# List of top-scoring protein chains for t2k.w0.5 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.soe.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 2pjqA 231 3.82e-36 3b57A 209 1.90e-35 2qgsA 225 3.63e-35 2pq7A 220 6.03e-30 2o08A 188 1.34e-07 2ogiA 196 4.37e-06 3ccgA 190 1.66e-03 2hekA 371 2.43e-03 a.211.1.1 136354 2dqbA 376 8.43e-03 2o6iA 480 8.78e-03 a.211.1.1 138920 1xx7A 184 1.66e-02 a.211.1.1 116143 1z1lA 345 4.46e-02 2hd1A 326 6.84e-02 a.211.1.2 136338 2yy2A 333 6.85e-02 1yoyA 175 1.66e-01 a.211.1.1 123795 1ynbA 173 1.81e-01 a.211.1.1 123718 2pgsA 451 3.98e-01 3bg2A 444 5.37e-01 2iufA 688 8.94e-01 2paqA 201 1.07e+00 a.211.1.1 139643 2p4hX 322 1.07e+00 2cqzA 177 1.08e+00 2parA 201 1.24e+00 1x7aC 235 2.05e+00 b.47.1.2 121781 2ovyA 362 3.99e+00 2q14A 410 4.64e+00 2dbjA 124 4.68e+00 1uayA 242 4.70e+00 c.2.1.2 88390 2vk9A 551 4.77e+00 1vlcA 366 5.09e+00 c.77.1.1 108743 1r76A 408 5.36e+00 a.102.5.1 104830 2r8qA 359 5.90e+00 2huoA 289 6.45e+00 a.211.1.4 136778 2ibnA 250 6.70e+00 a.211.1.4 137195 2eggA 297 7.88e+00 2ousA 331 7.92e+00 2oupA 331 7.93e+00 1zw6A 166 8.40e+00 c.37.1.8 125737 2q6fA 309 8.71e+00 1rw4A 272 8.96e+00 c.37.1.10 97962 2chmA 326 9.44e+00 a.211.1.2 130472 2c8vA 288 9.47e+00 c.37.1.10 130128 1g20E 289 9.49e+00 1cp2A c.37.1.10 32247 1tbfA 347 9.65e+00 a.211.1.2 106743 1xozA 364 9.73e+00 a.211.1.2 115719 1gnxA 479 1.03e+01 c.1.8.4 76241 1jogA 146 1.04e+01 a.24.16.2 77142 2eqnA 103 1.11e+01 2id2A 475 1.13e+01 1gz3A 554 1.13e+01 c.2.1.7 83393 c.58.1.3 83394 1tazA 365 1.16e+01 a.211.1.2 106734 1xdbA 289 1.17e+01 2fnaA 357 1.18e+01 a.4.5.11 133809 c.37.1.20 133810 2qt3A 403 1.18e+01 1euhA 475 1.20e+01 1euhA c.82.1.1 35369 1qi1A 475 1.23e+01 1euhA c.82.1.1 35381 2i14A 395 1.23e+01 c.1.17.1 136966 d.41.2.1 136967 2qe0A 475 1.25e+01 1gz4A 551 1.27e+01 c.2.1.7 70794 c.58.1.3 70795 1pj3A 564 1.27e+01 c.2.1.7 94726 c.58.1.3 94727 1qr6A 584 1.27e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1xd8A 289 1.31e+01 2afhE 289 1.32e+01 c.37.1.10 126683 2o57A 297 1.39e+01 2iecA 131 1.39e+01 d.316.1.1 137300 1de0A 289 1.41e+01 1cp2A c.37.1.10 32255 1b7yB 785 1.54e+01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 b.153.1.1 41456 d.58.13.1 39311 d.104.1.1 40780 1pysB 785 1.54e+01 1pysB a.6.1.1 16299 a.6.1.1 16300 b.40.4.4 25311 b.153.1.1 41455 d.58.13.1 39310 d.104.1.1 40779 2iy5B 785 1.54e+01 a.6.1.1 137794 a.6.1.1 137795 b.40.4.4 137796 b.153.1.1 137797 d.58.13.1 137798 d.104.1.1 137799 1pbvA 195 1.63e+01 a.118.3.1 19179 3behA 355 1.63e+01 2btoA 473 1.67e+01 1sqhA 312 1.68e+01 d.108.1.5 98966 1oryA 130 1.77e+01 a.24.19.1 93466 1o22A 170 1.78e+01 d.238.1.1 86557 2oauA 306 1.80e+01 b.38.1.3 138978 d.58.43.1 138979 f.34.1.1 138980 2v7fA 150 1.82e+01 1orjA 130 1.88e+01 a.24.19.1 93456 1f5rA 231 1.90e+01 5ptp b.47.1.2 59654 1pnu2 46 1.92e+01 1nkw2 47 1.93e+01 2d68A 82 1.97e+01 1voqa 90 1.99e+01 3tgiE 223 2.02e+01 5ptp b.47.1.2 25976 2r0hA 164 2.02e+01 1ancA 223 2.03e+01 b.47.1.2 25982 1dpoA 223 2.03e+01 b.47.1.2 25975 2aw5A 575 2.03e+01 1yldA 223 2.08e+01 b.47.1.2 123646 1l4sA 112 2.08e+01 d.204.1.1 77693 1anbA 223 2.08e+01 b.47.1.2 25998 1amhA 223 2.08e+01 5ptp b.47.1.2 25994 1n3gA 113 2.09e+01 d.204.1.1 79962 1brbE 223 2.10e+01 5ptp b.47.1.2 25983 1fy8E 231 2.11e+01 5ptp b.47.1.2 25978 1f7zA 233 2.14e+01 5ptp b.47.1.2 59681 2e4gA 550 2.15e+01 3tgkE 231 2.19e+01 5ptp b.47.1.2 63338 1rhdA 293 2.20e+01 c.46.1.2 32715 c.46.1.2 32716 1zs7A 190 2.20e+01 b.122.1.1 125593 d.17.6.4 125594 3tgjE 233 2.21e+01 5ptp b.47.1.2 25992 1qv9A 283 2.24e+01 c.127.1.1 96356 1ql9A 223 2.36e+01 5ptp b.47.1.2 25986 2dumA 170 2.38e+01 1z6tA 591 2.41e+01 1dp2A 293 2.44e+01 1rhs c.46.1.2 32705 c.46.1.2 32706 1rhsA 296 2.46e+01 c.46.1.2 32703 c.46.1.2 32704 1j16A 223 2.54e+01 b.47.1.2 77054 1mmnA 762 2.64e+01 b.34.3.1 24582 c.37.1.9 32179 2cx1A 187 2.67e+01 b.122.1.1 130967 d.17.6.4 130968 1s1iE 222 2.68e+01 i.1.1.1 105179 1rfnA 235 2.73e+01 5ptp b.47.1.2 26354 1qsdA 106 2.74e+01 1qsdA a.7.5.1 16335 1i2kA 269 2.74e+01 e.17.1.1 90661 1et0A 269 2.74e+01 1et0A e.17.1.1 43289 1slwB 223 2.77e+01 5ptp b.47.1.2 25979 1rkpA 326 2.78e+01 a.211.1.2 97620 3b2rA 330 2.78e+01 1udtA 324 2.78e+01 a.211.1.2 99221 2h44A 326 2.78e+01 a.211.1.2 136069 1t9rA 366 2.79e+01 a.211.1.2 106725 1w9iA 770 2.82e+01 1w9jA 770 2.85e+01 1s57A 153 2.85e+01 d.58.6.1 112028 1wa9A 368 2.89e+01 1sluB 223 2.99e+01 5ptp b.47.1.2 25977 1ituA 369 3.01e+01 c.1.9.7 71423 1d9xA 658 3.03e+01 1d2mA c.37.1.19 32419 c.37.1.19 32420 2b0jA 358 3.03e+01 a.100.1.11 127639 c.2.1.6 127640 1d9zA 657 3.08e+01 1d2mA c.37.1.19 32421 c.37.1.19 32422 1andA 223 3.13e+01 b.47.1.2 25985 2j7tA 302 3.13e+01 1rw6A 210 3.14e+01 a.47.4.1 105113 2occG 84 3.17e+01 2occG f.23.2.1 43522 2fdcA 658 3.17e+01 c.37.1.19 133302 c.37.1.19 133303 1mb4A 370 3.19e+01 c.2.1.3 78908 d.81.1.1 78909 1rp0A 284 3.19e+01 c.3.1.6 118782 2rjoA 332 3.19e+01 2o8rA 705 3.22e+01 a.7.15.1 138933 d.322.1.2 138934 d.136.1.4 138935 d.136.1.4 138936 1t5lA 658 3.23e+01 c.37.1.19 106455 c.37.1.19 106456 1v54G 85 3.25e+01 f.23.2.1 100328 1egzA 291 3.27e+01 7a3hA c.1.8.3 28828 1fmvA 761 3.27e+01 1lvk b.34.3.1 24580 c.37.1.9 32177 1yv3A 762 3.29e+01 1d0yA 761 3.30e+01 1lvk b.34.3.1 24581 c.37.1.9 32178 1mmaA 762 3.31e+01 b.34.3.1 24587 c.37.1.9 32184 1r8mE 203 3.33e+01 a.118.3.1 97242 3bjcA 878 3.36e+01 1vomA 762 3.41e+01 b.34.3.1 24577 c.37.1.9 32174 1yn5A 103 3.43e+01 1w9kA 770 3.44e+01 1u6zA 513 3.53e+01 a.211.1.5 119608 c.55.1.8 119609 c.55.1.8 119610 2akaA 776 3.55e+01 1jx2A 776 3.56e+01 b.34.3.1 67402 c.37.1.9 67403 1mmgA 762 3.57e+01 b.34.3.1 24579 c.37.1.9 32176 1eyxA 164 3.58e+01 1cpcA a.1.1.3 15669 2nm1A 436 3.59e+01 b.29.1.6 138369 b.42.4.2 138370 1lvkA 762 3.59e+01 b.34.3.1 24576 c.37.1.9 32173 2floA 524 3.60e+01 a.211.1.5 133733 c.55.1.8 133734 c.55.1.8 133735 1j8fA 323 3.63e+01 1j8fA c.31.1.5 62738 1z0hA 438 3.65e+01 b.29.1.6 124314 b.42.4.2 124315 1w9lA 770 3.66e+01 2hoeA 380 3.69e+01 a.4.5.63 136639 c.55.1.10 136640 c.55.1.10 136641 2ftcC 211 3.80e+01 1g8xA 1010 3.95e+01 1lvk k.1.1.1 46378 1r8sE 203 3.98e+01 a.118.3.1 97248