# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-scores 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 1xngA 268 1.18e-01 1qwdA 177 3.06e+00 b.60.1.1 96471 1hgxA 183 3.52e+00 1tc1A c.61.1.1 34027 2a2pA 129 3.89e+00 1kijA 390 3.93e+00 d.14.1.3,d.122.1.2 72514,72515 2ew2A 316 4.88e+00 1ew3A 159 5.19e+00 1mup b.60.1.1 27114 1xzoA 174 5.52e+00 1gpmA 525 5.61e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1ih8A 271 6.63e+00 2nsyA c.26.2.1 62377 1g0sA 209 6.64e+00 1g0sA d.113.1.1 60187 1qtfA 246 6.90e+00 1agjA b.47.1.1 25830 1l8nA 679 8.63e+00 c.1.8.10,d.92.2.2 84564,84565 1hq3D 103 8.88e+00 1aoiB a.22.1.1 16464 1tzyD 103 8.88e+00 a.22.1.1 107533 2cokA 113 9.06e+00 1aoiB 87 9.13e+00 1aoiB a.22.1.1 16470 1nslA 184 9.62e+00 d.108.1.1 86137 1bymA 97 9.99e+00 1bi0 b.34.1.2 24458 1aoiF 87 1.01e+01 1aoiB a.22.1.1 16471 1kx5B 102 1.04e+01 a.22.1.1 77594 1xl3C 92 1.07e+01 1id3B 102 1.15e+01 a.22.1.1 66113 1r26A 125 1.27e+01 c.47.1.1 96847 1pmzA 86 1.28e+01 a.39.1.10 104195 1vetA 124 1.28e+01 d.110.7.1 108553 1p5dX 463 1.31e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1xcbA 211 1.31e+01 a.4.5.38,c.2.1.12 109552,109553 1u6zA 513 1.32e+01 1iloA 77 1.32e+01 c.47.1.1 66205 1z5yE 149 1.44e+01 1kn0A 212 1.87e+01 d.50.1.3 77444 1goh 639 1.89e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21809,23711,27633 1kqpA 271 1.95e+01 c.26.2.1 72883 1yezA 68 1.97e+01 1k3iA 656 2.00e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1nsyA 271 2.09e+01 2nsyA c.26.2.1 31614 2nsyA 271 2.09e+01 2nsyA c.26.2.1 31612 2axcA 264 2.12e+01 1x0pA 143 2.14e+01 1j5uA 136 2.17e+01 d.208.1.1 71584 1qr4A 186 2.19e+01 1qr4B b.1.2.1,b.1.2.1 21986,21987 1rznA 205 2.36e+01 1u24A 337 2.37e+01 1zp7A 206 2.37e+01 1qr4B 186 2.37e+01 1qr4B b.1.2.1,b.1.2.1 21988,21989 1vquA 374 2.50e+01 1k9dA 679 2.53e+01 c.1.8.10,d.92.2.2 77292,77293 1dywA 173 2.54e+01 2cpl b.62.1.1 27505 1gof 639 2.65e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1k2yX 463 2.88e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1xewX 182 2.89e+01 1eo9A 209 2.92e+01 3pchA b.3.6.1 22731 1skoA 143 2.93e+01 d.110.7.1 105676 1qtnA 164 3.01e+01 1pauA c.17.1.1 30999 1ud9A 245 3.02e+01 d.131.1.2,d.131.1.2 107768,107769 1kmmA 424 3.10e+01 1adjA c.51.1.1,d.104.1.1 33174,40723 1lfpA 249 3.19e+01 e.39.1.1 73885 2bitX 165 3.27e+01 1i6uA 130 3.34e+01 d.140.1.1 61850 1zljA 78 3.38e+01 1fxoA 293 3.48e+01 1g0rA c.68.1.6 34524 1y1oA 203 3.48e+01 1l1nA 183 3.50e+01 b.47.1.4 73476 1a8l 226 3.56e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1gm6A 175 3.58e+01 b.60.1.1 70272 1g0rA 293 3.61e+01 1g0rA c.68.1.6 34532 1j08A 226 3.71e+01 c.47.1.2,c.47.1.2 83855,83856 1ni5A 433 3.74e+01 c.26.2.5,d.229.1.1 80533,80534 1qmeA 702 3.75e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1widA 130 3.75e+01 2aotA 292 3.94e+01 1wdcC 156 4.18e+01 1wdcC a.39.1.5 17317 1jqeA 292 4.22e+01 c.66.1.19 71789 1uvzA 119 4.25e+01 1asx 159 4.26e+01 1a6dA c.8.5.2 30821 1w4vA 119 4.29e+01 2c46A 241 4.52e+01 1cwoA 165 4.58e+01 2cpl b.62.1.1 27445 1ebdC 41 4.66e+01 1ebdC a.9.1.1 16355 1i45A 248 4.66e+01 1amk c.1.1.1 61665 1neyA 247 4.70e+01 c.1.1.1 80449 2pdd 43 4.70e+01 1ebdC a.9.1.1 16358 1fdr 248 4.74e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 2polA 366 4.78e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 1eljA 381 4.80e+01 4mbp c.94.1.1 35791 1qw1A 121 4.84e+01 2cvlA 124 4.90e+01 2gcuA 245 5.00e+01 1e42A 258 5.12e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1tif 78 5.24e+01 1tif d.15.8.1 37836 1ibvB 229 5.30e+01 7timA 247 5.31e+01 1amk c.1.1.1 28457 1ut7A 171 5.40e+01 b.143.1.1 99906 1ass 159 5.41e+01 1a6dA c.8.5.2 30818 1pyaB 228 5.42e+01 1pyaB 1sk7A 198 5.44e+01 a.132.1.2 105671 1st9A 143 5.46e+01 c.47.1.10 98987 1wdcB 156 5.48e+01 1wdcB a.39.1.5 17302 1a6dA 545 5.50e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 2f9sA 151 5.66e+01 1xvwA 160 5.67e+01 1ywhA 313 5.70e+01 1cb8A 678 5.73e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1befA 181 5.90e+01 1befA b.47.1.3 26419 1dctA 324 5.98e+01 6mhtA c.66.1.26 34244 1qk3A 233 6.04e+01 1qk3A c.61.1.1 34031 2g76A 335 6.07e+01 2cpl 165 6.22e+01 2cpl b.62.1.1 27420 2c30A 321 6.25e+01 1u55A 188 6.34e+01 d.278.1.1 107677 1zmaA 118 6.36e+01 1vddA 228 6.38e+01 e.49.1.1 108519 1zud2 66 6.42e+01 1jmmA 377 6.48e+01 b.30.6.1 71749 1hjrA 158 6.60e+01 1hjrA c.55.3.6 33727 1lvwA 295 6.67e+01 c.68.1.6 84723 2g30A 258 6.68e+01 1v9nA 360 6.75e+01 1fnhA 271 6.75e+01 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 1eudB 396 6.90e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1eucB 396 6.92e+01 2scuB c.23.4.1,d.142.1.4 31149,41570 1w85I 49 7.00e+01 1mmiA 366 7.09e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1ecfA 504 7.12e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1zdyA 307 7.14e+01 2bh1X 96 7.21e+01 1ecfB 504 7.25e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 2atxA 194 7.25e+01 2blnA 305 7.32e+01 1dzlA 505 7.40e+01 1dzlA b.121.6.1 23586 1hm2A 700 7.41e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 61083,61084,61085 1riqA 465 7.44e+01 a.203.1.1,d.104.1.1 97516,97517 1wy5A 317 7.48e+01 1x0vA 354 7.71e+01 1i9sA 210 7.72e+01 1i9sA c.45.1.1 62099 1kwgA 645 7.76e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1g8jA 825 7.78e+01 1g8jA b.52.2.2,c.81.1.1 26924,35332 1kwkA 645 7.84e+01 b.71.1.1,c.1.8.1,c.23.16.5 77565,77566,77567 1oxsC 353 7.84e+01 b.40.6.3,c.37.1.12 87519,87520 1n4kA 381 7.92e+01 a.118.22.1,b.42.6.1 79992,79993 1a6dB 543 7.96e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19489,30820,38937 1kskA 234 8.00e+01 d.66.1.5,d.265.1.3 72920,90389 2absA 383 8.06e+01 1o4sA 389 8.17e+01 c.67.1.1 86620 1lvl 458 8.18e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 1h6kX 97 8.23e+01 d.58.7.1 60684 1kk8B 139 8.37e+01 a.39.1.5 77430 1rsgA 516 8.43e+01 3gcb 470 8.53e+01 3gcb d.3.1.1 37032 1wu7A 434 8.56e+01 1g8kA 825 8.64e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1zpsA 138 8.71e+01 1e6mA 128 8.75e+01 3chy c.23.1.1 31039 2awaA 390 8.79e+01 2prd 174 8.83e+01 2prd b.40.5.1 25435 1jeqA 609 8.89e+01 1jeqA a.140.2.1,b.131.1.1,c.62.1.3 64748,90366,90367 2fp4B 395 8.99e+01 1yndA 165 8.99e+01 1jbeA 128 8.99e+01 3chy c.23.1.1 62845 1nw3A 416 8.99e+01 c.66.1.31 86288