# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1ee2A 373 1.99e-01 2ohxA b.35.1.2 24663 c.2.1.1 29679 1heuA 374 2.31e-01 2ohxA b.35.1.2 60979 c.2.1.1 60980 1hetA 374 2.41e-01 2ohxA b.35.1.2 60975 c.2.1.1 60976 8adh 374 2.46e-01 2ohxA b.35.1.2 24690 c.2.1.1 29706 2ohxA 374 3.22e-01 2ohxA b.35.1.2 24669 c.2.1.1 29685 1d2nA 272 5.55e-01 1d2nA c.37.1.13 32428 1nsf 273 5.81e-01 1d2nA c.37.1.13 32429 1agnA 373 9.72e-01 2ohxA b.35.1.2 24737 c.2.1.1 29753 1euhA 475 1.02e+00 1euhA c.82.1.1 35369 1j8wB 273 1.07e+00 c.68.1.2 66441 1jpnA 296 1.07e+00 a.24.13.1 67039 c.37.1.10 67040 1qd9A 124 1.14e+00 1qu9A d.79.1.1 39758 1fgxA 288 1.20e+00 1fgxA c.68.1.2 34508 1qi6A 475 1.29e+00 1euhA c.82.1.1 35373 1i88A 389 1.45e+00 c.95.1.2 66070 c.95.1.2 66071 1i86A 389 1.45e+00 c.95.1.2 66068 c.95.1.2 66069 1bi5A 389 1.46e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1bq3B 246 1.61e+00 1qhfA c.60.1.1 33979 1ft1A 377 1.81e+00 1ft1A a.118.6.1 19186 1jlnA 297 1.98e+00 1pty c.45.1.2 63172 1bdg 451 2.10e+00 1qhaA c.55.1.3 33461 c.55.1.3 33462 1hgxA 183 2.41e+00 1tc1A c.61.1.1 34027 1ak1 310 2.69e+00 1ak1 c.92.1.1 35594 1a4mA 349 2.78e+00 1a4mA c.1.9.1 29014 1dozA 309 2.78e+00 1ak1 c.92.1.1 35592 2hdhA 293 2.82e+00 2hdhA a.100.1.3 18795 c.2.1.6 30199 1dmmA 131 2.88e+00 1opy d.17.4.3 38114 1f0yA 302 2.95e+00 2hdhA a.100.1.3 18793 c.2.1.6 30197 1gajA 257 2.97e+00 1gajA c.37.1.12 60416 1rpjA 288 2.99e+00 2dri c.93.1.1 35656 1jd1A 129 3.06e+00 1qu9A d.79.1.1 62890 1geqA 248 3.30e+00 2tysA c.1.2.4 28589 1zfjA 491 3.36e+00 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1ekgA 127 3.43e+00 1dlxA d.82.2.1 40021 2ae2A 260 3.58e+00 1bdb c.2.1.2 29945 1h6pA 203 3.61e+00 a.146.1.1 60690 1aisA 182 3.64e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1d8dA 377 4.01e+00 1ft1A a.118.6.1 19185 1ea2A 131 4.39e+00 d.17.4.3 64860 1jr2A 286 4.43e+00 c.113.1.1 67111 1mla 309 4.58e+00 1mla c.19.1.1 31031 d.58.23.1 39383 1oasA 322 4.63e+00 1oasA c.79.1.1 35293 2ezl 99 4.64e+00 2ezk a.4.1.2 16026 1cex 214 4.69e+00 1cex c.23.9.1 31285 1cus 200 4.71e+00 1cex c.23.9.1 31287 2ng1 293 4.74e+00 1ng1 a.24.13.1 16962 c.37.1.10 32273 1fcjA 322 4.76e+00 1oasA c.79.1.1 35289 2ezk 99 4.91e+00 2ezk a.4.1.2 16027 1add 349 5.24e+00 1a4mA c.1.9.1 29020 1ltsD 103 5.51e+00 3chbD b.40.2.1 24900 1gca 309 5.54e+00 1gca c.93.1.1 35659 1djrD 103 5.60e+00 3chbD b.40.2.1 24865 1opy 131 5.64e+00 1opy d.17.4.3 38113 1bmfA 510 5.82e+00 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 2gbp 309 5.99e+00 1gca c.93.1.1 35657 1h8eD 482 6.08e+00 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1e5xA 486 6.20e+00 c.79.1.1 59283 1qpoA 284 6.21e+00 1qpoA c.1.17.1 29561 d.41.2.1 38597 1jcqA 382 6.29e+00 a.118.6.1 66504 8abp 306 6.35e+00 8abp c.93.1.1 35647 1jx4A 352 6.79e+00 e.8.1.5 67405 1efiD 103 6.84e+00 3chbD b.40.2.1 24870 1i9sA 210 6.90e+00 1i9sA c.45.1.1 62099 1ld8A 382 6.96e+00 1mat 264 6.96e+00 1c24A d.127.1.1 41152 1hufA 140 7.05e+00 1hufA d.195.1.1 61272 1g6hA 257 7.07e+00 1gajA c.37.1.12 60318 1qhfA 240 7.08e+00 1qhfA c.60.1.1 33960 1a26 361 7.41e+00 1a26 a.41.1.1 17412 d.166.1.2 42274 1g291 372 7.73e+00 1g291 1ukz 203 7.90e+00 1zin c.37.1.1 31840 1efyA 350 7.95e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 1h8eA 510 8.14e+00 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 2dri 271 8.25e+00 2dri c.93.1.1 35637 1fts 295 8.32e+00 1ng1 a.24.13.1 16968 c.37.1.10 32279 1e79D 482 8.33e+00 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1qbqA 333 8.47e+00 1ft1A a.118.6.1 19187 1aisB 200 8.72e+00 1aisB a.74.1.2 18384 a.74.1.2 18385 1g2yA 32 8.97e+00 a.34.1.1 17003 1jcrA 377 9.15e+00 a.118.6.1 66506 1g60A 260 9.68e+00 1qu9A 128 9.77e+00 1qu9A d.79.1.1 39755 1qu9C 128 9.77e+00 1qu9A d.79.1.1 39757 1pjr 724 9.84e+00 1pjr c.37.1.13 32391 c.37.1.13 32392 1fjgR 88 9.99e+00 1fjfR a.4.8.1 16252 1a8y 367 1.03e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1e79A 510 1.04e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1f75A 249 1.07e+01 1f75A c.101.1.1 59662 4pfk 319 1.10e+01 3pfk c.89.1.1 35582 1ryp1 222 1.10e+01 1ryp1 1j5eC 239 1.11e+01 1fj2A 232 1.14e+01 1auoA c.69.1.14 34720 6pfkA 319 1.14e+01 3pfk c.89.1.1 35583 1bo1A 416 1.16e+01 1bo1A d.143.1.2 41591 1f44A 324 1.18e+01 a.60.9.1 64982 d.163.1.1 64983 1qgtA 149 1.24e+01 1qgtA a.62.1.1 18135 1hyqA 263 1.24e+01 1hyqA c.37.1.10 61412 1c24A 263 1.24e+01 1c24A d.127.1.1 41148 1mkp 144 1.28e+01 1vhrA c.45.1.1 32654 3pfk 319 1.31e+01 3pfk c.89.1.1 35581 1thm 279 1.32e+01 1gci c.41.1.1 32544 1h7nA 342 1.36e+01 1b4kA c.1.10.3 60726 2nsyA 271 1.36e+01 2nsyA c.26.2.1 31612 1ih8A 271 1.36e+01 2nsyA c.26.2.1 62377 1tc1A 220 1.37e+01 1tc1A c.61.1.1 34083 1ecpA 238 1.41e+01 1ecpA c.56.2.1 33775 1onrA 316 1.42e+01 1onrA c.1.10.1 29169 1qhxA 178 1.46e+01 1qhsA c.37.1.3 31936 1dgkN 917 1.47e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1ng1 294 1.55e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1ja9A 274 1.59e+01 c.2.1.2 62817 1tib 269 1.61e+01 3tgl c.69.1.17 34738 3vtk 343 1.62e+01 1qhiA c.37.1.1 31884 1b0nB 57 1.67e+01 1b0nB a.34.1.1 17002 1rypE 242 1.69e+01 1rypE d.153.1.4 41936 1dc1A 323 1.71e+01 1dc1A c.52.1.11 33321 1nsyA 271 1.72e+01 2nsyA c.26.2.1 31614 1e6mA 128 1.72e+01 3chy c.23.1.1 31039 1kqpA 271 1.72e+01 1qhsA 178 1.75e+01 1qhsA c.37.1.3 31938 1d9tA 289 1.75e+01 1deaA c.35.1.1 31767 2ahjB 212 1.79e+01 2ahjB b.34.4.4 24599 1hskA 326 1.79e+01 2mbr d.145.1.2 61241 d.146.1.1 61242 3chbD 104 1.80e+01 3chbD b.40.2.1 24970 1hn9A 317 1.82e+01 1hn9A c.95.1.1 35977 c.95.1.1 35978 2cb5A 453 1.82e+01 3gcb d.3.1.1 37035 1dusA 194 1.85e+01 1dusA c.66.1.4 34182 1a0i 348 1.85e+01 1a0i b.40.4.6 25363 d.142.2.1 41577 1apyB 141 1.90e+01 1apyB 1czaN 917 1.94e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1faaA 124 1.97e+01 1erv c.47.1.1 32738 1aw5 326 1.97e+01 1b4kA c.1.10.3 29181 1js1X 324 1.98e+01 1fjgC 239 2.02e+01 1fjfC d.52.3.1 38831 d.53.1.1 38839 1e0bA 68 2.03e+01 1e0bA d.9.2.2 37476 1jb0D 138 2.03e+01 1jb0D d.187.1.1 62823 1k9sA 237 2.04e+01 c.56.2.1 68359 1f9mA 112 2.04e+01 1erv c.47.1.1 32736 1f93E 32 2.09e+01 1f93E a.34.1.1 17013 1is2A 661 2.09e+01 1d2mA 665 2.09e+01 1d2mA c.37.1.13 32417 c.37.1.13 32418 1io2A 213 2.15e+01 1ekeA c.55.3.1 62612 1ylvA 342 2.16e+01 1b4kA c.1.10.3 29180 1ivhA 394 2.19e+01 3mdeA a.29.3.1 16608 e.6.1.1 42869 1bi0 226 2.20e+01 1bi0 a.4.5.24 16202 a.76.1.1 18408 b.34.1.2 24453 1fa8A 135 2.21e+01 1qipA d.32.1.1 38486 1fjgT 106 2.23e+01 1fjfT a.7.6.1 16338 1ad3A 452 2.27e+01 1ad3A c.82.1.1 35335 1cmiA 85 2.28e+01 1cmiA d.39.1.1 38551 1ikzA 142 2.34e+01 1rlaA 323 2.34e+01 1d3vA c.42.1.1 32561 1vfrA 218 2.34e+01 1vfrA d.90.1.1 40247 1hnjA 317 2.40e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1aw0 72 2.40e+01 1aw0 d.58.17.1 39342 1j5xA 342 2.41e+01 1eblB 317 2.42e+01 1hn9A c.95.1.1 35975 c.95.1.1 35976 1al3 324 2.48e+01 1al3 c.94.1.1 35835 1c4oA 664 2.51e+01 1d2mA c.37.1.13 32415 c.37.1.13 32416 1b5tA 275 2.52e+01 1b5tA c.1.23.1 29676 6ldh 330 2.52e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1hkbA 917 2.55e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1eblA 317 2.58e+01 1hn9A c.95.1.1 35973 c.95.1.1 35974 1jpmA 366 2.61e+01 c.1.11.2 67031 d.54.1.1 67032 1ak5 503 2.67e+01 1ak5 c.1.5.1 28639 1eypA 222 2.78e+01 1eypA d.36.1.1 38536 1ljrA 244 2.78e+01 1ljrA a.45.1.1 17707 c.47.1.5 33001 1pyiA 96 2.79e+01 1pyiA g.38.1.1 45079 h.1.3.1 45512 1mjhB 162 2.80e+01 1mjhA c.29.1.2 31640 1ahjB 212 2.81e+01 2ahjB b.34.4.4 24601 1xsm 390 2.83e+01 1xsm a.25.1.2 16804 1lgyA 269 2.83e+01 3tgl c.69.1.17 34758 1k77A 260 2.85e+01 1ftrA 296 2.92e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1jh6A 189 2.92e+01 d.61.1.1 66707 1hv8A 367 2.94e+01 1hv8A c.37.1.13 32405 c.37.1.13 32406 1m7bA 184 2.97e+01 1ej2A 181 2.98e+01 1f9aA c.26.1.3 59414 1hkcA 917 3.01e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1fdi 715 3.01e+01 2napA b.52.2.2 26918 c.81.1.1 35326 1jqeA 292 3.02e+01 1d2kA 392 3.04e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1pymA 295 3.04e+01 1pymA c.1.12.4 29308 1auiB 169 3.11e+01 1auiB a.39.1.5 17325 1d3vA 323 3.12e+01 1d3vA c.42.1.1 32559 1taq 832 3.14e+01 1taq a.60.7.1 18082 c.53.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 1f48A 589 3.17e+01 1f48A c.37.1.10 32280 c.37.1.10 32281 1jsmB 176 3.17e+01 h.3.1.1 63265 1fdo 715 3.19e+01 2napA b.52.2.2 26917 c.81.1.1 35325 1dbiA 280 3.22e+01 1gci c.41.1.1 32543 1gpmA 525 3.29e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1qhaA 917 3.33e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1dmgA 225 3.33e+01 1dmgA c.22.1.1 31036 1f9zA 135 3.34e+01 1qipA d.32.1.1 38484 1b0uA 262 3.35e+01 1b0uA c.37.1.12 32370 9ldtA 332 3.45e+01 3ldh c.2.1.5 30154 d.162.1.1 42121 1aquA 297 3.50e+01 1aquA c.37.1.5 31942 1ucyE 109 3.50e+01 1ucyE 1dts 221 3.54e+01 1byi c.37.1.10 32200 1jthA 82 3.57e+01 h.1.15.1 67270 1cseI 71 3.65e+01 1egpA d.40.1.1 38559 1pbgA 468 3.67e+01 1e70M c.1.8.4 28946 1rusA 490 3.68e+01 1burA c.1.14.1 29388 d.58.9.1 39294 2cmd 312 3.68e+01 2cmd c.2.1.5 30135 d.162.1.1 42102 1tplA 426 3.68e+01 1ax4A c.67.1.2 34387 1fc6A 388 3.74e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1hr6B 443 3.78e+01 1be3A d.185.1.1 61166 d.185.1.1 61167 1l1lA 739 3.80e+01 1cs1A 386 3.83e+01 1ibjA c.67.1.3 34399 1f2dA 341 3.87e+01 1f2dA c.79.1.1 35298 1ihoA 283 3.93e+01 1ihoA c.26.1.4 62390