# List of top-scoring protein chains for t2k-w0.5-1-n_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 3.77e-08 2ahrA 259 6.85e-08 a.100.1.10,c.2.1.6 126775,126776 1vpdA 299 1.81e-07 a.100.1.1,c.2.1.6 113951,113952 2h78A 302 2.18e-07 2i76A 276 3.55e-07 2graA 277 3.64e-07 2rcyA 262 3.68e-07 2izzA 322 3.70e-07 1pgjA 478 6.22e-07 a.100.1.1,c.2.1.6 18783,30195 1yb4A 295 6.32e-07 2cvzA 289 9.81e-07 a.100.1.1,c.2.1.6 130890,130891 2pgd 482 9.95e-07 2pgdA 482 3.40e-06 a.100.1.1,c.2.1.6 18778,30190 2f1kA 279 6.54e-06 a.100.1.12,c.2.1.6 132772,132773 2p4qA 497 8.70e-06 1evyA 366 2.47e-05 a.100.1.6,c.2.1.6 18811,30215 3c24A 286 2.62e-05 1x0vA 354 2.84e-05 1bg6A 359 4.70e-05 a.100.1.5,c.2.1.6 18810,30214 2g5cA 281 5.05e-05 a.100.1.12,c.2.1.6 134646,134647 1txgA 335 5.15e-05 a.100.1.6,c.2.1.6 112775,112776 1z82A 335 0.000102 2b0jA 358 0.000128 a.100.1.11,c.2.1.6 127639,127640 1bg6 359 0.000183 1i36A 264 0.000209 a.100.1.8,c.2.1.6 71108,71109 1np3A 338 0.000533 a.100.1.2,c.2.1.6 85946,85947 2pv7A 298 0.000943 1gpjA 404 0.001000 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1jayA 212 0.005118 c.2.1.6 66478 2hdhA 293 0.006491 a.100.1.3,c.2.1.6 18795,30199 1f0yA 302 0.007211 a.100.1.3,c.2.1.6 18793,30197 2dpoA 319 0.008521 1nytA 271 0.009266 c.2.1.7,c.58.1.5 86417,86418 1zcjA 463 0.01179 1mv8A 436 0.01360 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1p77A 272 0.01563 c.2.1.7,c.58.1.5 94214,94215 2eggA 297 0.02834 2d5cA 263 0.03117 2nloA 302 0.03646 1zejA 293 0.04534 2ew2A 316 0.05167 2hk9A 275 0.05305 1ks9A 291 0.07292 a.100.1.7,c.2.1.6 68857,68858 1npyA 271 0.08375 c.2.1.7,c.58.1.5 85995,85996 1npdA 288 0.1001 c.2.1.7,c.58.1.5 80681,80682 2nadA 393 0.1088 c.2.1.4,c.23.12.1 30090,31350 2o3jA 481 0.1160 1ff9A 450 0.1183 c.2.1.3,d.81.1.2 30039,39954 1b3rA 431 0.1202 c.2.1.4,c.23.12.3 30106,31366 1j4aA 333 0.1407 c.2.1.4,c.23.12.1 71502,71503 1d4fA 431 0.1437 c.2.1.4,c.23.12.3 30110,31370 1dxy 333 0.1501 1dljA 402 0.1557 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1gdhA 320 0.1892 c.2.1.4,c.23.12.1 30095,31355 1wwkA 307 0.1983 1dliA 402 0.2081 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 2nacA 393 0.2107 c.2.1.4,c.23.12.1 30088,31348 1nvtA 287 0.2193 c.2.1.7,c.58.1.5 86270,86271 1mx3A 347 0.2262 c.2.1.4,c.23.12.1 79638,79639 1pjcA 361 0.2269 c.2.1.4,c.23.12.2 30101,31361 2g76A 335 0.2287 1tltA 319 0.2308 c.2.1.3,d.81.1.5 107135,107136 1xdwA 331 0.2337 2ho3A 325 0.2756 2o7sA 523 0.2890 1lssA 140 0.2992 c.2.1.9 74246 2p2sA 336 0.2999 1yrlA 491 0.3045 2nvwA 479 0.3068 c.2.1.3,d.81.1.5 138665,138666 2dbqA 334 0.3273 2o4uX 334 0.3467 2glxA 332 0.3559 1vi2A 300 0.3676 c.2.1.7,c.58.1.5 100726,100727 1dxyA 333 0.3776 c.2.1.4,c.23.12.1 30094,31354 2pi1A 334 0.3872 2g1uA 155 0.4073 2axqA 467 0.4611 2j6iA 364 0.4690 2dldA 337 0.4773 c.2.1.4,c.23.12.1 30099,31359 1qp8A 303 0.4890 c.2.1.4,c.23.12.1 30092,31352 1zh8A 340 0.4966 c.2.1.3,d.81.1.5 125077,125078 1li4A 432 0.4972 c.2.1.4,c.23.12.3 84616,84617 1ygyA 529 0.5223 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2o4cA 380 0.5397 2cukA 311 0.5451 2q4eA 362 0.5538 2fssA 365 0.5591 1luaA 287 0.5933 c.2.1.7,c.58.1.4 78216,78217 2gcgA 330 0.6067 1xeaA 323 0.6127 c.2.1.3,d.81.1.5 109572,109573 3ceaA 346 0.6244 1sc6A 404 0.6684 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1ofgA 381 0.6760 c.2.1.3,d.81.1.5 30064,39979 1rydA 387 0.7462 c.2.1.3,d.81.1.5 118801,118802 1a7aA 432 0.7626 c.2.1.4,c.23.12.3 30104,31364 1qmgA 524 0.7704 a.100.1.2,c.2.1.6 18785,30182 2ixaA 444 0.8508 2qytA 317 0.9249 3c1aA 315 0.9492 1psdA 409 0.9826 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 2d0iA 333 0.996 1l7dA 384 1.048 c.2.1.4,c.23.12.2 77774,77775 3c85A 183 1.092 1v8bA 479 1.147 c.2.1.4,c.23.12.3 113564,113565 1h6dA 433 1.164 c.2.1.3,d.81.1.5 65656,65657 1lsuA 147 1.166 c.2.1.9 74250 2eklA 313 1.329 1xwfA 431 1.362 c.2.1.4,c.23.12.3 122392,122393 1id1A 153 1.517 c.2.1.9 62286 2vojA 371 1.522 2vhxA 377 1.590 2hmvA 144 1.699 c.2.1.9 136615 1vllA 334 1.833 c.2.1.13 108834 1gcuA 295 1.984 c.2.1.3,d.81.1.4 30063,39978 1uufA 369 2.038 b.35.1.2,c.2.1.1 100006,100007 1x7dA 350 2.108 c.2.1.13 114927 1omoA 322 2.113 c.2.1.13 104017 1e3jA 352 2.605 b.35.1.2,c.2.1.1 24765,29781 2cdcA 366 2.800 1ldg 316 2.863 1ceqA 316 3.142 c.2.1.5,d.162.1.1 30163,42130 2hsdA 253 3.428 c.2.1.2 29866 1hdcA 253 3.690 c.2.1.2 29862 1ez4A 318 3.759 c.2.1.5,d.162.1.1 64917,64918 1pl8A 356 3.787 b.35.1.2,c.2.1.1 94878,94879 6ldhA 329 3.850 c.2.1.5,d.162.1.1 30161,42128 1bw9A 356 4.074 c.2.1.7,c.58.1.1 30274,33922 1lluA 342 4.098 b.35.1.2,c.2.1.1 91064,91065 1h2bA 359 4.177 b.35.1.2,c.2.1.1 90543,90544 2d8aA 348 4.182 1guzA 310 4.305 c.2.1.5,d.162.1.1 65586,65587 2v7pA 310 4.756 2h6eA 344 5.065 1kevA 351 5.313 b.35.1.2,c.2.1.1 24749,29765 2aefA 234 5.319 1bdb 277 5.356 1f8fA 371 5.458 b.35.1.2,c.2.1.1 83246,83247 1c1dA 355 5.750 c.2.1.7,c.58.1.1 30270,33918 2gdzA 267 5.793 c.2.1.2 135043 1f06A 320 5.804 c.2.1.3,d.81.1.3 59556,59557 2b5wA 357 6.725 1vj0A 380 6.766 b.35.1.2,c.2.1.1 100786,100787 1yqdA 366 6.868 2gptA 523 6.946 2cf5A 357 6.955 1hyhA 309 7.013 c.2.1.5,d.162.1.1 30150,42117 1a5zA 319 7.290 c.2.1.5,d.162.1.1 30181,42148 1uxjA 309 7.345 c.2.1.5,d.162.1.1 108112,108113 3bioA 304 7.484 1jqbA 351 7.723 b.35.1.2,c.2.1.1 77151,77152 1pedA 351 7.906 b.35.1.2,c.2.1.1 24753,29769 1yb1A 272 7.976 c.2.1.2 116599 1lc0A 294 8.004 c.2.1.3,d.81.1.4 73823,73824 1a71A 374 8.507 b.35.1.2,c.2.1.1 24673,29689 1y9aA 360 8.839 1hxhA 253 9.272 c.2.1.2 76725 1y81A 138 9.323 c.2.1.8 122731 1axgA 374 9.737 b.35.1.2,c.2.1.1 24691,29707 1iukA 140 9.901 c.2.1.8 83712 2ouiA 360 10.04 1xg5A 279 10.10 c.2.1.2 115277 1lehA 364 10.19 c.2.1.7,c.58.1.1 30268,33916 1q7bA 244 10.25 c.2.1.2 96026 1xseA 295 10.35 c.2.1.2 115925 1vl8A 267 10.40 c.2.1.2 108733 2bkaA 242 10.42 c.2.1.2 128666 1ur5A 309 10.47 c.2.1.5,d.162.1.1 99807,99808 1axeA 374 10.66 b.35.1.2,c.2.1.1 24681,29697 1pjqA 457 10.70 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1sayA 361 10.73 c.2.1.4,c.23.12.2 30102,31362 2i6tA 303 10.86 1sbyA 254 11.06 c.2.1.2 118930 1lnqA 336 11.39 c.2.1.9,d.286.1.1,f.14.1.1 111576,111577,74050 1xhlA 297 11.47 c.2.1.2 109591 1nffA 260 11.99 c.2.1.2 80457 1ydeA 270 12.23 c.2.1.2 122980 1yxmA 303 12.43 c.2.1.2 124192 1k2wA 256 12.67 c.2.1.2 90927 2jhfA 374 12.72 b.35.1.2,c.2.1.1 138314,138315 1vjtA 483 12.83 c.2.1.5,d.162.1.2 100833,100834 2a4kA 263 12.87 c.2.1.2 126156 1a4iA 301 13.22 c.2.1.7,c.58.1.2 30278,33926 1t2dA 322 13.37 c.2.1.5,d.162.1.1 99084,99085 1b0aA 288 13.42 c.2.1.7,c.58.1.2 30286,33934 1e6wA 260 13.46 c.2.1.2 59326 1edoA 244 13.50 c.2.1.2 29896 2r6jA 318 13.59 1ykfA 352 13.82 b.35.1.2,c.2.1.1 24757,29773 2q49A 359 14.03 c.2.1.3,d.81.1.1 139831,139832 1ldnA 316 14.10 c.2.1.5,d.162.1.1 30166,42133 1xu9A 286 14.50 c.2.1.2 116052 1gegA 256 14.73 c.2.1.2 29888 2ag5A 246 14.80 c.2.1.2 126719 1spxA 278 15.29 c.2.1.2 98958 1kolA 398 15.48 b.35.1.2,c.2.1.1 77474,77475 1u3wA 374 15.54 b.35.1.2,c.2.1.1 113013,113014 2pnfA 248 15.70 1p0fA 373 16.48 b.35.1.2,c.2.1.1 87642,87643 1nvmB 312 16.60 c.2.1.3,d.81.1.1 86251,86252 1kyqA 274 16.70 c.2.1.11,e.37.1.1 73281,73282 1ee2A 373 16.84 b.35.1.2,c.2.1.1 24663,29679 2zbwA 335 16.92 1cydA 244 16.93 c.2.1.2 29825 1iy8A 267 17.06 c.2.1.2 83774 1jw9B 249 17.07 c.111.1.1 67377 1x7gA 261 17.54 c.2.1.2 114929 1xkqA 280 17.92 c.2.1.2 115417 2ewdA 317 17.98 1e3sA 261 18.16 c.2.1.2 59201 1ja9A 274 18.30 c.2.1.2 62817 2d59A 144 18.33 c.2.1.8 131266 2gz1A 366 18.42 c.2.1.3,d.81.1.1 135887,135888 1y5mA 276 18.49 c.2.1.2 122645 1fmcA 255 18.68 c.2.1.2 29856 1y8qB 640 18.73 2cfcA 250 18.76 2pd6A 264 18.77 2r00A 336 19.15 1w6uA 302 19.28 c.2.1.2 114288 2bgkA 278 19.96 c.2.1.2 128480 2g17A 337 20.84 c.2.1.3,d.81.1.1 134512,134513 1n8kA 374 22.14 b.35.1.2,c.2.1.1 80298,80299 9ldtA 332 22.21 c.2.1.5,d.162.1.1 30154,42121 1h7xA 1025 22.32 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 1h5qA 265 22.35 c.2.1.2 60643 1pzgA 331 22.64 c.2.1.5,d.162.1.1 95425,95426 1lldA 319 22.72 c.2.1.5,d.162.1.1 30177,42144 1ebdA 455 23.42 c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1zemA 262 25.03 c.2.1.2 124984 1vknA 351 25.29 c.2.1.3,d.81.1.1 108676,108677 2c07A 285 25.38 c.2.1.2 129577 2o23A 265 25.51 c.2.1.2 138884 1vl6A 388 25.77 c.2.1.7,c.58.1.3 108724,108725 1u8xX 472 25.94 c.2.1.5,d.162.1.2 107741,107742 2gn4A 344 26.72 3bkwA 243 26.76 2dt5A 211 27.37 a.4.5.38,c.2.1.12 131708,131709 2gasA 307 27.58 2ohxA 374 27.98 b.35.1.2,c.2.1.1 24669,29685 1obbA 480 28.67 c.2.1.5,d.162.1.2 86760,86761 1zk4A 251 28.87 c.2.1.2 125176 2ph5A 480 29.09 1l8qA 324 29.52 a.4.12.2,c.37.1.20 77809,77810 2jahA 247 29.84 2c2xA 281 30.14 2ew8A 249 30.39 c.2.1.2 132447 3cc8A 230 31.30 1he2A 206 31.37 c.2.1.2 60966 1s6yA 450 31.62 c.2.1.5,d.162.1.2 105314,105315 1g0oA 283 31.87 c.2.1.2 60181 2dc1A 236 32.03 1gcoA 261 33.13 c.2.1.2 29884 1zmdA 474 33.28 1n5dA 288 33.49 c.2.1.2 80030 1b26A 416 33.95 c.2.1.7,c.58.1.1 30232,33880 1ml4A 308 34.73 c.78.1.1,c.78.1.1 79255,79256 1b16A 254 35.63 c.2.1.2 29875 2ae2A 260 35.64 c.2.1.2 29945 1x1tA 260 36.07 c.2.1.2 121597 1e5dA 402 36.15 c.23.5.1,d.157.1.3 31208,42061 1b8pA 329 37.46 c.2.1.5,d.162.1.1 30147,42114 1othA 321 37.88 c.78.1.1,c.78.1.1 35260,35261 1fl2A 310 37.99 c.3.1.5,c.3.1.5 59869,59870 2r0cA 549 38.34 1vm6A 228 38.65 d.81.1.3,c.2.1.3 108877,118631 2o57A 297 39.46 1qo0D 196 39.60 c.23.1.3 31125 1y8qA 346 40.07 1ybvA 283 40.32 c.2.1.2 29948 1d7oA 297 40.46 c.2.1.2 29907 2ef0A 301 40.53 1pwxA 254 40.76 c.2.1.2 95262 1edzA 320 40.80 c.2.1.7,c.58.1.2 30287,33935 1zk7A 467 41.10 2ph3A 245 41.41 2qa1A 500 42.03 1hwyA 501 42.66 c.2.1.7,c.58.1.1 30262,33910 1oi7A 288 42.87 c.2.1.8,c.23.4.1 87049,87050 1b3bA 415 43.56 c.2.1.7,c.58.1.1 30244,33892 1hdoA 206 44.20 c.2.1.2 60965 1yovA 537 45.31 c.111.1.2 123785 2p91A 285 45.86 1gtmA 419 46.66 c.2.1.7,c.58.1.1 30223,33871 3cggA 195 47.01 1dhr 241 47.66 2czcA 334 50.06 d.81.1.1 131044 1vqwA 457 50.70 c.3.1.5,c.3.1.5 114028,114029 1mjfA 281 50.89 c.66.1.17 79198 1ae1A 273 51.05 c.2.1.2 29943 1yb5A 351 51.97 b.35.1.2,c.2.1.1 116601,116602 1cjcA 460 52.40 c.3.1.1,c.4.1.1 30319,30604 3ladA 476 54.25 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1zud1 251 55.08 2q1sA 377 55.81 3c96A 415 55.98 1p3dA 475 56.67 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2bd0A 244 56.84 c.2.1.2 128321 1jvbA 347 56.95 b.35.1.2,c.2.1.1 77181,77182 1wmaA 276 57.33 c.2.1.2 121042 1drw 273 57.50 2d1yA 256 57.62 c.2.1.2 131151 2blnA 305 57.69 b.46.1.1,c.65.1.1 128734,128735 1xgkA 352 57.98 c.2.1.2 115286 2z1nA 260 58.07 1mo9A 523 58.48 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 2nwqA 272 58.68 1kjqA 391 60.25 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 3csuA 310 60.85 c.78.1.1,c.78.1.1 35094,35095 1enp 312 61.28 1nhp 447 61.34 1k6xA 352 61.73 c.2.1.2 68238 2nxcA 254 61.75 c.66.1.39 138739 1bdmA 327 61.79 c.2.1.5,d.162.1.1 30137,42104 2gv8A 447 61.94 c.3.1.5,c.3.1.5 135759,135760 1hyuA 521 62.66 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1ee9A 320 62.86 c.2.1.7,c.58.1.2 30288,33936 2i6uA 307 62.94 1kdgA 546 63.11 c.3.1.2,d.16.1.1 77337,77338 3grs 478 63.46 2yyyA 343 64.47 1d7yA 408 64.95 c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 2c5aA 379 66.12 c.2.1.2 129894 1z45A 699 66.40 b.30.5.4,c.2.1.2 124427,124428 1x1eA 239 66.63 1trbA 320 67.36 c.3.1.5,c.3.1.5 30529,30530 2cvjA 180 68.14 1dv2A 452 68.22 b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1ykjA 394 68.32 2i8aA 252 68.55 2h7mA 269 69.06 c.2.1.2 136219 1h7wA 1025 69.16 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 1ooeA 236 69.24 c.2.1.2 87196 2fr1A 486 69.76 c.2.1.2,c.2.1.2 133961,133962 1wpgA 994 69.87 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 114806,114807,114808,114809 1udcA 338 70.81 c.2.1.2 29785 1ekxA 311 70.84 c.78.1.1,c.78.1.1 35088,35089 1qycA 308 71.02 c.2.1.2 96581 2hq1A 247 72.43 2hrdA 253 72.65 1gteA 1025 73.91 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 1xcbA 211 74.61 a.4.5.38,c.2.1.12 109552,109553 1rlmA 271 76.07 c.108.1.10 111860 1yqzA 438 76.31 2bi7A 384 76.37 1uh5A 329 77.24 c.2.1.2 107840 1fjhB 257 77.54 c.2.1.2 29871 1s2oA 244 77.88 c.108.1.10 118846 1pbeA 394 78.80 c.3.1.2,d.16.1.2 30338,37869 2ywlA 180 79.05 2bmaA 470 79.66 1qydA 313 80.42 c.2.1.2 96583 1pvvA 315 81.04 c.78.1.1,c.78.1.1 95190,95191 1fjhA 257 81.14 c.2.1.2 29870 1reoA 486 81.33 c.3.1.2,d.16.1.5 97325,97326 1dapA 320 81.49 c.2.1.3,d.81.1.3 30053,39968 2scuA 288 82.11 c.2.1.8,c.23.4.1 30303,31131 1wr8A 231 84.60 c.108.1.10 114836 2qfmA 364 84.63 1cf2O 337 85.30 c.2.1.3,d.81.1.1 29994,39909 1qrrA 394 85.57 c.2.1.2 29824 2q46A 253 87.57 c.2.1.2 139825