# List of top-scoring protein chains for t2k-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 1uocA 289 4.79e-01 unknown_sccs -7671 1hw5A 210 5.85e-01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1f39A 101 7.64e-01 1umuA b.87.1.1 28386 1pkn 530 7.98e-01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1n2sA 299 8.99e-01 c.2.1.2 79857 1m6eX 359 9.33e-01 unknown_sccs -8071 1a49A 530 1.04e+00 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1mmsA 140 1.34e+00 1mmsA a.4.7.1 16247 d.47.1.1 38766 1ck7A 631 1.56e+00 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1bhtA 176 1.73e+00 1bhtA g.10.1.1 44603 g.14.1.1 44663 1kc0A 299 1.80e+00 1kzyC 259 2.16e+00 c.15.1.4 73383 c.15.1.4 73384 1o12A 376 2.22e+00 b.92.1.5 80758 c.1.9.10 80759 1gk8I 140 2.60e+00 d.73.1.1 65242 1b43A 340 3.30e+00 1a76 a.60.7.1 18092 c.120.1.2 33362 1f5qB 252 3.64e+00 1f5qB a.74.1.1 18362 a.74.1.1 18363 1edzA 320 4.06e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1jm4B 118 4.36e+00 a.29.2.1 71746 1ee9A 320 4.60e+00 1ee9A c.2.1.7 30288 c.58.1.2 33936 1fzyA 149 4.78e+00 d.20.1.1 65072 1g5aA 628 4.93e+00 b.71.1.1 65152 c.1.8.1 65153 1fdi 715 5.06e+00 2napA b.52.2.2 26918 c.81.1.1 35326 1a2vA 655 5.08e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 7catA 506 5.37e+00 1cf9A e.5.1.1 42781 1dim 381 5.60e+00 3sil b.68.1.1 27544 2nef 136 5.61e+00 1efnB d.102.1.1 40704 1pamA 686 6.18e+00 1cxlA b.1.18.2 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 1ofuA 320 6.92e+00 c.32.1.1 86972 d.79.2.1 86973 3sil 379 7.14e+00 3sil b.68.1.1 27542 1fdo 715 7.40e+00 2napA b.52.2.2 26917 c.81.1.1 35325 1c4oA 664 7.96e+00 1d2mA c.37.1.19 32415 c.37.1.19 32416 1gmnA 183 8.03e+00 g.10.1.1 65315 g.14.1.1 65316 2cgpA 210 8.10e+00 2cgpA a.4.5.4 16102 b.82.3.2 28141 1b35C 282 8.24e+00 1b35C 1e6iA 121 8.79e+00 1b91A a.29.2.1 16969 1aa6 715 9.08e+00 2napA b.52.2.2 26916 c.81.1.1 35324 2sil 381 9.20e+00 3sil b.68.1.1 27543 1ofwA 296 1.01e+01 a.138.1.1 -2035 1crwG 333 1.02e+01 1dssG c.2.1.3 30026 d.81.1.1 39941 1glcG 501 1.03e+01 1glcG c.55.1.4 33519 c.55.1.4 33520 1lv3A 68 1.06e+01 g.39.1.9 78231 1ig8A 486 1.11e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1nq6A 302 1.15e+01 c.1.8.3 -5332 1mxgA 435 1.21e+01 b.71.1.1 85193 c.1.8.1 85194 1mrg 263 1.25e+01 1mrj d.165.1.1 42183 2napA 723 1.29e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1omiA 248 1.30e+01 a.4.5.4 87079 b.82.3.3 87080 1knt 58 1.33e+01 1bpi g.8.1.1 44538 1kthA 58 1.34e+01 g.8.1.1 68863 2knt 58 1.34e+01 1bpi g.8.1.1 44537 19hcA 292 1.34e+01 19hcA a.138.1.1 19668 1cgt 684 1.35e+01 1cxlA b.1.18.2 21815 b.3.1.1 22484 b.71.1.1 27722 c.1.8.1 28709 1qm9A 198 1.35e+01 1qm9A d.58.7.1 39207 d.58.7.1 39208 1d2mA 665 1.39e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1umqA 81 1.40e+01 unknown_sccs -203 1m6bA 621 1.42e+01 c.10.2.5 74521 c.10.2.5 74522 g.3.9.1 74523 g.3.9.1 74524 1q18A 332 1.48e+01 1kaeA 434 1.49e+01 c.82.1.2 72247 1b91A 118 1.64e+01 1b91A 1k75A 434 1.68e+01 c.82.1.2 68253 1ylvA 342 1.70e+01 1b4kA c.1.10.3 29180 1toaA 313 1.73e+01 1toaA c.92.2.2 35598 1h7nA 342 1.77e+01 1b4kA c.1.10.3 60726 1f1sA 814 1.84e+01 a.102.3.2 64928 b.1.18.2 64929 b.24.1.1 64930 b.30.5.2 64931 1iznA 286 1.98e+01 e.43.1.1 83847 1efnB 152 2.03e+01 1efnB d.102.1.1 40699 1o1zA 234 2.05e+01 c.1.18.3 86555 1i8nA 126 2.07e+01 1i8nA g.10.1.2 61976 1gosA 520 2.07e+01 c.3.1.2 65425 d.16.1.5 65426 1h0oA 390 2.10e+01 a.25.1.2 70845 1jcfA 344 2.18e+01 c.55.1.1 62878 c.55.1.1 62879 1gtxA 472 2.20e+01 1gtxA 1isiA 265 2.31e+01 e.4.1.1 71394 1o0iA 138 2.32e+01 d.38.1.5 86532 1tocR 120 2.34e+01 1tocR g.8.1.2 44558 g.8.1.2 44559 1jceA 344 2.35e+01 c.55.1.1 62876 c.55.1.1 62877 2admA 421 2.39e+01 2admA c.66.1.27 34238 1rypB 250 2.42e+01 1rypB d.153.1.4 41933 1d3cA 686 2.49e+01 1cxlA b.1.18.2 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1t4hA 290 2.52e+01 1rsy 152 2.53e+01 1rsy b.7.1.2 23192 1ot1A 686 2.53e+01 b.1.18.2 87392 b.3.1.1 87393 b.71.1.1 87394 c.1.8.1 87395 1oghA 204 2.56e+01 b.85.4.1 86994 487dL 133 2.61e+01 1mmsA i.1.1.2 45839 1svpA 161 2.65e+01 1svpA b.47.1.3 26384 1mwrA 646 2.71e+01 d.17.4.5 79586 d.175.1.1 79587 e.3.1.1 79588 1fxtA 149 2.72e+01 d.20.1.1 65055 1s3eA 520 2.73e+01 c.3.1.2 -6022 d.16.1.5 -9242 1o8uA 257 2.80e+01 c.14.1.3 81194 1ohvA 472 2.81e+01 c.67.1.4 -8181 2pf1 156 2.83e+01 5hpgA g.14.1.1 44652 g.32.1.1 44968 1mwxA 646 2.88e+01 d.17.4.5 79610 d.175.1.1 79611 e.3.1.1 79612 1iirA 415 2.96e+01 1iirA c.87.1.5 62453 1j71A 334 2.97e+01 1eagA b.50.1.2 62669 1shwA 138 3.05e+01 1r2jA 366 3.10e+01 a.29.3.1 -748 e.6.1.1 -11864 1cxlA 686 3.17e+01 1cxlA b.1.18.2 21829 b.3.1.1 22498 b.71.1.1 27736 c.1.8.1 28723 1d3vA 323 3.20e+01 1d3vA c.42.1.1 32559 1ojaA 520 3.21e+01 c.3.1.2 -6000 d.16.1.5 -9220 1elwA 118 3.21e+01 1a17 a.118.8.1 19207 1euu 605 3.37e+01 1eut b.1.18.2 21892 b.18.1.1 23713 b.68.1.1 27610 1mwsA 646 3.37e+01 d.17.4.5 79592 d.175.1.1 79593 e.3.1.1 79594 1ufhA 180 3.38e+01 d.108.1.1 88485 1rxwA 336 3.44e+01 a.60.7.1 -1041 c.120.1.2 -6680 1gnd 447 3.56e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 1ir3A 306 3.60e+01 1fmk d.144.1.7 41702 1a3gA 308 3.65e+01 1daaA e.17.1.1 43286 1g8kB 133 3.66e+01 1g8jB b.33.1.1 24435 1lvk 762 3.78e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1pufA 77 3.78e+01 a.4.1.1 -191 1p49A 562 3.79e+01 c.76.1.2 -8432 1eut 605 3.82e+01 1eut b.1.18.2 21891 b.18.1.1 23712 b.68.1.1 27609 1nqzA 194 3.88e+01 d.113.1.1 86077 1h9oA 112 3.93e+01 1qadA d.93.1.1 60837 1vrtA 560 3.99e+01 1rthA c.55.3.1 33574 e.8.1.2 43023