewdA 317 15.51 2q49A 359 15.55 c.2.1.3,d.81.1.1 139831,139832 1lnqA 336 15.63 c.2.1.9,d.286.1.1,f.14.1.1 111576,111577,74050 2c2xA 281 16.12 1y8qB 640 16.57 1sbyA 254 16.67 c.2.1.2 118930 1xkqA 280 16.72 c.2.1.2 115417 2cfcA 250 16.82 1e6wA 260 17.70 c.2.1.2 59326 2pnfA 248 18.20 1hwyA 501 18.44 c.2.1.7,c.58.1.1 30262,33910 1yxmA 303 18.50 c.2.1.2 124192 1spxA 278 18.57 c.2.1.2 98958 1ja9A 274 18.63 c.2.1.2 62817 2ag5A 246 18.77 c.2.1.2 126719 2ouiA 360 18.78 1ml4A 308 18.90 c.78.1.1,c.78.1.1 79255,79256 1b8pA 329 18.93 c.2.1.5,d.162.1.1 30147,42114 1gegA 256 18.94 c.2.1.2 29888 1cydA 244 19.01 c.2.1.2 29825 1e3sA 261 19.03 c.2.1.2 59201 3csuA 310 19.34 c.78.1.1,c.78.1.1 35094,35095 2gz1A 366 19.60 c.2.1.3,d.81.1.1 135887,135888 1lc0A 294 19.64 c.2.1.3,d.81.1.4 73823,73824 1vj0A 380 19.75 b.35.1.2,c.2.1.1 100786,100787 1y8qA 346 19.94 1jqbA 351 20.09 b.35.1.2,c.2.1.1 77151,77152 1zk4A 251 20.32 c.2.1.2 125176 1y5mA 276 20.38 c.2.1.2 122645 1iy8A 267 20.54 c.2.1.2 83774 1w6uA 302 20.63 c.2.1.2 114288 9ldtA 332 20.63 c.2.1.5,d.162.1.1 30154,42121 2b5wA 357 21.50 1obbA 480 21.61 c.2.1.5,d.162.1.2 86760,86761 2yyyA 343 21.87 1b3bA 415 21.88 c.2.1.7,c.58.1.1 30244,33892 1axgA 374 22.18 b.35.1.2,c.2.1.1 24691,29707 2c07A 285 22.33 c.2.1.2 129577 2czcA 334 22.34 d.81.1.1 131044 2ph5A 480 22.52 1k2wA 256 23.20 c.2.1.2 90927 1ee2A 373 23.57 b.35.1.2,c.2.1.1 24663,29679 1vknA 351 23.91 c.2.1.3,d.81.1.1 108676,108677 2d59A 144 24.08 c.2.1.8 131266 1gteA 1025 24.31 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 1pedA 351 24.48 b.35.1.2,c.2.1.1 24753,29769 1axeA 374 24.49 b.35.1.2,c.2.1.1 24681,29697 1h5qA 265 25.67 c.2.1.2 60643 1mjfA 281 25.89 c.66.1.17 79198 1he2A 206 26.02 c.2.1.2 60966 1xgkA 352 26.06 c.2.1.2 115286 1e5dA 402 26.42 c.23.5.1,d.157.1.3 31208,42061 1zemA 262 26.56 c.2.1.2 124984 2pd6A 264 26.91 3cc8A 230 27.95 1ykfA 352 28.03 b.35.1.2,c.2.1.1 24757,29773 1y1pA 342 28.17 c.2.1.2 122550 1drw 273 28.65 1gtmA 419 29.28 c.2.1.7,c.58.1.1 30223,33871 1g0oA 283 29.98 c.2.1.2 60181 2gasA 307 30.87 2gn4A 344 31.12 1qo0D 196 31.26 c.23.1.3 31125 2zbwA 335 31.47 1n5dA 288 31.61 c.2.1.2 80030 1h7wA 1025 31.82 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 2ew8A 249 31.87 c.2.1.2 132447 1vl6A 388 31.88 c.2.1.7,c.58.1.3 108724,108725 1y9aA 360 32.63 1y81A 138 32.85 c.2.1.8 122731 3bkwA 243 33.17 2jahA 247 33.29 2o23A 265 33.73 c.2.1.2 138884 1vm6A 228 34.39 d.81.1.3,c.2.1.3 108877,118631 1s6yA 450 34.80 c.2.1.5,d.162.1.2 105314,105315 1jw9B 249 34.83 c.111.1.1 67377 2jhfA 374 35.66 b.35.1.2,c.2.1.1 138314,138315 1lldA 319 36.56 c.2.1.5,d.162.1.1 30177,42144 2ph3A 245 37.16 1ybvA 283 37.97 c.2.1.2 29948 1x13A 401 38.52 1yovA 537 38.69 c.111.1.2 123785 1cf2O 337 38.97 c.2.1.3,d.81.1.1 29994,39909 2ef0A 301 39.47 1ekxA 311 39.65 c.78.1.1,c.78.1.1 35088,35089 2r0cA 549 40.52 1othA 321 40.57 c.78.1.1,c.78.1.1 35260,35261 1qycA 308 40.59 c.2.1.2 96581 1x1tA 260 41.15 c.2.1.2 121597 1xcbA 211 41.50 a.4.5.38,c.2.1.12 109552,109553 1s2oA 244 42.07 c.108.1.10 118846 1l8qA 324 42.28 a.4.12.2,c.37.1.20 77809,77810 2ae2A 260 42.45 c.2.1.2 29945 1fmcA 255 43.67 c.2.1.2 29856 1p0fA 373 43.94 b.35.1.2,c.2.1.1 87642,87643 2dt5A 211 44.04 a.4.5.38,c.2.1.12 131708,131709 1pwxA 254 45.72 c.2.1.2 95262 1bdmA 327 45.88 c.2.1.5,d.162.1.1 30137,42104 1hwxA 501 45.94 c.2.1.7,c.58.1.1 30250,33898 1nvmB 312 45.99 c.2.1.3,d.81.1.1 86251,86252 1k6xA 352 46.78 c.2.1.2 68238 1vqwA 457 47.06 c.3.1.5,c.3.1.5 114028,114029 2gv8A 447 47.64 c.3.1.5,c.3.1.5 135759,135760 2c5aA 379 48.31 c.2.1.2 129894 1wpgA 994 48.65 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 114806,114807,114808,114809 2blnA 305 49.97 b.46.1.1,c.65.1.1 128734,128735 1dapA 320 50.62 c.2.1.3,d.81.1.3 30053,39968 1gcoA 261 50.79 c.2.1.2 29884 1ae1A 273 51.05 c.2.1.2 29943 1iukA 140 51.16 c.2.1.8 83712 1yvvA 336 53.48 2o57A 297 56.02 1qydA 313 56.52 c.2.1.2 96583 2p91A 285 57.25 1wmaA 276 57.71 c.2.1.2 121042 2i8aA 252 57.73 1pg5A 299 57.73 c.78.1.1,c.78.1.1 104146,104147 1b16A 254 57.77 c.2.1.2 29875 1acmA 310 58.05 c.78.1.1,c.78.1.1 35180,35181 1d7oA 297 58.11 c.2.1.2 29907 2nwqA 272 59.58 1hdoA 206 60.12 c.2.1.2 60965 3c96A 415 62.39 8atcA 310 62.68 c.78.1.1,c.78.1.1 35132,35133 1u3wA 374 64.03 b.35.1.2,c.2.1.1 113013,113014 1p3dA 475 64.48 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2bd0A 244 64.83 c.2.1.2 128321 1ebdA 455 65.46 c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 2bmaA 470 65.63 1rsgA 516 66.08 2d1yA 256 66.12 c.2.1.2 131151 1ys4A 354 68.24 1up6A 416 68.28 c.2.1.5,d.162.1.2 107976,107977 2hrdA 253 69.06 1cjcA 460 69.95 c.3.1.1,c.4.1.1 30319,30604 2q1sA 377 70.62 1xa0A 328 70.92 b.35.1.2,c.2.1.1 115021,115022 2hq1A 247 71.04 2ohxA 374 71.26 b.35.1.2,c.2.1.1 24669,29685 1edzA 320 71.35 c.2.1.7,c.58.1.2 30287,33935 1oi7A 288 72.69 c.2.1.8,c.23.4.1 87049,87050 1ykjA 394 72.72 1p9lA 245 73.59 c.2.1.3,d.81.1.3 94393,94394 1eudA 311 74.78 c.2.1.8,c.23.4.1 30312,31140 2c29D 337 75.27 1dhr 241 76.74 1l9cA 389 76.83 c.3.1.2,d.16.1.3 77815,77816 2fr1A 486 77.45 c.2.1.2,c.2.1.2 133961,133962 2dc1A 236 77.50 2i6uA 307 80.04 1kolA 398 81.78 b.35.1.2,c.2.1.1 77474,77475 3ldh 330 81.88 i.12.1.1 46015 1zmdA 474 82.04 1yb5A 351 82.23 b.35.1.2,c.2.1.1 116601,116602 1c14A 262 82.93 c.2.1.2 29927 2gf3A 389 83.67 c.3.1.2,d.16.1.3 135070,135071 1mo9A 523 83.77 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 2qa1A 500 84.34 1fl2A 310 84.40 c.3.1.5,c.3.1.5 59869,59870 1j9eA 147 85.56 c.23.5.1 62756 3cggA 195 86.31 2h7mA 269 86.59 c.2.1.2 136219 2scuA 288 88.36 c.2.1.8,c.23.4.1 30303,31131 1jvbA 347 88.44 b.35.1.2,c.2.1.1 77181,77182 1drwA 273 88.87 c.2.1.3,d.81.1.3 30057,39972 1kdgA 546 89.42 c.3.1.2,d.16.1.1 77337,77338 2bi7A 384 89.86