# 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 1svy 114 3.26e+00 1svy d.109.1.1 40831 1f15A 218 4.14e+00 1f15B b.121.4.5 23320 1svq 114 4.69e+00 1svy d.109.1.1 40832 1k42A 168 6.28e+00 b.18.1.14 72032 1on0A 158 6.49e+00 d.108.1.1 87095 1nykA 165 8.69e+00 b.33.1.1 86408 1lcl 142 1.10e+01 1lcl b.29.1.3 24216 1kcqA 104 1.13e+01 d.109.1.1 68449 1ky3A 182 1.20e+01 c.37.1.8 73193 1dkxA 219 1.24e+01 1dkzA unknown_sccs -446 unknown_sccs -3061 1hdkA 141 1.30e+01 b.29.1.3 65807 1g86A 142 1.31e+01 b.29.1.3 70161 1si7A 369 1.36e+01 unknown_sccs -10163 1f15B 218 1.47e+01 1f15B b.121.4.5 23321 1svr 114 1.47e+01 1svy d.109.1.1 40833 2aop 497 1.48e+01 2aop d.58.36.1 39503 d.58.36.1 39504 d.134.1.1 41427 d.134.1.1 41428 1ufhA 180 1.54e+01 d.108.1.1 88485 1m1lA 236 1.56e+01 unknown_sccs -11674 1aop 497 1.57e+01 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1uvjA 664 1.68e+01 e.8.1.6 -11964 1s72X 92 1.69e+01 1m1cA 680 1.73e+01 e.42.1.1 78395 1nciA 110 1.84e+01 1edhA b.1.6.1 22191 1hi0P 664 1.99e+01 1hi0P e.8.1.6 61051 8ohm 435 2.09e+01 1heiA c.37.1.14 32469 c.37.1.14 32470 1bpoA 494 2.10e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1jj2W 91 2.17e+01 1ffkU d.29.1.1 63108 1e19A 314 2.32e+01 1b7bA c.73.1.1 34967 1j7xA 302 2.39e+01 c.14.1.2 66425 1pyfA 312 2.42e+01 c.1.7.1 -5251 1jg8A 347 2.44e+01 1jg8A c.67.1.1 62946 1m6sA 347 2.44e+01 c.67.1.1 78701 1dkzA 219 2.54e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1pfjA 108 2.62e+01 1boy 219 2.73e+01 1boy b.1.2.1 21955 b.1.2.1 21956 1jhnA 424 2.78e+01 b.29.1.12 70060 b.104.1.1 66722 1bo1A 416 2.78e+01 1bo1A d.143.1.2 41591 1hhsA 664 2.98e+01 1hi0P e.8.1.6 61045 1jofA 365 3.08e+01 b.69.10.1 71775 1heiA 451 3.11e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 1bpr 191 3.18e+01 1dkzA unknown_sccs 43319 1ncg 110 3.20e+01 1edhA b.1.6.1 22193 1jeyA 609 3.22e+01 1jeqA unknown_sccs -4426 unknown_sccs -7990 1bj8 109 3.28e+01 1bquA b.1.2.1 22070 1kngA 156 3.30e+01 c.47.1.10 72777 1bjt 793 3.31e+01 1bjt e.11.1.1 43249 1neu 124 3.34e+01 1neu b.1.1.1 19704 1ixmB 192 3.38e+01 1ixmA d.123.1.1 41115 2hft 218 3.47e+01 1boy b.1.2.1 21951 b.1.2.1 21952 1q3kA 259 3.62e+01 unknown_sccs -6335 1an9A 340 3.62e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1s4bP 674 3.63e+01 1g7sA 594 3.66e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1mdoA 393 3.66e+01 c.67.1.4 79013 1j5wA 298 3.83e+01 d.104.1.1 71589 1i06A 180 3.87e+01 1mup b.60.1.1 27131 1rp4A 389 3.88e+01 1qwdA 177 3.93e+01 b.60.1.1 -4455