# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1wqaA 455 4.87e-01 1oz9A 150 6.31e-01 d.92.1.15 93808 1ob8A 135 1.97e+00 2u1a 88 1.97e+00 2u1a d.58.7.1 39164 1q7zA 566 2.27e+00 c.1.21.2,c.1.26.1 96090,96091 1ymqA 261 2.49e+00 1lvwA 295 2.83e+00 c.68.1.6 84723 3chbD 104 3.00e+00 3chbD b.40.2.1 24970 1w1wA 430 3.58e+00 2c78A 405 4.19e+00 1fc6A 388 4.41e+00 1fc6A b.36.1.3,c.14.1.2 64738,64739 1d2eA 397 4.59e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1ejeA 192 4.99e+00 1ejeA b.45.1.2 25757 1rm4A 337 5.13e+00 c.2.1.3,d.81.1.1 105000,105001 1b44D 129 5.23e+00 3chbD b.40.2.1 24960 1eft 405 5.38e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1ha3A 405 5.57e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1yhpA 212 5.61e+00 1exmA 405 5.88e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 2fbiA 142 5.99e+00 2gf9A 189 6.02e+00 1o2dA 371 6.70e+00 e.22.1.2 86591 1tl0D 103 6.71e+00 2tbd 134 6.79e+00 2tbd d.89.1.1 40241 1xfoA 357 6.88e+00 1ehaA 558 6.94e+00 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21859,27786,28773 2d00A 109 7.94e+00 1qo0D 196 8.27e+00 1qo0D c.23.1.3 31125 1g3qA 237 8.31e+00 1hyqA c.37.1.10 60237 1rz1A 161 8.88e+00 b.45.1.2 98124 1yp2A 451 9.13e+00 1hgxA 183 1.00e+01 1tc1A c.61.1.1 34027 1tbd 134 1.09e+01 2tbd d.89.1.1 40240 2azpA 318 1.10e+01 1nfn 191 1.26e+01 1nfn a.24.1.1 16523 1lvaA 258 1.29e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1mpuA 138 1.35e+01 d.169.1.1 85040 1pot 325 1.46e+01 1pot c.94.1.1 35807 2bhvA 246 1.70e+01 3rabA 169 1.77e+01 1ctqA c.37.1.8 32018 1rzsA 61 1.85e+01 a.35.1.2 105139 1oneA 436 1.89e+01 4enl c.1.11.1,d.54.1.1 29200,38844 2al2A 436 1.92e+01 2al1A 436 1.97e+01 2d8dA 90 1.99e+01 1h1nA 305 2.10e+01 c.1.8.3 70855 1lr0A 129 2.12e+01 d.212.1.1 74213 1vheA 373 2.14e+01 b.49.3.1,c.56.5.4 100669,100670 1y0yA 353 2.16e+01 1ww9A 392 2.18e+01 1oq9A 363 2.20e+01 a.25.1.2 87257 1e5eA 404 2.28e+01 1ibjA c.67.1.3 59265 1mxmA 254 2.29e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1aisB 200 2.30e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1fxoA 293 2.32e+01 1g0rA c.68.1.6 34524 1o5zA 442 2.34e+01 c.59.1.2,c.72.2.2 92530,92531 1hl2A 297 2.37e+01 c.1.10.1 83581 2bz1A 196 2.38e+01 1yj7A 171 2.40e+01 1nvmA 345 2.46e+01 a.5.7.1,c.1.10.5 86249,86250 1lci 550 2.50e+01 1lci e.23.1.1 43349 1x7oA 287 2.51e+01 1bcpB 199 2.59e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 1aipE 405 2.65e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1kid 203 2.66e+01 1derA c.8.5.1 30771 1i8tA 367 2.68e+01 c.4.1.3,d.16.1.7 66094,66095 1xccA 220 2.70e+01 1d3uB 201 2.71e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 1fdyA 297 2.72e+01 1nal3 c.1.10.1 29071 2a5dA 175 2.75e+01 1xx6A 191 2.86e+01 1h70A 255 2.86e+01 1h70A d.126.1.3 60711 1yacA 208 2.97e+01 1yacA c.33.1.3 31757 2fckA 181 3.11e+01 4enl 436 3.12e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1r5tA 142 3.20e+01 c.97.1.1 104812 1g94A 448 3.27e+01 b.71.1.1,c.1.8.1 65169,65170 1ursA 402 3.40e+01 c.94.1.1 99833 1derA 547 3.55e+01 1derA 2dbbA 151 3.57e+01 2cuaA 135 3.57e+01 2cuaA b.6.1.2 23039 1ehkB 168 3.61e+01 2cuaA b.6.1.2,f.17.2.1 23041,43625 1nal1 297 3.63e+01 1nal3 1o7nA 449 3.64e+01 b.33.1.2,d.129.3.3 81162,81163 2f9sA 151 3.64e+01 1eg9A 449 3.65e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1st9A 143 3.67e+01 c.47.1.10 98987 1pj5A 830 3.71e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1bbpA 173 3.72e+01 1bbpA b.60.1.1 27147 2d1sA 548 3.77e+01 1fsz 372 3.87e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1gegA 256 3.89e+01 1ybvA c.2.1.2 29888 1amy 403 3.92e+01 1jdc b.71.1.1,c.1.8.1 27799,28786 1ri7A 171 3.95e+01 a.4.5.32,d.58.4.2 97504,97505 1wstA 417 4.00e+01 1vjeA 166 4.11e+01 d.185.1.2 100807 1eh9A 558 4.11e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21858,27785,28772 1wsrA 375 4.13e+01 1kv9A 668 4.15e+01 a.3.1.6,b.70.1.1 73056,73057 1zejA 293 4.17e+01 1zarA 282 4.19e+01 2bo4A 397 4.20e+01 1lylA 504 4.21e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1tqmA 282 4.21e+01 a.4.5.56,d.144.1.9 107236,107237 1iyeA 309 4.29e+01 e.17.1.1 83786 1twdA 256 4.30e+01 c.1.30.1 107397 1innA 166 4.38e+01 1j98A d.185.1.2 62608 1ooeA 236 4.38e+01 c.2.1.2 87196 1xc3A 302 4.50e+01 1phk 298 4.52e+01 1cdkA d.144.1.7 41635 1wwiA 148 4.53e+01 1k4mA 213 4.54e+01 c.26.1.3 77258 1u0tA 307 4.57e+01 e.52.1.1 107567 1k0eA 453 4.57e+01 d.161.1.1 67938 1i35A 95 4.66e+01 d.15.1.5 66017 1gr5A 547 4.72e+01 i.16.1.1 65478 1ndoA 449 4.78e+01 1ndoA b.33.1.2,d.129.3.3 24444,41323 2b0jA 358 4.83e+01 1dqnA 230 4.85e+01 1dqnA c.61.1.1 34067 1bowA 159 4.88e+01 1bowA d.60.1.1 39528 1xfsA 178 4.89e+01 d.129.3.5 109589 1g0rA 293 5.04e+01 1g0rA c.68.1.6 34532 1w0pA 781 5.04e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1nal3 297 5.06e+01 1nal3 1p15A 253 5.11e+01 c.45.1.2 93894 1uirA 314 5.14e+01 c.66.1.17 99429 2oneA 436 5.20e+01 4enl c.1.11.1,d.54.1.1 29203,38847 1dqpA 230 5.32e+01 1dqnA c.61.1.1 34069 1xkyA 301 5.33e+01 1a9nB 96 5.48e+01 1urnA d.58.7.1 39165 1qi6A 475 5.51e+01 1euhA c.82.1.1 35373 1kafA 108 5.54e+01 d.199.1.1 68372 1rgyA 360 5.65e+01 e.3.1.1 97456 1vjjA 692 5.71e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1kit 757 5.75e+01 1kit b.29.1.8,b.29.1.8,b.68.1.1 24272,24273,27616 2atxA 194 5.94e+01 1eetA 557 5.95e+01 1rthA c.55.3.1,e.8.1.2 33608,43078 1euhA 475 5.95e+01 1euhA c.82.1.1 35369 1jmtA 104 6.06e+01 d.58.7.3 63180 1efpB 252 6.07e+01 1efvB c.26.2.3 31636 1vggA 161 6.15e+01 1cvrA 435 6.30e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1s0uA 408 6.32e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1f08A 148 6.33e+01 1f08A d.89.1.2 59564 1kp8A 547 6.36e+01 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 1bwsA 321 6.42e+01 1bsvA c.2.1.2 29812 1fmcA 255 6.49e+01 1cydA c.2.1.2 29856 1ble 163 6.57e+01 1ble c.38.1.1 32475 1ipaA 274 6.66e+01 c.116.1.1,d.79.3.3 71254,71255 2bodX 286 6.68e+01 1m4jA 142 6.74e+01 d.109.1.2 78602 1l9mA 692 6.86e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 73732,73733,73734,73735 1gudA 288 6.86e+01 c.93.1.1 83326 2fcr 173 6.86e+01 1rcf c.23.5.1 31151 1aqm 453 6.88e+01 1smd b.71.1.1,c.1.8.1 27717,28704 2wsyA 268 6.91e+01 2tysA c.1.2.4 28588 1k5dC 386 6.92e+01 c.10.1.2 68170 2eueA 279 6.99e+01 2bpa1 426 7.04e+01 2bpa1 1vp4A 425 7.12e+01 1c1lA 136 7.12e+01 1c1lA b.29.1.3 24219 2bynA 227 7.13e+01 1aipA 405 7.14e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1i1kA 309 7.14e+01 1daaA e.17.1.1 61533 1geeA 261 7.14e+01 c.2.1.2 90509 1gcoA 261 7.14e+01 1ybvA c.2.1.2 29884 1apxA 249 7.16e+01 1ryc a.93.1.1 18669 1ywxA 102 7.19e+01 1z2nX 324 7.20e+01 1wi1A 126 7.29e+01 3ullA 132 7.34e+01 3ullA b.40.4.3 25282 2ca6A 386 7.35e+01 1m4vA 204 7.43e+01 b.40.2.2,d.15.6.1 74459,74460 1yb0A 159 7.45e+01 1pt6A 213 7.49e+01 c.62.1.1 95091 1yymG 313 7.72e+01 1fi4A 416 7.73e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 2bogX 286 7.75e+01 1ea0A 1479 7.79e+01 b.80.4.1,c.1.4.1,d.153.1.1 64854,64855,64856 1aoxA 203 7.83e+01 1aoxA c.62.1.1 34151 1owcA 427 8.00e+01 a.103.1.1 104039 1hh2P 344 8.05e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 1wi9A 72 8.13e+01 1sdsA 117 8.15e+01 d.79.3.1 105439 2ff4A 388 8.20e+01 1em8A 147 8.21e+01 c.128.1.1 90457 1utcA 363 8.25e+01 a.118.1.4,b.69.6.1 99914,99915 1wleA 501 8.26e+01 1nr0A 611 8.32e+01 b.69.4.1,b.69.4.1 86078,86079 1p4xA 250 8.38e+01 a.4.5.28,a.4.5.28 87784,87785 1k2fA 190 8.43e+01 b.8.1.2 68054 1jb7B 260 8.50e+01 1otcB b.40.4.3 62839 1om0A 274 8.60e+01 c.1.8.5 87058 1yal 218 8.62e+01 1cs8A d.3.1.1 37025 1ksyA 154 8.65e+01 d.89.1.2 72948 2erxA 172 8.68e+01 1jli 112 8.69e+01 1jli a.26.1.2 16884 1lp3A 519 8.69e+01 b.121.5.2 74169 1srvA 145 8.70e+01 1derA c.8.5.1 30817 1u1hA 765 8.70e+01 c.1.22.2,c.1.22.2 107580,107581 1rhs 296 8.70e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1yc5A 246 8.71e+01 1llwA 1520 8.77e+01 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 1jzxK 205 8.81e+01 i.1.1.2 67885 1efiD 103 8.87e+01 3chbD b.40.2.1 24870 1zynA 202 8.88e+01 1wcuA 153 8.95e+01 1eudA 311 8.96e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 1jajA 174 8.97e+01 d.218.1.2 66471 1wy2A 351 8.98e+01