# List of top-scoring protein chains for t2k-100-30-str 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 1e2kA 331 2.94e-01 1qhiA c.37.1.1 31854 2ki5A 366 3.67e-01 1qhiA c.37.1.1 31862 1kimA 366 4.27e-01 1qhiA c.37.1.1 31864 3vtk 343 4.48e-01 1qhiA c.37.1.1 31884 1qhiA 366 4.61e-01 1qhiA c.37.1.1 31860 1dd5A 185 1.05e+00 1dd5A d.67.3.1 39564 1h4vB 421 3.24e+00 1adjA c.51.1.1 60624 d.104.1.1 60625 1fu1A 203 4.02e+00 1fu1B b.59.1.1 27076 h.1.11.1 45630 1fu1B 203 4.36e+00 1fu1B b.59.1.1 27077 h.1.11.1 45631 1kngA 156 5.16e+00 1fvaA 217 5.36e+00 1fvaA d.58.28.1 39409 1floA 422 5.37e+00 1floA a.60.9.1 18106 d.163.1.1 42166 1b3qA 379 5.43e+00 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1rdr 461 5.71e+00 1rdr e.8.1.4 43116 1k0mA 241 6.20e+00 a.45.1.1 67949 c.47.1.5 67950 1k0nA 241 6.53e+00 a.45.1.1 67953 c.47.1.5 67954 1kkhA 317 7.24e+00 1gpjA 404 8.69e+00 a.151.1.1 65451 c.2.1.10 65452 d.58.39.1 65453 1kqfB 294 9.43e+00 1d5rA 324 9.53e+00 1d5rA b.7.1.1 23181 c.45.1.1 32697 1le6A 123 1.19e+01 1ihgA 370 1.20e+01 2cpl a.118.8.1 62380 b.62.1.1 62381 1dbiA 280 1.40e+01 1gci c.41.1.1 32543 5hpgA 84 1.41e+01 5hpgA g.14.1.1 44642 1j8mF 297 1.45e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1k89 449 1.48e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 1quuA 250 1.52e+01 1quuA a.7.1.1 16320 a.7.1.1 16321 1j58A 385 1.53e+01 1ae7 119 1.62e+01 1poa a.133.1.2 19553 1bob 320 1.62e+01 1bob d.108.1.1 40816 1atzA 189 1.67e+01 1atzA c.62.1.1 34132 1zid 268 1.75e+01 1eny c.2.1.2 29911 1clqA 903 1.84e+01 1clqA c.55.3.5 33717 e.8.1.1 43006 1ns1A 73 1.90e+01 1ail a.16.1.1 16382 1f7tA 122 1.95e+01 1f7lA d.150.1.2 59667 1e6yA 569 1.97e+01 1mroA a.89.1.1 18529 d.58.31.2 39447 1h3nA 878 2.04e+01 1mmoD 512 2.12e+01 1mhyD a.25.1.2 16770 1j7lA 264 2.15e+01 d.144.1.6 62697 1vhh 162 2.23e+01 1vhh d.65.1.2 39550 1gcyA 527 2.27e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1ail 73 2.28e+01 1ail a.16.1.1 16381 1eny 268 2.34e+01 1eny c.2.1.2 29910 1bgvA 449 2.34e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1hrdA 449 2.35e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1fvgA 199 2.65e+01 1fvaA d.58.28.1 39408 1atzB 189 2.73e+01 1atzA c.62.1.1 34133 5csmA 256 2.75e+01 5csmA a.130.1.2 19494 1qkrA 188 2.79e+01 1qkrA a.24.9.1 16628 1nglA 179 2.94e+01 1nglA b.60.1.1 27146 1tkiA 321 2.95e+01 1tkiA d.144.1.1 41638 1d3kA 329 3.03e+01 1nnt c.94.1.2 35889 1gai 472 3.05e+01 1ayx a.102.1.1 18819 1bed 181 3.10e+01 1fvkA a.44.1.1 17514 c.47.1.4 32808 1glm 470 3.15e+01 1ayx a.102.1.1 18821 1ebfA 358 3.15e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1jzxK 205 3.18e+01 i.1.1.2 67885 1cfr 285 3.21e+01 1cfr c.52.1.7 33312 1fe8A 196 3.34e+01 1atzA c.62.1.1 59783 1mroA 548 3.36e+01 1mroA a.89.1.1 18525 d.58.31.2 39443 1hbnA 549 3.48e+01 1mroA a.89.1.1 60898 d.58.31.2 60899 1dttA 560 3.53e+01 1rthA c.55.3.1 33611 e.8.1.2 43088 1e4iA 447 3.54e+01 1e70M c.1.8.4 59225 1j7iA 264 3.56e+01 1j7iA d.144.1.6 62694 1jlvA 209 3.61e+01 3chbD 104 3.65e+01 3chbD b.40.2.1 24970 1k3tA 359 3.65e+01 1acc 735 3.72e+01 1acc f.11.1.1 43828 1dh3A 55 3.75e+01 1a02J h.1.3.1 45546 1knt 58 3.79e+01 1bpi g.8.1.1 44538 1fp4A 492 3.81e+01 1napA 70 3.81e+01 1tvxA d.9.1.1 37445 1cof 143 3.88e+01 1cof d.109.1.2 40860