# 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 1cwoA 165 9.26e-36 2cpl b.62.1.1 27445 2cpl 165 1.39e-35 2cpl b.62.1.1 27420 1awqA 164 1.90e-35 2cpl b.62.1.1 27461 1awsA 164 2.06e-35 2cpl b.62.1.1 27431 1dywA 173 2.60e-34 2cpl b.62.1.1 27505 1ihgA 370 1.84e-32 2cpl a.118.8.1 62380 b.62.1.1 62381 1qoiA 177 6.72e-32 2cpl b.62.1.1 27490 2rmcA 182 1.53e-31 2cpl b.62.1.1 27491 1a58 177 2.25e-31 2cpl b.62.1.1 27495 1lopA 164 1.61e-21 2cpl b.62.1.1 27510 1e6oH 219 2.81e+00 1igtB b.1.1.1 20495 b.1.1.2 21453 8fabB 224 2.90e+00 1igtB b.1.1.1 19773 b.1.1.2 20883 1tvdA 116 2.97e+00 1tvdA b.1.1.1 20650 1fa0B 537 3.89e+00 1fa0B d.58.16.1 39336 e.9.1.2 43230 1ewnA 219 4.82e+00 1bnkA b.46.1.2 25762 1eerB 227 5.08e+00 1eerB b.1.2.1 22011 b.1.2.1 22012 1dc1A 323 5.31e+00 1dc1A c.52.1.11 33321 1hxmD 242 5.44e+00 b.1.1.1 61373 b.1.1.2 61374 1e8gA 560 5.78e+00 1qltA d.58.32.1 39455 d.145.1.1 41718 1an8 208 5.96e+00 1an8 b.40.2.2 25202 d.15.6.1 37791 1qltA 560 7.37e+00 1qltA d.58.32.1 39457 d.145.1.1 41720 1agx 331 7.70e+00 4pgaA c.88.1.1 35564 1jhfA 202 7.76e+00 a.4.5.2 63057 b.87.1.1 63058 1tl2A 236 8.44e+00 1tl2A b.67.1.1 27541 1ffk1 177 8.71e+00 1ffk1 1hilB 220 8.89e+00 1igtB b.1.1.1 19787 b.1.1.2 20897 1dnlA 199 1.12e+01 1ci0A b.45.1.1 25753 1gggB 226 1.17e+01 1lst c.94.1.1 35818 1b04A 318 1.19e+01 1b04A d.142.2.2 41579 1aps 98 1.25e+01 2acy d.58.10.1 39299 1bnkA 216 1.26e+01 1bnkA b.46.1.2 25765 1cr5A 189 1.27e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1gmpA 96 1.28e+01 1rgeA d.1.1.1 36036 1rgeA 96 1.31e+01 1rgeA d.1.1.1 36028 1qcsA 211 1.32e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1wdnA 226 1.37e+01 1lst c.94.1.1 35816 1vaoA 560 1.50e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 1qubA 319 1.50e+01 1qubA g.18.1.1 44863 g.18.1.1 44864 g.18.1.1 44865 g.18.1.1 44866 g.18.1.1 44867 35c8H 217 1.52e+01 8fabA b.1.1.1 20297 b.1.1.2 21289 1bh5A 183 1.53e+01 1qipA d.32.1.1 38476 1gw5S 142 1.75e+01 1ciy 590 1.76e+01 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1eesA 178 1.92e+01 1eesA c.37.1.8 32073 1kskA 234 1.95e+01 1jer 138 2.04e+01 2cbp b.6.1.1 23022 1eur 365 2.04e+01 1eut b.68.1.1 27607 1j5eC 239 2.07e+01 2phh 394 2.13e+01 1pbe c.3.1.2 30353 d.16.1.2 37884 1rom 403 2.15e+01 1rom a.104.1.1 18963 1et9A 204 2.16e+01 1an8 b.40.2.2 25204 d.15.6.1 37793 1f24A 402 2.18e+01 1rom a.104.1.1 18953 1jfbA 404 2.19e+01 a.104.1.1 66624 2ncm 99 2.23e+01 2ncm b.1.1.4 21703 830cA 168 2.23e+01 1ck7A d.92.1.11 40400 9apiA 347 2.28e+01 1ovaA e.1.1.1 42630 1f39A 101 2.36e+01 1umuA b.87.1.1 28386 1a0sP 413 2.39e+01 1a0tP f.4.3.2 43797 1rypK 198 2.40e+01 d.153.1.4 41879 3cd4 182 2.43e+01 1cdy b.1.1.1 19720 b.1.1.3 21659 1mlcB 218 2.44e+01 1igtB b.1.1.1 20053 b.1.1.2 21095 1dhr 241 2.48e+01 1dhr c.2.1.2 29832 2kaiA 80 2.51e+01 2pkaA b.47.1.2 26306 1qlpA 394 2.54e+01 1ovaA e.1.1.1 42628 2pkaA 80 2.55e+01 2pkaA b.47.1.2 26302 1hfs 160 2.66e+01 1hfc d.92.1.11 40370 1k0iA 394 2.68e+01 c.3.1.2 67942 d.16.1.2 67943 1hy7A 173 2.69e+01 d.92.1.11 65957 1c4rA 182 2.81e+01 1c4rA b.29.1.4 24229 1e5eA 404 2.82e+01 1ibjA c.67.1.3 59265 1jdfA 447 2.83e+01 c.1.11.2 62897 d.54.1.1 62898 1ck7A 631 2.87e+01 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 1ijqA 316 2.94e+01 1ijqA b.68.5.1 62506 g.3.11.1 62507 4gcr 174 3.03e+01 1amm b.11.1.1 23589 b.11.1.1 23590 1gc1H 229 3.10e+01 1gc1H b.1.1.1 20265 b.1.1.2 21265 1ja1A 622 3.11e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1ec7A 446 3.12e+01 1bqg c.1.11.2 29218 d.54.1.1 38862 1l1oC 181 3.14e+01 1ffyA 917 3.26e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 3.26e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1acf 125 3.27e+01 3nul d.110.1.1 40882 1a0tP 413 3.29e+01 1a0tP f.4.3.2 43794 1befA 181 3.33e+01 1befA b.47.1.3 26419 1amm 174 3.36e+01 1amm b.11.1.1 23587 b.11.1.1 23588 1qmtA 134 3.37e+01 7rsa d.5.1.1 37290 1a8i 842 3.41e+01 1a8i c.87.1.4 35490 1fjgC 239 3.45e+01 1fjfC d.52.3.1 38831 d.53.1.1 38839 1ixxA 129 3.46e+01 1ixxB d.169.1.1 42335 1atg 231 3.46e+01 1atg c.94.1.1 35834 1djnA 729 3.49e+01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1prn 289 3.56e+01 3prn f.4.3.1 43762 1a8p 258 3.61e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1k2fA 190 3.64e+01 b.8.1.2 68054 1j7nB 776 3.73e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 2pii 112 3.73e+01 2pii d.58.5.1 39071 3prn 289 3.75e+01 3prn f.4.3.1 43761 1c8kA 842 3.79e+01 1a8i c.87.1.4 35491 1uox 296 3.80e+01 1uox d.96.1.4 40673 d.96.1.4 40674 1ddt 535 3.86e+01 1ddt b.2.1.1 22379 d.166.1.1 42241 f.1.2.1 43384 1jpc 109 3.87e+01 1b2pA b.78.1.1 27986 1ezvB 352 3.95e+01 1ezvB d.185.1.1 59543 d.185.1.1 59544