# List of top-scoring protein chains for t04-100-30-alpha 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 1hfoA 113 1.36e-03 d.80.1.3 61006 1dptA 117 2.06e-03 1dptA d.80.1.3 39862 1gyxA 76 6.85e-03 d.80.1.1 76387 1gd0A 122 1.29e-02 1dptA d.80.1.3 39834 1iv3A 152 1.54e-02 d.79.5.1 76828 1s0yA 76 2.39e-02 d.80.1.1 -10434 1otfA 62 2.97e-02 1otfA d.80.1.1 39820 1p4kA 295 1.05e-01 d.153.1.5 87772 9gafA 295 1.15e-01 1apyA d.153.1.5 42008 1ev0A 58 1.16e-01 1ev0A d.71.1.1 39594 1mwwA 128 1.33e-01 unknown_sccs -10451 1qysA 106 1.61e-01 unknown_sccs -13432 1rpxA 230 3.31e-01 1rpxA c.1.2.2 28536 1ow1A 195 4.31e-01 unknown_sccs -4422 1eluA 390 4.53e-01 1elqA c.67.1.3 34434 1ur1A 378 4.65e-01 c.1.8.3 -5311 1k6xA 352 4.70e-01 c.2.1.2 68238 1hqsA 423 4.88e-01 1iso c.77.1.1 61154 1uvqB 198 5.52e-01 b.1.1.2 -2659 d.19.1.1 -9348 1pwhA 327 6.24e-01 c.79.1.1 -8524 1q8yA 373 6.41e-01 d.144.1.7 -11319 1qlmA 316 6.65e-01 1qlmA d.147.1.1 41765 1elqA 390 9.05e-01 1elqA c.67.1.3 34436 1i60A 278 1.11e+00 c.1.15.4 71118 1vi2A 300 1.14e+00 c.2.1.7 -5960 c.58.1.5 -6366 1t3lA 337 1.22e+00 1howA 373 1.24e+00 1hcl d.144.1.7 41679 1i58A 189 1.36e+00 1b3qA d.122.1.3 61773 1ex2A 189 1.51e+00 1ex2A c.51.4.2 33225 1m0dA 138 1.57e+00 c.52.1.17 74354 1udc 338 1.74e+00 1xel c.2.1.2 29785 1qr6A 584 1.78e+00 1qr6A c.2.1.7 30293 c.58.1.3 33941 1kzfA 230 2.04e+00 d.108.1.3 73354 1b5tA 275 2.18e+00 1b5tA c.1.23.1 29676 1sviA 195 2.22e+00 1kkoA 413 2.27e+00 c.1.11.2 68675 d.54.1.1 68676 7a3hA 303 2.27e+00 7a3hA c.1.8.3 28817 1ni4A 365 2.47e+00 c.36.1.7 85728 1bzyA 217 2.72e+00 1qk3A c.61.1.1 34071 1fzrA 138 2.74e+00 1fzrA c.52.1.17 33336 1goiA 499 2.77e+00 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1atiA 505 2.81e+00 1atiA c.51.1.1 33196 d.104.1.1 40745 1p3wA 404 2.85e+00 c.67.1.3 87752 1mo0A 275 3.03e+00 c.1.1.1 79329 1ii7A 333 3.20e+00 1ii7A d.159.1.4 62415 1v93A 296 3.34e+00 c.1.23.1 -5654 1f2tB 148 3.37e+00 1f2tB 1rp4A 389 3.78e+00 1e6pA 499 4.00e+00 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1xel 338 4.06e+00 1xel c.2.1.2 29786 1gt91 357 4.17e+00 1naqA 112 4.35e+00 d.58.5.2 -9984 1e4mM 501 4.40e+00 1e70M c.1.8.4 59226 1nw1A 429 4.45e+00 d.144.1.8 86286 1k20A 310 4.58e+00 c.107.1.1 68027 1htyA 1015 4.61e+00 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 1qwnA 1045 4.85e+00 a.8.3.1 -414 b.30.5.6 -3517 c.6.2.1 -6058 1owfA 99 4.95e+00 a.55.1.1 87487 1r8hA 87 5.01e+00 d.58.8.1 -10041 1ihnA 113 5.05e+00 1ihnA c.103.1.1 62388 1m4jA 142 5.12e+00 d.109.1.2 78602 1rpnA 335 5.22e+00 c.2.1.2 -5759 1mml 265 5.26e+00 1mml e.8.1.2 43015 1qy1A 174 5.28e+00 b.60.1.1 -4445 1qhtA 775 5.51e+00 1tgoA c.55.3.5 33722 e.8.1.1 43011 1p7tA 731 5.51e+00 c.1.13.1 -5600 1plq 258 5.58e+00 1plq d.131.1.2 41388 d.131.1.2 41389 1h2rL 534 5.67e+00 1h2rL e.18.1.1 43298 2myr 501 5.80e+00 1p5jA 372 6.12e+00 1ubkL 534 6.19e+00 e.18.1.1 88422 1mixA 206 6.38e+00 a.11.2.1 79166 b.55.1.5 79167 1jrrA 382 6.79e+00 e.1.1.1 63256 1a0rP 245 7.03e+00 1b9yC c.47.1.6 33054 1jtaA 361 7.24e+00 b.80.1.1 71859 1i6lA 328 7.50e+00 c.26.1.1 66041 1hxn 219 7.72e+00 1hxn b.66.1.1 27529 1rypI 222 7.75e+00 d.153.1.4 41877 1fjgJ 105 7.88e+00 1fjfJ d.58.15.1 39330 1uiuA 502 8.07e+00 c.94.1.1 -8674 1jv4A 162 8.19e+00 b.60.1.1 67343 1i06A 180 8.93e+00 1mup b.60.1.1 27131 1o0wA 252 9.05e+00 a.149.1.1 80751 d.50.1.1 80752 1e5dA 402 9.63e+00 1e5dA c.23.5.1 31208 d.157.1.3 42061 1mup 166 9.85e+00 1mup b.60.1.1 27133 1j0aA 325 9.97e+00 c.79.1.1 83871 1i05A 180 1.02e+01 1mup b.60.1.1 27130 1g0cA 364 1.02e+01 7a3hA c.1.8.3 60165 1r62A 160 1.03e+01 1j7nA 776 1.04e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1cwpA 190 1.06e+01 1cwpA b.121.4.5 23305 1j1iA 296 1.07e+01 c.69.1.10 83977 1h72C 296 1.09e+01 d.14.1.5 60712 d.58.26.1 60713 1tc1A 220 1.11e+01 1tc1A c.61.1.1 34083 1h1yA 228 1.13e+01 c.1.2.2 76506 1dmhA 311 1.14e+01 1dmhA b.3.6.1 22633 1nvmB 312 1.16e+01 c.2.1.3 86251 d.81.1.1 86252 1jo0A 98 1.19e+01 d.68.4.1 77140 1ftrA 296 1.20e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1i78A 297 1.22e+01 f.4.4.1 66046 1pe9A 361 1.24e+01 b.80.1.1 -4765 1jihA 531 1.24e+01 unknown_sccs -10212 unknown_sccs -11922 1bjnA 360 1.28e+01 1bjnA c.67.1.4 34469 1lyxA 248 1.28e+01 c.1.1.1 78304 1sdoA 203 1.29e+01 unknown_sccs -7558 1mrzA 293 1.29e+01 b.43.5.1 -4048 c.26.1.3 -6616 1nkxA 348 1.31e+01 c.94.1.2 -8704 1jwqA 179 1.32e+01 unknown_sccs -7897 1lshB 319 1.32e+01 f.7.1.1 74245 1amy 403 1.33e+01 1jdc b.71.1.1 27799 c.1.8.1 28786 1uhvA 500 1.34e+01 b.71.1.2 -4683 c.1.8.3 -5354 1iakB 185 1.36e+01 1iakB b.1.1.2 21626 d.19.1.1 38200 1fsgA 233 1.41e+01 1qk3A c.61.1.1 34029 1pjr 724 1.41e+01 1pjr c.37.1.19 32391 c.37.1.19 32392 1i7kA 179 1.43e+01 1u9aA d.20.1.1 61889 1qlpA 394 1.44e+01 1ovaA e.1.1.1 42628 2ptd 298 1.46e+01 2plc c.1.18.2 29605 1otgA 125 1.47e+01 1otgA d.80.1.2 39831 1cqqA 180 1.47e+01 1cqqA b.47.1.4 26422 1v7rA 186 1.49e+01 c.51.4.1 -7546 1qj5A 429 1.55e+01 1dtyA c.67.1.4 34493 1rypD 241 1.56e+01 1rypD d.153.1.4 41935 1j7lA 264 1.62e+01 d.144.1.6 62697 1q7hA 153 1.62e+01 b.122.1.1 -5124 unknown_sccs -9313 1b9hA 388 1.64e+01 1b9hA c.67.1.4 34488 1o5xA 248 1.66e+01 c.1.1.1 -5157 1a8rA 221 1.68e+01 1a8rA d.96.1.1 40587 1th8A 145 1.68e+01 1yghA 164 1.69e+01 1yghA d.108.1.1 40802 1jx6A 342 1.73e+01 c.93.1.1 67406 1faeA 629 1.74e+01 1fce a.102.1.2 18837 1oneA 436 1.74e+01 4enl c.1.11.1 29200 d.54.1.1 38844 1v8dA 235 1.75e+01 1pieA 419 1.81e+01 d.14.1.5 -9075 unknown_sccs -10120 1d2rA 326 1.81e+01 1d2rB c.26.1.1 31572 1obbA 480 1.82e+01 c.2.1.5 86760 d.162.1.2 86761 1g9gA 629 1.83e+01 a.102.1.2 83279 1tph1 247 1.89e+01 1amk 1fm0E 150 1.89e+01 1fmaE d.41.5.1 38629 2cb5A 453 1.89e+01 3gcb d.3.1.1 37035 1kyhA 276 1.90e+01 c.72.1.4 73222 1v4vA 376 1.90e+01 c.87.1.3 -8583 1cg5A 141 1.91e+01 1abwA a.1.1.2 15406 1iyhA 198 1.92e+01 a.45.1.1 83790 c.47.1.5 83791 1azo 232 1.94e+01 1azo c.52.1.14 33329 1b24A 188 1.97e+01 1b24A d.95.2.1 40573 d.95.2.1 40574 1edt 271 1.97e+01 2ebn c.1.8.5 28993 1pq4A 291 1.99e+01 c.92.2.2 -8633 1e8gA 560 2.01e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1n0wA 243 2.03e+01 c.37.1.11 79772 1v02A 565 2.07e+01 1evlA 401 2.07e+01 1qf6A c.51.1.1 33202 d.104.1.1 40751 1pvdA 537 2.08e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1b6rA 355 2.08e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1pyoA 167 2.10e+01 c.17.1.1 -7932 1g2oA 268 2.11e+01 1b8oA c.56.2.1 60228 1uanA 227 2.12e+01 unknown_sccs -8129 2lbp 346 2.15e+01 2liv c.93.1.1 35709 1v2zA 111 2.16e+01 1tx4B 178 2.20e+01 1ctqA c.37.1.8 32045 1pgl2 370 2.23e+01 1s0aA 429 2.24e+01 c.67.1.4 -8201 1svy 114 2.24e+01 1svy d.109.1.1 40831 1fwkA 296 2.27e+01 1fwkA d.14.1.5 37576 d.58.26.1 39398 1rz3A 201 2.28e+01 c.37.1.6 -7048 1mijA 152 2.30e+01 a.4.1.1 79150 1qb0A 211 2.32e+01 1c25 c.46.1.1 32699 1oshA 232 2.35e+01 a.123.1.1 -1697 7aatA 401 2.35e+01 1ajsA c.67.1.1 34250 1spvA 184 2.36e+01 c.50.1.2 -7937 1iuhA 198 2.37e+01 d.61.1.2 83711 1qgvA 142 2.41e+01 1qgvA c.47.1.8 33056 1r0pA 312 2.48e+01 d.144.1.7 -11377 1e55A 512 2.51e+01 1e70M c.1.8.4 28934 1q44A 326 2.59e+01 c.37.1.5 -7037 1garA 212 2.59e+01 2gar c.65.1.1 34162 1jakA 512 2.63e+01 c.1.8.6 66472 d.92.2.1 66473 2kfnA 605 2.71e+01 1xwl c.55.3.5 33682 e.8.1.1 42975 1nm1G 125 2.75e+01 d.109.1.1 80653 1nrjA 158 2.77e+01 d.110.4.4 86124 1ln4A 104 2.80e+01 d.68.4.1 74043 1di0A 158 2.81e+01 1di0A c.16.1.1 30957 1hzdA 272 2.83e+01 c.14.1.3 65969 1q8rA 120 2.85e+01 unknown_sccs -10422 1lfaA 187 2.85e+01 1ido c.62.1.1 34122 1e8pA 46 2.86e+01 g.55.1.1 59385 1kz1A 159 2.88e+01 c.16.1.1 73318 1jkxA 212 2.90e+01 c.65.1.1 66813 1ui0A 205 2.91e+01 c.18.1.2 -6328 1h49A 512 2.92e+01 c.1.8.4 83477 1nmmB 286 2.93e+01 c.68.1.2 80662 1o0sA 605 2.96e+01 c.2.1.7 86540 c.58.1.3 86541 1bg2 325 2.96e+01 1bg2 c.37.1.9 32189 1a3c 181 2.97e+01 1a3c c.61.1.1 34095 1l1qA 186 2.99e+01 c.61.1.1 77653 1q8iA 783 3.02e+01 c.55.3.5 -7635 e.8.1.1 -11885 1oz9A 150 3.03e+01 unknown_sccs -10588 1cmiA 85 3.05e+01 1cmiA d.39.1.1 38551 1esgA 213 3.07e+01 1bam c.52.1.3 33286 1im3D 95 3.09e+01 1im3D b.1.18.5 62568 1usgA 346 3.12e+01 c.93.1.1 -8635 1c8bA 371 3.20e+01 1c8bA c.56.1.2 59082 1hnnA 282 3.22e+01 c.66.1.15 65895 1jbbA 153 3.23e+01 1u9aA d.20.1.1 62842 1js1X 324 3.24e+01 c.78.1.1 71834 c.78.1.1 71835 1d4xG 126 3.25e+01 1d0nA d.109.1.1 59109 1i74A 309 3.31e+01 1i74A c.107.1.1 61867 1b8zA 90 3.37e+01 1huuA a.55.1.1 17902 1s0pA 176 3.37e+01 unknown_sccs -1156 1s0yB 71 3.39e+01 d.80.1.1 -10442 1ufaA 520 3.39e+01 unknown_sccs -421 unknown_sccs -6065 1i37A 260 3.40e+01 1a28A a.123.1.1 61583 1pi4A 358 3.41e+01 e.3.1.1 -11774 1hp5A 512 3.47e+01 1hp4A c.1.8.6 61113 d.92.2.1 61114 1dbfA 127 3.47e+01 2chsA d.79.1.2 39761 1l0gA 358 3.49e+01 e.3.1.1 73400 1bu8A 452 3.50e+01 1gpl b.12.1.2 23647 c.69.1.19 34795 1i1qA 520 3.51e+01 1qdlA d.161.1.1 61543 1sb8A 352 3.52e+01 1is1A 185 3.52e+01 d.67.3.1 83704 1uouA 474 3.53e+01 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 1gy8A 397 3.54e+01 c.2.1.2 83376 1fsyA 358 3.57e+01 1gceA e.3.1.1 60016 2liv 344 3.59e+01 2liv c.93.1.1 35708 1uch 230 3.62e+01 1uch d.3.1.6 37129 1acf 125 3.65e+01 3nul d.110.1.1 40882 1lt8A 406 3.65e+01 c.1.26.1 78186 1uuqA 440 3.68e+01 c.1.8.3 -5321 1ursA 402 3.72e+01 c.94.1.1 -8651 1f83A 425 3.73e+01 1f82A d.92.1.7 40306 1jetA 517 3.77e+01 1jevA c.94.1.1 35718 1kr4A 125 3.77e+01 d.58.5.2 72889 1fyeA 229 3.82e+01 1fyeA c.23.16.4 31477 1g8aA 227 3.85e+01 c.66.1.3 -8049 1bmv2 374 3.88e+01 1bmv2 3bamA 213 3.88e+01 1bam c.52.1.3 33288 2trcP 217 3.90e+01 1b9yC c.47.1.6 33051 2gar 212 3.92e+01 2gar c.65.1.1 34161 1qd1A 325 4.00e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494