# 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 1kamA 194 1.26e-25 1k4mA 213 9.37e-24 1kkuA 279 6.33e-12 1f9aA 168 2.01e-07 1f9aA c.26.1.3 31602 1b6tA 159 6.84e-07 1b6tA c.26.1.3 31600 1qjcA 158 1.19e-06 1b6tA c.26.1.3 63328 1ej2A 181 8.94e-06 1f9aA c.26.1.3 59414 1g8fA 511 1.58e-04 1g8fA b.58.1.2 60348 c.26.1.5 60349 c.37.1.15 60350 1jhdA 396 3.12e-03 b.58.1.2 66712 c.26.1.5 66713 1cozA 129 4.78e-03 1cozA c.26.1.2 31598 1j9yA 385 2.06e-01 1j9yA c.1.8.3 62791 1hnjA 317 3.93e-01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1efpB 252 4.81e-01 1efvB c.29.1.1 31636 1eblA 317 6.02e-01 1hn9A c.95.1.1 35973 c.95.1.1 35974 1dkrA 317 6.56e-01 1dkuA c.61.1.2 34114 c.61.1.2 34115 1fnnA 389 6.69e-01 1fnnA a.4.5.11 16129 c.37.1.13 32426 1kewA 361 7.87e-01 c.2.1.2 68544 1ibsA 317 8.12e-01 c.61.1.2 66107 c.61.1.2 66108 1hn9A 317 8.77e-01 1hn9A c.95.1.1 35977 c.95.1.1 35978 1jihA 531 8.78e-01 e.8.1.5 66740 1eblB 317 9.06e-01 1hn9A c.95.1.1 35975 c.95.1.1 35976 1dkuA 317 1.12e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1thg 544 1.13e+00 1thg c.69.1.17 34763 1esmA 316 1.99e+00 1esmA c.37.1.6 31953 1d4oA 184 2.14e+00 1d4oA c.31.1.4 31748 1jkiA 533 2.40e+00 1f6bA 198 3.05e+00 c.37.1.8 64986 1e3mA 800 3.11e+00 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 1jztA 246 3.38e+00 c.104.1.1 63319 1kepA 348 3.83e+00 c.2.1.2 68536 2ercA 244 3.95e+00 2ercA c.66.1.9 34224 1id3B 102 4.15e+00 a.22.1.1 66113 3csuA 310 4.16e+00 3csuA c.78.1.1 35094 c.78.1.1 35095 1ex2A 189 4.29e+00 1ex2A c.51.4.2 33225 1ihoA 283 4.37e+00 1ihoA c.26.1.4 62390 1uaaA 673 5.00e+00 1pjr c.37.1.13 32401 c.37.1.13 32402 1g55A 343 5.03e+00 1g55A c.66.1.10 34247 1kqfA 1015 5.09e+00 1trb 320 5.41e+00 1trb c.3.1.5 30529 c.3.1.5 30530 1jx2B 315 6.15e+00 c.37.1.8 67404 1bx4A 345 7.08e+00 1bx4A c.72.1.1 34935 1ek6A 348 7.43e+00 1xel c.2.1.2 29800 2tpsA 227 7.52e+00 2tpsA c.1.3.1 28591 1mjfA 281 7.87e+00 1i3kA 348 7.95e+00 1xel c.2.1.2 61595 1k77A 260 8.60e+00 1nsyA 271 8.67e+00 2nsyA c.26.2.1 31614 1kqpA 271 8.68e+00 1dliA 402 8.68e+00 1dliA a.100.1.4 18809 c.2.1.6 30213 c.26.3.1 31622 1ih8A 271 8.70e+00 2nsyA c.26.2.1 62377 2nsyA 271 8.71e+00 2nsyA c.26.2.1 31612 1ex7A 186 8.79e+00 1gky c.37.1.1 59537 1gky 187 8.86e+00 1gky c.37.1.1 31839 1fl2A 310 9.56e+00 1hyuA c.3.1.5 59869 c.3.1.5 59870 1bxkA 355 9.79e+00 1bxkA c.2.1.2 29803 4ubpC 570 9.90e+00 1ubpC b.92.1.1 28431 c.1.9.2 29053 1ekxA 311 1.04e+01 3csuA c.78.1.1 35088 c.78.1.1 35089 1ubpC 570 1.04e+01 1ubpC b.92.1.1 28432 c.1.9.2 29054 1k0mA 241 1.04e+01 a.45.1.1 67949 c.47.1.5 67950 1hq3D 103 1.05e+01 1aoiB a.22.1.1 16464 1de6A 426 1.06e+01 1de5A c.1.15.2 29398 1at1A 310 1.06e+01 3csuA c.78.1.1 35168 c.78.1.1 35169 1gdeA 389 1.07e+01 c.67.1.1 60456 1gd9A 389 1.08e+01 c.67.1.1 60454 1e0tA 470 1.09e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1qamA 244 1.09e+01 2ercA c.66.1.9 34220 1jkfA 533 1.10e+01 1dpe 507 1.13e+01 1dpe c.94.1.1 35799 1k0nA 241 1.13e+01 a.45.1.1 67953 c.47.1.5 67954 1epxA 370 1.13e+01 1fbaA c.1.10.1 29150 1dljA 402 1.16e+01 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1d8wA 426 1.17e+01 1de5A c.1.15.2 29394 1bg6 359 1.22e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1kzhA 555 1.22e+01 1jwyB 315 1.22e+01 c.37.1.8 67401 1gt91 357 1.23e+01 1zfjA 491 1.23e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1sup 275 1.23e+01 1gci c.41.1.1 32510 3aprE 325 1.25e+01 2er7E b.50.1.2 26820 2apr 325 1.26e+01 2er7E b.50.1.2 26819 1aoiB 87 1.27e+01 1aoiB a.22.1.1 16470 1bcpB 199 1.27e+01 1bcpB b.40.2.1 25120 d.169.1.2 42429 1de5A 426 1.30e+01 1de5A c.1.15.2 29402 1f7sA 139 1.33e+01 1cof d.109.1.2 40857 1j6oA 268 1.34e+01 1g01A 364 1.40e+01 7a3hA c.1.8.3 60161 1mh9A 197 1.41e+01 1h2vZ 156 1.41e+01 1dppA 507 1.42e+01 1dpe c.94.1.1 35800 1aoiF 87 1.45e+01 1aoiB a.22.1.1 16471 1qfcA 306 1.45e+01 1uteA d.159.1.1 42077 1qjwA 365 1.47e+01 1bvwA c.6.1.1 30657 1eqjA 511 1.47e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1li5A 461 1.58e+01 1ejjA 511 1.58e+01 1ejjA c.105.1.1 59422 c.76.1.3 59423 1fwcC 567 1.62e+01 1ubpC b.92.1.1 28410 c.1.9.2 29032 1a8y 367 1.65e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1delA 241 1.75e+01 1dekA c.37.1.1 31844 1lw6E 281 1.76e+01 1l8qA 324 1.87e+01 1g0oA 283 1.91e+01 1ybvA c.2.1.2 60181 1iupA 282 1.92e+01 1cb2A 365 2.00e+01 1bvwA c.6.1.1 30661 1qfjA 232 2.03e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1lv7A 257 2.03e+01 1scmB 145 2.10e+01 1wdcB a.39.1.5 17304 1k5dC 386 2.11e+01 c.10.1.2 68170 1dbqA 289 2.15e+01 1qpzA c.93.1.1 35666 3bamA 213 2.18e+01 1bam c.52.1.3 33288 3bamB 213 2.22e+01 1bam c.52.1.3 33289 1ad1A 266 2.24e+01 1aj2 c.1.21.1 29668 1bi5A 389 2.24e+01 1bi5A c.95.1.2 35985 c.95.1.2 35986 1jg1A 235 2.32e+01 c.66.1.7 66661 1esgA 213 2.35e+01 1bam c.52.1.3 33286 1rpjA 288 2.38e+01 2dri c.93.1.1 35656 1i88A 389 2.44e+01 c.95.1.2 66070 c.95.1.2 66071 1a9xA 1058 2.45e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1pfkA 320 2.47e+01 3pfk c.89.1.1 35575 2ts1 419 2.48e+01 2ts1 c.26.1.1 31564 1g0cA 364 2.52e+01 7a3hA c.1.8.3 60165 1ybvA 283 2.55e+01 1ybvA c.2.1.2 29948 1jilA 420 2.55e+01 c.26.1.1 66745 2pfkA 320 2.56e+01 3pfk c.89.1.1 35577 1alvA 173 2.63e+01 1alvA a.39.1.7 17370 1h6kZ 98 2.63e+01 d.58.7.1 60686 1nfp 228 2.64e+01 1nfp c.1.16.2 29555 1hdoA 206 2.64e+01 1he2A c.2.1.2 60965 1keeC 1073 2.68e+01 a.92.1.1 68500 c.24.1.1 68501 c.30.1.1 68502 c.30.1.1 68503 d.142.1.2 68504 d.142.1.2 68505 1efvB 255 2.69e+01 1efvB c.29.1.1 31634 3uagA 437 2.69e+01 4uagA c.5.1.1 30652 c.59.1.1 33953 c.72.2.1 34956 1jtkA 136 2.71e+01 1uag 437 2.72e+01 4uagA c.5.1.1 30653 c.59.1.1 33954 c.72.2.1 34957 1ekeA 230 2.72e+01 1ekeA c.55.3.1 33572 1ptf 88 2.73e+01 1ptf d.94.1.1 40549 4uagA 437 2.73e+01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1tsm 316 2.73e+01 1bkpA d.117.1.1 41024 1i50C 318 2.76e+01 d.74.3.1 61756 d.181.1.1 61757 1h61A 364 2.88e+01 1oyc c.1.4.1 60657 1klpA 115 2.92e+01 1gajA 257 2.92e+01 1gajA c.37.1.12 60416 1c3oC 1073 2.95e+01 a.92.1.1 18563 c.24.1.1 31492 c.30.1.1 31683 c.30.1.1 31684 d.142.1.2 41528 d.142.1.2 41529 1adeA 431 2.95e+01 1adeA c.37.1.10 32213 2cb5A 453 2.96e+01 3gcb d.3.1.1 37035 1fnsA 196 2.96e+01 1auq c.62.1.1 34136 1hzpA 335 2.98e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 1uok 558 2.99e+01 1uok b.71.1.1 27801 c.1.8.1 28788 1thfD 253 3.00e+01 1thfD c.1.2.1 28535 1bxrA 1073 3.02e+01 a.92.1.1 18570 c.24.1.1 31499 c.30.1.1 31697 c.30.1.1 31698 d.142.1.2 41542 d.142.1.2 41543 1liiA 363 3.04e+01 1a0cA 438 3.08e+01 1a0cA c.1.15.3 29529 1wdcB 156 3.09e+01 1wdcB a.39.1.5 17302 1he2A 206 3.10e+01 1he2A c.2.1.2 60966 1keeG 1073 3.12e+01 a.92.1.1 68516 c.24.1.1 68517 c.30.1.1 68518 c.30.1.1 68519 d.142.1.2 68520 d.142.1.2 68521 3cbh 365 3.14e+01 1bvwA c.6.1.1 30665 1e9rA 437 3.16e+01 c.37.1.11 64827 1oakA 196 3.16e+01 1auq c.62.1.1 34138 1kfuS 184 3.24e+01 a.39.1.7 68574 1keeA 1073 3.27e+01 a.92.1.1 68492 c.24.1.1 68493 c.30.1.1 68494 c.30.1.1 68495 d.142.1.2 68496 d.142.1.2 68497 1qqtA 551 3.31e+01 1qqtA a.27.1.1 16923 c.26.1.1 31590 g.41.1.1 45175 1ig8A 486 3.36e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1qf5A 431 3.40e+01 1adeA c.37.1.10 32212 1qfrA 89 3.41e+01 1ptf d.94.1.1 40552 1mldA 314 3.42e+01 2cmd c.2.1.5 30122 d.162.1.1 42089 1mtzA 293 3.43e+01 1k8eA 345 3.55e+01 1o17A 345 3.55e+01 1c3oA 1073 3.57e+01 1c3oA a.92.1.1 18562 c.24.1.1 31491 c.30.1.1 31681 c.30.1.1 31682 d.142.1.2 41526 d.142.1.2 41527 1dekA 241 3.64e+01 1dekA c.37.1.1 31842 1f4lA 551 3.65e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1auq 208 3.65e+01 1auq c.62.1.1 34137 1ijbA 202 3.65e+01 1i9sA 210 3.66e+01 1i9sA c.45.1.1 62099 1a1s 314 3.77e+01 1othA c.78.1.1 35258 c.78.1.1 35259 1jeqA 609 3.78e+01 1jeqA a.140.2.1 64748 e.31.1.1 64749 1j8mF 297 3.79e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1i86A 389 3.81e+01 c.95.1.2 66068 c.95.1.2 66069 1qhaA 917 3.82e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1cs0C 1073 3.88e+01 a.92.1.1 18559 c.24.1.1 31488 c.30.1.1 31675 c.30.1.1 31676 d.142.1.2 41520 d.142.1.2 41521 1cqwA 295 3.91e+01 1b6g c.69.1.8 34679 1zrn 232 3.95e+01 1qq5A c.108.1.1 43323 1egzA 291 3.98e+01 7a3hA c.1.8.3 28828 1di0A 158 3.99e+01 1di0A c.16.1.1 30957