# List of top-scoring protein chains for t2k-100-30-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. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #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 FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1opjA 293 3.21e-39 d.144.1.7 87230 1jpaA 312 1.99e-38 d.144.1.7 67011 1qpcA 279 4.52e-38 1fgkA d.144.1.7 41685 1lufA 343 4.71e-38 d.144.1.7 78223 3lck 271 7.36e-38 1fmk d.144.1.7 41686 1ir3A 306 1.04e-37 1fmk d.144.1.7 41702 1fgkA 310 1.07e-37 1fgkA d.144.1.7 41693 1t46A 313 2.33e-37 d.144.1.7 106397 1fmk 452 2.91e-37 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24511,40436,41690 1p4oA 322 5.65e-37 d.144.1.7 87775 1irk 306 6.18e-37 1fmk d.144.1.7 41703 1fvrA 327 1.41e-36 d.144.1.7 60047 1r0pA 312 1.42e-36 d.144.1.7 96734 1jqhA 308 1.50e-36 d.144.1.7 71793 2b7aA 293 6.44e-36 1mp8A 281 1.08e-35 d.144.1.7 91384 1u59A 287 3.39e-35 d.144.1.7 107681 1u46A 291 5.79e-35 d.144.1.7 107656 1xbbA 291 9.33e-35 2evaA 307 1.02e-34 1ywnA 316 2.36e-34 1mq4A 272 4.30e-34 d.144.1.7 91391 1yhvA 297 1.82e-33 2bfxA 284 3.41e-33 2bdwA 362 3.61e-33 1f3mC 297 6.13e-33 1hcl d.144.1.7 41677 1gz8A 299 1.12e-32 d.144.1.7 83405 1hcl 298 1.43e-32 1hcl d.144.1.7 41593 2f57A 317 1.88e-32 1ia8A 289 2.08e-32 1ia8A d.144.1.7 62112 1jvpP 298 2.23e-32 d.144.1.7 67371 1xjdA 345 2.49e-32 1e1xA 299 2.80e-32 1hcl d.144.1.7 59157 1jksA 294 3.73e-32 d.144.1.7 71710 1o6lA 337 3.99e-32 d.144.1.7 81092 1phk 298 8.29e-32 1cdkA d.144.1.7 41635 1p4fA 293 1.87e-31 d.144.1.7 104063 1uu3A 310 2.12e-31 d.144.1.7 99999 2c30A 321 2.16e-31 1xh9A 350 2.16e-31 1cmkE 350 2.26e-31 1cdkA d.144.1.7 41623 2eueA 279 2.50e-31 1cdkA 350 2.87e-31 1cdkA d.144.1.7 41620 1s9jA 341 3.06e-31 1h1wA 289 3.93e-31 d.144.1.7 83460 1q8uA 350 4.06e-31 d.144.1.7 96230 1zrzA 364 4.91e-31 1apmE 350 1.07e-30 1cdkA d.144.1.7 41628 1vzoA 355 1.77e-30 d.144.1.7 108971 1rdqE 350 2.39e-30 d.144.1.7 97314 1kobA 387 2.50e-30 1tkiA d.144.1.7 41640 2bvaA 292 4.61e-30 1blxA 326 5.25e-30 1hcl d.144.1.7 41596 2b9hA 353 1.05e-29 3erk 364 1.12e-29 1hcl d.144.1.7 41654 1o6yA 299 1.16e-29 d.144.1.7 81106 1t4hA 290 1.30e-29 d.144.1.7 106420 1tvoA 368 1.77e-29 1pme 380 4.13e-29 1hcl d.144.1.7 41653 2a19B 284 5.04e-29 2ac5A 316 1.57e-28 1omwA 689 1.85e-28 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1zy4A 303 2.21e-28 1zzlA 351 2.68e-28 1pmnA 364 3.18e-28 d.144.1.7 94907 2ac3A 316 3.68e-28 1zz2A 360 7.35e-28 1ywrA 360 7.52e-28 1wbsA 360 8.86e-28 1r3cA 366 9.52e-28 d.144.1.7 96906 1tkiA 321 1.13e-27 1tkiA d.144.1.7 41638 1xwsA 313 2.37e-27 2bikB 313 2.56e-27 1j1bA 420 3.89e-27 d.144.1.7 90758 2gfsA 372 4.26e-27 1q41A 424 6.13e-27 d.144.1.7 95774 1vjyA 303 3.41e-26 d.144.1.7 108633 1py5A 326 4.07e-26 d.144.1.7 104389 1b6cB 342 4.20e-26 1b6cB d.144.1.7 41673 1ymiA 334 1.53e-25 1lp4A 332 8.81e-25 d.144.1.7 74170 1jwhA 337 1.09e-24 d.144.1.7 71913 1a6o 332 1.47e-24 1a6o 1z57A 339 1.49e-24 1om1A 332 1.73e-24 d.144.1.7 93347 1m2rA 327 1.74e-24 d.144.1.7 84760 1lpuA 332 2.09e-24 d.144.1.7 74177 1x8bA 289 2.39e-24 2eu9A 355 1.67e-22 1howA 373 4.14e-22 1hcl d.144.1.7 41679 1wbpA 397 5.32e-22 1q8yA 373 6.71e-22 d.144.1.7 96234 1ckiA 317 1.33e-20 1csn d.144.1.7 41660 1csn 298 7.43e-18 1csn d.144.1.7 41664 1zarA 282 3.27e-05 1tqmA 282 4.20e-05 a.4.5.56,d.144.1.9 107236,107237 2bkkA 264 1.20e-01 1j7lA 264 1.64e-01 d.144.1.6 62697 1j7iA 264 2.91e-01 1j7iA d.144.1.6 62694 1e17A 150 3.79e-01 2hfh a.4.5.14 16143 1zthA 258 4.91e-01 2b0oE 301 8.70e-01 2be4A 272 1.11e+00 1nw1A 429 1.53e+00 d.144.1.8 86286 1nd4A 264 2.51e+00 d.144.1.6 91815 1bcpB 199 2.94e+00 1bcpB b.40.2.1,d.169.1.2 25120,42429 1jb3A 131 3.60e+00 1jc7A b.40.3.2 62833 1e6mA 128 3.89e+00 3chy c.23.1.1 31039 2comA 124 3.93e+00 2ct9A 208 4.18e+00 1jc7A 131 5.24e+00 1jc7A b.40.3.2 62873 1fnoA 417 6.72e+00 d.58.19.1,c.56.5.4 70145,75841 1g8iA 190 7.11e+00 1rec a.39.1.5 60363 1f07A 321 7.62e+00 1ezwA c.1.16.3 59560 1t6t1 118 8.42e+00 1f0jA 377 8.46e+00 1f0jA a.211.1.2 19346 1wfxA 186 9.09e+00 1ab6A 125 9.13e+00 3chy c.23.1.1 31054 1vixA 420 9.56e+00 c.56.5.4,d.58.19.1 100777,100778 1j6oA 268 9.80e+00 c.1.9.12 77088 1repC 251 1.01e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1z82A 335 1.11e+01 1ab5A 125 1.17e+01 3chy c.23.1.1 31056 1wy6A 172 1.18e+01 1wj7A 104 1.30e+01 1cye 129 1.35e+01 3chy c.23.1.1 31077 1nmeA 146 1.37e+01 c.17.1.1 85874 2cwoA 197 1.41e+01 1q67A 231 1.41e+01 b.55.1.7 95960 1gz2A 142 1.44e+01 d.169.1.1 83392 1sfxA 109 1.45e+01 a.4.5.50 105505 1ki0A 253 1.47e+01 g.14.1.1,g.14.1.1,g.14.1.1 72493,72494,72495 1uuqA 440 1.50e+01 c.1.8.3 100015 3chy 128 1.50e+01 3chy c.23.1.1 31038 1twdA 256 1.58e+01 c.1.30.1 107397 2aq2B 237 1.78e+01 2fnaA 357 1.82e+01 2a6hE 99 1.83e+01 1yixA 265 1.85e+01 2gq1A 332 1.89e+01 1jbeA 128 1.91e+01 3chy c.23.1.1 62845 1xppA 115 1.91e+01 1q1vA 70 2.02e+01 a.159.4.1 104479 1pauA 147 2.08e+01 1pauA c.17.1.1 30994 1r8hA 87 2.08e+01 d.58.8.1 97233 1x6iA 91 2.10e+01 1bxwA 172 2.11e+01 1bxwA f.4.1.1 43743 1kluD 239 2.14e+01 b.40.2.2,d.15.6.1 72728,72729 1x92A 199 2.14e+01 1ste 239 2.15e+01 3seb b.40.2.2,d.15.6.1 25154,37743 1tvxB 75 2.18e+01 1tvxA d.9.1.1 37442 1ka9H 200 2.21e+01 c.23.16.1 77308 1uetA 437 2.27e+01 a.160.1.3,d.218.1.7,d.58.16.2 99272,99273,99274 1txqA 93 2.44e+01 2bzpA 226 2.45e+01 1iw7E 99 2.50e+01 a.143.1.1 71476 2gnxA 365 2.74e+01 2apoA 357 2.74e+01 1napA 70 2.82e+01 1tvxA d.9.1.1 37445 1cojA 212 2.83e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1b35B 255 2.85e+01 1b35B b.121.4.1 23334 1z5rA 306 3.07e+01 1u53A 196 3.15e+01 1dcqA 278 3.17e+01 1dcqA d.211.1.1,g.45.1.1 19178,45326 1jw3A 140 3.31e+01 d.208.1.1 67373 1c4xA 285 3.40e+01 1c4xA c.69.1.10 34684 1di1A 300 3.50e+01 1di1A a.128.1.4 19446 2coeA 120 3.57e+01 1or4A 178 3.63e+01 a.1.1.2 93447 1r89A 437 3.63e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1svdM 110 3.64e+01 1uuzA 137 3.65e+01 d.233.1.1 100024 1emn 82 3.71e+01 1emn g.3.11.1,g.3.11.1 44322,44323 1ksfX 758 3.76e+01 a.174.1.1,c.37.1.20,c.37.1.20 77522,77523,77524 2gmqA 118 3.90e+01 2fa8A 105 3.90e+01 2a14A 263 4.15e+01 1mznA 240 4.23e+01 a.123.1.1 79704 1xdfA 157 4.33e+01 2c6yA 111 4.35e+01 1x42A 232 4.43e+01 1b5l 172 4.51e+01 1b5l a.26.1.3 16900 1fepA 724 4.60e+01 1fepA f.4.3.3 43808 1go4A 205 4.65e+01 d.135.1.1 70292 2b8iA 77 4.66e+01 1tvxA 75 4.68e+01 1tvxA d.9.1.1 37441 1z7aA 308 4.68e+01 2gn4A 344 4.68e+01 1wstA 417 4.82e+01 1rwiA 270 4.84e+01 b.68.9.1 97987 1zcbA 362 4.89e+01 1lliA 92 5.07e+01 1lmb3 a.35.1.2 17025 2ctdA 96 5.16e+01 1zbfA 142 5.22e+01 1o0pA 104 5.23e+01 d.58.7.1 86535 1auiB 169 5.37e+01 1auiB a.39.1.5 17325 1e8yA 966 5.39e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1i4nA 251 5.41e+01 c.1.2.4 71114 1cmaA 104 5.42e+01 1cmbA a.43.1.5 17486 1itpA 77 5.62e+01 d.58.3.2 66371 1v8aA 265 5.63e+01 c.72.1.2 100494 1e8xA 961 5.70e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19148,23183,37631,41711 1ncx 162 5.72e+01 1ncx a.39.1.5 17222 1v5iB 76 5.77e+01 1dciA 275 5.83e+01 1dciA c.14.1.3 30918 1nxhA 126 5.92e+01 a.200.1.1 92300 1a3qA 285 5.98e+01 1a3qA b.1.18.1,b.2.5.3 21932,22447 1bc9 200 6.14e+01 1pbv a.118.3.1 19180 1ao0A 459 6.15e+01 1ecfB c.61.1.1,d.153.1.1 34049,41816 1yn9A 169 6.22e+01 2etgA 296 6.29e+01 1u7iA 136 6.31e+01 d.32.1.7 107724 1top 162 6.31e+01 1ncx a.39.1.5 17223 1mgsA 73 6.37e+01 1tvxA d.9.1.1 37389 1mvcA 240 6.38e+01 a.123.1.1 79499 1k94A 165 6.39e+01 a.39.1.8 68333 1i7hA 111 6.52e+01 d.15.4.1 71122 1oqcA 125 6.54e+01 a.24.15.1 87264 1e7uA 961 6.55e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1tn4 159 6.57e+01 1ncx a.39.1.5 17248 1iuhA 198 6.58e+01 d.61.1.2 83711 1z7wA 322 6.65e+01 2b43A 526 6.76e+01 1xhkA 187 6.79e+01 1yruB 74 6.90e+01 1mjoA 104 7.12e+01 1cmbA a.43.1.5 17466 1yiiA 320 7.18e+01 1sro 76 7.24e+01 1sro b.40.4.5 25327 1y1xA 191 7.26e+01 1aj4 161 7.27e+01 1ncx a.39.1.5 17244 1by9 81 7.28e+01 2bopA d.58.8.1 39223 1un7A 400 7.36e+01 b.92.1.5,c.1.9.10 99657,99658 1jjeA 222 7.44e+01 1a7tA d.157.1.1 63117 1dqeA 137 7.63e+01 1dqeA a.39.2.1 17388 1o5hA 214 7.63e+01 a.191.1.1 92497 1mjnA 179 7.77e+01 c.62.1.1 79210 1c3pA 375 7.79e+01 1c3pA c.42.1.2 32606 2apjA 260 7.91e+01 1cmbA 104 8.02e+01 1cmbA a.43.1.5 17460 1a2xA 159 8.14e+01 1ncx a.39.1.5 17251 1aj8A 371 8.17e+01 1aj8A a.103.1.1 18900 1w2fA 276 8.19e+01 d.143.1.3 109125 1fsfA 266 8.44e+01 c.124.1.1 65047 1jjtA 228 8.46e+01 1a7tA d.157.1.1 63139 1izmA 184 8.58e+01 a.199.1.1 90725 2atvA 196 8.58e+01 1z7yA 322 8.63e+01 1wu4A 396 8.64e+01 8rucI 123 8.76e+01 1rboC d.73.1.1 39629 1zroA 602 8.82e+01 1dd6A 228 9.00e+01 1a7tA d.157.1.1 42054 1a68 95 9.00e+01 1t1dA d.42.1.2 38639