# 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 1j58A 385 2.41e-13 b.82.1.2 71531 1tq5A 242 1.05e-12 b.82.1.12 119311 1j1lA 290 1.66e-11 b.82.1.12 90766 2vqaA 361 7.23e-11 2qdrA 303 1.73e-10 1sefA 274 1.06e-09 b.82.1.11 105452 2p17A 277 2.03e-09 1sfnA 246 2.43e-09 b.82.1.11 105496 1rc6A 261 3.61e-09 b.82.1.11 97287 2pfwA 116 5.87e-08 1y3tA 337 1.25e-07 b.82.1.5 122600 2h0vA 338 2.30e-07 3ht1A 145 3.18e-07 1vj2A 126 3.79e-07 b.82.1.10 100796 2q1zB 195 7.64e-07 3h7jA 243 8.21e-07 1o4tA 133 1.02e-06 b.82.1.9 86622 2vecA 256 1.86e-06 3cjxA 165 2.89e-06 2d40A 354 3.27e-06 b.82.1.23 146454 2phdA 368 3.70e-06 b.82.1.23 149468 3i7dA 163 3.89e-06 3l2hA 162 4.27e-06 2f4pA 147 7.01e-06 b.82.1.9 132933 1fi2A 201 1.25e-05 1fi2A b.82.1.2 59845 1juhA 350 1.27e-05 b.82.1.5 71884 2o8qA 134 1.43e-05 3ibmA 167 1.93e-05 2et1A 201 2.07e-05 b.82.1.2 132351 1lr5A 163 2.37e-05 b.82.1.2 74215 3ebrA 159 5.06e-05 3h8uA 125 6.25e-05 2q30A 110 8.55e-05 2d5fA 493 1.02e-04 3d82A 102 1.26e-04 3cewA 125 1.37e-04 1od5A 492 1.60e-04 b.82.1.2,b.82.1.2 86832,86833 3kgzA 156 3.29e-04 1v70A 105 4.36e-04 b.82.1.9 113555 1yfuA 174 4.57e-04 b.82.1.20 123094 2e9qA 459 5.02e-04 1yhfA 115 5.58e-04 b.82.1.9 123176 2o1qA 145 5.87e-04 b.82.1.21 148547 3fz3A 531 6.45e-04 2gu9A 113 1.41e-03 2ea7A 434 1.55e-03 2qnkA 286 1.78e-03 3lwcA 119 1.94e-03 3c3vA 510 3.21e-03 2fqpA 97 3.68e-03 1qwrA 319 4.62e-03 b.82.1.3 96491 2gm6A 208 4.72e-03 b.82.1.19 147130 3es1A 172 5.81e-03 2pytA 133 6.47e-03 b.82.1.24 149957 2oa2A 148 7.28e-03 2opkA 112 7.72e-03 3lagA 98 9.36e-03 1vr3A 191 9.50e-03 b.82.1.6 120431 2oziA 98 9.67e-03 2atfA 200 9.72e-03 b.82.1.19 127290 2b5hA 200 9.72e-03 b.82.1.19 127894 2b8mA 117 1.56e-02 b.82.1.18 128092 1zvfA 176 1.89e-02 b.82.1.20 146029 3eqeA 171 2.00e-02 3fjsA 114 2.20e-02 2phlA 397 2.93e-02 1dgwA b.82.1.2,b.82.1.2 28082,28083 3elnA 200 3.34e-02 b.82.1.19 158185 1x82A 190 3.58e-02 b.82.1.7 114955 1y9qA 192 4.49e-02 a.35.1.8,b.82.1.15 116592,116593 2gc1A 188 5.24e-02 b.82.1.7 134928 1qxrA 189 5.43e-02 b.82.1.7 96552 2ozjA 114 6.73e-02 2i45A 107 9.70e-02 2bnmA 198 1.03e-01 a.35.1.3,b.82.1.10 128835,128836 1zx5A 300 1.11e-01 b.82.1.3 125763 1xjaA 178 1.36e-01 b.82.4.1 115382 2arcA 164 1.75e-01 2arcA b.82.4.1 28148 3eo6A 106 1.98e-01 1vrbA 342 2.06e-01 b.82.2.11 120450 2zklA 369 2.28e-01 3es4A 116 2.42e-01 3g7dA 443 2.95e-01 2wfpA 394 3.23e-01 3h1wA 393 3.30e-01 2vpvA 166 3.61e-01 1ywkA 289 4.09e-01 b.82.1.13 124155 1o5uA 101 6.14e-01 b.82.1.8 92518 3bcwA 123 7.67e-01 1pmi 440 1.05e+00 1pmi 1pmiA 440 1.05e+00 b.82.1.3 28114 1dgwA 178 1.19e+00 1dgwA b.82.1.2 28090 3hqxA 111 1.37e+00 3esgA 193 1.38e+00 1cauB 184 1.73e+00 1caxB b.82.1.2 28103 1yllA 200 1.99e+00 b.82.1.17 123653 2x7lA 231 2.01e+00 2pa7A 141 2.34e+00 b.82.1.1 149339 2q2gA 180 2.40e+00 3d0jA 140 2.54e+00 1po0A 751 3.12e+00 f.4.3.3 94960 1zrrA 179 3.48e+00 b.82.1.6 125555 1r6vA 671 3.80e+00 c.41.1.1 111710 1u2cA 246 3.93e+00 b.1.6.2,d.272.1.1 107610,107611 2b9uA 176 3.97e+00 1e5rA 290 4.49e+00 1e5rA b.82.2.4 59276 2zgwA 235 4.51e+00 b.34.1.1,d.104.1.2 154421,154422 1vp6A 138 5.18e+00 b.82.3.2 113939 2elfA 370 5.27e+00 3dl3A 119 5.29e+00 b.82.2.13 157762 2dxuA 235 5.42e+00 3mmlA 318 5.67e+00 1ztxH 219 6.19e+00 b.1.1.2 125659 3b2mA 295 6.45e+00 2vxsH 225 6.90e+00 1wqwA 235 7.11e+00 b.34.1.1,d.104.1.2 121179,121180 3gd3A 535 8.26e+00 1mexH 215 8.82e+00 b.1.1.1,b.1.1.2 91257,91258 3gldA 295 8.89e+00 1hfuA 503 9.34e+00 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 3gyrA 612 9.35e+00 3k4iA 244 9.45e+00 3ckaA 320 9.57e+00 2e1hA 235 9.75e+00 1a65A 504 9.83e+00 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 2a1xA 308 9.90e+00 b.82.2.9 126022 3hr5B 226 1.04e+01 1n0xH 230 1.05e+01 b.1.1.1,b.1.1.2 91528,91529 2w7sA 200 1.14e+01 1jnyA 435 1.14e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1op3H 225 1.21e+01 b.1.1.1,b.1.1.2 87208,87209 1vqoA 240 1.25e+01 b.34.5.3,b.40.4.5 120361,120362 1iz6A 138 1.26e+01 b.34.5.2,b.40.4.5 76976,76977 1ep0A 185 1.27e+01 1dzrA b.82.1.1 28080 2dpkA 152 1.27e+01 b.1.27.1 131616 1yi9A 309 1.30e+01 b.121.1.2,b.121.1.2 123276,123277 3gnmH 223 1.38e+01 3h55A 400 1.43e+01 1a0qH 217 1.43e+01 1mfa b.1.1.1,b.1.1.2 20287,21279 3e5zA 296 1.47e+01 2yu1A 451 1.47e+01 1kmoA 774 1.57e+01 f.4.3.3 72753 2qtwB 546 1.60e+01 2c0zA 216 1.61e+01 b.82.1.1 129615 1pmjX 185 1.66e+01 b.18.1.18 104194 1eylA 186 1.67e+01 1wba b.42.4.1 25593 3hzaA 174 1.77e+01 8fabA 212 1.86e+01 8fabA b.1.1.1,b.1.1.2 19772,20882 1m6iA 493 1.88e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 2dy1A 665 1.90e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 146607,146608,146609,146610,146611 3dwoX 451 1.94e+01 3gkeA 349 1.96e+01 2r6hA 290 2.01e+01 3gleA 295 2.03e+01 1qs1A 462 2.03e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 2prdA 174 2.04e+01 b.40.5.1 25435 2c7pA 327 2.05e+01 c.66.1.26 130080 1qu5A 182 2.05e+01 1qu5A b.26.1.2 23922 1rurH 218 2.09e+01 b.1.1.1,b.1.1.2 97879,97880 3md7A 293 2.10e+01 6mhtA 327 2.17e+01 6mhtA c.66.1.26 34226 2g8cO 251 2.17e+01 2bf6A 449 2.17e+01 2p4eA 692 2.18e+01 1c3pA 375 2.20e+01 1c3pA c.42.1.2 32606 1ahsA 126 2.33e+01 1ahsA b.19.1.1 23794 3g7gA 158 2.38e+01 2as9A 210 2.43e+01 2bm0A 691 2.49e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 128748,128749,128750,128751,128752 2pamA 141 2.50e+01 b.82.1.1 149348 1udxA 416 2.50e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 2ahoA 414 2.56e+01 b.43.3.1,b.44.1.1,c.37.1.8 126767,126768,126769 2zooA 442 2.64e+01 3e9tA 114 2.65e+01 1q9rB 222 2.66e+01 b.1.1.1,b.1.1.2 96307,96308 1c5eA 95 2.67e+01 1c5eA b.85.2.1 28317 1nxmA 197 2.67e+01 b.82.1.1 86385 3hi7A 731 2.71e+01 1nltA 248 2.75e+01 b.4.1.1,b.4.1.1,g.54.1.1 91963,91964,91965 2a6hC 1119 2.78e+01 e.29.1.1 126264 3ginA 160 2.82e+01 1i9gA 280 2.83e+01 c.66.1.13 62090 3g5cA 510 2.83e+01 2fuqA 747 2.85e+01 2de6A 392 2.85e+01 b.33.1.2,d.129.3.3 131415,131416 2gq1A 332 2.87e+01 2rctA 141 2.87e+01 2ixkA 184 2.92e+01 2rijA 387 2.94e+01 1x8mA 288 3.00e+01 b.82.1.13 109516 3k3oA 371 3.02e+01 1reqB 637 3.10e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 2p3yA 491 3.11e+01 e.65.1.1 149190 1qhoA 686 3.14e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1pmhX 185 3.15e+01 b.18.1.18 104193 3e7jA 749 3.18e+01 1gxcA 149 3.23e+01 b.26.1.2 70687 1mlcB 218 3.26e+01 1igtB b.1.1.1,b.1.1.2 20053,21095 2jkgA 179 3.26e+01 3kweA 213 3.27e+01 1znpA 154 3.29e+01 b.82.1.16 125394 2rg4A 216 3.31e+01 3lmjH 231 3.34e+01 3f65A 224 3.35e+01 2obtA 327 3.36e+01 3cihA 739 3.38e+01 1sixA 174 3.45e+01 b.85.4.1 98892 1qxpA 900 3.50e+01 a.39.1.8,a.39.1.8,b.14.1.1,d.3.1.3 96543,96544,96545,96546 1f60A 458 3.59e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 2cw5A 255 3.62e+01 3kbgA 213 3.68e+01 3hb9A 1150 3.68e+01 2fp7B 172 3.75e+01 b.47.1.3 133899 3fsyA 332 3.76e+01 3h3lA 241 3.76e+01 1kb0A 677 3.78e+01 a.3.1.6,b.70.1.1 68378,68379 1vkyA 347 3.79e+01 e.53.1.1 108696 1w18A 493 3.81e+01 3ie4A 107 3.85e+01 3kwcA 229 3.87e+01 3kalA 499 3.95e+01 2vmhA 151 3.96e+01 b.18.1.33 153327 1mq7A 154 3.98e+01 b.85.4.1 79404 3k7nA 397 4.05e+01 2h5uA 499 4.13e+01 1rwrA 301 4.13e+01 b.80.1.11 97990 1eybA 471 4.14e+01 1ey2A b.82.1.4 28115 1kv9A 668 4.17e+01 a.3.1.6,b.70.1.1 73056,73057 2b79A 144 4.18e+01 d.129.3.9 146089 2hkdA 320 4.29e+01 3lndA 207 4.32e+01 3cswA 285 4.37e+01 3bb6A 127 4.37e+01 b.82.2.13 155045 2vu4A 273 4.46e+01 1zh8A 340 4.58e+01 c.2.1.3,d.81.1.5 125077,125078 2qjvA 270 4.64e+01 1sdwA 314 4.65e+01 b.121.1.2,b.121.1.2 98810,98811 2gc7A 386 4.74e+01 b.69.2.1 134954 1k3iA 656 4.75e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1opbA 135 4.76e+01 1hmt b.60.1.2 27216 3ig4A 427 4.78e+01 1f3zA 161 4.84e+01 b.84.3.1 28273 1mjuH 227 4.84e+01 b.1.1.1,b.1.1.2 91302,91303 8fabB 224 4.87e+01 1igtB b.1.1.1,b.1.1.2 19773,20883 1oqkA 97 4.91e+01 b.137.1.1 93419 2wwuA 371 4.97e+01 3gkqA 389 5.01e+01 3jv1A 182 5.07e+01 2vl6A 268 5.12e+01 1oi6A 205 5.16e+01 b.82.1.1 103940 1ajkA 214 5.16e+01 1axkA b.29.1.2 24176 1kz7A 353 5.17e+01 a.87.1.1,b.55.1.1 73333,73334 1wckA 220 5.18e+01 1p16A 395 5.21e+01 b.40.4.6,d.142.2.3 87661,87662 1fm2B 520 5.26e+01 1fm2B 1ngzB 220 5.27e+01 b.1.1.1,b.1.1.2 80502,80503 2bbkH 355 5.32e+01 2bbkH b.69.2.1 27634 3km3A 206 5.37e+01 1jguH 217 5.45e+01 b.1.1.1,b.1.1.2 66688,66689 2cibA 455 5.49e+01 a.104.1.1 146398 1x8vA 455 5.52e+01 a.104.1.1 114968 2dv6A 447 5.55e+01 2geeA 203 5.58e+01 1ofdA 1520 5.60e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 2g5rA 127 5.61e+01 b.1.1.1 134674 1u13A 455 5.64e+01 a.104.1.1 107578 3liuA 402 5.64e+01 1h5zA 455 5.65e+01 a.104.1.1 90622 2dbnA 461 5.71e+01 1xruA 282 5.78e+01 b.82.1.13 122262 1cvrA 435 5.83e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 2oy7A 320 5.83e+01 1mb4A 370 5.86e+01 c.2.1.3,d.81.1.1 78908,78909 3hntH 220 5.87e+01 2b5uA 551 5.97e+01 b.101.1.1,b.110.1.1,h.4.9.1 127906,127907,127908 3eadA 137 5.97e+01 3fq3A 197 6.06e+01 2dduA 387 6.07e+01 2oyzA 94 6.15e+01 b.82.1.22 149082 2csgA 424 6.19e+01 b.82.2.12 130768 3aazA 229 6.26e+01 3hblA 1150 6.26e+01 1lnsA 763 6.26e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 3kt7A 633 6.31e+01 3fkuA 338 6.33e+01 1gj7B 253 6.39e+01 3cfsB 414 6.53e+01 1rl2A 137 6.55e+01 1rl2A b.34.5.3,b.40.4.5 24610,25342 3l1oH 227 6.63e+01 2ej9A 237 6.67e+01 1xpnA 170 6.73e+01 b.3.7.1 115767 1gof 639 6.78e+01 1gof 1rm6A 769 6.79e+01 d.41.1.1,d.133.1.1 111872,111873 2c4xA 260 6.82e+01 1zpuA 534 6.84e+01 3m6sA 331 6.97e+01 2q86A 229 7.01e+01 2wn4A 463 7.07e+01 1nh1A 330 7.29e+01 e.45.1.1 91871 2cg7A 90 7.30e+01 g.27.1.1,g.27.1.1 130423,130424 2do3A 69 7.31e+01 b.34.5.5 131596 3dlmA 213 7.39e+01 3ijtA 155 7.41e+01 1ru7A 327 7.44e+01 b.19.1.2 97837 2qghA 425 7.45e+01 3dx9A 198 7.48e+01 2o5vA 359 7.56e+01 3hqnA 499 7.62e+01 2gy5A 423 7.71e+01 1y6lA 149 7.74e+01 d.20.1.1 116509 1zgkA 308 7.76e+01 b.68.11.1 145998 2wr8A 259 7.79e+01 1rvxA 327 7.80e+01 b.19.1.2 97937 1l5jA 865 7.80e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1ji1A 637 7.82e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 2flhA 155 7.85e+01 3brnA 157 7.88e+01 1e54A 332 7.89e+01 1e54A f.4.3.1 59258 1ravA 127 7.94e+01 1swuA b.61.1.1 27409 1phm 310 7.94e+01 1phm 2qqjA 325 7.98e+01