# List of top-scoring protein chains for t06-100-40-40-str2+CB_burial_14_7-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 2awiA 317 5.28e-01 1f5nA 592 9.14e-01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1ywfA 296 9.42e-01 1ihgA 370 1.00e+00 2cpl a.118.8.1,b.62.1.1 62380,62381 1oxjA 173 1.00e+00 a.60.1.2,a.118.1.13 87517,87518 1ry6A 360 1.21e+00 c.37.1.9 98090 2al6A 375 1.24e+00 1f45B 197 1.36e+00 1f45B a.26.1.1 59642 2gyqA 175 1.41e+00 1u5tB 169 1.46e+00 a.4.5.54,a.4.5.54 107686,107687 1w33A 181 1.56e+00 1t3wA 148 1.59e+00 1mhqA 148 2.14e+00 a.118.9.2 84973 1z77A 200 2.37e+00 2auwA 170 2.39e+00 1huxA 270 2.46e+00 1huxA c.55.1.5 61278 1w8iA 156 2.71e+00 1b3uA 588 2.99e+00 1b3uA a.118.1.2 19135 2grrB 170 3.02e+00 1paqA 189 3.22e+00 a.118.1.14 94413 2ahqA 76 3.33e+00 1k94A 165 3.43e+00 a.39.1.8 68333 1ujkA 147 3.90e+00 a.118.9.2 99457 1puoA 170 3.91e+00 a.101.1.1,a.101.1.1 95134,95135 1omhA 293 4.03e+00 d.89.1.5 93348 1colA 204 4.18e+00 1a87 f.1.1.1 43378 1u4bA 580 4.37e+00 c.55.3.5,e.8.1.1 107664,107665 1yt3A 375 4.95e+00 1orsC 132 5.10e+00 f.14.1.1 87353 2fgeA 995 5.18e+00 1l8nA 679 5.29e+00 c.1.8.10,d.92.2.2 84564,84565 1v7bA 185 5.50e+00 1jykA 254 5.94e+00 c.68.1.13 67458 1ois 223 6.16e+00 1a36A e.15.1.1 43267 1oyzA 280 6.45e+00 a.118.1.16 93775 1ow4A 129 6.47e+00 a.39.2.1 93628 1f60A 458 6.70e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1xg7A 250 6.89e+00 1gpuA 680 7.03e+00 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1alvA 173 7.51e+00 1alvA a.39.1.8 17370 2guhA 214 7.62e+00 1zgyA 272 7.83e+00 2gtqA 867 8.04e+00 1c1kA 217 8.09e+00 1c1kA a.120.1.1 19239 1in4A 334 8.77e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 2bbhA 269 8.81e+00 1sz9A 144 8.85e+00 a.118.9.4 106139 1va6A 518 8.90e+00 1m8jA 181 9.10e+00 c.26.1.3 84875 2h1rA 299 9.22e+00 1zavA 180 9.39e+00 2a72A 146 9.92e+00 1hw1A 239 9.98e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1b79A 119 1.02e+01 1b79A a.81.1.1 18451 1in6A 334 1.04e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 2azjA 289 1.06e+01 1lb3A 182 1.11e+01 a.25.1.1 77873 1k07A 263 1.11e+01 d.157.1.1 77218 1sumB 235 1.12e+01 a.7.12.1 106025 1j1iA 296 1.29e+01 c.69.1.10 83977 1w7jA 795 1.30e+01 1po5A 476 1.34e+01 a.104.1.1 94963 1ll2A 333 1.35e+01 c.68.1.14 74005 1aua 296 1.39e+01 1aua a.5.3.1,c.13.1.1 16290,30882 2bbrA 195 1.39e+01 1rcwA 231 1.42e+01 a.132.1.4 97299 1c3cA 429 1.42e+01 1c3cA a.127.1.1 19425 1yfsA 465 1.43e+01 1k47A 337 1.43e+01 d.14.1.5,d.58.26.4 72040,72041 1eg3A 261 1.44e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 4tmkA 213 1.44e+01 5tmpA c.37.1.1 31930 1w9gA 104 1.46e+01 1je8A 82 1.47e+01 a.4.6.2 77108 1ylmA 144 1.52e+01 1yovA 537 1.55e+01 1ummA 172 1.56e+01 a.3.1.1 107958 1t13A 158 1.58e+01 1wudA 89 1.59e+01 2c8sA 172 1.64e+01 1pk1B 89 1.64e+01 1iw0A 215 1.67e+01 a.132.1.1 83720 1rxqA 178 1.67e+01 a.213.1.1 105118 1b8dA 164 1.71e+01 1cpcA a.1.1.3 15665 2a9uA 144 1.71e+01 1nfvA 179 1.76e+01 a.25.1.1 85642 1d8bA 81 1.81e+01 1d8bA a.60.8.1 18094 1jyeA 349 1.85e+01 c.93.1.1 67455 2anxA 146 1.85e+01 1nqkA 381 1.85e+01 c.1.16.4 92050 1ekeA 230 1.86e+01 1ekeA c.55.3.1 33572 2fx0A 201 1.87e+01 1p4xA 250 1.87e+01 a.4.5.28,a.4.5.28 87784,87785 2lisA 136 1.92e+01 1lis a.19.1.1 16405 1h4rA 314 1.96e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1mho 88 1.99e+01 1b4cA a.39.1.2 17171 2bnxA 386 1.99e+01 1aisB 200 2.03e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1rw1A 114 2.06e+01 1lmb3 92 2.12e+01 1lmb3 2fd5A 180 2.12e+01 1kw4A 89 2.13e+01 a.60.1.2 73077 2etdA 171 2.14e+01 2h58A 330 2.15e+01 1vpdA 299 2.19e+01 1uhnA 189 2.26e+01 a.39.1.5 99399 1ybdA 239 2.29e+01 1u7lA 392 2.30e+01 1rlzA 369 2.31e+01 c.31.1.1 104989 1nogA 177 2.32e+01 a.25.2.2 85923 1wzdA 215 2.35e+01 1wozA 177 2.37e+01 1gvnB 287 2.40e+01 c.37.1.21 76354 1irqA 71 2.43e+01 a.43.1.4 66297 1n8fA 350 2.45e+01 c.1.10.4 85397 1uyrA 737 2.52e+01 c.14.1.4,c.14.1.4 100188,100189 1ej2A 181 2.60e+01 1f9aA c.26.1.3 59414 1s4bP 674 2.61e+01 d.92.1.5 105252 1i27A 73 2.62e+01 1i27A a.4.5.30 61555 2cbiA 594 2.63e+01 1sqgA 429 2.70e+01 a.79.1.3,c.66.1.38 105912,105913 1m45A 148 2.76e+01 a.39.1.5 78598 1urjA 1136 2.79e+01 1t94A 459 2.83e+01 d.240.1.1,e.8.1.7 106701,106702 3grs 478 2.86e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1kkhA 317 2.87e+01 d.14.1.5,d.58.26.3 72645,72646 1khyA 148 2.93e+01 a.174.1.1 77410 1onrA 316 3.02e+01 1onrA c.1.10.1 29169 1qhlA 227 3.02e+01 1qhlA c.37.1.12 32382 1vhnA 318 3.05e+01 c.1.4.1 100693 1lqtA 456 3.07e+01 c.3.1.1,c.4.1.1 74198,74199 1rro 108 3.10e+01 1a75A a.39.1.4 17195 1fjlA 81 3.12e+01 2hddA a.4.1.1 16017 1sv0C 82 3.22e+01 a.60.1.1 106037 2h21A 440 3.23e+01 1q8fA 313 3.26e+01 c.70.1.1 96203 1r9jA 673 3.29e+01 1lvfA 110 3.33e+01 a.47.2.1 74280 1ei7A 158 3.33e+01 1rmvA a.24.5.1 16584 1hb6A 86 3.34e+01 a.11.1.1 70959 1ho8A 480 3.35e+01 1ho8A a.118.1.9 61107 1np7A 489 3.36e+01 a.99.1.1,c.28.1.1 80677,80678 5csmA 256 3.37e+01 5csmA a.130.1.2 19494 1p0yA 444 3.38e+01 a.166.1.1,b.85.7.3 87654,87655 2evwX 166 3.41e+01 1o17A 345 3.43e+01 a.46.2.1,c.27.1.1 80765,80766 1qd1A 325 3.44e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 2g3kA 94 3.45e+01 1iqvA 218 3.50e+01 1rss a.75.1.1 62661 1l9vA 317 3.52e+01 d.13.2.1,d.216.1.1 73760,73761 1gqiA 708 3.55e+01 c.1.8.10,d.92.2.2 76279,76280 2an3A 289 3.57e+01 1bm9A 122 3.58e+01 1bm9A a.4.5.7 16116 2ff4A 388 3.66e+01 1f1eA 154 3.66e+01 a.22.1.2 64927 1z5zA 271 3.68e+01 2dfkA 402 3.74e+01 1oe4A 247 3.78e+01 c.18.1.3 86895 1nnwA 252 3.79e+01 d.159.1.5 80674 1r1hA 696 3.80e+01 d.92.1.4 104756 1jeyB 565 3.84e+01 1jeqB b.131.1.2,c.62.1.4 90372,90373 1wsrA 375 3.86e+01 1ykuA 136 3.88e+01 1v38A 78 3.88e+01 a.60.1.2 100280 2bg9A 370 3.95e+01 2gi3A 476 4.03e+01 2choA 716 4.03e+01 1zwwA 256 4.03e+01 1xsvA 113 4.08e+01 1ofcX 304 4.13e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2bg5A 324 4.15e+01 1zb1A 392 4.16e+01 1m32A 366 4.17e+01 c.67.1.3 78508 2chnA 716 4.23e+01 2bw3A 534 4.26e+01 1y8qB 640 4.26e+01 1irzA 64 4.29e+01 a.4.1.11 76772 1or7A 194 4.32e+01 a.4.13.2,a.177.1.1 87332,87333 1r8eA 278 4.35e+01 a.6.1.3,d.60.1.1 104843,104844 1n45A 233 4.36e+01 a.132.1.1 79981 1ovlA 271 4.40e+01 a.123.1.1 87455 1s0pA 176 4.45e+01 a.192.1.1 98300 1nar 290 4.46e+01 1nar c.1.8.5 28988 1t3qA 168 4.49e+01 a.56.1.1,d.15.4.2 106367,106368 1x52A 124 4.50e+01 1ks9A 291 4.53e+01 a.100.1.7,c.2.1.6 68857,68858 1ynbA 173 4.61e+01 1ail 73 4.66e+01 1ail a.16.1.1 16381 1wdcC 156 4.73e+01 1wdcC a.39.1.5 17317 1ib2A 349 4.79e+01 1ib2A a.118.1.8 62141 1a9xA 1058 4.80e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1szqA 483 4.81e+01 e.44.1.1 99045 1n93X 375 4.82e+01 a.206.1.1 91707 1jtvA 327 4.84e+01 c.2.1.2 84230 1yf2A 425 4.90e+01 2gnoA 305 4.93e+01 1jbwA 428 4.94e+01 c.59.1.2,c.72.2.2 62860,62861 2g3bA 208 5.00e+01 1v5eA 590 5.02e+01 1zljA 78 5.03e+01 1us7B 265 5.03e+01 a.205.1.1 99858 1bob 320 5.06e+01 1bob d.108.1.1 40816 1a6s 87 5.13e+01 1a6s a.61.1.4 18134 2aq8A 269 5.31e+01 2ge3A 170 5.32e+01 1eumA 165 5.33e+01 1eumA a.25.1.1 59507 1n4kA 381 5.33e+01 a.118.22.1,b.42.6.1 79992,79993 1ctqA 166 5.35e+01 1ctqA c.37.1.8 31965 1cs0A 1073 5.35e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1otvA 259 5.36e+01 a.132.1.4 93526 1uw4B 248 5.40e+01 a.118.1.14 100072 1sedA 117 5.44e+01 a.219.1.1 105449 1yvhA 329 5.48e+01 1h3nA 878 5.50e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 2a65A 519 5.51e+01 1t9hA 307 5.54e+01 1jeyA 609 5.66e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1y7lA 316 5.67e+01 1ryp2 233 5.71e+01 1ryp2 2di4A 238 5.71e+01 1em9A 154 5.72e+01 1d1dA a.73.1.1 18333 1lm8C 96 5.73e+01 d.42.1.1 74034 1dbhA 354 5.76e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1yqgA 263 5.86e+01 2grrA 161 5.94e+01 1qjcA 158 6.03e+01 1b6tA c.26.1.3 63328 1sd4A 126 6.05e+01 a.4.5.39 105428 1y74A 57 6.11e+01 1ux8A 132 6.13e+01 2cobA 70 6.14e+01 2akaB 299 6.18e+01 1i0vA 104 6.19e+01 9rnt d.1.1.4 36054 1fxxA 482 6.20e+01 1fxxA c.55.3.5 33726 1k3bB 164 6.21e+01 d.3.1.1 72015 1r7jA 95 6.21e+01 a.4.5.49 104836 1qgtA 149 6.22e+01 1qgtA a.62.1.1 18135 2ilk 160 6.25e+01 2ilk a.26.1.3 16885 2pvbA 107 6.29e+01 1a75A a.39.1.4 17205 2bl0C 142 6.29e+01 1hf8A 289 6.43e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1bazA 53 6.58e+01 1bazA a.43.1.1 17421 2e2aA 105 6.64e+01 a.7.2.1 88499 2cw8A 537 6.64e+01 2cz2A 223 6.65e+01 2gmyA 153 6.67e+01 1uf2A 1019 6.68e+01 e.28.1.2 99289 1w27A 714 6.68e+01 1o9iA 266 6.70e+01 a.25.1.3 92671 5eau 548 6.75e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1oq9A 363 6.76e+01 a.25.1.2 87257 1ki9A 192 6.79e+01 c.37.1.1 84404 1ujcA 161 6.85e+01 1y9iA 178 6.87e+01 1g8iA 190 6.91e+01 1rec a.39.1.5 60363 1unlD 208 7.00e+01 1c52 131 7.03e+01 1c52 a.3.1.1 15810 1ug7A 128 7.12e+01 a.24.24.1 107824 1i7kA 179 7.16e+01 1u9aA d.20.1.1 61889 1x1nA 524 7.18e+01 1s5lX 50 7.21e+01 7aatA 401 7.27e+01 1ajsA c.67.1.1 34250 1vqoM 195 7.36e+01 1aky 221 7.38e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1nrlA 316 7.41e+01 a.123.1.1 92091 2aj6A 159 7.43e+01 1bg2 325 7.43e+01 1bg2 c.37.1.9 32189 1sqnA 261 7.47e+01 a.123.1.1 105944 1xcbA 211 7.59e+01 a.4.5.38,c.2.1.12 109552,109553 1mixA 206 7.69e+01 a.11.2.1,b.55.1.5 79166,79167 2b69A 343 7.70e+01 1ay7B 89 7.71e+01 1ay7B c.9.1.1 30836 1c02A 166 7.71e+01 1qspA a.24.10.2 16633 2fbhA 146 7.74e+01 1dwkA 156 7.76e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1pzlA 237 7.78e+01 a.123.1.1 104393 2cj4A 150 7.88e+01 1l6wA 220 7.93e+01 c.1.10.1 73632 1ockA 412 7.94e+01 c.117.1.1 86802 1n46A 258 7.95e+01 a.123.1.1 85315 1p80A 753 7.98e+01 c.23.16.3,e.5.1.1 94337,94338 1hqkA 154 8.01e+01 c.16.1.1 65902 1t56A 216 8.05e+01 a.4.1.9,a.121.1.1 106428,106429 1jpzA 473 8.05e+01 a.104.1.1 67069 1od6A 160 8.06e+01 c.26.1.3 86836 1jqnA 883 8.07e+01 c.1.12.3 77159 1regX 122 8.12e+01 1regX d.58.27.1 39406 2bdwA 362 8.15e+01 1ki1B 352 8.22e+01 a.87.1.1,b.55.1.1 72497,72498 1al3 324 8.22e+01 1al3 c.94.1.1 35835 1yumA 242 8.30e+01 1pueE 89 8.32e+01 1awcA a.4.5.21 16165 1f4sP 65 8.32e+01 g.38.1.1 64984 1jrrA 382 8.32e+01 e.1.1.1 63256 1ngnA 155 8.32e+01 a.96.1.2 85697 1b5pA 385 8.35e+01 c.67.1.1 90403 1fs1B 141 8.46e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1wy2A 351 8.52e+01 1d9cA 121 8.55e+01 1d9cA a.26.1.3 16901 1z2uA 150 8.58e+01 2gibA 103 8.67e+01 1rvgA 305 8.76e+01 c.1.10.2 97920 1guxB 152 8.76e+01 1guxB a.74.1.3 18389 1cjcA 460 8.77e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1wrjA 156 8.79e+01 1wrdA 103 8.79e+01 2ge7A 108 8.86e+01 1j8mF 297 8.99e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743