# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1q4mA 221 1.51e+00 unknown_sccs -1910 1jr3D 343 2.67e+00 a.80.1.1 63251 c.37.1.20 63252 1lrzA 426 3.66e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1g8iA 190 4.06e+00 1rec a.39.1.5 60363 1esc 306 5.53e+00 1esc c.23.10.1 31334 1hph 37 6.95e+00 1hph j.15.1.1 46159 1rfzA 168 6.99e+00 unknown_sccs -1206 1vjqA 79 7.10e+00 unknown_sccs -13478 1eiwA 111 7.38e+00 1eiwA c.23.3.1 31130 1a3qA 285 7.93e+00 1a3qA b.1.18.1 21932 b.2.5.3 22447 1et1A 34 8.49e+00 1hpy j.15.1.1 46152 1ofcX 304 8.53e+00 a.4.1.3 -195 unknown_sccs -199 unknown_sccs -978 1oh0A 131 9.94e+00 d.17.4.3 87004 1bwx 39 1.04e+01 1bwx j.15.1.1 46155 1jqjC 343 1.05e+01 a.80.1.1 67097 c.37.1.20 67098 1j0sA 157 1.06e+01 b.42.1.2 -4016 1ee9A 320 1.10e+01 1ee9A c.2.1.7 30288 c.58.1.2 33936 1uv7A 110 1.20e+01 unknown_sccs -10256 1oz9A 150 1.20e+01 unknown_sccs -10588 1m5iA 125 1.23e+01 h.4.13.1 78648 2mltA 27 1.23e+01 j.19.1.1 46171 1lizA 136 1.24e+01 1ve9A 347 1.32e+01 c.4.1.2 -6056 d.16.1.3 -9214 1eywA 331 1.44e+01 1pscA c.1.9.3 29057 1i0dA 332 1.50e+01 1pscA c.1.9.3 61487 1edzA 320 1.51e+01 1ee9A c.2.1.7 30287 c.58.1.2 33935 1fxxA 482 1.52e+01 1fxxA c.55.3.5 33726 1m6iA 493 1.52e+01 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535 1fvyA 31 1.53e+01 1fvyA j.15.1.1 46157 1ijaA 148 1.55e+01 1ijaA b.100.1.1 62484 1j0fA 100 1.57e+01 unknown_sccs -7483 1hzyA 332 1.63e+01 1pscA c.1.9.3 61468 1g24A 211 1.78e+01 1g24A d.166.1.1 42270 1kafA 108 1.88e+01 d.199.1.1 68372 1toh 343 1.92e+01 4pah d.178.1.1 42573 1pscA 365 1.95e+01 1pscA c.1.9.3 29058 1parA 53 1.95e+01 1bazA a.43.1.1 17437 1eucB 396 1.96e+01 2scuB c.23.4.1 31149 d.142.1.4 41570 1bdtA 53 2.04e+01 1bazA a.43.1.1 17433 1g0uE 234 2.05e+01 d.153.1.4 41950 1rypF 233 2.09e+01 1rypF d.153.1.4 41937 1sv0C 82 2.12e+01 1bh5A 183 2.25e+01 1qipA d.32.1.1 38476 1zwa 34 2.42e+01 j.15.1.1 46162 1eudB 396 2.44e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1od5A 492 2.50e+01 b.82.1.2 86832 b.82.1.2 86833 1fwcC 567 2.56e+01 1ubpC b.92.1.1 28410 c.1.9.2 29032 1ejrC 567 2.56e+01 1ubpC b.92.1.1 28420 c.1.9.2 29042 1uw1A 80 2.56e+01 unknown_sccs -13438 1ejxC 567 2.57e+01 b.92.1.1 83184 c.1.9.2 83185 2shpA 525 2.67e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1iioA 84 2.68e+01 a.39.4.1 66150 1ckmA 330 2.72e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1tn3 137 2.75e+01 1htn d.169.1.1 42423 1mvoA 136 2.78e+01 c.23.1.1 79513 1jl3A 139 2.91e+01 c.44.1.1 66826 1gv4A 528 2.96e+01 c.3.1.5 70589 c.3.1.5 70590 d.87.1.1 70591 1bhjA 292 3.10e+01 1xvaA c.66.1.5 34189 1an9A 340 3.13e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1gl4B 98 3.20e+01 b.1.1.4 65288 1t7pA 698 3.24e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1cknA 330 3.25e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1bco 327 3.25e+01 1bco b.48.1.1 26431 c.55.3.3 33676 1d2gA 292 3.48e+01 1xvaA c.66.1.5 34187 1k4mA 213 3.49e+01 c.26.1.3 77258 4pah 308 3.52e+01 4pah d.178.1.1 42576 1dykA 394 3.53e+01 1dykA b.29.1.4 24223 b.29.1.4 24224 1pah 308 3.54e+01 4pah d.178.1.1 42578 1r89A 437 3.63e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1dmwA 307 3.65e+01 4pah d.178.1.1 42580 1jc4A 148 3.67e+01 1jc4A d.32.1.4 62863 1iufA 144 3.79e+01 a.4.1.7 71439 a.4.1.7 71440 1uzxA 169 3.81e+01 d.20.1.2 -9409 1bcfA 158 3.94e+01 1bcfA a.25.1.1 16648 1kpuA 274 3.98e+01 b.1.1.2 84456 d.19.1.1 84457