# List of top-scoring protein chains for t04-100-30-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 1tqnA 486 1.30e-32 1po5A 476 2.83e-31 a.104.1.1 -1467 1jpzA 473 2.44e-28 a.104.1.1 67069 1bu7A 455 2.58e-28 1bu7A a.104.1.1 18937 1n97A 389 9.26e-26 a.104.1.1 80335 1e9xA 455 9.63e-24 1ea1A a.104.1.1 18969 1h5zA 455 1.46e-23 a.104.1.1 -1456 1u13A 455 2.59e-23 1jipA 403 1.36e-17 a.104.1.1 66748 1eupA 403 1.39e-17 1rom a.104.1.1 18967 1q5dA 419 2.73e-17 a.104.1.1 -1454 1odoA 408 4.25e-17 a.104.1.1 -1463 1gwiA 411 4.93e-17 a.104.1.1 76364 1izoA 417 9.03e-17 a.104.1.1 83851 1cpt 412 2.48e-16 1cpt a.104.1.1 18968 1jfbA 404 2.61e-16 a.104.1.1 66624 1f24A 402 3.93e-16 1rom a.104.1.1 18953 1uedA 406 4.71e-16 a.104.1.1 -1459 1io7A 368 2.15e-15 1f4tA a.104.1.1 18971 1lfkA 398 2.13e-14 a.104.1.1 77926 1qmqA 414 1.48e-13 1phd a.104.1.1 18907 1dz4A 414 2.00e-13 1phd a.104.1.1 18903 1n40A 396 8.59e-12 a.104.1.1 79977 1muwA 386 2.67e-01 c.1.15.3 79495 1gnlA 544 3.39e-01 e.26.1.1 70287 3xis 387 4.97e-01 4xis c.1.15.3 29423 4xis 387 4.98e-01 4xis c.1.15.3 29421 1pjr 724 6.59e-01 1pjr c.37.1.19 32391 c.37.1.19 32392 1s96A 219 1.14e+00 c.37.1.1 -6972 1eswA 500 1.36e+00 1cwyA c.1.8.1 59500 1hl9A 449 1.49e+00 unknown_sccs -4694 unknown_sccs -5365 1qusA 322 2.69e+00 1ltm d.2.1.6 36991 1h3fA 432 3.28e+00 c.26.1.1 76631 d.66.1.4 76632 1cb8A 678 4.14e+00 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 1rlr 761 4.27e+00 1rlr a.98.1.1 18753 c.7.1.2 30679 1gnxA 479 4.29e+00 c.1.8.4 76241 1dl2A 511 4.60e+00 1dl2A a.102.2.1 18844 1t7pA 698 4.66e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 1lldA 319 4.73e+00 3ldh c.2.1.5 30177 d.162.1.1 42144 1mdbA 539 4.75e+00 e.23.1.1 79008 1nxcA 478 4.92e+00 a.102.2.1 -1333 1f0kA 364 5.16e+00 1f0kA c.87.1.2 35465 1r6fA 310 5.81e+00 unknown_sccs -11804 1mmsA 140 7.27e+00 1mmsA a.4.7.1 16247 d.47.1.1 38766 1r5lA 262 7.80e+00 a.5.3.1 -360 c.13.1.1 -6215 1ur5A 309 8.13e+00 c.2.1.5 -5910 d.162.1.1 -11477 1geeA 261 9.08e+00 c.2.1.2 -5814 1a8b 318 9.32e+00 1avc a.65.1.1 18171 1o0xA 262 9.63e+00 d.127.1.1 80755 1ii7A 333 9.74e+00 1ii7A d.159.1.4 62415 1o0wA 252 9.89e+00 a.149.1.1 80751 d.50.1.1 80752 2sqcA 631 1.01e+01 2sqcA a.102.4.2 18854 a.102.4.2 18855 1rxxA 421 1.02e+01 unknown_sccs -10982 1qq8A 214 1.05e+01 1qq8A 1dqaA 467 1.07e+01 1dqaA d.58.20.1 39364 d.179.1.1 42585 1t95A 240 1.09e+01 1k0fA 277 1.13e+01 c.92.2.2 71974 1jf2A 195 1.16e+01 1ej3A a.39.1.5 62930 1iq8A 582 1.16e+01 b.122.1.1 83074 c.1.20.1 71270 d.17.6.1 83075 1gcoA 261 1.20e+01 1ybvA c.2.1.2 29884 1uruA 244 1.26e+01 unknown_sccs -13001 1qvbA 481 1.27e+01 1qvbA c.1.8.4 28983 1fsz 372 1.27e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1ps9A 671 1.33e+01 c.1.4.1 -5206 1pjhA 280 1.36e+01 c.14.1.3 -6229 1ornA 226 1.45e+01 a.96.1.1 87342 1rkeA 262 1.46e+01 a.24.9.1 -582 a.24.9.1 -583 1d5tA 433 1.46e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1f5qB 252 1.48e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 1gnd 447 1.54e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 1fo3A 460 1.56e+01 1dl2A a.102.2.1 18845 1lt8A 406 1.57e+01 c.1.26.1 78186 1vd5A 377 1.60e+01 1el4A 195 1.62e+01 1ej3A a.39.1.5 59453 1gnwA 211 1.66e+01 1gnwA a.45.1.1 17727 c.47.1.5 33021 1jx4A 352 1.67e+01 unknown_sccs -10188 unknown_sccs -11898 1bdb 277 1.69e+01 1bdb c.2.1.2 29874 1rpa 342 1.72e+01 1cviA c.60.1.2 33983 1nxqA 251 1.73e+01 c.2.1.2 86388 1ewqA 765 1.76e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1furA 467 1.85e+01 1furA a.127.1.1 19403 1i6lA 328 1.88e+01 c.26.1.1 66041 1ho8A 480 1.89e+01 1ho8A a.118.1.9 61107 1ju3A 583 1.89e+01 b.18.1.13 67300 c.69.1.21 67301 1gxmA 332 1.90e+01 a.102.5.1 76371 1qtqA 553 1.92e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 1ooeA 236 1.95e+01 c.2.1.2 87196 1m3qA 317 1.97e+01 a.96.1.3 -1288 d.129.1.2 -11006 1n45A 233 2.08e+01 a.132.1.1 79981 1l8aA 886 2.11e+01 c.36.1.6 73678 c.36.1.10 73677 c.48.1.1 73679 1uehA 253 2.22e+01 c.101.1.1 -6879 1a0cA 438 2.23e+01 1a0cA c.1.15.3 29529 1toaA 313 2.25e+01 1toaA c.92.2.2 35598 1cm5A 759 2.30e+01 1cm5A c.7.1.1 30671 1h2rL 534 2.32e+01 1h2rL e.18.1.1 43298 1f7uA 607 2.38e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1jk0A 419 2.41e+01 a.25.1.2 63142 1ubkL 534 2.47e+01 e.18.1.1 88422 1di1A 300 2.69e+01 1di1A a.128.1.4 19446 1fm9D 272 2.75e+01 2prgA a.123.1.1 19313 1o6uA 403 2.76e+01 a.5.3.1 -366 unknown_sccs -3048 c.13.1.1 -6221 1dik 874 2.83e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1gqeA 365 2.84e+01 e.38.1.1 70351 1ui5A 215 2.98e+01 1ebmA 317 3.00e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1r3sA 367 3.05e+01 c.1.22.1 -5648 1gw5A 621 3.05e+01 a.118.1.10 70629 1eg5A 384 3.09e+01 1ecxA c.67.1.3 34429 1hnuA 280 3.09e+01 1hnoA c.14.1.3 61096 1nt4A 391 3.14e+01 c.60.1.2 -7942 1v8gA 329 3.16e+01 a.46.2.1 -953 c.27.1.1 -6644 1jeoA 180 3.18e+01 c.80.1.3 66611 1k94A 165 3.18e+01 a.39.1.8 68333 1qpoA 284 3.20e+01 1qpoA c.1.17.1 29561 d.41.2.1 38597 1hyeA 313 3.23e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1d2rA 326 3.27e+01 1d2rB c.26.1.1 31572 1jjiA 311 3.38e+01 c.69.1.2 66766 2ran 316 3.38e+01 1avc a.65.1.1 18170 1giqA 413 3.45e+01 d.166.1.1 76224 d.166.1.1 76225 1e6pA 499 3.45e+01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1i7kA 179 3.48e+01 1u9aA d.20.1.1 61889 1lbvA 252 3.50e+01 e.7.1.1 73813 1p9qC 256 3.53e+01 1b4kA 337 3.57e+01 1b4kA c.1.10.3 29184 1dar 691 3.58e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1qf5A 431 3.64e+01 1adeA c.37.1.10 32212 1cc1L 498 3.66e+01 1h2rL e.18.1.1 43301 1e4iA 447 3.69e+01 1e70M c.1.8.4 59225 1pv9A 348 3.74e+01 c.55.2.1 -7610 d.127.1.1 -11000 1sesA 421 3.76e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1e4mM 501 3.77e+01 1e70M c.1.8.4 59226 1ihoA 283 3.77e+01 1ihoA c.26.1.4 62390 1vhnA 318 3.80e+01 c.1.4.1 -5209 1a4mA 349 3.82e+01 1a4mA c.1.9.1 29014 1gesA 450 3.85e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1qv1A 195 3.87e+01 a.39.1.5 -830 1j1jA 240 3.88e+01 a.118.16.1 -1637 1goiA 499 3.89e+01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1bmtA 246 3.90e+01 1bmtA a.46.1.1 17757 c.23.6.1 31235 1h16A 759 3.91e+01 c.7.1.1 76462 2reb 352 3.93e+01 2reb c.37.1.11 32282 d.48.1.1 38767 1oyc 400 3.94e+01 1oyc c.1.4.1 28603 2ng1 293 3.95e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1fkmA 396 3.96e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316