# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1hetA 374 3.99e-01 2ohxA b.35.1.2 60975 c.2.1.1 60976 1heuA 374 3.99e-01 2ohxA b.35.1.2 60979 c.2.1.1 60980 1ee2A 373 4.04e-01 2ohxA b.35.1.2 24663 c.2.1.1 29679 2ohxA 374 4.55e-01 2ohxA b.35.1.2 24669 c.2.1.1 29685 1agnA 373 1.19e+00 2ohxA b.35.1.2 24737 c.2.1.1 29753 1dmmA 131 1.20e+00 1opy d.17.4.3 38114 1mkp 144 1.25e+00 1vhrA c.45.1.1 32654 1jpnA 296 1.56e+00 a.24.13.1 67039 c.37.1.10 67040 1nsf 273 1.86e+00 1d2nA c.37.1.13 32429 1h6pA 203 1.86e+00 a.146.1.1 60690 1opy 131 1.93e+00 1opy d.17.4.3 38113 1gajA 257 1.94e+00 1gajA c.37.1.12 60416 1pymA 295 2.16e+00 1pymA c.1.12.4 29308 1ea2A 131 2.23e+00 d.17.4.3 64860 1tplA 426 2.24e+00 1ax4A c.67.1.2 34387 1qd9A 124 2.36e+00 1qu9A d.79.1.1 39758 1pkp 150 2.84e+00 1pkp d.14.1.1 37551 d.50.1.2 38787 1g6hA 257 2.98e+00 1gajA c.37.1.12 60318 1ak5 503 3.50e+00 1ak5 c.1.5.1 28639 1hgxA 183 3.60e+00 1tc1A c.61.1.1 34027 1d2nA 272 3.70e+00 1d2nA c.37.1.13 32428 1d8dA 377 3.88e+00 1ft1A a.118.6.1 19185 1mla 309 3.92e+00 1mla c.19.1.1 31031 d.58.23.1 39383 1ikzA 142 4.21e+00 2ae2A 260 4.22e+00 1bdb c.2.1.2 29945 2ng1 293 4.25e+00 1ng1 a.24.13.1 16962 c.37.1.10 32273 1a4mA 349 4.29e+00 1a4mA c.1.9.1 29014 1bi5A 389 4.39e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1cus 200 4.48e+00 1cex c.23.9.1 31287 1ld8A 382 4.54e+00 1ekgA 127 4.55e+00 1dlxA d.82.2.1 40021 1cex 214 4.57e+00 1cex c.23.9.1 31285 1jcqA 382 4.57e+00 a.118.6.1 66504 1i88A 389 4.58e+00 c.95.1.2 66070 c.95.1.2 66071 1aisA 182 4.64e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1fts 295 4.64e+00 1ng1 a.24.13.1 16968 c.37.1.10 32279 8adh 374 4.81e+00 2ohxA b.35.1.2 24690 c.2.1.1 29706 1i86A 389 4.85e+00 c.95.1.2 66068 c.95.1.2 66069 1ft1A 377 4.92e+00 1ft1A a.118.6.1 19186 1fjgC 239 4.96e+00 1fjfC d.52.3.1 38831 d.53.1.1 38839 1tia 279 4.98e+00 3tgl c.69.1.17 34737 1k77A 260 5.02e+00 1hufA 140 5.13e+00 1hufA d.195.1.1 61272 1add 349 5.20e+00 1a4mA c.1.9.1 29020 1booA 323 5.40e+00 1booA c.66.1.11 34248 2dri 271 5.84e+00 2dri c.93.1.1 35637 1f9mA 112 5.93e+00 1erv c.47.1.1 32736 1bdg 451 6.41e+00 1qhaA c.55.1.3 33461 c.55.1.3 33462 1dozA 309 6.51e+00 1ak1 c.92.1.1 35592 6pfkA 319 6.66e+00 3pfk c.89.1.1 35583 1jcrA 377 7.14e+00 a.118.6.1 66506 1i9sA 210 7.45e+00 1i9sA c.45.1.1 62099 1jb0F 164 7.91e+00 1jb0F f.2.1.12 62825 1euhA 475 8.04e+00 1euhA c.82.1.1 35369 1qi6A 475 8.12e+00 1euhA c.82.1.1 35373 1zfjA 491 8.89e+00 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1i7gA 287 8.95e+00 1ng1 294 9.03e+00 1ng1 a.24.13.1 16961 c.37.1.10 32272 1g60A 260 9.16e+00 1ak1 310 9.23e+00 1ak1 c.92.1.1 35594 1ltsD 103 9.44e+00 3chbD b.40.2.1 24900 1djrD 103 9.52e+00 3chbD b.40.2.1 24865 1pjr 724 9.60e+00 1pjr c.37.1.13 32391 c.37.1.13 32392 1bmfA 510 9.64e+00 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1a8y 367 9.74e+00 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1thm 279 9.82e+00 1gci c.41.1.1 32544 1faaA 124 1.01e+01 1erv c.47.1.1 32738 1cp2A 269 1.08e+01 1cp2A c.37.1.10 32269 1efiD 103 1.10e+01 3chbD b.40.2.1 24870 1cf2O 337 1.17e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1l1lA 739 1.18e+01 3chbD 104 1.22e+01 3chbD b.40.2.1 24970 3pfk 319 1.24e+01 3pfk c.89.1.1 35581 2ezk 99 1.24e+01 2ezk a.4.1.2 16027 1fc6A 388 1.25e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1qbqA 333 1.26e+01 1ft1A a.118.6.1 19187 1tib 269 1.27e+01 3tgl c.69.1.17 34738 1g291 372 1.28e+01 1g291 1hnjA 317 1.32e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1pdz 434 1.34e+01 4enl c.1.11.1 29215 d.54.1.1 38859 1js1X 324 1.35e+01 1fohA 664 1.37e+01 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1fsiA 189 1.41e+01 1fsiA d.61.1.1 39536 1j8wB 273 1.46e+01 c.68.1.2 66441 1rpjA 288 1.47e+01 2dri c.93.1.1 35656 1fj2A 232 1.49e+01 1auoA c.69.1.14 34720 2hdhA 293 1.50e+01 2hdhA a.100.1.3 18795 c.2.1.6 30199 2ezl 99 1.56e+01 2ezk a.4.1.2 16026 1al3 324 1.59e+01 1al3 c.94.1.1 35835 4pfk 319 1.59e+01 3pfk c.89.1.1 35582 1e0bA 68 1.60e+01 1e0bA d.9.2.2 37476 1fjgR 88 1.66e+01 1fjfR a.4.8.1 16252 1eblB 317 1.68e+01 1hn9A c.95.1.1 35975 c.95.1.1 35976 1jpmA 366 1.70e+01 c.1.11.2 67031 d.54.1.1 67032 1eblA 317 1.73e+01 1hn9A c.95.1.1 35973 c.95.1.1 35974 1apyB 141 1.77e+01 1apyB 1qgtA 149 1.80e+01 1qgtA a.62.1.1 18135 1qu9A 128 1.80e+01 1qu9A d.79.1.1 39755 1qu9C 128 1.80e+01 1qu9A d.79.1.1 39757 1f0yA 302 1.82e+01 2hdhA a.100.1.3 18793 c.2.1.6 30197 1fshA 105 1.92e+01 1fshA a.4.5.31 60006 1a26 361 1.93e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1dbiA 280 1.94e+01 1gci c.41.1.1 32543 1ihoA 283 1.94e+01 1ihoA c.26.1.4 62390 1cmiA 85 2.07e+01 1cmiA d.39.1.1 38551 1j5rA 371 2.13e+01 1alu 186 2.13e+01 1alu a.26.1.1 16826 1tc1A 220 2.21e+01 1tc1A c.61.1.1 34083 1e70M 501 2.23e+01 1e70M c.1.8.4 28926 1a0i 348 2.24e+01 1a0i b.40.4.6 25363 d.142.2.1 41577 1hzpA 335 2.28e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 1j5eC 239 2.28e+01 1g2yA 32 2.34e+01 a.34.1.1 17003 1e4mM 501 2.38e+01 1e70M c.1.8.4 59226 1e6qM 501 2.39e+01 1e70M c.1.8.4 28920 1tadA 324 2.43e+01 1cipA a.66.1.1 18194 c.37.1.8 32077 1h8eA 510 2.45e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1fjgT 106 2.47e+01 1fjfT a.7.6.1 16338 1pyiA 96 2.49e+01 1pyiA g.38.1.1 45079 h.1.3.1 45512 1jeoA 180 2.51e+01 c.80.1.3 66611 1d9tA 289 2.56e+01 1deaA c.35.1.1 31767 1j7iA 264 2.58e+01 1j7iA d.144.1.6 62694 1tag 324 2.59e+01 1cipA a.66.1.1 18197 c.37.1.8 32080 1hn9A 317 2.60e+01 1hn9A c.95.1.1 35977 c.95.1.1 35978 1b4aA 149 2.65e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1ad2 228 2.66e+01 1ad2 e.24.1.1 43353 1f44A 324 2.69e+01 a.60.9.1 64982 d.163.1.1 64983 1jh6A 189 2.75e+01 d.61.1.1 66707 1jd1A 129 2.76e+01 1qu9A d.79.1.1 62890 1hyqA 263 2.78e+01 1hyqA c.37.1.10 61412 1g55A 343 2.87e+01 1g55A c.66.1.10 34247 1aquA 297 2.93e+01 1aquA c.37.1.5 31942 1ja9A 274 2.94e+01 c.2.1.2 62817 1efyA 350 3.00e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1fjhA 257 3.09e+01 1fjhB c.2.1.2 29870 1kc0A 299 3.14e+01 1qu6A 179 3.23e+01 1qu6A d.50.1.1 38784 d.50.1.1 38785 1dusA 194 3.23e+01 1dusA c.66.1.4 34182 1rypE 242 3.26e+01 1rypE d.153.1.4 41936 2tbd 134 3.30e+01 2tbd d.89.1.1 40241 1oasA 322 3.35e+01 1oasA c.79.1.1 35293 1e79A 510 3.36e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1tbd 134 3.37e+01 2tbd d.89.1.1 40240 8abp 306 3.50e+01 8abp c.93.1.1 35647 1jg8A 347 3.51e+01 1jg8A c.67.1.1 62946 1nipA 289 3.53e+01 1cp2A c.37.1.10 32263 1fjhB 257 3.56e+01 1fjhB c.2.1.2 29871 1hqvA 191 3.56e+01 1hqvA a.39.1.8 61160 1hskA 326 3.62e+01 2mbr d.145.1.2 61241 d.146.1.1 61242 1dgjA 907 3.68e+01 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 1e5xA 486 3.71e+01 c.79.1.1 59283 1eypA 222 3.73e+01 1eypA d.36.1.1 38536 1e9xA 455 3.80e+01 1ea1A a.104.1.1 18969 1j7lA 264 3.80e+01 d.144.1.6 62697 1io2A 213 3.82e+01 1ekeA c.55.3.1 62612 1kblA 873 3.89e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1b0uA 262 3.93e+01 1b0uA c.37.1.12 32370 1jepA 222 3.97e+01 d.36.1.1 66612 1eyqA 222 4.00e+01 1eypA d.36.1.1 38534 1ea1A 455 4.00e+01 1ea1A a.104.1.1 18970