# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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.soe.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 1o0iA 138 2.90e-23 d.38.1.5 86532 2b6eA 146 1.01e-22 d.38.1.5 127986 1sc0A 138 1.43e-22 d.38.1.5 98796 1vh5A 148 5.40e-22 d.38.1.5 100642 2f0xA 148 8.52e-21 d.38.1.5 132673 3f5oA 148 1.34e-20 2fs2A 151 2.41e-20 d.38.1.5 134003 1zkiA 133 5.96e-20 d.38.1.5 125199 2h4uA 145 6.69e-20 d.38.1.5 136082 1psuA 140 7.05e-20 d.38.1.5 88285 3e1eA 141 1.83e-19 3f1tA 148 3.08e-18 1j1yA 136 9.91e-18 d.38.1.5 90776 1wluA 136 1.05e-17 d.38.1.5 121015 1q4uA 151 1.29e-17 d.38.1.5 95828 3e29A 144 1.64e-17 3dkzA 142 3.69e-17 2cy9A 140 6.49e-17 d.38.1.5 131019 3e8pA 164 1.41e-16 2pimA 141 3.28e-16 3hduA 157 1.60e-14 3gekA 146 3.43e-14 2hboA 158 5.74e-14 d.38.1.5 136319 2ov9A 216 6.84e-13 d.38.1.5 149034 1sh8A 154 4.82e-11 d.38.1.5 105549 1ixlA 131 5.20e-11 d.38.1.5 90717 1yocA 147 3.59e-10 d.38.1.5 123778 2eisA 133 1.45e-09 2prxA 160 3.64e-09 1yliA 153 1.44e-08 d.38.1.1 123651 3bjkA 153 3.26e-08 2qq2A 193 6.84e-08 1t82A 155 8.04e-08 d.38.1.5 106639 2q2bA 179 1.56e-07 2gvhA 288 3.43e-07 d.38.1.1,d.38.1.1 135776,135777 3lmbA 165 3.64e-07 3b7kA 333 3.90e-07 3kuvA 139 4.18e-07 1njkA 156 6.94e-07 d.38.1.1 85818 1vpmA 169 2.33e-06 d.38.1.1 113967 3lwgA 145 2.42e-06 2v1oA 151 3.37e-06 3lw3A 145 4.23e-06 3bbjA 272 5.73e-06 2cwzA 141 7.10e-06 d.38.1.7 130961 3kg8A 308 8.18e-06 1u1zA 168 1.44e-05 d.38.1.6 107602 2cyeA 133 1.49e-05 d.38.1.1 131021 3ck1A 150 3.26e-05 3ir3A 148 5.89e-05 2o5uA 148 2.06e-04 d.38.1.1 148616 2f41A 121 2.43e-04 d.38.1.5 132904 1z54A 132 2.46e-04 d.38.1.1 124450 3k67A 159 2.55e-04 2b3nA 159 2.63e-04 d.38.1.4 127792 2av9A 147 2.64e-04 d.38.1.1 127365 2gllA 171 3.17e-04 2oiwA 136 5.78e-04 d.38.1.1 148794 2fujA 137 5.99e-04 d.38.1.1 134175 2hljA 157 6.70e-04 d.38.1.1 136570 3esiA 129 7.11e-04 3cjyA 259 1.83e-03 1s5uA 138 2.02e-03 d.38.1.1 98573 1iq6A 134 4.55e-03 d.38.1.4 76755 3kg9A 296 8.68e-03 1c8uA 285 1.02e-02 1c8uA d.38.1.3,d.38.1.3 38547,38548 2w3xA 147 1.26e-02 2aliA 158 1.60e-02 d.38.1.1 126976 2ownA 262 1.79e-02 d.38.1.8,d.38.1.8 149045,149046 3exzA 154 2.04e-02 3hm0A 167 2.07e-02 2hx5A 152 2.32e-02 d.38.1.1 136837 2oafA 151 2.37e-02 d.38.1.1 148695 1tbuA 118 2.72e-02 d.38.1.3 119223 3bnvA 152 4.10e-02 1z6bA 154 4.16e-02 d.38.1.6 124510 2pzhA 135 6.12e-02 2gf6A 135 6.50e-02 d.38.1.1 135077 2essA 248 1.54e-01 d.38.1.8,d.38.1.8 132346,132347 1lo7A 141 1.69e-01 d.38.1.1 74144 2q78A 153 1.83e-01 d.38.1.7 150076 1bvqA 141 2.28e-01 1bvqA d.38.1.1 38542 2nujA 163 2.56e-01 d.38.1.1 138608 2egjA 128 3.15e-01 1mkaA 171 6.08e-01 1mkaA d.38.1.2 38543 2bi0A 337 6.65e-01 d.38.1.4,d.38.1.4 128565,128566 2c2iA 151 9.13e-01 d.38.1.4 129670 1q7lA 198 1.45e+00 c.56.5.4 96044 3khpA 311 2.35e+00 3hvnA 508 2.86e+00 3ey8A 133 3.07e+00 1zo2A 129 3.14e+00 d.17.4.2 146021 2zvyA 183 3.70e+00 1bhgA 613 3.89e+00 1bhgA b.1.4.1,b.18.1.5,c.1.8.3 22161,23766,28889 3hnqA 144 3.97e+00 2ns9A 157 4.45e+00 d.129.3.10 148382 2z9eA 167 5.70e+00 1xttA 216 5.81e+00 c.61.1.1 122300 2zovA 210 5.84e+00 1yycA 174 6.01e+00 2kdyA 261 6.22e+00 3huhA 152 6.60e+00 3bgaA 1010 6.61e+00 2gr8A 99 6.79e+00 d.24.1.4 135522 3cfxA 296 7.23e+00 2e1hA 235 7.69e+00 3hn3A 613 8.02e+00 2py5A 575 8.27e+00 c.55.3.5,e.8.1.1 149928,149929 2np9A 440 8.33e+00 2b59A 187 8.40e+00 b.2.2.2 127879 3fldA 153 8.51e+00 1kjqA 391 9.02e+00 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1eyzA 392 9.07e+00 1ez1A b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 1ohpA 125 9.24e+00 d.17.4.3 118702 2a15A 139 9.24e+00 d.17.4.3 125973 1zxiC 288 9.92e+00 d.87.2.1,d.145.1.3 125776,125777 2jksA 315 9.93e+00 1bt3A 345 1.02e+01 1bt3A a.86.1.2 18507 2iiaA 131 1.07e+01 1g0dA 695 1.08e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 60166,60167,60168,60169 1p0zA 131 1.13e+01 d.110.6.1 93882 3lwmA 540 1.16e+01 2hvqA 335 1.21e+01 2dfbA 190 1.23e+01 b.29.1.11 131470 1xnkA 196 1.31e+01 b.29.1.11 122195 2bm3A 166 1.31e+01 b.2.2.2 128762 1h1aA 191 1.33e+01 b.29.1.11 83450 3kldA 384 1.37e+01 1n62C 288 1.43e+01 d.87.2.1,d.145.1.3 80094,80095 3h12A 397 1.49e+01 3l22A 441 1.52e+01 2rjzA 147 1.53e+01 1f2tB 148 1.59e+01 1f2tB 3lq8A 302 1.64e+01 2jigA 224 1.66e+01 3dkcA 317 1.69e+01 3proC 166 1.71e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1ocvA 125 1.71e+01 d.17.4.3 86810 1s68A 249 1.72e+01 d.142.2.4 98591 2hjeA 221 1.75e+01 d.110.6.3 147294 1qlmA 316 1.75e+01 1qlmA d.147.1.1 41765 1u6mA 199 1.75e+01 d.108.1.1 113069 3gzrA 146 1.78e+01 2p2sA 336 1.79e+01 3dmqA 968 1.84e+01 3euhC 234 1.86e+01 3fxtA 113 1.86e+01 1v97A 1332 1.89e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1wqwA 235 2.02e+01 b.34.1.1,d.104.1.2 121179,121180 1o9yA 84 2.08e+01 b.139.1.1 92692 3htyA 94 2.12e+01 1txlA 215 2.12e+01 b.60.1.4 107429 3lpmA 259 2.26e+01 2zgwA 235 2.28e+01 b.34.1.1,d.104.1.2 154421,154422 3kl2A 226 2.28e+01 1v6iA 232 2.34e+01 b.29.1.1 100383 3laoA 258 2.34e+01 2w80C 253 2.38e+01 1xi1A 575 2.39e+01 c.55.3.5,e.8.1.1 115309,115310 3el6A 313 2.44e+01 2w38A 438 2.47e+01 3mtxA 151 2.49e+01 1zhhB 242 2.52e+01 d.110.6.3 144740 2glfA 450 2.55e+01 3kogA 256 2.56e+01 3mmhA 167 2.58e+01 1kkhA 317 2.60e+01 d.14.1.5,d.58.26.3 72645,72646 1b4vA 504 2.61e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 2wg5A 109 2.68e+01 2pi0A 116 2.71e+01 a.4.5.23 149489 2wg6A 109 2.77e+01 1tjgH 237 2.77e+01 b.1.1.1,b.1.1.2 112446,112447 3cox 507 2.99e+01 1b8sA 3coxA 507 2.99e+01 c.3.1.2,d.16.1.1 30332,37863 1o5oA 221 2.99e+01 c.61.1.1 92509 3ke2A 117 3.00e+01 1oejA 193 3.02e+01 b.60.1.4 92798 3llsA 475 3.06e+01 1w5dA 462 3.07e+01 e.3.1.3 120642 1gxuA 91 3.09e+01 d.58.10.1 76378 2qjjA 402 3.10e+01 3kxwA 590 3.12e+01 3e5wA 229 3.17e+01 2dznB 82 3.20e+01 1ysqA 193 3.22e+01 2oklA 185 3.35e+01 2z2mC 125 3.36e+01 d.11.1.1,d.11.1.1 153944,153945 2zc3C 125 3.36e+01 d.11.1.1,d.11.1.1 154325,154326 1f3uA 118 3.37e+01 1f3uA b.65.1.1 27521 3etrB 305 3.44e+01 2owpA 129 3.46e+01 d.17.4.18 149049 2v8pA 271 3.52e+01 2bngA 149 3.52e+01 d.17.4.8 146156 1kyhA 276 3.54e+01 c.72.1.4 73222 1n4wA 504 3.54e+01 c.3.1.2,d.16.1.1 91676,91677 2dj5A 133 3.58e+01 c.92.1.3 131536 2fyxA 143 3.59e+01 d.58.57.1 134411 3c3jA 384 3.59e+01 3kmdA 200 3.59e+01 3hvwA 176 3.63e+01 3ebmA 180 3.64e+01 1j1bA 420 3.65e+01 d.144.1.7 90758 2pp3A 398 3.73e+01 3dczA 207 3.73e+01 3fivA 116 3.77e+01 1fmb b.50.1.1 26768 1tu1A 148 3.82e+01 d.107.1.3 107316 3iglA 200 3.89e+01 2ac0A 200 3.91e+01 b.2.5.2 126539 4fiv 113 4.04e+01 1fmb 4fivA 113 4.04e+01 b.50.1.1 26762 2onsA 314 4.04e+01 c.94.1.1 148914 3cptA 143 4.07e+01 d.110.7.1 156903 3c8cA 240 4.07e+01 3lduA 385 4.12e+01 1yz1A 174 4.14e+01 b.88.1.2 124264 3cijA 295 4.16e+01 1nkgA 508 4.18e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 2c92A 160 4.19e+01 2f96A 224 4.21e+01 c.55.3.5 133153 2j21A 219 4.22e+01 1xeuA 263 4.23e+01 3brbA 313 4.24e+01 3d06A 200 4.25e+01 1x9nA 688 4.25e+01 a.235.1.1,b.40.4.6,d.142.2.1 115002,115003,115004 2alzA 390 4.26e+01 d.240.1.1,e.8.1.7 126994,126995 3bfmA 235 4.30e+01 2eyqA 1151 4.30e+01 b.34.18.1,c.37.1.19,c.37.1.19,c.37.1.19,c.37.1.19,d.315.1.1 132590,132591,132592,132593,132594,132595 2oqzA 223 4.32e+01 b.100.1.1 139255 3lm4A 339 4.33e+01 3g4pA 244 4.35e+01 3fv7A 244 4.39e+01 1fiqB 350 4.43e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 2rh7A 239 4.44e+01 d.22.1.1 152030 1tupA 219 4.47e+01 1tupA b.2.5.2 22434 2qgqA 304 4.48e+01 3ebyA 163 4.49e+01 d.17.4.4 158087 2d4yA 463 4.51e+01 2ejcA 280 4.58e+01 3khnA 174 4.63e+01 1qwgA 251 4.63e+01 c.1.27.1 96473 2f57A 317 4.64e+01 1uolA 219 4.69e+01 b.2.5.2 99695 2vukA 219 4.72e+01 2ioiA 201 4.73e+01 3hdjA 313 4.74e+01 2p52A 196 4.80e+01 1u58A 253 4.81e+01 b.1.1.2,d.19.1.1 144387,144388 1kutA 230 4.83e+01 d.143.1.1 73017 3dlcA 219 4.87e+01 3h6jA 438 5.02e+01 2anuA 255 5.15e+01 c.6.3.1 127058 1kt6A 183 5.19e+01 b.60.1.1 84466 3e5tA 229 5.20e+01 3lidA 295 5.26e+01 2hahA 116 5.26e+01 3eliA 152 5.27e+01 d.129.3.5 158184 3b9jB 350 5.28e+01 d.87.2.1,d.145.1.3 155002,155003 3k6kA 322 5.47e+01 2p7jA 287 5.51e+01 d.110.6.2,d.110.6.2 149287,149288 2pqcA 445 5.56e+01 2gg6A 455 5.58e+01 2po1B 277 5.66e+01 2wnwA 447 5.66e+01 2fg1A 158 5.77e+01 c.50.1.2 133400 2iccA 119 5.91e+01 2v4vA 129 5.93e+01 2aqpA 164 5.96e+01 1th5A 74 6.07e+01 d.52.8.1 119263 2jisA 515 6.08e+01 2r2cA 183 6.10e+01 2vgoA 284 6.14e+01 2aqqA 164 6.41e+01 3b8fA 142 6.41e+01 2pcxA 220 6.47e+01 3d6rA 158 6.47e+01 3g6xA 420 6.49e+01 1r3eA 309 6.60e+01 b.122.1.1,d.265.1.2 96907,96908 3hn9A 123 6.60e+01 3ievA 308 6.77e+01 1jzuA 157 6.77e+01 b.60.1.1 84271 3dg6A 367 6.77e+01 1mxgA 435 6.77e+01 b.71.1.1,c.1.8.1 85193,85194 1q52A 314 6.87e+01 c.14.1.3 95846 1ji0A 240 6.90e+01 c.37.1.12 71665 3c0wA 235 7.05e+01 3k9dA 464 7.19e+01 2vgpA 284 7.21e+01 3gb2A 353 7.21e+01 2bwqA 129 7.23e+01 b.7.1.2 129380 3klqA 141 7.25e+01 1g7sA 594 7.25e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 2eknA 159 7.28e+01 2fhfA 1083 7.33e+01 b.1.18.2,b.1.18.2,b.3.1.3,b.71.1.1,c.1.8.1 147035,147036,147037,147038,147039 1skoA 143 7.47e+01 d.110.7.1 105676 2cveA 191 7.60e+01 d.14.1.11,d.58.11.2 130869,130870 2w0mA 235 7.65e+01 3m22A 235 7.66e+01 1txkA 498 7.67e+01 b.1.18.2,b.30.5.9 107425,107426 1oc2A 348 7.68e+01 c.2.1.2 92765 3dlaA 680 7.69e+01 1yt5A 258 7.74e+01 1o9gA 250 7.84e+01 c.66.1.29 86692 2wy3B 158 7.89e+01 3e11A 114 7.94e+01 d.92.1.17 157969 1y10A 407 7.95e+01 2p4oA 306 7.95e+01 b.68.6.3 149216 1sltA 134 7.97e+01 1c1lA b.29.1.3 24186 3bghA 236 7.99e+01