# List of top-scoring protein chains for t06-100-30-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 2g03A 194 5.23e-21 1d5rA 324 1.50e-02 1d5rA b.7.1.1,c.45.1.1 23181,32697 1vl1A 232 1.38e-01 c.124.1.1 108707 2fnaA 357 3.07e-01 1bkrA 109 3.10e-01 1bkrA a.40.1.1 17394 1tuoA 464 4.19e-01 2be4A 272 6.12e-01 1w7bA 339 7.14e-01 1txdA 385 7.43e-01 a.87.1.1,b.55.1.1 107422,107423 1nh1A 330 7.80e-01 e.45.1.1 91871 1pi1A 185 8.40e-01 a.29.7.1 94699 1pq1A 196 9.63e-01 f.1.4.1 94986 2f3yA 148 1.01e+00 1v7rA 186 1.05e+00 c.51.4.1 100482 1ggzA 148 1.16e+00 a.39.1.5 70176 1exrA 148 1.20e+00 1cll a.39.1.5 17299 1bupA 386 1.47e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 2d2yA 145 1.49e+00 1axn 323 1.50e+00 1avc a.65.1.1 18149 1vhrA 184 1.53e+00 1vhrA c.45.1.1 32651 2fh7A 595 1.67e+00 2aaoA 166 1.79e+00 2cwcA 303 1.99e+00 1wdcC 156 2.01e+00 1wdcC a.39.1.5 17317 1zk8A 183 2.02e+00 1lj9A 144 2.28e+00 a.4.5.28 78035 1z3eA 132 2.32e+00 1su8A 636 2.35e+00 e.26.1.2 98999 1vmeA 410 2.38e+00 c.23.5.1,d.157.1.3 108893,108894 1r2rA 248 2.48e+00 c.1.1.1 96875 2fhzA 109 2.56e+00 1g8lA 411 2.57e+00 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1g8iA 190 2.76e+00 1rec a.39.1.5 60363 1tqhA 247 2.86e+00 c.69.1.29 107225 2fswA 107 3.09e+00 1y9lA 115 3.12e+00 2b0lA 102 3.16e+00 1a0p 290 3.17e+00 1a0p a.60.9.1,d.163.1.1 18105,42165 1fmjA 351 3.24e+00 c.37.1.5 59879 1kv5A 250 3.52e+00 c.1.1.1 73052 1p5dX 463 3.56e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1y5eA 169 3.83e+00 1na3A 91 3.91e+00 k.38.1.1 85481 2amxA 376 3.92e+00 1f0lA 535 4.11e+00 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1lddA 74 4.12e+00 a.4.5.34 73841 1ikpA 613 4.15e+00 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 2fiyA 309 4.16e+00 1odzA 386 4.79e+00 c.1.8.3 86889 2f06A 144 4.82e+00 2abk 211 4.85e+00 2abk a.96.1.1 18743 2b49A 287 4.90e+00 2bl0C 142 4.91e+00 1hw5A 210 5.09e+00 2cgpA a.4.5.4,b.82.3.2 16098,28137 1r6dA 337 5.56e+00 c.2.1.2 97148 1jmsA 381 5.71e+00 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1q77A 138 5.76e+00 c.26.2.4 96023 2feaA 236 6.18e+00 2ezh 75 6.20e+00 2ezh a.4.1.2 16029 1z1dA 103 6.37e+00 2a4aA 281 6.58e+00 1z77A 200 6.59e+00 1t92A 116 7.37e+00 1oktA 211 7.52e+00 a.45.1.1,c.47.1.5 93272,93273 1p4fA 293 7.96e+00 d.144.1.7 104063 2scpA 174 8.19e+00 2scpA a.39.1.5 17256 1z2nX 324 8.33e+00 1knvA 293 8.42e+00 c.52.1.7 68707 2aawA 222 8.45e+00 2c3gA 98 8.52e+00 2gupA 292 8.56e+00 1eg3A 261 8.67e+00 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1knyA 253 8.96e+00 1knyA a.24.16.1,d.218.1.1 75896,75897 1j1iA 296 9.10e+00 c.69.1.10 83977 2dbbA 151 9.13e+00 2b7kA 200 9.31e+00 1zybA 232 9.36e+00 1dpgA 485 9.52e+00 1dpgA c.2.1.3,d.81.1.5 30074,39989 1fpzA 212 9.57e+00 1fpzA c.45.1.1 59976 1t6cA 315 9.79e+00 c.55.1.8,c.55.1.8 106558,106559 2fmpA 335 1.03e+01 1ptmA 329 1.03e+01 c.77.1.3 95104 1u0mA 382 1.04e+01 c.95.1.2,c.95.1.2 107557,107558 2ewcA 126 1.04e+01 1uhvA 500 1.05e+01 b.71.1.2,c.1.8.3 99402,99403 1t4hA 290 1.11e+01 d.144.1.7 106420 1n55A 251 1.11e+01 c.1.1.1 80007 1khcA 147 1.14e+01 b.34.9.2 68608 1rkbA 173 1.19e+01 1ig8A 486 1.22e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 2bhoA 130 1.24e+01 1fcdA 401 1.27e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1ucrA 78 1.28e+01 a.4.5.45 99188 5eau 548 1.35e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1jhfA 202 1.35e+01 a.4.5.2,b.87.1.1 63057,63058 1j79A 347 1.39e+01 1j79A c.1.9.4 62675 1nmeA 146 1.40e+01 c.17.1.1 85874 1io1A 398 1.40e+01 1io1A e.32.1.1 62611 1qx2A 76 1.42e+01 a.39.1.1 104622 1z6mA 175 1.45e+01 1fs1B 141 1.46e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1u24A 337 1.50e+01 1olrA 224 1.53e+01 b.29.1.11 93330 2g7uA 257 1.60e+01 2dkoA 146 1.60e+01 1zx0A 236 1.62e+01 2ffuA 501 1.63e+01 1o0yA 260 1.64e+01 c.1.10.1 80756 1qwrA 319 1.69e+01 b.82.1.3 96491 2d28C 149 1.70e+01 1a4pA 96 1.72e+01 1b4cA a.39.1.2 17176 1jigA 146 1.77e+01 a.25.1.1 71685 2cbiA 594 1.89e+01 1e5dA 402 1.89e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1k3sA 113 1.94e+01 d.198.1.1 68120 2cdqA 510 1.97e+01 1aj8A 371 1.99e+01 1aj8A a.103.1.1 18900 1vf1A 229 2.01e+01 1uxtA 501 2.01e+01 c.82.1.1 108125 2fpoA 202 2.05e+01 2bsjA 133 2.08e+01 1fipA 98 2.09e+01 1fipA a.4.1.12 18980 2f57A 317 2.11e+01 2spcA 107 2.18e+01 2spcA a.7.1.1 16311 1nb8A 353 2.19e+01 d.3.1.9 80385 2gw2A 198 2.24e+01 1ceo 343 2.26e+01 1ceo c.1.8.3 28808 1ag9A 175 2.27e+01 1rcf c.23.5.1 31178 1uddA 226 2.29e+01 a.132.1.3 107776 1h4vB 421 2.31e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1y2qA 143 2.31e+01 1oc2A 348 2.38e+01 c.2.1.2 92765 1ylmA 144 2.38e+01 1f9vA 347 2.38e+01 1bg2 c.37.1.9 59745 1k32A 1045 2.44e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 2bs3A 656 2.47e+01 1stzA 338 2.48e+01 a.4.5.51,d.110.2.3 106009,106010 1hr6A 475 2.60e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 2a10A 125 2.61e+01 2gwdA 449 2.61e+01 2d8dA 90 2.65e+01 1ii7A 333 2.66e+01 1ii7A d.159.1.4 62415 1auiB 169 2.66e+01 1auiB a.39.1.5 17325 1qlpA 394 2.66e+01 1ovaA e.1.1.1 42628 1lj5A 379 2.68e+01 e.1.1.1 73928 1moq 368 2.69e+01 1moq c.80.1.1 35302 1uqtA 482 2.70e+01 c.87.1.6 99794 1q7eA 428 2.71e+01 c.123.1.1 96035 1x54A 434 2.72e+01 1dugA 234 2.78e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1upaA 573 2.78e+01 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 1xrkA 124 2.79e+01 1b5pA 385 2.82e+01 c.67.1.1 90403 1lqtA 456 2.85e+01 c.3.1.1,c.4.1.1 74198,74199 1i19A 561 2.86e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 2a7kA 250 2.86e+01 2b4lA 268 2.87e+01 1yyaA 250 2.90e+01 1w32A 348 2.93e+01 1j09A 468 2.93e+01 a.97.1.1,c.26.1.1 77025,77026 1bjaA 95 2.97e+01 1bjaA a.4.5.9 16122 1d2mA 665 2.97e+01 1d2mA c.37.1.19,c.37.1.19 32417,32418 2eutA 294 3.15e+01 2fwtA 125 3.20e+01 1oheA 348 3.23e+01 c.45.1.1,c.45.1.1 87013,87014 1lmzA 187 3.28e+01 a.96.1.4 74037 1c4oA 664 3.29e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1josA 128 3.40e+01 d.52.7.1 84191 1n8jA 186 3.40e+01 c.47.1.10 85401 2gshA 414 3.43e+01 2c71A 216 3.43e+01 1wdcB 156 3.44e+01 1wdcB a.39.1.5 17302 1ad2 228 3.44e+01 1ad2 e.24.1.1 43353 1zarA 282 3.45e+01 1n2zA 245 3.50e+01 c.92.2.2 79865 1r53A 382 3.52e+01 d.258.1.1 97063 1xg2B 153 3.53e+01 1jjvA 206 3.56e+01 c.37.1.1 71698 1pu6A 218 3.59e+01 a.96.1.5 95123 1m7sA 484 3.62e+01 e.5.1.1 74574 1jl5A 454 3.65e+01 c.10.2.6 66830 1sr2A 116 3.66e+01 1o69A 394 3.66e+01 c.67.1.4 92560 1avsA 90 3.69e+01 1cll a.39.1.5 17226 1xqaA 113 3.69e+01 1tueA 212 3.69e+01 c.37.1.20 107323 1vzwA 244 3.72e+01 3sdhA 146 3.78e+01 3sdhA a.1.1.2 14984 1r4gA 53 3.86e+01 a.8.5.1 96996 1r5yA 386 3.91e+01 c.1.20.1 97134 1bbhA 131 3.94e+01 1bbhA a.24.3.2 16546 1wkuA 254 3.98e+01 1q44A 326 4.00e+01 c.37.1.5 95779 1x13A 401 4.02e+01 2f9fA 177 4.02e+01 2gs8A 317 4.04e+01 1rtwA 220 4.05e+01 a.132.1.3 97823 1rypG 244 4.07e+01 d.153.1.4 41938 1colA 204 4.10e+01 1a87 f.1.1.1 43378 2fbhA 146 4.13e+01 1u0jA 267 4.15e+01 c.37.1.20 107546 2fb1A 226 4.19e+01 3pviA 157 4.22e+01 3pviA c.52.1.6 33300 1vjpA 394 4.22e+01 c.2.1.3,d.81.1.3 100828,100829 1ig5A 75 4.24e+01 4icb a.39.1.1 62363 2fbiA 142 4.24e+01 1uj2A 252 4.28e+01 c.37.1.6 99452 1j27A 102 4.40e+01 d.58.50.1 90778 1nnhA 294 4.41e+01 d.104.1.1 92005 2gl5A 410 4.41e+01 1m7gA 211 4.43e+01 c.37.1.4 78724 1ztsA 139 4.49e+01 1h3fA 432 4.51e+01 c.26.1.1,d.66.1.4 76631,76632 1u2wA 122 4.51e+01 1fgyA 127 4.56e+01 1faoA b.55.1.1 26976 2bkxA 242 4.56e+01 1k20A 310 4.58e+01 c.107.1.1 68027 1ne7A 289 4.59e+01 c.124.1.1 91833 1pgtA 210 4.61e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1r5iD 216 4.62e+01 a.202.1.1 97091 2cbuA 468 4.64e+01 1m6sA 347 4.65e+01 c.67.1.1 78701 1xb4A 202 4.65e+01 1rttA 193 4.66e+01 c.23.5.4 105098 1jnrA 643 4.68e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 2abwA 227 4.70e+01 2fjbA 643 4.74e+01 2fj8A 125 4.75e+01 1grj 158 4.76e+01 1grj a.2.1.1,d.26.1.2 15691,38433 2bh0A 208 4.77e+01 1xngA 268 4.84e+01 1h03P 125 4.94e+01 g.18.1.1,g.18.1.1 83411,83412 2f2gA 221 4.95e+01 1kid 203 4.96e+01 1derA c.8.5.1 30771 1xkpA 246 4.98e+01 7odcA 424 5.00e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 2g62A 325 5.03e+01 1pea 385 5.05e+01 1pea c.93.1.1 35662 1z8uA 102 5.06e+01 1budA 197 5.07e+01 1atlA d.92.1.9 40328 1g4wR 383 5.09e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1mvuB 121 5.17e+01 b.1.1.1 91475 1y4tA 322 5.18e+01 1rypI 222 5.18e+01 d.153.1.4 41877 1vbuA 328 5.19e+01 2c46A 241 5.20e+01 2c82A 413 5.22e+01 1u7iA 136 5.23e+01 d.32.1.7 107724 2c4wA 176 5.25e+01 1q9uA 130 5.28e+01 d.129.7.1 96314 1w07A 659 5.31e+01 2ci9A 102 5.32e+01 1ujcA 161 5.32e+01 2bv5A 282 5.33e+01 1wwpA 119 5.43e+01 1s2oA 244 5.48e+01 1auoA 218 5.55e+01 1auoA c.69.1.14 34716 1te5A 257 5.61e+01 d.153.1.1 106795 1paqA 189 5.69e+01 a.118.1.14 94413 1scfA 273 5.69e+01 1exzA a.26.1.2 16873 1qyiA 384 5.75e+01 c.108.1.13 96595 1h16A 759 5.87e+01 c.7.1.1 76462 2h6bA 250 5.87e+01 1iv8A 720 5.93e+01 b.71.1.1,c.1.8.1 76842,76843 2axtB 510 6.04e+01 1jb7B 260 6.06e+01 1otcB b.40.4.3 62839 1dm5A 315 6.15e+01 1avc a.65.1.1 18186 1efyA 350 6.16e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1rwyA 109 6.16e+01 a.39.1.4 98002 1ywfA 296 6.20e+01 1byrA 155 6.21e+01 1byrA d.136.1.1 41450 1n8yC 608 6.24e+01 c.10.2.5,c.10.2.5,g.3.9.1,g.3.9.1 80314,80315,80316,80317 1x0oA 119 6.24e+01 1vkcA 158 6.24e+01 1w7lA 422 6.36e+01 c.67.1.1 109226 1x0rA 249 6.36e+01 4cpv 109 6.55e+01 1a75A a.39.1.4 17198 1wi9A 72 6.55e+01 1jeyA 609 6.58e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1e6bA 221 6.64e+01 1e6bA a.45.1.1,c.47.1.5 59294,59295 2a2cA 478 6.65e+01 2f22A 144 6.70e+01 1s14A 194 6.70e+01 d.122.1.2 98329 1wqaA 455 6.74e+01 1wa5C 960 6.75e+01 1no1A 126 6.78e+01 a.179.1.1 85913 1w4tA 299 6.82e+01 1in6A 334 6.83e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1n5uA 585 6.85e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 1nw3A 416 6.87e+01 c.66.1.31 86288 1o08A 221 6.89e+01 c.108.1.6 86525 2he7A 283 6.97e+01 1n7oA 721 6.99e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 2bcqA 335 7.01e+01 1d2nA 272 7.02e+01 1d2nA c.37.1.20 32428 2cwlA 302 7.04e+01 1w9yA 319 7.06e+01 1u8bA 133 7.11e+01 1p0hA 318 7.12e+01 d.108.1.1 93866 2eu8A 216 7.13e+01 1ydyA 356 7.13e+01 1tu7A 208 7.15e+01 1n3kA 130 7.17e+01 a.77.1.4 79965 2es4D 332 7.19e+01 1s6cA 183 7.20e+01 a.39.1.5 98594 3bamA 213 7.25e+01 1bam c.52.1.3 33288 1mo0A 275 7.31e+01 c.1.1.1 79329 1ka2A 499 7.31e+01 d.92.1.5 77305 1j1nA 492 7.32e+01 c.94.1.1 83978 1yrcA 414 7.33e+01 1r0rE 274 7.34e+01 c.41.1.1 96735 1n9eA 787 7.34e+01 b.30.2.1,d.17.2.1,d.17.2.1 91708,91709,91710 2b4yA 271 7.38e+01 1owfA 99 7.39e+01 a.55.1.1 87487 1rdfA 267 7.39e+01 c.108.1.3 104884 1zxtA 76 7.40e+01 1wwrA 171 7.41e+01 2ccmA 191 7.44e+01 2ciaA 102 7.46e+01 1ua4A 455 7.51e+01 c.72.1.3 99128 1z21A 112 7.51e+01 1ihoA 283 7.51e+01 1ihoA c.26.1.4 62390 1fukA 165 7.54e+01 1fukA c.37.1.19 32409 1sfuA 75 7.55e+01 a.4.5.19 105503 1tovA 98 7.56e+01 b.34.10.1 107179 1ehiA 377 7.58e+01 1iow c.30.1.2,d.142.1.1 31716,41484 2f02A 323 7.58e+01 1k78A 149 7.58e+01 a.4.1.5,a.4.1.5 68255,68256 2fp3A 316 7.65e+01 1rvkA 382 7.71e+01 c.1.11.2,d.54.1.1 97928,97929 1s95A 333 7.74e+01 d.159.1.3 105375 1ykuA 136 7.80e+01 1af7 274 7.81e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1ru0A 105 7.84e+01 2bptA 861 7.94e+01 1e1hA 287 7.96e+01 d.92.1.7 83167 2akzA 439 7.96e+01 1je8A 82 8.02e+01 a.4.6.2 77108 2afbA 351 8.02e+01 1kafA 108 8.07e+01 d.199.1.1 68372 1u6zA 513 8.13e+01 1mv8A 436 8.13e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1bed 181 8.16e+01 1fvkA c.47.1.13 90330 1ppjD 241 8.17e+01 a.3.1.3,f.23.11.1 104258,104259 1oacA 727 8.18e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1bn7A 294 8.20e+01 1bn6A c.69.1.8 34677 1jksA 294 8.25e+01 d.144.1.7 71710 1kyqA 274 8.26e+01 c.2.1.11,e.37.1.1 73281,73282 1alvA 173 8.31e+01 1alvA a.39.1.8 17370 1m7yA 435 8.37e+01 c.67.1.4 78761 1o57A 291 8.38e+01 a.4.5.40,c.61.1.1 92483,92484 1k4nA 192 8.43e+01 d.32.1.5 72059 1uptA 171 8.44e+01 c.37.1.8 99767 1p4kA 295 8.46e+01 d.153.1.5 87772 1eazA 125 8.55e+01 b.55.1.1 70113 1rxdA 159 8.58e+01 2bzlA 325 8.60e+01 1rvgA 305 8.60e+01 c.1.10.2 97920 1pf5A 131 8.62e+01 d.79.1.1 94604 1ofcX 304 8.66e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1j55A 95 8.68e+01 a.39.1.2 77078 2aliA 158 8.70e+01 1x0pA 143 8.71e+01 1lnwA 147 8.73e+01 a.4.5.28 78104 1wusA 180 8.79e+01 2c4jA 218 8.86e+01 1lbkA 208 8.91e+01 a.45.1.1,c.47.1.5 73809,73810 1b25A 619 8.95e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1yvrA 538 8.95e+01 1w9hA 427 8.96e+01 1p4xA 250 8.98e+01 a.4.5.28,a.4.5.28 87784,87785 2f6hX 419 9.00e+01