# List of top-scoring protein chains for t2k-100-30-dssp_ehl2 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 1hjrA 158 3.03e-03 1hjrA c.55.3.6 33727 1kcfA 258 1.38e-02 a.140.2.1 68434 c.55.3.7 68435 1kczA 413 1.06e-01 c.1.11.2 68451 d.54.1.1 68452 1j79A 347 1.78e-01 1j79A c.1.9.4 62675 1dkrA 317 2.36e-01 1dkuA c.61.1.2 34114 c.61.1.2 34115 1kkoA 413 3.52e-01 c.1.11.2 68675 d.54.1.1 68676 1tplA 426 4.79e-01 1ax4A c.67.1.2 34387 1dkuA 317 5.43e-01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1ad1A 266 6.43e-01 1aj2 c.1.21.1 29668 1h7eA 245 8.54e-01 c.68.1.13 60717 2ebn 289 8.60e-01 2ebn c.1.8.5 28990 1gvfA 286 8.66e-01 1ktbA 405 9.39e-01 1dctA 324 9.95e-01 6mhtA c.66.1.10 34244 1qr6A 584 1.08e+00 1qr6A c.2.1.7 30293 c.58.1.3 33941 1eudA 311 1.19e+00 2scuA c.2.1.8 30312 c.23.4.1 31140 1mldA 314 1.19e+00 2cmd c.2.1.5 30122 d.162.1.1 42089 1f2tB 148 1.27e+00 1f2tB 1kao 167 1.55e+00 1ctqA c.37.1.8 32014 1thfD 253 1.95e+00 1thfD c.1.2.1 28535 1fknA 391 2.00e+00 1fknA b.50.1.2 26879 1nkl 78 2.01e+00 1nkl a.64.1.1 18140 1qrqA 325 2.07e+00 1qrqA c.1.7.1 28667 1exbA 332 2.10e+00 1qrqA c.1.7.1 28666 1gwcA 230 2.26e+00 1i39A 225 2.31e+00 1ekeA c.55.3.1 61585 1qd1A 325 2.36e+00 1qd1A d.58.34.1 39493 d.58.34.1 39494 2scuB 388 2.63e+00 2scuB c.23.4.1 31141 d.142.1.4 41562 2pgi 445 2.66e+00 2pgi c.80.1.2 35308 1bfd 528 2.69e+00 1bfd c.31.1.3 31745 c.36.1.1 31801 c.36.1.1 31802 1c7qA 445 2.76e+00 2pgi c.80.1.2 35307 1aw5 326 2.76e+00 1b4kA c.1.10.3 29181 1bdg 451 2.82e+00 1qhaA c.55.1.3 33461 c.55.1.3 33462 1efvB 255 3.01e+00 1efvB c.29.1.1 31634 1es9A 232 3.01e+00 1wab c.23.10.3 31340 7odcA 424 3.16e+00 7odcA b.49.2.1 26488 c.1.6.1 28650 1wab 232 3.16e+00 1wab c.23.10.3 31341 1fcdA 401 3.19e+00 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1eudB 396 3.22e+00 2scuB c.23.4.1 31150 d.142.1.4 41571 1spa 396 3.28e+00 1ajsA c.67.1.1 34291 1qisA 396 3.50e+00 1ajsA c.67.1.1 34284 1jmvA 141 3.51e+00 c.29.1.2 66897 1io2A 213 3.57e+00 1ekeA c.55.3.1 62612 1h7nA 342 3.65e+00 1b4kA c.1.10.3 60726 1ii7A 333 3.74e+00 1ii7A d.159.1.4 62415 1gewA 356 3.87e+00 1gewA c.67.1.1 60470 1bw0A 416 3.88e+00 1bw0A c.67.1.1 34385 1ars 396 3.90e+00 1ajsA c.67.1.1 34287 1art 396 4.13e+00 1ajsA c.67.1.1 34285 1ylvA 342 4.17e+00 1b4kA c.1.10.3 29180 1f0kA 364 4.25e+00 1f0kA c.87.1.2 35465 1iqpA 327 4.26e+00 a.80.1.1 62649 c.37.1.13 62650 1ezwA 349 4.31e+00 1ezwA c.1.16.3 29558 1amoA 615 4.33e+00 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1ahxA 396 4.37e+00 1ajsA c.67.1.1 34293 1ejjA 511 4.51e+00 1ejjA c.105.1.1 59422 c.76.1.3 59423 1eqjA 511 4.56e+00 1ejjA c.105.1.1 59495 c.76.1.3 59496 1bj4A 470 4.77e+00 1bj4A c.67.1.4 34479 1d7kA 421 4.83e+00 7odcA b.49.2.1 26486 c.1.6.1 28648 1a3qA 285 4.91e+00 1a3qA b.1.1.5 21932 b.2.5.1 22447 1id1A 153 4.91e+00 1id1A c.2.1.9 62286 1edt 271 5.33e+00 2ebn c.1.8.5 28993 1cvl 319 5.40e+00 1cvl c.69.1.18 34786 1dp4A 435 5.51e+00 1dp4A c.93.1.1 35710 1erzA 303 5.51e+00 1erzA d.160.1.2 59498 1aua 296 5.55e+00 1aua a.5.3.1 16290 c.13.1.1 30882 1g291 372 5.87e+00 1g291 1b64 91 5.90e+00 1b64 d.58.12.1 39306 2aat 396 6.07e+00 1ajsA c.67.1.1 34348 1jtkA 136 6.10e+00 1edoA 244 6.46e+00 1ybvA c.2.1.2 29896 1qlwA 328 6.72e+00 1qlwA c.69.1.15 34722 1hrkA 359 6.97e+00 1hrkA c.92.1.1 61228 1fg7A 356 7.10e+00 1gewA c.67.1.1 59819 1huxA 270 7.58e+00 1huxA c.55.1.5 61278 1jbkA 195 7.79e+00 1i60A 278 8.08e+00 1erw 105 8.30e+00 1erv c.47.1.1 32745 2fcr 173 8.31e+00 1rcf c.23.5.1 31151 1e3mA 800 8.33e+00 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 1euvA 221 8.75e+00 1euvA d.3.1.7 37133 1eemA 241 8.94e+00 1eemA a.45.1.1 17717 c.47.1.5 33011 1nal1 297 9.03e+00 1nal3 1bvzA 585 9.13e+00 1bvzA b.1.1.5 21856 b.71.1.1 27783 c.1.8.1 28770 1h61A 364 9.28e+00 1oyc c.1.4.1 60657 1qf9A 194 9.64e+00 1zin c.37.1.1 31848 1f89A 291 9.68e+00 d.160.1.1 64988 1e5dA 402 9.83e+00 1e5dA c.23.5.1 31208 d.157.1.3 42061 5ukdA 194 1.00e+01 1zin c.37.1.1 31851 1g6oA 330 1.01e+01 1g6oA c.37.1.13 32430 1fdyA 297 1.01e+01 1nal3 c.1.10.1 29071 1c3pA 375 1.03e+01 1c3pA c.42.1.2 32606 1qh8A 478 1.03e+01 1qguA c.92.2.3 35633 1qguA 478 1.03e+01 1qguA c.92.2.3 35625 1qr7A 350 1.05e+01 1qr7A c.1.10.4 29191 1gpmA 525 1.05e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1lucA 355 1.05e+01 1lucA c.1.16.1 29547 1edg 380 1.06e+01 1edg c.1.8.3 28807 1ja1A 622 1.06e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1e25A 282 1.10e+01 1e25A e.3.1.1 42731 1cznA 169 1.11e+01 1rcf c.23.5.1 31181 1ofv 169 1.11e+01 1rcf c.23.5.1 31184 1aj2 282 1.15e+01 1aj2 c.1.21.1 29665 1scuA 288 1.16e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1jztA 246 1.18e+01 c.104.1.1 63319 1aj0 282 1.19e+01 1aj2 c.1.21.1 29667 1budA 197 1.19e+01 1atlA d.92.1.9 40328 2scuA 288 1.20e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1nar 290 1.22e+01 1nar c.1.8.5 28988 1e9lA 377 1.24e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 1b5fB 87 1.26e+01 1b5fB 1gp1A 198 1.27e+01 1gp1A c.47.1.10 33059 1gq6A 313 1.35e+01 1fxqA 267 1.36e+01 1d9eA c.1.10.4 60108 1sftA 388 1.39e+01 1bd0A b.49.2.1 26482 c.1.6.1 28644 1aiu 105 1.41e+01 1erv c.47.1.1 32746 1efcA 393 1.41e+01 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1nal3 297 1.42e+01 1nal3 1b1cA 181 1.45e+01 1amoA c.23.5.2 31212 1egr 85 1.47e+01 1kte c.47.1.1 32765 1b93A 152 1.47e+01 1b93A c.24.1.2 31507 1jp4A 308 1.50e+01 1jp4A e.7.1.1 63223 1tahB 318 1.53e+01 1cvl c.69.1.18 34774 3pbgA 468 1.56e+01 1e70M c.1.8.4 28951 1bd0A 388 1.57e+01 1bd0A b.49.2.1 26480 c.1.6.1 28642 1ha3A 405 1.58e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1etu 394 1.60e+01 1efcA c.37.1.8 64737 1exmA 405 1.63e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1erv 105 1.65e+01 1erv c.47.1.1 32743 1aipE 405 1.66e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1qtqA 553 1.68e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 1gcoA 261 1.69e+01 1ybvA c.2.1.2 29884 1jj7A 260 1.71e+01 c.37.1.12 63114 1gsoA 431 1.80e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1b74A 254 1.80e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1tph1 247 1.81e+01 1amk 1a4iB 301 1.81e+01 1a4iA c.2.1.7 30279 c.58.1.2 33927 1dofA 403 1.82e+01 1c3cA a.127.1.1 19429 1b93B 152 1.83e+01 1b93A c.24.1.2 31508 1a4iA 301 1.85e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1b8gA 429 1.85e+01 1b8gA c.67.1.4 34499 1fwsA 267 1.86e+01 1d9eA c.1.10.4 60063 1g0rA 293 1.87e+01 1g0rA c.68.1.6 34532 1gtrA 553 1.87e+01 1gtrA b.53.1.2 26939 c.26.1.1 31578 1ej6D 418 1.90e+01 i.7.1.1 45970 1regX 122 1.92e+01 1regX d.58.27.1 39406 1qfnA 85 1.92e+01 1qfnA c.47.1.1 32768 1hg3A 225 1.93e+01 1hg3A c.1.1.1 61025 1fxoA 293 1.96e+01 1g0rA c.68.1.6 34524 1e0cA 271 1.97e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1ebmA 317 1.99e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1kzhA 555 2.01e+01 1tahA 318 2.14e+01 1cvl c.69.1.18 34775 1cfr 285 2.14e+01 1cfr c.52.1.7 33312 1onrA 316 2.17e+01 1onrA c.1.10.1 29169 1kc0A 299 2.18e+01 1cf2O 337 2.21e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1bam 213 2.23e+01 1bam c.52.1.3 33285 1ej2A 181 2.26e+01 1f9aA c.26.1.3 59414 1gmlA 178 2.27e+01 1jbwA 428 2.28e+01 c.59.1.2 62860 c.72.2.2 62861 1bl3A 160 2.34e+01 1b9dA c.55.3.2 33655 1ego 85 2.34e+01 1kte c.47.1.1 32767 1cv2A 296 2.36e+01 1bn6A c.69.1.8 34680 1dvjA 246 2.42e+01 1dvjA c.1.2.3 28546 1qj2B 809 2.43e+01 1qj2B d.41.1.1 38589 d.133.1.1 41419 1k28A 584 2.44e+01 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1rcf 169 2.48e+01 1rcf c.23.5.1 31170 1qnf 484 2.53e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1e32A 458 2.53e+01 1e32A b.52.2.3 59183 c.37.1.13 59184 d.31.1.1 59185 1pbgA 468 2.58e+01 1e70M c.1.8.4 28946 1vhh 162 2.61e+01 1vhh d.65.1.2 39550 3minC 491 2.65e+01 1qguA c.92.2.3 35607 2minA 491 2.67e+01 1qguA c.92.2.3 35609 1fpzA 212 2.70e+01 1fpzA c.45.1.1 59976 1lehA 364 2.70e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1eswA 500 2.73e+01 1cwyA c.1.8.1 59500 1ukz 203 2.74e+01 1zin c.37.1.1 31840 1brt 277 2.78e+01 1brt c.69.1.12 34699 1d3yA 301 2.82e+01 1d3yA e.12.1.1 43252 1chrA 370 2.82e+01 1mucA c.1.11.2 29252 d.54.1.1 38896 1broA 277 2.82e+01 1brt c.69.1.12 34700 1ek0A 170 2.83e+01 1ctqA c.37.1.8 32076 1bjwA 382 2.83e+01 1bjwA c.67.1.1 34349 1a8y 367 2.84e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1brlA 355 2.88e+01 1lucA c.1.16.1 29553 1hyvA 166 2.91e+01 1b9dA c.55.3.2 61424 1k77A 260 2.98e+01 1gt8A 1025 3.00e+01 1gq2A 555 3.01e+01 1ako 268 3.03e+01 1ako d.151.1.1 41779 1qsmA 152 3.04e+01 1qsmA d.108.1.1 40808 1a7tA 232 3.12e+01 1a7tA d.157.1.1 42041 1jykA 254 3.12e+01 c.68.1.13 67458 1pymA 295 3.16e+01 1pymA c.1.12.4 29308 1fohA 664 3.17e+01 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1rpjA 288 3.18e+01 2dri c.93.1.1 35656 1ggqA 174 3.30e+01 1ggqA a.24.12.1 60486 1gthA 1025 3.39e+01 2mjpA 193 3.42e+01 1b78A c.51.4.1 33223 1b9dA 163 3.43e+01 1b9dA c.55.3.2 33649 1imbA 277 3.48e+01 1imbA e.7.1.1 42957 1dvjC 246 3.49e+01 1dvjA c.1.2.3 28548 1grx 85 3.50e+01 1kte c.47.1.1 32766 1gr0A 367 3.52e+01 1ag9A 175 3.56e+01 1rcf c.23.5.1 31178 2hhmA 276 3.57e+01 1imbA e.7.1.1 42955 1g2oA 268 3.58e+01 1b8oA c.56.2.1 60228 1fc6A 388 3.59e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1b73A 254 3.65e+01 1b74A c.78.2.1 35266 c.78.2.1 35267 1vib 55 3.68e+01 1vib g.2.2.1 43999 8rucA 475 3.69e+01 1burA c.1.14.1 29339 d.58.9.1 39245 1eqnA 321 3.74e+01 1dd9A e.13.1.1 43256 1ej0A 180 3.75e+01 1ej0A c.66.1.2 34179 1qs8A 329 3.76e+01 1smrA b.50.1.2 26887 1agx 331 3.77e+01 4pgaA c.88.1.1 35564 1tlfA 301 3.77e+01 1tlfA c.93.1.1 35687 1cwyA 500 3.77e+01 1cwyA c.1.8.1 28789 2bnh 457 3.78e+01 1a4yA c.10.1.1 30850 1l4uA 176 3.79e+01 1bqcA 302 3.81e+01 1bqcA c.1.8.3 28831 1jqlB 140 3.82e+01 c.37.1.13 63234 1di0A 158 3.88e+01 1di0A c.16.1.1 30957 1floA 422 3.88e+01 1floA a.60.9.1 18106 d.163.1.1 42166 1b78A 193 3.88e+01 1b78A c.51.4.1 33221 1urnA 97 3.90e+01 1urnA d.58.7.1 39153 1a0fA 201 3.91e+01 1a0fA a.45.1.1 17737 c.47.1.5 33031 1qnrA 344 3.91e+01 1qnoA c.1.8.3 28834 1d9eA 284 3.92e+01 1d9eA c.1.10.4 29195 1f2vA 219 3.94e+01 1f2vA c.23.17.1 59627 1dd9A 338 3.98e+01 1dd9A e.13.1.1 43254 1ajsA 412 4.00e+01 1ajsA c.67.1.1 34276