# 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 1utxA 66 6.57e-07 a.35.1.3 108034 2b5aA 77 3.13e-06 1lmb3 92 6.08e-06 1lmb3 1y7yA 74 6.92e-06 2a6cA 83 1.29e-05 1y9qA 192 2.55e-04 1adr 76 3.50e-04 1r69 a.35.1.2 17042 1r69 69 3.77e-04 1r69 a.35.1.2 17028 1dwkA 156 6.68e-04 1dw9A a.35.1.4,d.72.1.1 17075,39606 1hlvA 131 1.21e-03 a.4.1.7,a.4.1.7 65854,65855 1umqA 81 2.57e-03 a.4.1.12 99625 2bnmA 198 2.92e-03 1b0nA 111 3.94e-03 1b0nA a.34.1.1,a.35.1.3 17001,17064 2auwA 170 1.01e-02 2cro 71 1.28e-02 1r69 a.35.1.2 17038 1orc 71 2.65e-02 1orc a.35.1.2 17054 1hw1A 239 9.40e-02 1e2xA a.4.5.6,a.78.1.1 16111,18441 1r1tA 122 1.06e-01 a.4.5.5 104769 1jftA 340 1.58e-01 a.35.1.5,c.93.1.1 66652,66653 2tct 207 1.71e-01 2tct a.4.1.9,a.121.1.1 16063,19240 1qbjA 81 1.76e-01 1qbjA a.4.5.19 16155 1u8bA 133 1.76e-01 1rzsA 61 1.83e-01 a.35.1.2 105139 1cfr 285 1.85e-01 1cfr c.52.1.7 33312 2cu3A 64 1.85e-01 2fbhA 146 1.97e-01 1yseA 141 2.80e-01 1z67A 135 3.54e-01 1ngr 85 3.57e-01 1ngr a.77.1.2 18422 1fipA 98 3.91e-01 1fipA a.4.1.12 18980 1e0eA 55 4.68e-01 1wjcA a.4.10.1 59147 1t56A 216 4.74e-01 a.4.1.9,a.121.1.1 106428,106429 1z0xA 220 4.79e-01 2cg4A 152 4.85e-01 1mixA 206 5.96e-01 a.11.2.1,b.55.1.5 79166,79167 1ku3A 73 7.55e-01 a.4.13.2 73000 1xsvA 113 8.02e-01 2ahrA 259 9.86e-01 1af7 274 9.98e-01 1af7 a.58.1.1,c.66.1.8 17928,34203 1bc5A 269 1.06e+00 1af7 a.58.1.1,c.66.1.8 17929,34204 1qb2A 109 1.18e+00 1qb2A a.36.1.1 17125 1g2hA 61 1.30e+00 1g2hA a.4.1.12 60224 1pufB 73 1.31e+00 a.4.1.1 95132 1gqzA 274 1.41e+00 d.21.1.1,d.21.1.1 83311,83312 1hw5A 210 1.49e+00 2cgpA a.4.5.4,b.82.3.2 16098,28137 1wd5A 208 1.52e+00 1x2iA 75 1.60e+00 1ulyA 192 1.63e+00 2g7uA 257 1.67e+00 2ao9A 155 1.67e+00 1nf3A 195 1.67e+00 c.37.1.8 85594 1res 43 1.69e+00 1ret a.4.1.2 16023 1u3eM 174 1.75e+00 d.4.1.3,d.285.1.1 107640,107641 1j75A 67 1.75e+00 a.4.5.19 62673 1z23A 163 1.84e+00 2fx0A 201 2.04e+00 2csbA 519 2.34e+00 1s6lA 212 2.49e+00 1sfxA 109 2.65e+00 a.4.5.50 105505 2g3bA 208 2.81e+00 1o6yA 299 2.98e+00 d.144.1.7 81106 1khcA 147 3.14e+00 b.34.9.2 68608 1lj9A 144 3.28e+00 a.4.5.28 78035 1u4bA 580 3.30e+00 c.55.3.5,e.8.1.1 107664,107665 2awiA 317 3.45e+00 1fmjA 351 3.63e+00 c.37.1.5 59879 1wqaA 455 3.67e+00 2a2cA 478 3.76e+00 1j9iA 68 3.81e+00 a.6.1.5 71619 1xk7A 408 3.88e+00 2gkeA 274 4.12e+00 1umwA 237 4.17e+00 d.223.1.2,d.223.1.2 99631,99632 1t33A 224 4.19e+00 a.4.1.9,a.121.1.1 106295,106296 1tn3 137 4.24e+00 1htn d.169.1.1 42423 1qw2A 102 4.29e+00 d.249.1.1 96456 1qzzA 374 4.43e+00 a.4.5.29,c.66.1.12 96719,96720 2ffeA 311 4.99e+00 2cfxA 144 5.33e+00 1k78A 149 5.42e+00 a.4.1.5,a.4.1.5 68255,68256 2g7gA 213 5.56e+00 1pk6C 129 5.70e+00 b.22.1.1 94803 2g9iA 249 6.06e+00 1bia 321 6.24e+00 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1dxjA 242 6.59e+00 1cnsA d.2.1.1 36244 1wdvA 152 6.88e+00 1vaxA 287 6.93e+00 1neq 74 7.44e+00 1neq a.35.1.2 17063 1xn7A 78 7.46e+00 1kqpA 271 7.83e+00 c.26.2.1 72883 1m45A 148 8.05e+00 a.39.1.5 78598 1q4rA 112 8.33e+00 d.58.4.4 95823 1w2yA 229 8.99e+00 a.204.1.1 109140 1kblA 873 9.07e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1jbwA 428 9.23e+00 c.59.1.2,c.72.2.2 62860,62861 1cg2A 393 9.25e+00 1cg2A c.56.5.4,d.58.19.1 33844,39360 1qusA 322 9.46e+00 1ltm d.2.1.6 36991 2g8yA 385 9.53e+00 2g8lA 299 9.86e+00 1uuhA 159 9.99e+00 d.169.1.4 100008 1nw1A 429 1.00e+01 d.144.1.8 86286 1y5eA 169 1.03e+01 1vddA 228 1.07e+01 e.49.1.1 108519 1xngA 268 1.08e+01 1jkoC 52 1.09e+01 a.4.1.2 66809 1dusA 194 1.09e+01 1dusA c.66.1.4 34182 1t1uA 639 1.09e+01 1pvgA 418 1.13e+01 d.14.1.3,d.122.1.2 95161,95162 1jggA 60 1.15e+01 2hddA a.4.1.1 62950 1ztcA 221 1.21e+01 1ez3A 127 1.21e+01 1dn1B a.47.2.1 17768 1na3A 91 1.22e+01 k.38.1.1 85481 1q77A 138 1.24e+01 c.26.2.4 96023 1jznA 135 1.26e+01 d.169.1.1 84262 1k4iA 233 1.27e+01 d.115.1.2 72056 1zk8A 183 1.28e+01 2c3vA 102 1.29e+01 1or7A 194 1.30e+01 a.4.13.2,a.177.1.1 87332,87333 1jgsA 138 1.30e+01 a.4.5.28 66683 2cdnA 201 1.31e+01 2cw8A 537 1.31e+01 1aisB 200 1.32e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1mgtA 174 1.32e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1my6A 199 1.32e+01 a.2.11.1,d.44.1.1 85232,85233 1zljA 78 1.34e+01 1gk9B 557 1.35e+01 1ru3A 732 1.35e+01 e.26.1.3 97835 1wh5A 80 1.35e+01 1wgvA 124 1.36e+01 1gnyA 153 1.38e+01 b.18.1.11 65404 1afwA 393 1.38e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 1zrjA 50 1.43e+01 2az4A 429 1.43e+01 1r6uA 437 1.43e+01 c.26.1.1 97163 2ap3A 199 1.45e+01 1j34B 123 1.46e+01 d.169.1.1 84049 1x1nA 524 1.48e+01 2carA 196 1.50e+01 3kvt 115 1.52e+01 1t1dA d.42.1.2 38642 1tc3C 51 1.54e+01 1tc3C a.4.1.2 16025 1o6dA 163 1.58e+01 c.116.1.3 92567 1r9wA 145 1.61e+01 d.89.1.2 97264 1zu1A 127 1.69e+01 2aq4A 434 1.69e+01 1y8aA 332 1.70e+01 1rkqA 282 1.74e+01 c.108.1.10 97621 1wovA 250 1.75e+01 1sek 378 1.79e+01 1sek e.1.1.1 42675 2a61A 145 1.80e+01 1kn1A 160 1.86e+01 a.1.1.3 77455 1r71A 178 1.88e+01 a.4.14.1 104823 2a5dA 175 1.89e+01 1ci4A 89 1.98e+01 1qckA a.60.5.1 17970 1zx4A 192 1.99e+01 1uj2A 252 2.02e+01 c.37.1.6 99452 1b4pA 217 2.03e+01 a.45.1.1,c.47.1.5 83158,83159 1idrA 136 2.06e+01 1dlyA a.1.1.1 62301 1oxkB 134 2.08e+01 c.23.1.1 93691 1us5A 314 2.10e+01 c.94.1.1 99856 1ufmA 84 2.11e+01 a.4.5.47 107816 1ui0A 205 2.11e+01 c.18.1.2 99411 2sak 121 2.22e+01 2sak d.15.5.1 37711 2b0lA 102 2.26e+01 3lzt 129 2.35e+01 3lzt d.2.1.2 36245 1fseA 74 2.38e+01 1fseA a.4.6.2 60000 1g55A 343 2.38e+01 1g55A c.66.1.26 34247 2cosA 54 2.40e+01 1fo8A 343 2.45e+01 1foaA c.68.1.10 59927 1ofcX 304 2.47e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1fadA 99 2.47e+01 1fadA a.77.1.2 18428 1v74B 87 2.48e+01 a.24.20.1 100443 1y10A 407 2.58e+01 1cex 214 2.62e+01 1cex c.69.1.30 31285 1vkiA 181 2.66e+01 d.116.1.1 108664 1sy7A 715 2.69e+01 1fjlA 81 2.71e+01 2hddA a.4.1.1 16017 1akhA 61 2.78e+01 1akhA a.4.1.1 15980 1b9mA 265 2.78e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1uw4A 91 2.79e+01 d.58.7.4 100071 1rz4A 226 2.84e+01 a.4.5.53,a.118.1.18 105131,105132 1x2mA 64 2.91e+01 1zud2 66 2.96e+01 1ecfA 504 3.00e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1gdvA 85 3.05e+01 1ctj a.3.1.1 60458 2fm8A 135 3.05e+01 1zs4A 83 3.08e+01 1esc 306 3.09e+01 1esc c.23.10.1 31334 1kyqA 274 3.23e+01 c.2.1.11,e.37.1.1 73281,73282 2a1fA 247 3.24e+01 1xqoA 256 3.24e+01 2culA 232 3.25e+01 2g5dA 422 3.26e+01 1jksA 294 3.29e+01 d.144.1.7 71710 1bec 238 3.32e+01 1bec b.1.1.1,b.1.1.2 20627,21561 1w3iA 293 3.33e+01 c.1.10.1 109152 1uhaA 82 3.37e+01 g.3.1.1,g.3.1.1 99395,99396 1dzkA 157 3.40e+01 1obpA b.60.1.1 27096 1dbxA 158 3.42e+01 1dbuA d.116.1.1 40928 2cxxA 190 3.44e+01 1gd0A 122 3.48e+01 1dptA d.80.1.3 39834 1f2tB 148 3.48e+01 1f2tB 1vkmA 297 3.51e+01 c.138.1.1 108670 1qyrA 252 3.53e+01 c.66.1.24 104657 1mdc 133 3.54e+01 1hmt b.60.1.2 27198 1vljA 407 3.58e+01 e.22.1.2 108832 1y6uA 70 3.59e+01 1mkmA 249 3.63e+01 a.4.5.33,d.110.2.2 79242,79243 1lvaA 258 3.64e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1tqnA 486 3.67e+01 a.104.1.1 107238 1jpaA 312 3.68e+01 d.144.1.7 67011 1vi9A 299 3.74e+01 c.72.1.5 100750 1yg6A 193 3.74e+01 1ei6A 406 3.77e+01 c.76.1.4 90443 1p1mA 406 3.78e+01 b.92.1.4,c.1.9.9 87696,87697 1kl9A 182 3.87e+01 b.40.4.5 72681 2gw6A 123 3.89e+01 2fzsA 193 3.97e+01 1qyiA 384 4.00e+01 c.108.1.13 96595 1mucA 373 4.02e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 1qd1A 325 4.02e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1in0A 163 4.03e+01 d.58.49.1,d.58.49.1 83694,83695 2f0aA 98 4.04e+01 1gvnB 287 4.04e+01 c.37.1.21 76354 1vhxA 150 4.06e+01 c.55.3.8 100712 1eu1A 780 4.08e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1uocA 289 4.17e+01 c.55.3.9 99686 2gauA 232 4.18e+01 1dgwY 93 4.26e+01 1caxB 1e5kA 201 4.28e+01 1fr9A c.68.1.8 34578 1vi0A 206 4.29e+01 a.4.1.9,a.121.1.1 100720,100721 1e4mM 501 4.30e+01 1e70M c.1.8.4 59226 1huxA 270 4.31e+01 1huxA c.55.1.5 61278 1neeA 138 4.34e+01 d.241.1.1,g.59.1.1 91841,91842 1q8yA 373 4.40e+01 d.144.1.7 96234 2afdA 88 4.42e+01 1i8oA 114 4.42e+01 1ycc a.3.1.1 61979 1fsgA 233 4.44e+01 1qk3A c.61.1.1 34029 1bj7 156 4.47e+01 1bj7 b.60.1.1 27113 1nfp 228 4.53e+01 1nfp c.1.16.2 29555 2an9A 207 4.53e+01 1va0A 239 4.55e+01 2b0tA 738 4.60e+01 2fa8A 105 4.60e+01 2a5lA 200 4.63e+01 1ip9A 85 4.66e+01 1ip9A d.15.2.2 62638 2gfnA 209 4.67e+01 1hq1A 105 4.71e+01 1dulA a.36.1.1 17120 1v54H 85 4.73e+01 a.51.1.1 100329 1je8A 82 4.75e+01 a.4.6.2 77108 1rqjA 299 4.78e+01 a.128.1.1 97744 1xmkA 79 4.79e+01 1jhgA 101 4.91e+01 1jhgA a.4.12.1 19009 1ct5A 256 4.94e+01 1ct5A c.1.6.2 28663 2ftzA 284 4.99e+01 1fe0A 68 5.01e+01 1cc8A d.58.17.1 39345 2fcr 173 5.05e+01 1rcf c.23.5.1 31151 1vqvA 306 5.08e+01 1t8hA 277 5.13e+01 d.194.1.2 106664 2fuvA 549 5.15e+01 1wy0A 342 5.15e+01 1nsj 205 5.21e+01 1nsj c.1.2.4 28560 1hx1B 114 5.22e+01 1hx1B a.7.7.1 61350 1dro 122 5.22e+01 1btn b.55.1.1 26954 1dlwA 116 5.22e+01 1dlyA a.1.1.1 14982 1ihgA 370 5.24e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 2ccyA 128 5.24e+01 2ccyA a.24.3.2 16544 1zv1A 65 5.30e+01 1fyeA 229 5.31e+01 1fyeA c.23.16.4 31477 1x3mA 415 5.32e+01 1wxiA 275 5.33e+01 1x89A 178 5.46e+01 1lkoA 191 5.49e+01 a.25.1.1,g.41.5.1 78063,78064 1nofA 383 5.53e+01 b.71.1.2,c.1.8.3 92020,92021 1vk0A 206 5.54e+01 c.55.3.5 100839 1m1sA 116 5.57e+01 b.1.11.2 84747 1pht 85 5.62e+01 1ckaA b.34.2.1 24483 1ixcA 294 5.64e+01 a.4.5.37,c.94.1.1 83764,83765 1xd3A 230 5.66e+01 1eo1A 124 5.70e+01 1eo1A c.55.5.1 33739 2rspA 124 5.75e+01 2rspB b.50.1.1 26771 1gntA 553 5.80e+01 e.26.1.1 70290 1zndA 174 5.81e+01 1un3A 123 5.86e+01 d.5.1.1 99646 2g03A 194 5.88e+01 1bby 69 5.88e+01 2bby a.4.5.15 16149 1s7mA 174 5.93e+01 b.144.1.1 98649 2napA 723 6.04e+01 2napA b.52.2.2,c.81.1.1 26926,35334 2ew2A 316 6.06e+01 2b7kA 200 6.08e+01 1qlmA 316 6.14e+01 1qlmA d.147.1.1 41765 1wt9B 123 6.15e+01 1yqgA 263 6.16e+01 1qgiA 259 6.16e+01 1qgiA d.2.1.7 37001 1xb2B 291 6.17e+01 1qy1A 174 6.18e+01 b.60.1.1 96568 1mnaA 298 6.18e+01 c.69.1.22 79322 1g8kA 825 6.27e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1q08A 99 6.30e+01 a.6.1.3 95497 1ykiA 217 6.32e+01 1knwA 425 6.33e+01 b.49.2.3,c.1.6.1 90969,90970 1i4jA 110 6.36e+01 d.55.1.1 76734 1yzfA 195 6.38e+01 2fq4A 192 6.39e+01 1vd6A 224 6.47e+01 2fp1A 166 6.61e+01 1mo0A 275 6.69e+01 c.1.1.1 79329 1iujA 106 6.71e+01 d.58.4.5 90701 1t2dA 322 6.72e+01 c.2.1.5,d.162.1.1 99084,99085 1jq5A 370 6.79e+01 e.22.1.2 67084 1dqeA 137 6.81e+01 1dqeA a.39.2.1 17388 1ozhA 566 6.85e+01 c.31.1.3,c.36.1.5,c.36.1.9 93833,93834,93835 1q60A 99 6.85e+01 1k61A 60 6.86e+01 a.4.1.1 77270 1i36A 264 6.91e+01 a.100.1.8,c.2.1.6 71108,71109 1e3oC 160 6.92e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1lnwA 147 7.07e+01 a.4.5.28 78104 1f60A 458 7.10e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1q7zA 566 7.11e+01 c.1.21.2,c.1.26.1 96090,96091 2gn4A 344 7.12e+01 1dpgA 485 7.16e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1v7bA 185 7.16e+01 1bu6O 501 7.24e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1pvdA 537 7.67e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1aj8A 371 7.71e+01 1aj8A a.103.1.1 18900 2cohA 202 7.71e+01 1ad2 228 7.72e+01 1ad2 e.24.1.1 43353 2exnA 136 7.74e+01 1y9uA 323 7.75e+01 1jyrA 96 7.81e+01 d.93.1.1 71969 1lb3A 182 7.87e+01 a.25.1.1 77873 1c9kA 180 7.87e+01 1c9kB c.37.1.11 32363 1eg5A 384 7.88e+01 1ecxA c.67.1.3 34429 1o1yA 239 7.97e+01 c.23.16.1 86554 2g7sA 194 8.00e+01 1s14A 194 8.04e+01 d.122.1.2 98329 1t3gA 159 8.05e+01 2gwhA 298 8.06e+01 1npsA 88 8.08e+01 1prs b.11.1.1 23622 1hf2A 210 8.08e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 2ethA 154 8.12e+01 1zkdA 387 8.14e+01 1z82A 335 8.15e+01 1gpjA 404 8.18e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1oz9A 150 8.21e+01 d.92.1.15 93808 1tvxA 75 8.21e+01 1tvxA d.9.1.1 37441 1ivg 388 8.22e+01 2qwc b.68.1.1 27578 2b20A 403 8.35e+01 1bl0A 129 8.36e+01 1d5yA a.4.1.8,a.4.1.8 16053,16054 1tuaA 191 8.36e+01 d.51.1.1,d.51.1.1 107321,107322 1eswA 500 8.49e+01 1cwyA c.1.8.1 59500 1qnxA 209 8.52e+01 1qnxA d.111.1.1 40914 1nvpB 57 8.55e+01 a.32.1.1 92211 1s3cA 141 8.58e+01 1rvgA 305 8.72e+01 c.1.10.2 97920 1jsf 130 8.79e+01 3lzt d.2.1.2 36410 1jdlA 121 8.81e+01 a.3.1.1 66557 1gs5A 258 8.88e+01 c.73.1.2 70395 1wr8A 231 8.93e+01 1s3rA 535 8.93e+01 1ezwA 349 8.97e+01 1ezwA c.1.16.3 29558