# 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 2q8oA 136 1.86e-01 2au7A 175 2.87e-01 1i40A 175 2.99e-01 b.40.5.1 66024 2p9rA 102 6.07e-01 2fxqA 264 6.97e-01 2f2aB 483 9.71e-01 a.182.1.2,d.128.1.5 132802,132803 1c8cA 64 1.10e+00 1azpA b.34.13.1 59084 1nb8A 353 1.59e+00 d.3.1.9 80385 2e7dA 131 1.70e+00 1dt9A 437 2.21e+00 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1d5rA 324 2.28e+00 1d5rA b.7.1.1,c.45.1.1 23181,32697 1t5eA 360 2.37e+00 f.46.1.1 106436 1zmdA 474 2.45e+00 2frqA 225 2.51e+00 d.3.1.1 133999 1cruA 454 2.56e+00 1c9uA b.68.2.1 27617 2iwxA 214 2.57e+00 d.122.1.1 137758 1azpA 66 2.58e+00 1azpA b.34.13.1 37467 1vf7A 369 2.66e+00 f.46.1.1 108557 2breA 219 2.86e+00 d.122.1.1 128994 2b1mA 246 3.14e+00 1nqcA 217 3.18e+00 d.3.1.1 86024 1j8rA 196 3.20e+00 1j8rA b.2.3.3 62745 1byqA 228 3.46e+00 1yer d.122.1.1 41100 2apr 325 3.54e+00 2er7E 2aprA 325 3.54e+00 b.50.1.2 26819 1pfo 500 3.70e+00 1pfo 1pfoA 500 3.70e+00 f.9.1.1 43826 2h7jA 220 3.81e+00 d.3.1.1 136216 1vr3A 191 4.17e+00 b.82.1.6 120431 2p4oA 306 4.23e+00 1jmcA 246 4.32e+00 1jmcA b.40.4.3,b.40.4.3 25300,25301 1uylA 236 4.35e+00 d.122.1.1 108147 1gsoA 431 4.35e+00 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1m3iA 471 4.41e+00 f.9.1.1 91178 1acc 735 4.46e+00 1acc 1accA 735 4.46e+00 f.11.1.1 43828 2z1cA 75 4.49e+00 1et9A 204 4.64e+00 1an8 b.40.2.2,d.15.6.1 25204,37793 2prdA 174 4.67e+00 b.40.5.1 25435 2elcA 329 5.07e+00 3bduA 62 5.24e+00 1am2 199 5.89e+00 1am2 1am2A 199 5.89e+00 b.86.1.2 28381 2pd8A 149 6.34e+00 2pdrA 149 6.44e+00 2jesA 503 6.67e+00 2rb6A 61 6.68e+00 2qntA 141 7.10e+00 3b5lB 198 7.31e+00 2ra2A 64 7.37e+00 2gu3A 136 7.41e+00 1m5q1 130 7.53e+00 1yfuA 174 8.09e+00 b.82.1.20 123094 2f4nA 273 8.18e+00 1ywhA 313 8.27e+00 1havA 217 8.76e+00 1havA b.47.1.4 26423 2d5lA 706 9.26e+00 2d73A 738 9.47e+00 2gnrA 145 9.58e+00 2biwA 490 9.61e+00 3cewA 125 9.65e+00 1lm8C 96 9.96e+00 d.42.1.1 74034 3b93A 133 1.00e+01 1bkb 136 1.01e+01 1bkb 1bkbA 136 1.01e+01 b.34.5.2,b.40.4.5 24609,25341 1gpr 162 1.05e+01 1gpr 1gprA 162 1.05e+01 b.84.3.1 28267 1vb0A 61 1.16e+01 g.7.1.1 113601 2dg5B 190 1.18e+01 1pkp 150 1.19e+01 1pkp 1xyiA 66 1.20e+01 1yt5A 258 1.21e+01 2e2dC 180 1.26e+01 b.40.3.1 131980 2fnjC 96 1.28e+01 d.42.1.1 133820 1sq9A 397 1.34e+01 b.69.4.1 105889 2cxvA 219 1.35e+01 b.47.1.4 131012 1sglA 209 1.36e+01 d.124.1.1 105536 2gllA 171 1.37e+01 1suuA 312 1.37e+01 b.68.10.1 99006 2fp8A 322 1.38e+01 1s3rA 535 1.44e+01 1gof 639 1.44e+01 1gof 1molA 94 1.47e+01 1molA d.17.1.1 37988 2azpA 318 1.48e+01 1ep3B 262 1.50e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 2eng 210 1.51e+01 2eng 2engA 210 1.51e+01 b.52.1.1 26895 2p8gA 162 1.51e+01 1jzgA 128 1.51e+01 b.6.1.1 67855 2uywA 130 1.52e+01 3c9qA 205 1.53e+01 2gf6A 135 1.54e+01 d.38.1.1 135077 2f4pA 147 1.54e+01 b.82.1.9 132933 1kv9A 668 1.58e+01 a.3.1.6,b.70.1.1 73056,73057 1zupA 315 1.59e+01 c.55.3.11 125681 2vc8A 84 1.60e+01 3cc6A 281 1.61e+01 1br9 194 1.61e+01 1br9 1igqA 62 1.63e+01 b.34.1.3 66130 2dc4A 165 1.64e+01 1d3bB 91 1.64e+01 1d3bB b.38.1.1 24804 2c8eE 211 1.64e+01 1wosA 364 1.67e+01 b.44.2.1,d.250.1.1 109468,109469 1nwpA 128 1.67e+01 1nwpA b.6.1.1 23011 3b77A 193 1.67e+01 1fh0A 221 1.69e+01 1cs8A d.3.1.1 59832 1jl0A 334 1.74e+01 1jenA d.156.1.1 63155 2ft6A 124 1.75e+01 1azwA 313 1.76e+01 1qtrA c.69.1.7 34658 3bjuA 521 1.77e+01 1jdpA 441 1.81e+01 c.93.1.1 62906 2uurA 245 1.82e+01 1j6qA 136 1.84e+01 b.40.9.1 77091 1umhA 184 1.87e+01 b.18.1.21 99605 1jenA 267 1.91e+01 1jenA 3bjoA 103 1.91e+01 1yemA 179 1.93e+01 d.63.1.2 116646 1pjjA 271 1.93e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1tdzA 272 1.93e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1xgyL 216 1.94e+01 2hngA 127 2.01e+01 1vdmA 153 2.03e+01 c.61.1.1 119994 1s8eA 333 2.03e+01 d.159.1.4 105368 1d7cA 190 2.04e+01 1d7bA b.1.9.1 22309 2hl0A 143 2.08e+01 2bwqA 129 2.11e+01 b.7.1.2 129380 1ltqA 301 2.16e+01 c.108.1.9,c.37.1.1 78208,78209 2eenA 183 2.17e+01 1ukgA 252 2.18e+01 b.29.1.1 99489 1vcdA 126 2.19e+01 d.113.1.1 119970 1dhkB 223 2.19e+01 1led b.29.1.1 24157 2rcfA 91 2.20e+01 1jsdA 319 2.24e+01 b.19.1.2 63258 2eixA 243 2.28e+01 2db9A 149 2.28e+01 2v0uA 146 2.29e+01 1cs8A 316 2.29e+01 1cs8A d.3.1.1 37065 2iufA 688 2.30e+01 2c8mA 262 2.30e+01 2cb5A 453 2.36e+01 3gcb d.3.1.1 37035 2pbeA 294 2.37e+01 2halA 212 2.38e+01 b.47.1.4 136289 2pi2E 142 2.39e+01 1vm7A 311 2.42e+01 c.72.1.1 108884 2b59B 172 2.44e+01 a.139.1.1,b.3.2.2 127880,127881 1udxA 416 2.47e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 2z3zA 706 2.48e+01 1bt3A 345 2.50e+01 1bt3A a.86.1.2 18507 1dkzA 219 2.52e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1zpsA 138 2.53e+01 b.168.1.1 125473 1sfp 114 2.54e+01 1sfp 1sfpA 114 2.54e+01 b.23.1.1 23895 2h8uA 65 2.55e+01 g.7.1.1 136246 1txlA 215 2.56e+01 b.60.1.4 107429 1barA 140 2.56e+01 1bfg b.42.1.1 25504 2abbA 364 2.58e+01 c.1.4.1 126517 1vyrA 364 2.58e+01 c.1.4.1 108906 1dar 691 2.58e+01 1dar 1f2tA 149 2.59e+01 1f2tA c.37.1.12 32373 1j58A 385 2.65e+01 b.82.1.2 71531 2nqdB 221 2.66e+01 2q1mA 130 2.66e+01 1y2qA 143 2.67e+01 2icuA 229 2.68e+01 1deuA 277 2.70e+01 1theB d.3.1.1 37085 2fl4A 149 2.72e+01 d.108.1.1 133706 1tp5A 119 2.72e+01 b.36.1.1 119305 1clc 639 2.74e+01 1clc 1clcA 639 2.74e+01 a.102.1.2,b.1.18.2 18835,21872 2f86B 143 2.74e+01 2inbA 140 2.76e+01 3cbjA 266 2.76e+01 2ad6A 571 2.77e+01 b.70.1.1 126568 2ej9A 237 2.80e+01 1dmmA 131 2.81e+01 1opy d.17.4.3 38114 1q1uA 144 2.83e+01 b.42.1.1 95608 1ykjA 394 2.84e+01 2oqoA 200 2.87e+01 1oejA 193 2.87e+01 b.60.1.4 92798 2et1A 201 2.87e+01 b.82.1.2 132351 1jmmA 377 2.89e+01 b.30.6.1 71749 1rzhH 260 2.89e+01 b.41.1.1,f.23.10.1 98162,98163 1eysH 259 2.91e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 1y6vA 449 2.92e+01 c.76.1.1 122674 1iq9A 61 2.93e+01 g.7.1.1 90669 1zxzA 197 2.96e+01 1pfsA 78 2.96e+01 1pfsA b.40.4.7 25391 1gv3A 248 2.96e+01 a.2.11.1,d.44.1.1 70585,70586 2e5yA 133 2.99e+01 1fi8A 228 3.03e+01 5ptp b.47.1.2 26374 1h4rA 314 3.04e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1gc5A 467 3.06e+01 1gc5A c.72.1.3 60429 2nsmA 439 3.06e+01 1m6kA 251 3.08e+01 e.3.1.1 78695 1fnyA 237 3.09e+01 1led b.29.1.1 59920 1sat 471 3.09e+01 1sat 1satA 471 3.09e+01 b.80.7.1,d.92.1.6 28014,40300 1ef1A 294 3.12e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1gmyA 261 3.12e+01 d.3.1.1 76236 1quqB 121 3.16e+01 1quqB b.40.4.3 25305 1f52A 468 3.17e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 1pl3A 186 3.18e+01 b.1.9.1 88158 1ogaD 215 3.20e+01 b.1.1.1,b.1.1.2 86990,86991 2vovA 336 3.21e+01 1w9sA 142 3.22e+01 b.18.1.10 114416 2bm0A 691 3.23e+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 2nybA 192 3.23e+01 a.2.11.1,d.44.1.1 138804,138805 1iscA 192 3.23e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 2jn0A 61 3.25e+01 3bqxA 150 3.31e+01 1vypX 364 3.33e+01 c.1.4.1 108905 1tdhA 364 3.35e+01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1cvrA 435 3.39e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 2vhsA 217 3.39e+01 1zc3B 113 3.40e+01 b.55.1.1 124881 2ddzA 190 3.41e+01 3c2uA 538 3.42e+01 1k4tA 592 3.43e+01 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 1hrdA 449 3.46e+01 1k89 c.2.1.7,c.58.1.1 30219,33867 2ofcA 142 3.47e+01 1theA 260 3.55e+01 1theB d.3.1.1 37056 2p17A 277 3.56e+01 1xfoA 357 3.57e+01 b.49.3.1,c.56.5.4 115265,115266 1tp6A 128 3.58e+01 d.17.4.12 107184 1g72A 573 3.60e+01 4aahA b.70.1.1 27680 3c5pA 197 3.60e+01 2fvgA 340 3.60e+01 b.49.3.1,c.56.5.4 134201,134202 1s5pA 235 3.60e+01 c.31.1.5 98569 2gc9A 179 3.63e+01 b.60.1.6 134972 1lnzA 342 3.63e+01 b.117.1.1,c.37.1.8 78112,78113 2b0vA 153 3.68e+01 d.113.1.1 127650 2fr2A 172 3.68e+01 b.60.1.8 133963 1gzcA 239 3.69e+01 b.29.1.1 70803 2iwaA 266 3.69e+01 1gyvA 120 3.73e+01 b.1.10.2 70790 1yarA 233 3.73e+01 d.153.1.4 122837 2eigA 234 3.76e+01 2fgsA 179 3.76e+01 2i02A 148 3.77e+01 b.45.1.1 136936 2jmzA 186 3.79e+01 2avwA 311 3.83e+01 2oklA 185 3.86e+01 1rvkA 382 3.87e+01 c.1.11.2,d.54.1.1 97928,97929 2bzeA 153 3.87e+01 1ii7A 333 3.88e+01 1ii7A d.159.1.4 62415 1vpmA 169 3.88e+01 d.38.1.1 113967 1mbyA 88 3.92e+01 d.223.1.1 78931 1b3bA 415 3.96e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1vhyA 257 3.96e+01 b.122.1.2,c.116.1.5 100714,100715 2d9zA 129 3.99e+01 2pziA 681 4.01e+01 1noyA 388 4.02e+01 1clqA c.55.3.5 33713 1ughI 82 4.03e+01 1ugiA d.17.5.1 38133 1ed8A 449 4.05e+01 1b8jA c.76.1.1 34988 1tuc 63 4.05e+01 1tuc 2vgdA 218 4.07e+01 2q7aA 152 4.09e+01 1nxzA 246 4.13e+01 b.122.1.2,c.116.1.5 86391,86392 1pbe 394 4.13e+01 1pbe 1pbeA 394 4.13e+01 c.3.1.2,d.16.1.2 30338,37869 1iu1A 146 4.14e+01 b.1.10.2 71428 1y7mA 164 4.16e+01 b.160.1.1,d.7.1.1 122696,122697 1a0rB 340 4.18e+01 1tbgA b.69.4.1 27658 1pmi 440 4.24e+01 1pmi 1pmiA 440 4.24e+01 b.82.1.3 28114 2gu9A 113 4.26e+01 1k0iA 394 4.28e+01 c.3.1.2,d.16.1.2 67942,67943 1be9A 119 4.28e+01 1pdr b.36.1.1 24774 1z47A 355 4.29e+01 1hw5A 210 4.30e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 2f40A 96 4.30e+01 i.11.1.1 132903 1sauA 115 4.31e+01 2fd5A 180 4.31e+01 a.4.1.9,a.121.1.1 133291,133292 2okfA 140 4.33e+01 1b34A 119 4.34e+01 1d3bA b.38.1.1 24796 1k3iA 656 4.34e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1u06A 62 4.36e+01 b.34.2.1 119404 1kb5A 115 4.36e+01 1tvdA b.1.1.1 20611 1gjwA 637 4.41e+01 b.71.1.1,c.1.8.1 60582,60583 3b9eA 584 4.53e+01 1twlA 186 4.54e+01 b.40.5.1 112764 1a22B 238 4.56e+01 1axiB b.1.2.1,b.1.2.1 22003,22004 1ct9A 553 4.57e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 2p86A 215 4.57e+01 1djxB 624 4.58e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 2a7bA 120 4.60e+01 b.1.10.2 126333 1k8wA 327 4.63e+01 b.122.1.1,d.265.1.2 83094,90388 1ll8A 114 4.63e+01 d.110.3.5 78089 2oqkA 117 4.64e+01 1o5lA 213 4.66e+01 b.82.3.2 92506 2v5mA 388 4.70e+01 2ppnA 107 4.70e+01 1oh0A 131 4.70e+01 d.17.4.3 87004 1y8tA 324 4.74e+01 b.36.1.4,b.47.1.1 122763,122764 2j01Z 206 4.81e+01 1jmxB 349 4.83e+01 b.69.2.2 66906 2bx2L 517 4.83e+01 2uwiA 142 4.83e+01 1e3aB 560 4.84e+01 1ajqB 2iteA 127 4.87e+01 1djrD 103 4.88e+01 3chbD b.40.2.1 24865 2vbkA 514 4.89e+01 1npeA 267 4.91e+01 b.68.5.1 92032 1wm1A 317 4.91e+01 c.69.1.7 109405 1ytw 306 4.93e+01 1ytw 1pzlA 237 5.06e+01 a.123.1.1 104393 1bgvA 449 5.11e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1sotA 320 5.15e+01 b.36.1.4,b.47.1.1 105852,105853 2rg4A 216 5.20e+01 1w9aA 147 5.20e+01 b.45.1.1 114408 1qftA 175 5.21e+01 1qftA b.60.1.1 27151 1tf4A 605 5.23e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1xk5A 204 5.27e+01 1orc 71 5.27e+01 1orc 1orcA 71 5.27e+01 a.35.1.2 17054 1hztA 190 5.27e+01 1i9aA d.113.1.2 61459 1irzA 64 5.28e+01 a.4.1.11 76772 1esrA 76 5.29e+01 1dokA d.9.1.1 37427 1a12A 413 5.29e+01 1a12A b.69.5.1 27663 2ownA 262 5.30e+01 1khoA 370 5.31e+01 a.124.1.1,b.12.1.3 72489,72490 3bb7A 321 5.33e+01 1s31A 273 5.35e+01 1a8d 452 5.35e+01 1a8d 1a8dA 452 5.35e+01 b.29.1.6,b.42.4.2 24262,25607 1sgvA 316 5.44e+01 b.122.1.1,d.265.1.2 98858,98859 1aijH 260 5.45e+01 6prcH b.41.1.1,f.23.10.1 25466,43463 2coiA 386 5.46e+01 1lt5D 103 5.47e+01 3chbD b.40.2.1 24875 3stdA 165 5.48e+01 3stdA d.17.4.1 38073 1y0yA 353 5.48e+01 b.49.3.1,c.56.5.4 122514,122515 2imjA 166 5.50e+01 1feuA 206 5.51e+01 1feuA b.53.1.1 59801 1h641 75 5.53e+01 2e4uA 555 5.57e+01 2gfaA 119 5.60e+01 b.34.9.1,b.34.9.1 135089,135090 2in0A 139 5.65e+01 2dyiA 162 5.66e+01 1jwiB 125 5.69e+01 d.169.1.1 67384 1d2sA 170 5.73e+01 1d2sA b.29.1.4 24221 3byvA 377 5.73e+01 2r76A 152 5.78e+01 1mxiA 160 5.79e+01 c.116.1.1 79646 2jmbA 79 5.80e+01 1rwiA 270 5.81e+01 b.68.9.1 97987 2atfA 200 5.89e+01 b.82.1.19 127290 2b5hA 200 5.89e+01 b.82.1.19 127894 1f2qA 176 5.89e+01 2fcbA b.1.1.4,b.1.1.4 21789,21790 2pn8A 211 5.91e+01 2i53A 258 5.91e+01 1hbzA 498 5.91e+01 1cf9A e.5.1.1 60937 1yn5A 103 5.92e+01 1bkf 107 5.94e+01 1fkj 1bkfA 107 5.94e+01 d.26.1.1 38382 1cfb 205 5.97e+01 1cfb 1cfbA 205 5.97e+01 b.1.2.1,b.1.2.1 21991,21992 2uxqA 402 5.97e+01 1nciA 110 6.05e+01 1edhA b.1.6.1 22191 1l0qA 391 6.06e+01 b.1.3.1,b.69.2.3 77644,77645 1opy 131 6.06e+01 1opy 2j4xA 213 6.12e+01 1m98A 317 6.13e+01 a.175.1.1,d.17.4.6 78866,78867 1aunA 208 6.14e+01 b.25.1.1 23900 1m7sA 484 6.18e+01 e.5.1.1 74574 1xxpA 306 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