# 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.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 1fxkC 133 3.98e-02 1fxkC a.2.5.1 15702 1xxcA 78 4.65e+00 1xxaA d.74.2.1 39712 1xxaA 78 4.65e+00 1xxaA d.74.2.1 39700 1xxbA 78 4.65e+00 1xxaA d.74.2.1 39706 1fdw 327 4.78e+00 1fds c.2.1.2 29845 1a27 289 5.28e+00 1fds c.2.1.2 29839 1fdt 327 5.71e+00 1fds c.2.1.2 29841 1fds 327 5.71e+00 1fds c.2.1.2 29838 1bhs 327 5.72e+00 1fds c.2.1.2 29840 1iol 327 6.94e+00 1fds c.2.1.2 29842 1fduC 327 7.13e+00 1fds c.2.1.2 29850 1i6zA 135 7.80e+00 a.7.7.1 61861 1dciA 275 7.88e+00 1dciA c.14.1.3 30918 1f5mB 180 7.97e+00 1f5mB d.110.2.1 40896 1f5mA 180 7.97e+00 1f5mB d.110.2.1 40895 1jssA 224 8.35e+00 1im2A 444 9.04e+00 1do0A c.37.1.13 62564 1edzA 320 9.75e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1ee9A 320 9.75e+00 1ee9A c.2.1.7 30288 c.58.1.2 33936 1hbnB 442 1.07e+01 1mroB a.89.1.1 60900 d.58.31.2 60901 1mroB 442 1.07e+01 1mroB a.89.1.1 18531 d.58.31.2 39449 1kq3A 376 1.16e+01 e.22.1.2 68790 1ezfA 340 1.22e+01 1ezfA a.128.1.2 19440 1fntC 245 1.22e+01 1gmeA 151 1.23e+01 b.15.1.1 65305 1hnnA 282 1.24e+01 c.66.1.15 65895 1rypC 244 1.26e+01 1rypC d.153.1.4 41934 1kj6A 45 1.26e+01 1g38A 393 1.30e+01 2admA c.66.1.10 60235 1fwxA 595 1.36e+01 b.6.1.4 60069 b.69.3.1 60070 1b43A 340 1.38e+01 1a76 a.60.7.1 18092 c.53.1.2 33362 2admA 421 1.39e+01 2admA c.66.1.10 34238 1aqjB 421 1.40e+01 2admA c.66.1.10 34243 1lxa 262 1.53e+01 1lxa b.81.1.1 28052 1bkpA 278 1.55e+01 1bkpA d.117.1.1 41029 1b02A 279 1.55e+01 1bkpA d.117.1.1 41035 1qgpA 77 1.56e+01 1qbjA a.4.5.19 16158 1qhlA 227 1.59e+01 1qhlA c.37.1.12 32382 1g1cA 99 1.62e+01 b.1.1.4 65078 1f5sA 211 1.66e+01 1f5sA c.108.1.4 59656 1j97A 211 1.67e+01 1f5sA c.108.1.4 62753 1l7oA 211 1.69e+01 1l7mA 211 1.69e+01 1vdc 333 1.74e+01 1trb c.3.1.5 30545 c.3.1.5 30546 1bouB 302 1.97e+01 1bouB c.56.6.1 33859 1f3lA 321 2.20e+01 1g6q2 c.66.1.6 59630 1g21E 289 2.31e+01 1cp2A c.37.1.10 32265 1tkaA 678 2.38e+01 1trkA c.36.1.2 31815 c.36.1.2 31816 c.48.1.1 33096 1ay0A 680 2.38e+01 1trkA c.36.1.2 31823 c.36.1.2 31824 c.48.1.1 33100 1gpuA 680 2.38e+01 c.36.1.2 65454 c.36.1.2 65455 c.48.1.1 65456 1trkA 680 2.38e+01 1trkA c.36.1.2 31803 c.36.1.2 31804 c.48.1.1 33090 1i36A 264 2.40e+01 1g41A 444 2.55e+01 1do0A c.37.1.13 32450 1b4fA 82 2.63e+01 1b4fA a.60.1.2 17934 1b4fG 82 2.63e+01 1b4fA a.60.1.2 17940 1f0mA 82 2.63e+01 1b4fA a.60.1.2 17942 1dixA 208 2.65e+01 1bk7A d.124.1.1 41122 1ebbA 202 2.67e+01 c.60.1.1 64900 1hfeL 421 3.06e+01 1fehA c.96.1.1 36018 d.58.1.5 39001 1gtxA 472 3.11e+01 1gtxA c.67.1.4 34464 1iruB 233 3.47e+01 1b8dB 177 3.52e+01 1qgwC a.1.1.3 15666 3minC 491 3.60e+01 1qguA c.92.2.3 35607 2minA 491 3.60e+01 1qguA c.92.2.3 35609 1g20A 492 3.61e+01 1qguA c.92.2.3 35613 1ygpA 879 3.73e+01 1a8i c.87.1.4 35540 1tde 316 3.74e+01 1trb c.3.1.5 30531 c.3.1.5 30532 1cl0A 320 3.79e+01 1trb c.3.1.5 30535 c.3.1.5 30536 1ffkF 157 3.79e+01 1ffkF d.41.4.1 38628