# 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 1phb 414 2.16e-01 1phd a.104.1.1 18906 1yrcA 414 2.93e-01 1ogoX 574 2.98e-01 b.133.1.1 92925 b.80.1.10 92926 1phg 414 4.96e-01 1phd a.104.1.1 18910 1phd 414 5.89e-01 1phd a.104.1.1 18913 1dz4A 414 6.80e-01 1phd a.104.1.1 18903 5cpp 414 7.14e-01 1phd a.104.1.1 18935 1re9A 414 8.96e-01 1axkA 394 9.16e-01 1axkA b.29.1.2 24181 b.29.1.11 24315 2nlrA 234 9.27e-01 2nlrA b.29.1.11 24344 1nlr 234 1.03e+00 2nlrA b.29.1.11 24345 1qmqA 414 1.32e+00 1phd a.104.1.1 18907 1wxrA 1048 1.64e+00 1o20A 427 1.77e+00 c.82.1.1 86556 1sqjA 789 1.96e+00 b.69.13.1 105918 b.69.13.1 105919 1gweA 503 2.84e+00 e.5.1.1 70667 1gof 639 4.32e+00 1gof b.1.18.2 21807 b.18.1.1 23709 b.69.1.1 27631 1cknA 330 4.54e+00 1ckmA b.40.4.6 25360 d.142.2.3 41587 2aamA 309 4.76e+00 1k32A 1045 4.86e+00 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1pfo 500 6.26e+00 1pfo f.9.1.1 43826 1m6bA 621 6.30e+00 c.10.2.5 74521 c.10.2.5 74522 g.3.9.1 74523 g.3.9.1 74524 1goh 639 6.40e+00 1gof b.1.18.2 21809 b.18.1.1 23711 b.69.1.1 27633 1x1iA 752 6.56e+00 1uypA 432 7.05e+00 b.29.1.19 100176 b.67.2.3 100177 1hbzA 498 7.36e+00 1cf9A e.5.1.1 60937 1w2tA 432 7.74e+00 1xg8A 111 8.40e+00 1j0mA 752 8.79e+00 a.102.3.2 83910 b.24.1.1 83911 b.30.5.2 83912 1ijhA 504 9.32e+00 c.3.1.2 66161 d.16.1.1 66162 1m3jA 471 9.48e+00 f.9.1.1 91182 1nr0A 611 9.71e+00 b.69.4.1 86078 b.69.4.1 86079 1k3iA 656 1.00e+01 b.1.18.2 68113 b.18.1.1 68114 b.69.1.1 68115 1ckmA 330 1.11e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1f3eA 386 1.11e+01 1pud c.1.20.1 29661 1ju3A 583 1.16e+01 b.18.1.13 67300 c.69.1.21 67301 1pxgA 382 1.19e+01 c.1.20.1 95287 2d0oA 610 1.22e+01 1mxtA 504 1.24e+01 c.3.1.2 79671 d.16.1.1 79672 1n1pA 504 1.24e+01 c.3.1.2 91546 d.16.1.1 91547 1n4wA 504 1.24e+01 c.3.1.2 91676 d.16.1.1 91677 1qbiA 454 1.28e+01 1c9uA b.68.2.1 27619 1dkrA 317 1.31e+01 1dkuA c.61.1.2 34114 c.61.1.2 34115 1b8sA 504 1.37e+01 1b8sA c.3.1.2 30335 d.16.1.1 37866 1jfpA 348 1.38e+01 f.13.1.2 66645 1b4vA 504 1.41e+01 1b8sA c.3.1.2 30334 d.16.1.1 37865 1h54B 754 1.43e+01 a.102.1.4 60636 b.30.5.3 60637 1pd21 199 1.44e+01 1pd21 2akrA 285 1.46e+01 1dkuA 317 1.47e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1ibsA 317 1.50e+01 c.61.1.2 66107 c.61.1.2 66108 1srqA 341 1.54e+01 e.55.1.1 105967 1xhcA 367 1.56e+01 1t2bA 397 1.57e+01 1sy7A 715 1.62e+01 1sw6A 327 1.63e+01 1sw6A d.211.1.1 19176 1xfdA 723 1.68e+01 1pnkB 557 1.72e+01 1ajqB 1gkfB 557 1.73e+01 1gm7B 557 1.73e+01 2f6kA 307 1.74e+01 1s9aA 257 1.76e+01 b.3.6.1 105379 1oxdA 227 1.81e+01 d.22.1.1 93687 1qwlA 505 1.83e+01 e.5.1.1 96483 1h54A 754 1.83e+01 a.102.1.4 60634 b.30.5.3 60635 1gk9B 557 1.85e+01 1gm9B 557 1.85e+01 1acc 735 1.88e+01 1acc f.11.1.1 43828 1k4gA 386 1.89e+01 c.1.20.1 72054 1r5yA 386 1.91e+01 c.1.20.1 97134 1gpmA 525 1.95e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1gv9A 260 1.98e+01 b.29.1.13 70596 1e3aB 560 2.01e+01 1ajqB 1ajqB 557 2.05e+01 1ajqB 1a0qL 212 2.06e+01 8fabA b.1.1.1 20286 b.1.1.2 21278 7catA 506 2.09e+01 1cf9A e.5.1.1 42781 1jv2A 957 2.09e+01 b.1.15.1 67334 b.1.15.1 67335 b.1.15.1 67336 b.69.8.1 67337 1e4fT 419 2.09e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1c9uA 454 2.11e+01 1c9uA b.68.2.1 27623 1z5lA 285 2.11e+01 1e15A 499 2.21e+01 1e15A b.72.2.1 27810 c.1.8.5 29006 d.26.3.1 38440 1ddlA 188 2.27e+01 1auyA b.121.4.6 23317 1msaA 109 2.41e+01 1b2pA b.78.1.1 27987 1clc 639 2.43e+01 1clc a.102.1.2 18835 b.1.18.2 21872 1scs 237 2.48e+01 1nls b.29.1.1 23930 1nls 237 2.54e+01 1nls b.29.1.1 23928 1jpc 109 2.55e+01 1b2pA b.78.1.1 27986 1ijaA 148 2.56e+01 1ijaA b.100.1.1 62484 1kypA 237 2.65e+01 d.22.1.1 73280 2fn0A 437 2.73e+01 1pud 386 2.75e+01 1pud c.1.20.1 29658 1rwhA 757 2.76e+01 a.102.3.2 97984 b.24.1.1 97985 b.30.5.2 97986 1uacH 114 2.79e+01 b.1.1.1 99132 1jb7A 495 2.80e+01 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1a0eA 443 2.83e+01 1a0cA c.1.15.3 29537 3ladA 476 2.97e+01 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1xfxA 777 3.06e+01 1ehkA 562 3.07e+01 1ehkA f.24.1.1 43624 1aun 208 3.43e+01 1thv b.25.1.1 23900 1n6eA 1071 3.45e+01 b.36.1.3 80149 b.68.7.1 80150 b.69.9.1 80151 c.14.1.2 80152 1njrA 284 3.48e+01 c.50.1.2 103858 1pjpA 226 3.51e+01 5ptp b.47.1.2 26301 2emo 237 3.56e+01 1ema d.22.1.1 38366 1m3iA 471 3.60e+01 f.9.1.1 91178 1xhkA 187 3.60e+01 1itkA 731 3.62e+01 a.93.1.3 71417 a.93.1.3 71418 1i8dA 213 3.66e+01 b.43.4.3 61953 b.43.4.3 61954 1bihA 395 3.70e+01 1bihA b.1.1.4 21752 b.1.1.4 21753 b.1.1.4 21754 b.1.1.4 21755 1efm 393 3.70e+01 1efcA c.37.1.8 64732 1umdB 324 3.72e+01 c.36.1.7 99600 c.48.1.2 99601 1qksA 567 3.74e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1dt9A 437 3.79e+01 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1ddzA 496 3.81e+01 1ddzA c.53.2.1 33372 c.53.2.1 33373 1dqiA 124 3.84e+01 1do6A b.1.13.1 22357 1jceA 344 3.88e+01 c.55.1.1 62876 c.55.1.1 62877 1jcfA 344 3.92e+01 c.55.1.1 62878 c.55.1.1 62879 1n1bA 549 3.95e+01 a.102.4.1 79799 a.128.1.3 79800