# List of top-scoring protein chains for t06-w0.5-1-pb-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 1vpdA 299 0.001795 a.100.1.1,c.2.1.6 113951,113952 2ahrA 259 0.002110 a.100.1.10,c.2.1.6 126775,126776 2izzA 322 0.003015 2pgd 482 0.003101 2pgdA 482 0.003215 a.100.1.1,c.2.1.6 18778,30190 1yqgA 263 0.003241 2h78A 302 0.003572 2p4qA 497 0.003699 1np3A 338 0.004245 a.100.1.2,c.2.1.6 85946,85947 2rcyA 262 0.004587 1yb4A 295 0.004664 1bg6A 359 0.005580 a.100.1.5,c.2.1.6 18810,30214 2cvzA 289 0.006095 a.100.1.1,c.2.1.6 130890,130891 2dpoA 319 0.006301 2ew2A 316 0.007631 3c24A 286 0.007695 2graA 277 0.008123 2g5cA 281 0.009785 a.100.1.12,c.2.1.6 134646,134647 1yrlA 491 0.01126 1ks9A 291 0.01347 a.100.1.7,c.2.1.6 68857,68858 1zcjA 463 0.01422 2f1kA 279 0.01535 a.100.1.12,c.2.1.6 132772,132773 2pv7A 298 0.01719 1f0yA 302 0.01907 a.100.1.3,c.2.1.6 18793,30197 1evyA 366 0.01988 a.100.1.6,c.2.1.6 18811,30215 1qmgA 524 0.02460 a.100.1.2,c.2.1.6 18785,30182 1bg6 359 0.03123 1i36A 264 0.03798 a.100.1.8,c.2.1.6 71108,71109 1z82A 335 0.03969 1x0vA 354 0.04035 2qytA 317 0.04771 1zejA 293 0.04867 1txgA 335 0.04911 a.100.1.6,c.2.1.6 112775,112776 2i76A 276 0.04955 1mv8A 436 0.05495 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1jayA 212 0.05711 c.2.1.6 66478 2o3jA 481 0.1064 1dljA 402 0.1331 a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 0.1679 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1qv9A 283 0.1925 c.127.1.1 96356 1gdhA 320 0.3168 c.2.1.4,c.23.12.1 30095,31355 2axqA 467 0.3171 2nacA 393 0.3189 c.2.1.4,c.23.12.1 30088,31348 2fssA 365 0.3537 1mx3A 347 0.3540 c.2.1.4,c.23.12.1 79638,79639 1ygyA 529 0.3960 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2dbqA 334 0.4377 2j6iA 364 0.4569 1j4aA 333 0.4991 c.2.1.4,c.23.12.1 71502,71503 1wwkA 307 0.5110 2eklA 313 0.5502 1dxy 333 0.5535 1xdwA 331 0.6086 2o4cA 380 0.6232 1li4A 432 0.6240 c.2.1.4,c.23.12.3 84616,84617 1v8bA 479 0.6952 c.2.1.4,c.23.12.3 113564,113565 1dxyA 333 0.7372 c.2.1.4,c.23.12.1 30094,31354 2gcgA 330 0.7835 2d0iA 333 0.8189 2pi1A 334 0.8258 2g76A 335 0.8333 2b0jA 358 0.9264 a.100.1.11,c.2.1.6 127639,127640 2cukA 311 1.054 1x7dA 350 1.095 c.2.1.13 114927 1gpjA 404 1.101 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1lssA 140 1.187 c.2.1.9 74246 1sc6A 404 1.241 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 2nvwA 479 1.300 c.2.1.3,d.81.1.5 138665,138666 1qp8A 303 1.372 c.2.1.4,c.23.12.1 30092,31352 2o4uX 334 1.456 2p2sA 336 1.507 1xeaA 323 1.536 c.2.1.3,d.81.1.5 109572,109573 1pjcA 361 1.570 c.2.1.4,c.23.12.2 30101,31361 2ho3A 325 1.684 2q4eA 362 1.694 1omoA 322 1.749 c.2.1.13 104017 2ewdA 317 1.871 3ceaA 346 1.899 1tltA 319 2.041 c.2.1.3,d.81.1.5 107135,107136 2hk9A 275 2.169 2dc1A 236 2.241 1guzA 310 2.263 c.2.1.5,d.162.1.1 65586,65587 2vhxA 377 2.271 1f06A 320 2.327 c.2.1.3,d.81.1.3 59556,59557 1ff9A 450 2.456 c.2.1.3,d.81.1.2 30039,39954 1hyhA 309 2.461 c.2.1.5,d.162.1.1 30150,42117 1lsuA 147 2.476 c.2.1.9 74250 2glxA 332 2.501 1pzgA 331 2.642 c.2.1.5,d.162.1.1 95425,95426 1lehA 364 2.839 c.2.1.7,c.58.1.1 30268,33916 3bioA 304 2.953 1lldA 319 2.990 c.2.1.5,d.162.1.1 30177,42144 1h6dA 433 3.056 c.2.1.3,d.81.1.5 65656,65657 2vojA 371 3.072 3c1aA 315 3.087 1t2dA 322 3.170 c.2.1.5,d.162.1.1 99084,99085 1uxjA 309 3.203 c.2.1.5,d.162.1.1 108112,108113 2hmvA 144 3.899 c.2.1.9 136615 2v7pA 310 3.928 2d5cA 263 3.968 1u8xX 472 4.026 c.2.1.5,d.162.1.2 107741,107742 1p77A 272 4.084 c.2.1.7,c.58.1.5 94214,94215 6ldhA 329 4.371 c.2.1.5,d.162.1.1 30161,42128 2i6tA 303 4.430 1zh8A 340 4.499 c.2.1.3,d.81.1.5 125077,125078 1ez4A 318 4.601 c.2.1.5,d.162.1.1 64917,64918 2eggA 297 4.648 1l7dA 384 4.793 c.2.1.4,c.23.12.2 77774,77775 1obbA 480 4.808 c.2.1.5,d.162.1.2 86760,86761 1rydA 387 4.884 c.2.1.3,d.81.1.5 118801,118802 1x13A 401 4.901 1a5zA 319 5.227 c.2.1.5,d.162.1.1 30181,42148 2aefA 234 5.327 1y81A 138 5.400 c.2.1.8 122731 2g17A 337 5.526 c.2.1.3,d.81.1.1 134512,134513 2g1uA 155 5.632 2nloA 302 5.900 2ixaA 444 5.947 1nytA 271 5.988 c.2.1.7,c.58.1.5 86417,86418 1nvmB 312 6.108 c.2.1.3,d.81.1.1 86251,86252 1drw 273 6.394 1vknA 351 6.629 c.2.1.3,d.81.1.1 108676,108677 1drwA 273 6.728 c.2.1.3,d.81.1.3 30057,39972 2d59A 144 6.929 c.2.1.8 131266 1y1pA 342 7.193 c.2.1.2 122550 1iukA 140 7.249 c.2.1.8 83712 1vjtA 483 7.386 c.2.1.5,d.162.1.2 100833,100834 2r6jA 318 7.502 2cf5A 357 8.073 1yqdA 366 8.456 1nvtA 287 8.637 c.2.1.7,c.58.1.5 86270,86271 1s6yA 450 9.578 c.2.1.5,d.162.1.2 105314,105315 1npyA 271 10.16 c.2.1.7,c.58.1.5 85995,85996 1up7A 417 10.18 c.2.1.5,d.162.1.2 113374,113375 1id1A 153 11.11 c.2.1.9 62286 1lluA 342 11.79 b.35.1.2,c.2.1.1 91064,91065 1lc0A 294 11.83 c.2.1.3,d.81.1.4 73823,73824 2hjsA 340 11.84 c.2.1.3,d.81.1.1 136547,136548 1uufA 369 12.35 b.35.1.2,c.2.1.1 100006,100007 2pzmA 330 12.47 1xgkA 352 12.77 c.2.1.2 115286 1z7bA 358 12.98 c.2.1.2 124599 1c1dA 355 13.11 c.2.1.7,c.58.1.1 30270,33918 2ejwA 332 13.37 1sb8A 352 13.47 c.2.1.2 105410 1luaA 287 13.78 c.2.1.7,c.58.1.4 78216,78217 2c29D 337 13.82 2q49A 359 13.84 c.2.1.3,d.81.1.1 139831,139832 3c85A 183 14.12 1hdoA 206 14.36 c.2.1.2 60965 1ve3A 227 15.22 c.66.1.43 120010 2fk8A 318 15.30 c.66.1.18 133648 1j5pA 253 15.64 d.81.1.3,c.2.1.3 71577,83092 1vi2A 300 15.91 c.2.1.7,c.58.1.5 100726,100727 2b69A 343 16.02 c.2.1.2 127974 2r00A 336 16.55 2gn4A 344 16.85 2gasA 307 16.86 2exxA 306 17.54 1oi7A 288 17.98 c.2.1.8,c.23.4.1 87049,87050 2nxcA 254 18.19 c.66.1.39 138739 3cc8A 230 19.11 2cmdA 312 19.90 c.2.1.5,d.162.1.1 30135,42102 1kpgA 287 20.04 c.66.1.18 68735 2bkaA 242 20.74 c.2.1.2 128666 2o57A 297 20.85 1i2cA 404 20.87 c.2.1.2 83666 1nhpA 447 21.19 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 2o7sA 523 21.36 1yzhA 214 21.49 c.66.1.53 124277 1vj0A 380 21.52 b.35.1.2,c.2.1.1 100786,100787 1wznA 252 21.53 c.66.1.43 121525 2j3hA 345 21.58 1wvgA 359 21.72 c.2.1.2 121339 1nhsA 447 22.40 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2yv1A 294 22.40 2ph5A 480 22.77 1xu9A 286 22.98 c.2.1.2 116052 1im8A 244 23.05 c.66.1.14 66212 2bllA 345 23.58 c.2.1.2 128733 1oc2A 348 23.74 c.2.1.2 92765 1yxmA 303 24.70 c.2.1.2 124192 2cmd 312 24.88 2z1mA 345 25.22 2nqtA 352 25.43 1b7gO 340 25.78 c.2.1.3,d.81.1.1 29992,39907 1kyqA 274 25.92 c.2.1.11,e.37.1.1 73281,73282 1f8fA 371 26.49 b.35.1.2,c.2.1.1 83246,83247 3c8mA 331 26.50 1l1eA 287 26.71 c.66.1.18 73454 1xtpA 254 27.20 c.66.1.42 116031 1p91A 269 27.86 c.66.1.33 94378 3cggA 195 27.90 2gz1A 366 28.58 c.2.1.3,d.81.1.1 135887,135888 1fl2A 310 30.00 c.3.1.5,c.3.1.5 59869,59870 1p0fA 373 31.58 b.35.1.2,c.2.1.1 87642,87643 3ckkA 235 31.59 2d8aA 348 31.61 2p5yA 311 32.07 1o6zA 303 32.22 c.2.1.5,d.162.1.1 81107,81108 2pk3A 321 32.42 2czcA 334 32.76 d.81.1.1 131044 1vl5A 260 33.06 c.66.1.41 108720 1n8kA 374 33.24 b.35.1.2,c.2.1.1 80298,80299 3bxoA 239 33.68 2q1sA 377 33.71 2hcyA 347 34.00 2cduA 452 34.00 1xg5A 279 34.10 c.2.1.2 115277 1duvG 333 34.28 c.78.1.1,c.78.1.1 35228,35229 1y9aA 360 34.70 1pl8A 356 34.73 b.35.1.2,c.2.1.1 94878,94879 1kolA 398 34.90 b.35.1.2,c.2.1.1 77474,77475 1jw9B 249 35.72 c.111.1.1 67377 1ys4A 354 35.86 2eihA 343 36.12 2yyyA 343 36.17 1y8cA 246 36.34 c.66.1.43 116563 2p4hX 322 36.87 2gb4A 252 36.91 2yqzA 263 37.27 1o89A 345 37.29 b.35.1.2,c.2.1.1 92644,92645 1rkxA 357 37.90 c.2.1.2 97631 1sbyA 254 38.10 c.2.1.2 118930 2zbwA 335 38.57 1xvaA 292 38.97 c.66.1.5 34183 1t2aA 375 40.30 c.2.1.2 99078 3bgvA 313 40.39 2ex4A 241 40.52 c.66.1.42 132516 2p8jA 209 40.58 1z45A 699 40.60 b.30.5.4,c.2.1.2 124427,124428 4uagA 437 40.80 c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1q1rA 431 40.91 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1zmdA 474 42.26 1ri5A 298 42.58 c.66.1.34 97502 2dm6A 333 42.58 b.35.1.2,c.2.1.1 131567,131568 2r3sA 335 42.79 1qorA 327 42.92 b.35.1.2,c.2.1.1 24766,29782 2jhfA 374 43.84 b.35.1.2,c.2.1.1 138314,138315 1xq6A 253 44.36 c.2.1.2 115829 2q46A 253 44.41 c.2.1.2 139825 2bzgA 232 44.44 c.66.1.36 129559 2dwcA 433 44.57 2csuA 457 45.01 c.2.1.8,c.23.4.1,c.23.4.1 130781,130782,130783 2ouiA 360 45.36 1u3wA 374 45.38 b.35.1.2,c.2.1.1 113013,113014 1wlyA 333 46.30 1othA 321 46.77 c.78.1.1,c.78.1.1 35260,35261 2gdzA 267 47.37 c.2.1.2 135043 2gh1A 301 48.13 c.66.1.49 135170 2ip2A 334 48.33 1udcA 338 48.51 c.2.1.2 29785 1gteA 1025 49.44 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 2p35A 259 49.58 1zk7A 467 49.77 2r9zA 463 50.12 2cdcA 366 50.33 1i9gA 280 51.08 c.66.1.13 62090 1xxlA 239 51.26 c.66.1.41 116203 1orrA 347 51.68 c.2.1.2 93460 2gptA 523 52.19 2v3aA 384 52.62 3ladA 476 52.69 c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1zbqA 327 52.76 c.2.1.2 124862 2b9eA 303 52.82 c.66.1.38 128124 1b0aA 288 53.22 c.2.1.7,c.58.1.2 30286,33934 1b6rA 355 53.47 b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1vj1A 363 53.71 b.35.1.2,c.2.1.1 100794,100795 2ozpA 345 53.82 1a4iA 301 54.23 c.2.1.7,c.58.1.2 30278,33926 1ps9A 671 54.58 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1yb2A 275 54.81 c.66.1.13 122868 1jg1A 235 54.93 c.66.1.7 66661 2h6eA 344 55.00 1mldA 314 55.06 c.2.1.5,d.162.1.1 30122,42089 3bkwA 243 56.32 2gqwA 408 57.90 2hnkA 239 58.98 1jsxA 207 59.89 c.66.1.20 71846 1trbA 320 60.11 c.3.1.5,c.3.1.5 30529,30530 2blnA 305 60.38 b.46.1.1,c.65.1.1 128734,128735 1ml4A 308 60.38 c.78.1.1,c.78.1.1 79255,79256 1lvlA 458 60.47 c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 3grsA 478 61.01 c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 3grs 478 61.14 1w6uA 302 61.20 c.2.1.2 114288 1fp1D 372 61.48 a.4.5.29,c.66.1.12 59939,59940 1qamA 244 61.59 c.66.1.24 34220 1nt2A 210 62.10 c.66.1.3 86149 1y7tA 327 62.35 c.2.1.5,d.162.1.1 122718,122719 1yqzA 438 62.63 2gpyA 233 62.66 2hrzA 342 65.09 1o54A 277 65.40 c.66.1.13 92482 1uirA 314 66.09 c.66.1.17 99429 2aotA 292 66.12 c.66.1.19 127098 1t4bA 367 66.37 c.2.1.3,d.81.1.1 106406,106407 2yxdA 183 66.38 1y5mA 276 67.10 c.2.1.2 122645 1zq9A 285 67.11 c.66.1.24 125505 1zmoA 244 67.33 1xhcA 367 68.08 c.3.1.5,c.3.1.5,d.87.1.1 115292,115293,115294 1iz0A 302 68.41 b.35.1.2,c.2.1.1 83821,83822 2jahA 247 68.89 2c5aA 379 68.95 c.2.1.2 129894 2pwyA 258 68.97 2i6uA 307 69.10 1zud1 251 69.55 2ipxA 233 69.73 1ebfA 358 70.40 c.2.1.3,d.81.1.2 30033,39948 1zemA 262 70.89 c.2.1.2 124984 1yb5A 351 70.96 b.35.1.2,c.2.1.1 116601,116602 2b25A 336 71.20 c.66.1.13 127699 3csuA 310 71.68 c.78.1.1,c.78.1.1 35094,35095 1xcbA 211 72.74 a.4.5.38,c.2.1.12 109552,109553 1dl5A 317 73.52 c.66.1.7,d.197.1.1 64720,64721 2cl5A 221 73.52 c.66.1.1 130570 2eq6A 464 73.55 2p91A 285 74.24 1l3iA 192 74.73 c.66.1.22 77676 1yovA 537 74.74 c.111.1.2 123785 1h5qA 265 74.78 c.2.1.2 60643 2yvlA 248 75.22 1fmcA 255 75.69 c.2.1.2 29856 1wy7A 207 75.89 c.66.1.32 121433 2pd6A 264 76.47 2ozvA 260 76.79 2z1nA 260 76.81 2dt5A 211 77.35 a.4.5.38,c.2.1.12 131708,131709 1vl8A 267 78.16 c.2.1.2 108733 1uc8A 280 78.36 c.30.1.6,d.142.1.7 99165,99166 1edzA 320 78.40 c.2.1.7,c.58.1.2 30287,33935 1cydA 244 79.83 c.2.1.2 29825 2cmgA 262 79.88 3c3pA 210 80.25 1ixkA 315 81.06 c.66.1.38 90716 1f3lA 321 81.89 c.66.1.6 59630 2fcaA 213 82.04 c.66.1.53 133262 1g8sA 230 82.20 c.66.1.3 90507 1x19A 359 82.62 2pnfA 248 82.64 1gesA 450 83.43 c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 5nul 138 83.47 2a35A 215 84.26 c.2.1.2 126072 2avdA 219 84.36 c.66.1.1 127377 1qyrA 252 84.72 c.66.1.24 104657 1ydeA 270 85.24 c.2.1.2 122980 1yb1A 272 85.26 c.2.1.2 116599 1w4xA 542 85.81 c.3.1.5,c.3.1.5 109171,109172 2yquA 455 86.37 1n7hA 381 88.47 c.2.1.2 80250 2a5lA 200 88.88 c.23.5.8 126176 2gv8A 447 89.96 c.3.1.5,c.3.1.5 135759,135760