# List of top-scoring protein chains for t06-w0.5-1-alpha-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 2ahrA 259 0.002336 a.100.1.10,c.2.1.6 126775,126776 1vpdA 299 0.002595 a.100.1.1,c.2.1.6 113951,113952 1yqgA 263 0.002960 2izzA 322 0.003148 2p4qA 497 0.003733 2pgd 482 0.003800 2pgdA 482 0.003898 a.100.1.1,c.2.1.6 18778,30190 1np3A 338 0.003956 a.100.1.2,c.2.1.6 85946,85947 2h78A 302 0.004115 2rcyA 262 0.004890 1yb4A 295 0.005467 2ew2A 316 0.006028 3c24A 286 0.006476 2dpoA 319 0.006653 2cvzA 289 0.007305 a.100.1.1,c.2.1.6 130890,130891 1bg6A 359 0.007417 a.100.1.5,c.2.1.6 18810,30214 2graA 277 0.008167 2f1kA 279 0.009336 a.100.1.12,c.2.1.6 132772,132773 1ks9A 291 0.01024 a.100.1.7,c.2.1.6 68857,68858 1yrlA 491 0.01031 2g5cA 281 0.01210 a.100.1.12,c.2.1.6 134646,134647 1zcjA 463 0.01290 2pv7A 298 0.01783 1qmgA 524 0.02025 a.100.1.2,c.2.1.6 18785,30182 1f0yA 302 0.02037 a.100.1.3,c.2.1.6 18793,30197 1evyA 366 0.02478 a.100.1.6,c.2.1.6 18811,30215 2qytA 317 0.02539 1x0vA 354 0.02837 1bg6 359 0.03693 1i36A 264 0.04096 a.100.1.8,c.2.1.6 71108,71109 1txgA 335 0.04437 a.100.1.6,c.2.1.6 112775,112776 1z82A 335 0.04622 1zejA 293 0.04704 1mv8A 436 0.05930 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1jayA 212 0.06646 c.2.1.6 66478 1qv9A 283 0.07393 c.127.1.1 96356 2i76A 276 0.07785 2o3jA 481 0.07833 1dljA 402 0.1199 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 0.1510 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 2nacA 393 0.2972 c.2.1.4,c.23.12.1 30088,31348 1gdhA 320 0.3060 c.2.1.4,c.23.12.1 30095,31355 1ygyA 529 0.3361 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2fssA 365 0.3778 2axqA 467 0.3823 2eklA 313 0.4422 2dbqA 334 0.4442 2j6iA 364 0.4897 1wwkA 307 0.4988 1j4aA 333 0.5063 c.2.1.4,c.23.12.1 71502,71503 1li4A 432 0.5322 c.2.1.4,c.23.12.3 84616,84617 1dxy 333 0.5402 1xdwA 331 0.6162 2o4cA 380 0.6332 1mx3A 347 0.6394 c.2.1.4,c.23.12.1 79638,79639 2cukA 311 0.8252 1v8bA 479 0.8259 c.2.1.4,c.23.12.3 113564,113565 2gcgA 330 0.8525 2b0jA 358 0.8644 a.100.1.11,c.2.1.6 127639,127640 2d0iA 333 0.8788 2pi1A 334 0.8955 1x7dA 350 0.9278 c.2.1.13 114927 1dxyA 333 0.9288 c.2.1.4,c.23.12.1 30094,31354 1gpjA 404 0.9682 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1qp8A 303 1.085 c.2.1.4,c.23.12.1 30092,31352 1sc6A 404 1.223 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1omoA 322 1.250 c.2.1.13 104017 1pjcA 361 1.396 c.2.1.4,c.23.12.2 30101,31361 1lssA 140 1.455 c.2.1.9 74246 1guzA 310 1.476 c.2.1.5,d.162.1.1 65586,65587 1lldA 319 1.535 c.2.1.5,d.162.1.1 30177,42144 2g76A 335 1.539 2ewdA 317 1.753 1pzgA 331 1.787 c.2.1.5,d.162.1.1 95425,95426 1f06A 320 1.905 c.2.1.3,d.81.1.3 59556,59557 1ff9A 450 1.969 c.2.1.3,d.81.1.2 30039,39954 1hyhA 309 2.075 c.2.1.5,d.162.1.1 30150,42117 2vhxA 377 2.233 2ho3A 325 2.239 1uxjA 309 2.357 c.2.1.5,d.162.1.1 108112,108113 2nvwA 479 2.400 c.2.1.3,d.81.1.5 138665,138666 2vojA 371 2.453 2v7pA 310 2.513 2eggA 297 2.574 1xeaA 323 2.614 c.2.1.3,d.81.1.5 109572,109573 1t2dA 322 2.692 c.2.1.5,d.162.1.1 99084,99085 2q4eA 362 2.736 1tltA 319 2.796 c.2.1.3,d.81.1.5 107135,107136 3ceaA 346 2.881 2o4uX 334 2.951 2hk9A 275 2.959 1p77A 272 3.021 c.2.1.7,c.58.1.5 94214,94215 2p2sA 336 3.102 6ldhA 329 3.125 c.2.1.5,d.162.1.1 30161,42128 2dc1A 236 3.431 1a5zA 319 3.461 c.2.1.5,d.162.1.1 30181,42148 2i6tA 303 3.468 3bioA 304 3.475 1l7dA 384 3.552 c.2.1.4,c.23.12.2 77774,77775 1h6dA 433 3.738 c.2.1.3,d.81.1.5 65656,65657 1u8xX 472 3.764 c.2.1.5,d.162.1.2 107741,107742 1lsuA 147 3.967 c.2.1.9 74250 3c1aA 315 4.097 1ez4A 318 4.303 c.2.1.5,d.162.1.1 64917,64918 2glxA 332 4.405 2nloA 302 4.564 1x13A 401 4.951 1nytA 271 5.079 c.2.1.7,c.58.1.5 86417,86418 1obbA 480 5.115 c.2.1.5,d.162.1.2 86760,86761 2d5cA 263 5.216 2hmvA 144 5.323 c.2.1.9 136615 1lehA 364 5.423 c.2.1.7,c.58.1.1 30268,33916 2g17A 337 5.857 c.2.1.3,d.81.1.1 134512,134513 2r6jA 318 6.301 1rydA 387 6.336 c.2.1.3,d.81.1.5 118801,118802 2aefA 234 6.536 1vjtA 483 6.632 c.2.1.5,d.162.1.2 100833,100834 2g1uA 155 6.896 1nvmB 312 7.342 c.2.1.3,d.81.1.1 86251,86252 1drw 273 7.354 1y1pA 342 7.759 c.2.1.2 122550 1vknA 351 8.390 c.2.1.3,d.81.1.1 108676,108677 1drwA 273 8.977 c.2.1.3,d.81.1.3 30057,39972 1zh8A 340 9.201 c.2.1.3,d.81.1.5 125077,125078 1nvtA 287 9.474 c.2.1.7,c.58.1.5 86270,86271 1j5pA 253 9.597 d.81.1.3,c.2.1.3 71577,83092 2ixaA 444 9.928 1y81A 138 10.06 c.2.1.8 122731 1hdoA 206 10.90 c.2.1.2 60965 1id1A 153 11.03 c.2.1.9 62286 1yqdA 366 11.10 1sb8A 352 11.19 c.2.1.2 105410 2hjsA 340 11.72 c.2.1.3,d.81.1.1 136547,136548 2ejwA 332 11.84 1npyA 271 11.92 c.2.1.7,c.58.1.5 85995,85996 1up7A 417 12.07 c.2.1.5,d.162.1.2 113374,113375 2q49A 359 12.08 c.2.1.3,d.81.1.1 139831,139832 1iukA 140 12.39 c.2.1.8 83712 2cf5A 357 12.49 2r00A 336 12.65 2nqtA 352 12.72 1xgkA 352 12.79 c.2.1.2 115286 2d59A 144 13.02 c.2.1.8 131266 2gn4A 344 13.05 1s6yA 450 13.07 c.2.1.5,d.162.1.2 105314,105315 1luaA 287 14.05 c.2.1.7,c.58.1.4 78216,78217 2ph5A 480 14.32 2gz1A 366 14.87 c.2.1.3,d.81.1.1 135887,135888 2c29D 337 15.58 2pzmA 330 16.19 1uufA 369 16.70 b.35.1.2,c.2.1.1 100006,100007 2q1sA 377 17.76 1i2cA 404 17.84 c.2.1.2 83666 1fl2A 310 18.01 c.3.1.5,c.3.1.5 59869,59870 2fk8A 318 18.44 c.66.1.18 133648 1vi2A 300 18.79 c.2.1.7,c.58.1.5 100726,100727 1nhpA 447 19.49 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 3c85A 183 20.16 2cmd 312 20.24 1oc2A 348 20.65 c.2.1.2 92765 1lc0A 294 20.70 c.2.1.3,d.81.1.4 73823,73824 2exxA 306 20.96 1lluA 342 21.18 b.35.1.2,c.2.1.1 91064,91065 1nhsA 447 21.38 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2bkaA 242 21.40 c.2.1.2 128666 2cmdA 312 22.39 c.2.1.5,d.162.1.1 30135,42102 1z7bA 358 22.72 c.2.1.2 124599 2o7sA 523 22.72 1kyqA 274 22.83 c.2.1.11,e.37.1.1 73281,73282 1ri5A 298 22.92 c.66.1.34 97502 3cc8A 230 23.53 2b69A 343 24.24 c.2.1.2 127974 2gasA 307 24.87 3ckkA 235 25.75 3c8mA 331 26.16 1o6zA 303 26.49 c.2.1.5,d.162.1.1 81107,81108 2czcA 334 26.59 d.81.1.1 131044 1ys4A 354 26.92 2p4hX 322 27.36 1kpgA 287 27.38 c.66.1.18 68735 1vl5A 260 28.64 c.66.1.41 108720 1mldA 314 28.91 c.2.1.5,d.162.1.1 30122,42089 1p91A 269 29.69 c.66.1.33 94378 1l1eA 287 29.75 c.66.1.18 73454 2ozpA 345 29.96 1b7gO 340 30.80 c.2.1.3,d.81.1.1 29992,39907 1c1dA 355 31.79 c.2.1.7,c.58.1.1 30270,33918 1xq6A 253 31.87 c.2.1.2 115829 2zbwA 335 31.89 2p5yA 311 31.97 2gv8A 447 32.38 c.3.1.5,c.3.1.5 135759,135760 1xu9A 286 32.60 c.2.1.2 116052 2pk3A 321 33.40 1xtpA 254 34.47 c.66.1.42 116031 1wvgA 359 36.63 c.2.1.2 121339 2z1mA 345 36.79 1yxmA 303 37.26 c.2.1.2 124192 2nxcA 254 37.47 c.66.1.39 138739 1wznA 252 38.96 c.66.1.43 121525 2a35A 215 39.02 c.2.1.2 126072 1jw9B 249 39.16 c.111.1.1 67377 1y8cA 246 40.35 c.66.1.43 116563 1rkxA 357 41.42 c.2.1.2 97631 2bllA 345 41.52 c.2.1.2 128733 2ex4A 241 42.12 c.66.1.42 132516 1xg5A 279 42.25 c.2.1.2 115277 2j3hA 345 42.32 1ve3A 227 42.76 c.66.1.43 120010 1ebfA 358 43.87 c.2.1.3,d.81.1.2 30033,39948 2b9eA 303 43.88 c.66.1.38 128124 1yovA 537 44.15 c.111.1.2 123785 2yyyA 343 45.13 1xxlA 239 46.03 c.66.1.41 116203 2r3sA 335 46.39 3bgvA 313 46.51 1xvaA 292 47.19 c.66.1.5 34183 2cduA 452 47.20 1uirA 314 47.43 c.66.1.17 99429 2q46A 253 48.27 c.2.1.2 139825 1o89A 345 48.73 b.35.1.2,c.2.1.1 92644,92645 3bxoA 239 50.28 1kolA 398 50.38 b.35.1.2,c.2.1.1 77474,77475 1zmdA 474 50.41 2bzgA 232 50.48 c.66.1.36 129559 1f8fA 371 50.79 b.35.1.2,c.2.1.1 83246,83247 2gb4A 252 51.57 2yqzA 263 52.15 1ps9A 671 52.79 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1vj0A 380 52.99 b.35.1.2,c.2.1.1 100786,100787 3cggA 195 54.27 2gptA 523 54.41 1zq9A 285 54.46 c.66.1.24 125505 1y7tA 327 55.00 c.2.1.5,d.162.1.1 122718,122719 2o57A 297 55.10 1bdmA 327 55.54 c.2.1.5,d.162.1.1 30137,42104 2aotA 292 55.82 c.66.1.19 127098 1p0fA 373 57.42 b.35.1.2,c.2.1.1 87642,87643 2hcyA 347 57.42 1trb 320 57.70 1yzhA 214 57.83 c.66.1.53 124277 2hrzA 342 58.17 1q1rA 431 58.19 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 2i6gA 199 58.35 c.66.1.44 137096 1qamA 244 58.65 c.66.1.24 34220 4uagA 437 58.76 c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 2cmgA 262 60.48 1im8A 244 60.68 c.66.1.14 66212 1fp1D 372 61.39 a.4.5.29,c.66.1.12 59939,59940 1trbA 320 62.00 c.3.1.5,c.3.1.5 30529,30530 1orrA 347 62.31 c.2.1.2 93460 1ixkA 315 62.39 c.66.1.38 90716 1q7gA 359 62.90 c.2.1.3,d.81.1.2 96038,96039 2d8aA 348 63.72 1hyeA 313 63.98 c.2.1.5,d.162.1.1 61400,61401 1n8kA 374 64.27 b.35.1.2,c.2.1.1 80298,80299 1duvG 333 64.49 c.78.1.1,c.78.1.1 35228,35229 1zbqA 327 65.47 c.2.1.2 124862 1dl5A 317 65.61 c.66.1.7,d.197.1.1 64720,64721 1lvlA 458 65.71 c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 1gteA 1025 66.59 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 2p8jA 209 67.60 1b6rA 355 68.55 b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 2ozvA 260 68.63 1zk7A 467 68.80 1edzA 320 68.89 c.2.1.7,c.58.1.2 30287,33935 2cdcA 366 68.97 3bkwA 243 69.51 2csuA 457 70.03 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 1y8qA 346 70.98 1i9gA 280 71.72 c.66.1.13 62090 1xhcA 367 72.32 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1hyuA 521 72.36 c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 2i7cA 283 72.50 2gqwA 408 72.82 2yvlA 248 74.29 1pl8A 356 74.75 b.35.1.2,c.2.1.1 94878,94879 2v3aA 384 74.88 2r9zA 463 75.28 2gh1A 301 75.32 c.66.1.49 135170 1y5mA 276 75.45 c.2.1.2 122645 2h6eA 344 75.98 2eihA 343 76.57 1yb2A 275 76.83 c.66.1.13 122868 2gpyA 233 77.41 2pwyA 258 78.34 1w4xA 542 78.78 c.3.1.5,c.3.1.5 109171,109172 1zud1 251 79.20 1gesA 450 79.45 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1sbyA 254 80.10 c.2.1.2 118930 3grsA 478 80.74 c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1z45A 699 81.95 b.30.5.4,c.2.1.2 124427,124428 1t2aA 375 82.28 c.2.1.2 99078 2p35A 259 82.70 1wmaA 276 82.75 c.2.1.2 121042 3csuA 310 83.40 c.78.1.1,c.78.1.1 35094,35095 2dm6A 333 83.60 b.35.1.2,c.2.1.1 131567,131568 1b0aA 288 83.72 c.2.1.7,c.58.1.2 30286,33934 1u3wA 374 83.79 b.35.1.2,c.2.1.1 113013,113014 1qyrA 252 84.22 c.66.1.24 104657 1cydA 244 84.39 c.2.1.2 29825 2fcaA 213 84.65 c.66.1.53 133262 2gdzA 267 84.68 c.2.1.2 135043 1a4iA 301 84.69 c.2.1.7,c.58.1.2 30278,33926 1mjfA 281 87.14 c.66.1.17 79198 1othA 321 87.15 c.78.1.1,c.78.1.1 35260,35261 1ne2A 200 87.17 c.66.1.32 85586 1udcA 338 89.35 c.2.1.2 29785 1wlyA 333 89.67 1l3iA 192 89.71 c.66.1.22 77676