# List of top-scoring protein chains for t2k-80-60-80-str2+near-backbone-11-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 2g76A 335 1.376 1wwkA 307 1.463 2dbqA 334 1.543 2nadA 393 1.641 c.2.1.4,c.23.12.1 30090,31350 2nacA 393 1.752 c.2.1.4,c.23.12.1 30088,31348 1ygyA 529 1.754 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2gcgA 330 1.794 2eklA 313 1.855 1gdhA 320 1.889 c.2.1.4,c.23.12.1 30095,31355 1mx3A 347 2.015 c.2.1.4,c.23.12.1 79638,79639 2d0iA 333 2.131 2pi1A 334 2.164 2fssA 365 2.180 2j6iA 364 2.184 2cukA 311 2.467 1qp8A 303 2.821 c.2.1.4,c.23.12.1 30092,31352 1dxyA 333 3.008 c.2.1.4,c.23.12.1 30094,31354 1xdwA 331 3.135 1dxy 333 3.253 1j4aA 333 3.317 c.2.1.4,c.23.12.1 71502,71503 1a7aA 432 3.404 c.2.1.4,c.23.12.3 30104,31364 2dldA 337 3.434 c.2.1.4,c.23.12.1 30099,31359 1d4fA 431 3.668 c.2.1.4,c.23.12.3 30110,31370 1l7dA 384 3.797 c.2.1.4,c.23.12.2 77774,77775 2vojA 371 3.805 1li4A 432 3.817 c.2.1.4,c.23.12.3 84616,84617 1psdA 409 3.818 c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1xwfA 431 3.865 c.2.1.4,c.23.12.3 122392,122393 1b3rA 431 3.955 c.2.1.4,c.23.12.3 30106,31366 2vhxA 377 4.217 1pjcA 361 4.249 c.2.1.4,c.23.12.2 30101,31361 2o4cA 380 4.386 1v8bA 479 4.569 c.2.1.4,c.23.12.3 113564,113565 1sc6A 404 4.616 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1x13A 401 5.499 1sayA 361 6.938 c.2.1.4,c.23.12.2 30102,31362 1bw9A 356 12.69 c.2.1.7,c.58.1.1 30274,33922 1c1dA 355 13.93 c.2.1.7,c.58.1.1 30270,33918 1vpdA 299 17.65 a.100.1.1,c.2.1.6 113951,113952 1gpjA 404 21.81 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1luaA 287 22.66 c.2.1.7,c.58.1.4 78216,78217 2eggA 297 23.92 1nytA 271 25.24 c.2.1.7,c.58.1.5 86417,86418 1lehA 364 26.35 c.2.1.7,c.58.1.1 30268,33916 2h78A 302 28.18 2hk9A 275 29.80 2f1kA 279 29.94 a.100.1.12,c.2.1.6 132772,132773 1bg6A 359 30.78 a.100.1.5,c.2.1.6 18810,30214 1uufA 369 31.77 b.35.1.2,c.2.1.1 100006,100007 2g5cA 281 32.43 a.100.1.12,c.2.1.6 134646,134647 2d5cA 263 32.84 1npyA 271 35.25 c.2.1.7,c.58.1.5 85995,85996 1bg6 359 36.56 1yrlA 491 36.81 1omoA 322 37.66 c.2.1.13 104017 1vl6A 388 39.62 c.2.1.7,c.58.1.3 108724,108725 3c24A 286 44.53 2pgd 482 44.78 2p4qA 497 44.91 1vllA 334 45.01 c.2.1.13 108834 2cvzA 289 45.65 a.100.1.1,c.2.1.6 130890,130891 1i36A 264 47.59 a.100.1.8,c.2.1.6 71108,71109 1xa0A 328 48.25 b.35.1.2,c.2.1.1 115021,115022 1x7dA 350 48.34 c.2.1.13 114927 1np3A 338 49.29 a.100.1.2,c.2.1.6 85946,85947 2nloA 302 50.04 1pvvA 315 51.37 c.78.1.1,c.78.1.1 95190,95191 1npdA 288 53.80 c.2.1.7,c.58.1.5 80681,80682 1pgjA 478 53.97 a.100.1.1,c.2.1.6 18783,30195 1hwxA 501 54.26 c.2.1.7,c.58.1.1 30250,33898 2c0cA 362 55.00 1iz0A 302 55.39 b.35.1.2,c.2.1.1 83821,83822 1h2bA 359 57.67 b.35.1.2,c.2.1.1 90543,90544 1yb4A 295 57.97 1f8fA 371 58.04 b.35.1.2,c.2.1.1 83246,83247 1p77A 272 58.50 c.2.1.7,c.58.1.5 94214,94215 1tt7A 330 59.20 b.35.1.2,c.2.1.1 112623,112624 1ff9A 450 61.05 c.2.1.3,d.81.1.2 30039,39954 1qydA 313 62.41 c.2.1.2 96583 1vj0A 380 62.51 b.35.1.2,c.2.1.1 100786,100787 1o89A 345 62.57 b.35.1.2,c.2.1.1 92644,92645 1vi2A 300 63.10 c.2.1.7,c.58.1.5 100726,100727 2dm6A 333 64.24 b.35.1.2,c.2.1.1 131567,131568 2pgdA 482 64.57 a.100.1.1,c.2.1.6 18778,30190 1jvbA 347 64.93 b.35.1.2,c.2.1.1 77181,77182 2cf5A 357 65.12 1qorA 327 66.00 b.35.1.2,c.2.1.1 24766,29782 1b3bA 415 66.85 c.2.1.7,c.58.1.1 30244,33892 1lluA 342 67.14 b.35.1.2,c.2.1.1 91064,91065 1p0fA 373 67.51 b.35.1.2,c.2.1.1 87642,87643 1acmA 310 71.48 c.78.1.1,c.78.1.1 35180,35181 2dpoA 319 71.53 1kolA 398 71.70 b.35.1.2,c.2.1.1 77474,77475 2axqA 467 72.11 1othA 321 72.87 c.78.1.1,c.78.1.1 35260,35261 2i6uA 307 73.02 2bmaA 470 75.76 3csuA 310 77.50 c.78.1.1,c.78.1.1 35094,35095 1qycA 308 79.10 c.2.1.2 96581 2h6eA 344 79.45 1gtmA 419 79.72 c.2.1.7,c.58.1.1 30223,33871 1pl8A 356 79.86 b.35.1.2,c.2.1.1 94878,94879 1zcjA 463 81.20 1dliA 402 81.31 a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 3c85A 183 82.32 1axeA 374 83.54 b.35.1.2,c.2.1.1 24681,29697 1mv8A 436 83.63 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1b26A 416 83.76 c.2.1.7,c.58.1.1 30232,33880 2ohxA 374 84.72 b.35.1.2,c.2.1.1 24669,29685 2ef0A 301 85.78 2a4kA 263 85.87 c.2.1.2 126156 2hcyA 347 89.44