# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 1b9zA 516 8.01e-01 1b9zA b.3.1.1,c.1.8.1 22528,28798 1itcA 516 9.34e-01 b.3.1.1,c.1.8.1 83705,83706 1vemA 516 1.30e+00 1rfeA 162 1.33e+00 2d2jA 329 3.07e+00 1bccD 241 4.25e+00 1be3D a.3.1.3,f.23.11.1 15959,43698 5bcaA 516 4.72e+00 1b9zA b.3.1.1,c.1.8.1 22529,28799 1zi8A 236 6.09e+00 2fw2A 260 7.78e+00 1ht9A 76 8.93e+00 4icb a.39.1.1 61252 1htjF 210 9.03e+00 1htjF a.91.1.1 61254 1sh0A 510 9.14e+00 e.8.1.4 98876 1eywA 331 9.81e+00 1pscA c.1.9.3 29057 2gtrA 261 9.83e+00 2fbmA 291 9.94e+00 1pta 318 1.01e+01 1pscA c.1.9.3 29064 2d0iA 333 1.03e+01 1hzyA 332 1.09e+01 1pscA c.1.9.3 61468 1i0dA 332 1.09e+01 1pscA c.1.9.3 61487 1pscA 365 1.12e+01 1pscA c.1.9.3 29058 1rxr 83 1.16e+01 2nllB g.39.1.2 45114 1nmoA 247 1.17e+01 c.135.1.1 91980 1b1gA 75 1.24e+01 1psrA a.39.1.1 17151 1ezvD 245 1.26e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 1nlfA 279 1.30e+01 c.37.1.11 85850 2f4mA 295 1.31e+01 1esgA 213 1.33e+01 1bam c.52.1.3 33286 1kb9D 246 1.41e+01 a.3.1.3,f.23.11.1 77317,77318 1i56A 130 1.41e+01 d.2.1.2 66033 1qqyA 130 1.41e+01 3lzt d.2.1.2 36586 1xmxA 385 1.45e+01 1kyoD 248 1.47e+01 a.3.1.3,f.23.11.1 73254,73255 1ggvA 232 1.51e+01 1din c.69.1.9 34683 2b43A 526 1.53e+01 1obdA 306 1.70e+01 d.143.1.1 86767 1si6X 282 1.75e+01 1dszB 85 1.88e+01 2nllB g.39.1.2 45108 2azeB 106 2.04e+01 1h65A 270 2.05e+01 c.37.1.8 65640 1y21A 282 2.26e+01 1din 236 2.29e+01 1din c.69.1.9 34682 1knwA 425 2.35e+01 b.49.2.3,c.1.6.1 90969,90970 1ogiA 303 2.42e+01 b.43.4.2,c.25.1.1 92914,92915 1ntfA 282 2.45e+01 d.151.1.2 92104 1fggA 261 2.45e+01 1fggA c.68.1.7 34576 4icb 76 2.48e+01 4icb a.39.1.1 17145 1pjqA 457 2.50e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 2b5oA 402 2.53e+01 1qhhA 167 2.57e+01 1pjr c.37.1.19 32393 2ar0A 541 2.71e+01 2gqrA 237 2.73e+01 1oyjA 231 2.74e+01 a.45.1.1,c.47.1.5 87597,87598 1be3D 241 2.80e+01 1be3D a.3.1.3,f.23.11.1 15955,43666 1a48 306 2.96e+01 1a48 d.143.1.1 41590 1yyaA 250 2.96e+01 1kwsA 261 3.03e+01 c.68.1.7 73083 1zy4A 303 3.04e+01 1at0 145 3.06e+01 1at0 b.86.1.1 28374 2apr 325 3.07e+01 2er7E b.50.1.2 26819 1ig5A 75 3.10e+01 4icb a.39.1.1 62363 1bam 213 3.14e+01 1bam c.52.1.3 33285 3aprE 325 3.14e+01 2er7E b.50.1.2 26820 1ppjD 241 3.21e+01 a.3.1.3,f.23.11.1 104258,104259 3icb 75 3.32e+01 4icb a.39.1.1 17147 1by4A 82 3.33e+01 2nllB g.39.1.2 45110 1ccwB 483 3.36e+01 1cb7B c.1.19.2 29646 1f6bA 198 3.37e+01 c.37.1.8 64986 3hhrB 203 3.45e+01 1axiB b.1.2.1,b.1.2.1 22005,22006 1cb7B 483 3.48e+01 1cb7B c.1.19.2 29648 1mfiA 114 3.49e+01 1dptA d.80.1.3 39856 1am1 213 3.61e+01 1yer d.122.1.1 41095 1ewsA 32 3.65e+01 1ewsA g.9.1.1 59534 2btiA 63 3.70e+01 1q5hA 147 3.72e+01 b.85.4.1 95893 1lkxA 697 3.73e+01 c.37.1.9 73981 1pnsB 234 3.74e+01 i.1.1.1 88169 1amw 214 3.79e+01 1yer d.122.1.1 41093 1c7jA 489 3.81e+01 2bce c.69.1.1 34631 1k5dB 201 3.86e+01 b.55.1.3 68169 1fsu 492 3.91e+01 1auk c.76.1.2 35032 1wqaA 455 3.91e+01 1zejA 293 3.92e+01 1j5eB 256 3.93e+01 c.23.15.1 71543 1fnc 314 3.95e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1y7lA 316 3.99e+01 1fnd 314 4.02e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1ejrC 567 4.04e+01 1ubpC b.92.1.1,c.1.9.2 28420,29042 1gtxA 472 4.10e+01 1gtxA 1wp5A 323 4.11e+01 1qe3A 489 4.25e+01 2bce c.69.1.1 34630 1m6iA 493 4.28e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 2gshA 414 4.33e+01 1krs 120 4.36e+01 1krs b.40.4.1 25256 1evyA 366 4.38e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1lci 550 4.39e+01 1lci e.23.1.1 43349 1ohvA 472 4.50e+01 c.67.1.4 93031 1ejxC 567 4.53e+01 b.92.1.1,c.1.9.2 83184,83185 1fwcC 567 4.54e+01 1ubpC b.92.1.1,c.1.9.2 28410,29032 1lfc 25 4.55e+01 j.3.1.5 46074 1bypA 99 4.64e+01 1plc b.6.1.1 22858 1y8aA 332 4.65e+01 2cbf 234 4.78e+01 1cbf c.90.1.1 35588 1a5mC 566 4.87e+01 1ubpC b.92.1.1,c.1.9.2 28423,29045 1gv4A 528 4.88e+01 c.3.1.5,c.3.1.5,d.87.1.1 70589,70590,70591 1a5kC 566 4.93e+01 1ubpC b.92.1.1,c.1.9.2 28425,29047 2brcA 214 4.94e+01 1fnb 314 5.16e+01 1fnc b.43.4.2,c.25.1.1 25628,31518 2ao9A 155 5.18e+01 1a0eA 443 5.22e+01 1a0cA c.1.15.3 29537 1aueA 100 5.33e+01 1nsgB a.24.7.1 16615 2fzsA 193 5.37e+01 1bx1A 314 5.37e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 2bce 581 5.46e+01 2bce c.69.1.1 34625 1c7iA 489 5.50e+01 1thg c.69.1.1 34632 1b1cA 181 5.57e+01 1amoA c.23.5.2 31212 1lm5A 214 5.72e+01 d.211.2.1 74029 1fobA 334 5.79e+01 c.1.8.3 83255 1a0dA 440 5.86e+01 1a0cA c.1.15.3 29533 1hizA 379 5.86e+01 c.1.8.3 65841 1f28A 297 5.92e+01 1bkpA d.117.1.1 59608 1a4h 230 5.97e+01 1yer d.122.1.1 41099 1fapB 95 6.02e+01 1nsgB a.24.7.1 16618 1y6uA 70 6.06e+01 2ncm 99 6.08e+01 2ncm b.1.1.4 21703 2breA 219 6.11e+01 1kshA 186 6.11e+01 c.37.1.8 72914 1seiA 130 6.15e+01 1seiA d.140.1.1 41463 3fapB 94 6.15e+01 1nsgB a.24.7.1 16612 1tyfA 193 6.16e+01 1tyfA c.14.1.1 30885 1v64A 108 6.21e+01 a.21.1.1 108392 1siqA 392 6.23e+01 a.29.3.1,e.6.1.1 105585,105586 1f0yA 302 6.32e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1dipA 78 6.33e+01 1dipA h.1.12.1 45632 1zpyA 95 6.36e+01 1qmvA 197 6.43e+01 1qq2A c.47.1.10 33066 1yg6A 193 6.54e+01 1b2rA 304 6.60e+01 1fnc b.43.4.2,c.25.1.1 25648,31538 1sbxA 106 6.62e+01 a.6.1.4 105414 1wvgA 359 6.68e+01 1que 303 6.70e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 2fvgA 340 6.75e+01 1n40A 396 6.76e+01 a.104.1.1 79977 1ii2A 524 6.77e+01 c.91.1.1,c.109.1.1 66146,66147 1zt2B 212 6.78e+01 1jlyA 304 6.85e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 2bsaA 303 6.90e+01 1xcbA 211 6.96e+01 a.4.5.38,c.2.1.12 109552,109553 1qh0A 295 7.00e+01 b.43.4.2,c.25.1.1 68891,68892 2fnjA 226 7.16e+01 1r85A 379 7.16e+01 c.1.8.3 104839 1cx8A 639 7.18e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17782,30763,33851 1enp 312 7.21e+01 1enp c.2.1.2 29906 1jlxA 304 7.24e+01 1jlyA b.42.3.1,b.42.3.1 25583,25584 1cx8B 639 7.33e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17783,30764,33852 1fjgB 256 7.35e+01 1fjfB c.23.15.1 31400 2adbA 148 7.45e+01 1w34A 304 7.46e+01 1ivyA 452 7.68e+01 1ivyA c.69.1.5 34654 2fp1A 166 7.78e+01 1go2A 304 7.87e+01 b.43.4.2,c.25.1.1 76243,76244 1de4C 640 7.87e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1dipB 78 7.96e+01 1dipB h.1.12.1 45633 1sgoA 139 8.00e+01 d.82.3.1 98857 2f6lA 166 8.07e+01 1nsgB 94 8.13e+01 1nsgB a.24.7.1 16613 1cc1S 283 8.14e+01 2frvA e.19.1.1 43313 1g8yA 279 8.25e+01 1g8yA c.37.1.11 32302 2aysA 348 8.33e+01 1tufA 434 8.44e+01 b.49.2.3,c.1.6.1 107335,107336 1cbf 285 8.59e+01 1cbf c.90.1.1 35587 1rmvA 157 8.77e+01 1rmvA a.24.5.1 16589 1a5lC 566 8.78e+01 1ubpC b.92.1.1,c.1.9.2 28426,29048 1umqA 81 8.87e+01 a.4.1.12 99625 1nkxA 348 8.88e+01 c.94.1.2 91943 1ucsA 64 8.95e+01 b.85.1.1 88466