# List of top-scoring protein chains for t04-100-30-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 1o2dA 371 3.75e-01 e.22.1.2 86591 2bhuA 602 5.53e-01 1vheA 373 8.49e-01 b.49.3.1,c.56.5.4 100669,100670 1phk 298 1.37e+00 1cdkA d.144.1.7 41635 1iyeA 309 1.46e+00 e.17.1.1 83786 1q7zA 566 1.61e+00 c.1.21.2,c.1.26.1 96090,96091 2f46A 156 1.71e+00 1ww9A 392 1.84e+00 1avaA 403 2.12e+00 1jdc b.71.1.1,c.1.8.1 27797,28784 1vp4A 425 2.73e+00 1amy 403 2.89e+00 1jdc b.71.1.1,c.1.8.1 27799,28786 1zpvA 91 3.13e+00 1jmtA 104 4.16e+00 d.58.7.3 63180 1yloA 348 4.45e+00 1e9rA 437 4.64e+00 c.37.1.11 64827 2fbiA 142 4.70e+00 2f5gA 133 4.98e+00 1krhA 338 5.00e+00 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1e5eA 404 5.03e+00 1ibjA c.67.1.3 59265 1sviA 195 5.51e+00 c.37.1.8 106048 1w1wA 430 5.67e+00 3chbD 104 6.60e+00 3chbD b.40.2.1 24970 1aisB 200 6.62e+00 1aisB a.74.1.2,a.74.1.2 18384,18385 1xbsA 149 6.68e+00 1aqm 453 7.24e+00 1smd b.71.1.1,c.1.8.1 27717,28704 2fvgA 340 7.83e+00 1g94A 448 7.96e+00 b.71.1.1,c.1.8.1 65169,65170 1wdiA 345 8.18e+00 1vggA 161 8.49e+00 1ituA 369 8.68e+00 c.1.9.7 71423 1geeA 261 8.79e+00 c.2.1.2 90509 1gcoA 261 9.09e+00 1ybvA c.2.1.2 29884 1xfoA 357 9.09e+00 1lc5A 364 9.66e+00 c.67.1.1 73827 1qysA 106 9.97e+00 k.41.1.1 96603 1eguA 731 9.98e+00 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1uc8A 280 1.01e+01 c.30.1.6,d.142.1.7 99165,99166 1tbd 134 1.06e+01 2tbd d.89.1.1 40240 2fckA 181 1.10e+01 1wwiA 148 1.10e+01 2fy7A 287 1.14e+01 1ooeA 236 1.16e+01 c.2.1.2 87196 1a48 306 1.23e+01 1a48 d.143.1.1 41590 1wqaA 455 1.27e+01 2chnA 716 1.31e+01 1n7oA 721 1.31e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1ht6A 405 1.31e+01 b.71.1.1,c.1.8.1 83629,83630 1q6cA 495 1.34e+01 c.1.8.1 95970 1aqzA 149 1.47e+01 1aqzA d.1.1.3 36238 1w78A 422 1.49e+01 1rz1A 161 1.51e+01 b.45.1.2 98124 1wdpA 495 1.53e+01 1ysjA 404 1.53e+01 1tl0D 103 1.55e+01 1aocA 175 1.58e+01 1aocA g.17.1.5 44817 2c78A 405 1.59e+01 1fxjA 331 1.60e+01 1fwyA b.81.1.4,c.68.1.5 28062,34520 1jx2B 315 1.65e+01 c.37.1.8 67404 1exmA 405 1.72e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1u1hA 765 1.75e+01 c.1.22.2,c.1.22.2 107580,107581 4enl 436 1.76e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1ha3A 405 1.79e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1chd 203 1.79e+01 1chd c.40.1.1 32478 1gewA 356 1.82e+01 1gewA c.67.1.1 60470 1h70A 255 1.83e+01 1h70A d.126.1.3 60711 1xc3A 302 1.86e+01 1yacA 208 1.88e+01 1yacA c.33.1.3 31757 1j5yA 187 1.98e+01 a.4.5.1,d.94.2.1 71592,71593 1eg9A 449 2.01e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1o5zA 442 2.03e+01 c.59.1.2,c.72.2.2 92530,92531 1xccA 220 2.03e+01 1byb 495 2.03e+01 1byb c.1.8.1 28790 3ullA 132 2.08e+01 3ullA b.40.4.3 25282 1i1kA 309 2.15e+01 1daaA e.17.1.1 61533 2fcr 173 2.16e+01 1rcf c.23.5.1 31151 1o7nA 449 2.22e+01 b.33.1.2,d.129.3.3 81162,81163 2arhA 203 2.22e+01 1kafA 108 2.30e+01 d.199.1.1 68372 1wleA 501 2.31e+01 1blxA 326 2.32e+01 1hcl d.144.1.7 41596 1ejeA 192 2.35e+01 1ejeA b.45.1.2 25757 1x6oA 174 2.35e+01 b.34.5.2,b.40.4.5 109493,109494 1l8aA 886 2.36e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1gegA 256 2.38e+01 1ybvA c.2.1.2 29888 1lci 550 2.41e+01 1lci e.23.1.1 43349 1x1zA 252 2.43e+01 1rzsA 61 2.51e+01 a.35.1.2 105139 1ob8A 135 2.54e+01 1u1jA 765 2.55e+01 c.1.22.2,c.1.22.2 107590,107591 1aszB 490 2.55e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1tqmA 282 2.56e+01 a.4.5.56,d.144.1.9 107236,107237 1oj4A 283 2.60e+01 d.14.1.5,d.58.26.5 93083,93084 1ng4A 390 2.61e+01 c.3.1.2,d.16.1.3 85666,85667 1kv8A 216 2.62e+01 c.1.2.3 73054 1uirA 314 2.64e+01 c.66.1.17 99429 1f2tB 148 2.65e+01 1f2tB 1qmyA 167 2.67e+01 1qmyA d.3.1.2 37094 2agdA 287 2.68e+01 1q6oA 216 2.70e+01 c.1.2.3 95986 1uayA 242 2.70e+01 c.2.1.2 88390 2cnqA 306 2.73e+01 1mp8A 281 2.74e+01 d.144.1.7 91384 1dc1A 323 2.74e+01 1dc1A c.52.1.11 33321 2eueA 279 2.75e+01 1kid 203 2.76e+01 1derA c.8.5.1 30771 1ryiA 382 2.79e+01 1ursA 402 2.79e+01 c.94.1.1 99833 1y89A 238 2.89e+01 1g3qA 237 2.91e+01 1hyqA c.37.1.10 60237 1qo0D 196 2.91e+01 1qo0D c.23.1.3 31125 1bif 469 2.92e+01 1bif c.37.1.7,c.60.1.4 31961,34003 2bynA 227 2.93e+01 1zczA 464 2.97e+01 1oneA 436 2.98e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1km4A 247 2.99e+01 c.1.2.3 72740 1xmxA 385 3.00e+01 1pdz 434 3.05e+01 4enl c.1.11.1,d.54.1.1 29215,38859 1ojxA 263 3.07e+01 c.1.10.1 93164 1dvjA 246 3.08e+01 1dvjA c.1.2.3 28546 1u0tA 307 3.14e+01 e.52.1.1 107567 2esbA 188 3.14e+01 2bgkA 278 3.21e+01 2d1sA 548 3.21e+01 1yavA 159 3.23e+01 1g0oA 283 3.24e+01 1ybvA c.2.1.2 60181 2bryA 497 3.25e+01 2cunA 410 3.25e+01 2bd0A 244 3.26e+01 1yhpA 212 3.27e+01 1fmcA 255 3.30e+01 1cydA c.2.1.2 29856 1vjeA 166 3.32e+01 d.185.1.2 100807 1y0yA 353 3.36e+01 1cvrA 435 3.36e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1kblA 873 3.37e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1ymqA 261 3.42e+01 2cuaA 135 3.44e+01 2cuaA b.6.1.2 23039 1fc6A 388 3.46e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1yroB 286 3.50e+01 1te6A 439 3.52e+01 c.1.11.1,d.54.1.1 106797,106798 1fg7A 356 3.57e+01 1gewA c.67.1.1 59819 1vljA 407 3.60e+01 e.22.1.2 108832 1pztA 286 3.65e+01 c.68.1.2 95470 1d2eA 397 3.69e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1obdA 306 3.70e+01 d.143.1.1 86767 1ja9A 274 3.73e+01 c.2.1.2 62817 2b4aA 138 3.75e+01 2b0jA 358 3.76e+01 1innA 166 3.86e+01 1j98A d.185.1.2 62608 1k2xB 143 3.89e+01 2gf9A 189 3.89e+01 1yj7A 171 3.90e+01 2akzA 439 3.90e+01 1gefA 123 3.92e+01 1gefA c.52.1.18 60465 2al1A 436 3.96e+01 1rpxA 230 3.97e+01 1rpxA c.1.2.2 28536 2cw5A 255 4.00e+01 1ccwB 483 4.01e+01 1cb7B c.1.19.2 29646 1xmbA 418 4.03e+01 1vjjA 692 4.04e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1wstA 417 4.11e+01 2h2tB 175 4.15e+01 1r4yA 136 4.19e+01 d.1.1.3 97056 2al2A 436 4.22e+01 2amxA 376 4.23e+01 2dbbA 151 4.29e+01 1zarA 282 4.29e+01 1b6rA 355 4.32e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1yhuB 144 4.42e+01 1v8gA 329 4.43e+01 a.46.2.1,c.27.1.1 100505,100506 1lucA 355 4.45e+01 1lucA c.1.16.1 29547 1pvvA 315 4.45e+01 c.78.1.1,c.78.1.1 95190,95191 1u8sA 192 4.45e+01 d.58.18.5,d.58.18.5 107737,107738 1g7dA 106 4.50e+01 1g7dA a.71.1.1 18318 1qy5A 269 4.51e+01 d.122.1.1 96573 1j08A 226 4.51e+01 c.47.1.2,c.47.1.2 83855,83856 1k0eA 453 4.53e+01 d.161.1.1 67938 1u2wA 122 4.54e+01 1a6q 382 4.61e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1v3hA 495 4.61e+01 c.1.8.1 108303 1p4xA 250 4.65e+01 a.4.5.28,a.4.5.28 87784,87785 2bolA 314 4.68e+01 1w0pA 781 4.69e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1k3eA 156 4.70e+01 d.198.1.1 68103 2bo4A 397 4.72e+01 1wi1A 126 4.76e+01 1iupA 282 4.79e+01 c.69.1.10 76815 1uk8A 282 4.79e+01 c.69.1.10 107907 3rabA 169 4.82e+01 1ctqA c.37.1.8 32018 1pjqA 457 4.82e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1jeyA 609 4.84e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1jx6A 342 4.90e+01 c.93.1.1 67406 1prxA 224 4.93e+01 1prxA c.47.1.10 33076 1lvwA 295 4.98e+01 c.68.1.6 84723 1f7cA 231 4.99e+01 1f7cA a.116.1.1 19107 1twdA 256 5.04e+01 c.1.30.1 107397 1bqk 124 5.08e+01 1bqk b.6.1.1 22889 1vhoA 346 5.11e+01 b.49.3.1,c.56.5.4 100694,100695 1y7bA 542 5.15e+01 1p5vA 235 5.25e+01 b.1.11.1,b.7.2.1 87812,87813 1e6wA 260 5.29e+01 1e6wA c.2.1.2 59326 1gveA 327 5.32e+01 c.1.7.1 70597 1xn7A 78 5.37e+01 1h6zA 913 5.54e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 2f1fA 164 5.55e+01 2d8dA 90 5.55e+01 1knwA 425 5.72e+01 b.49.2.3,c.1.6.1 90969,90970 1xdpA 687 5.77e+01 1twfK 120 5.81e+01 2ae2A 260 5.84e+01 1bdb c.2.1.2 29945 2bz1A 196 5.84e+01 2ge3A 170 5.89e+01 1fjgP 88 5.89e+01 1emwA d.27.1.1 38444 1kv7A 488 5.91e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 2f1rA 171 5.94e+01 1wtaA 275 6.09e+01 1wm5A 208 6.11e+01 1nv8A 284 6.25e+01 c.66.1.30 86224 1qgrA 876 6.29e+01 1qgrA a.118.1.1 19119 1omiA 248 6.37e+01 b.82.3.3,a.4.5.4 87079,87080 1l7aA 318 6.41e+01 c.69.1.25 77772 1hdr 244 6.43e+01 1dhr c.2.1.2 29837 2gm3A 175 6.47e+01 1u4nA 310 6.50e+01 1auoA 218 6.62e+01 1auoA c.69.1.14 34716 1p8kZ 254 6.63e+01 d.95.2.1,d.95.2.1 94361,94362 6mhtA 327 6.64e+01 6mhtA c.66.1.26 34226 1djrD 103 6.67e+01 3chbD b.40.2.1 24865 1rhfA 182 6.67e+01 b.1.1.1,b.1.1.4 97469,97470 1yhtA 367 6.69e+01 1o57A 291 6.75e+01 a.4.5.40,c.61.1.1 92483,92484 1c7qA 445 6.78e+01 2pgi c.80.1.2 35307 2ffuA 501 6.82e+01 1edg 380 6.82e+01 1edg c.1.8.3 28807 1yxyA 234 6.83e+01 1ckeA 227 6.89e+01 1ckeA c.37.1.1 31846 1j27A 102 6.95e+01 d.58.50.1 90778 2etvA 346 6.98e+01 1bbpA 173 7.02e+01 1bbpA b.60.1.1 27147 1zip 217 7.13e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1wcuA 153 7.19e+01 4pep 326 7.33e+01 1smrA b.50.1.2 26843 1zbxB 141 7.34e+01 1m7sA 484 7.35e+01 e.5.1.1 74574 1kit 757 7.37e+01 1kit b.29.1.8,b.29.1.8,b.68.1.1 24272,24273,27616 1z3eA 132 7.42e+01 1pjcA 361 7.45e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 2a2nA 176 7.46e+01 1t3tA 1303 7.46e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1dhr 241 7.49e+01 1dhr c.2.1.2 29832 2c7pA 327 7.59e+01 2av5A 120 7.60e+01 1lt5D 103 7.65e+01 3chbD b.40.2.1 24875 1g66A 207 7.65e+01 1bs9 c.69.1.30 31329 1fnsA 196 7.72e+01 1auq c.62.1.1 34136 1fxoA 293 7.79e+01 1g0rA c.68.1.6 34524 2bleA 367 7.80e+01 1wmiB 67 7.88e+01 1xhbA 472 7.90e+01 2ggcA 263 8.07e+01 1sh8A 154 8.15e+01 d.38.1.5 105549 2cxcA 144 8.16e+01 1w77A 228 8.34e+01 1xwyA 264 8.35e+01 2cw6A 298 8.36e+01 2fm8A 135 8.38e+01 1kdoA 227 8.38e+01 c.37.1.1 68478 1sglA 209 8.47e+01 d.124.1.1 105536 1tqjA 230 8.47e+01 c.1.2.2 107228 2a1iA 146 8.52e+01 1xzoA 174 8.59e+01 1u2zA 433 8.62e+01 c.66.1.31 107626 2bzlA 325 8.66e+01 1dar 691 8.67e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1ukgA 252 8.70e+01 b.29.1.1 99489 1dik 874 8.72e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1gtmA 419 8.72e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1eceA 358 8.73e+01 1eceA c.1.8.3 28813 1i50K 120 8.73e+01 d.74.3.2 61765 1wd5A 208 8.74e+01 2f9sA 151 8.85e+01 1xt5A 135 8.89e+01 1s99A 200 8.93e+01 2a6qA 86 8.96e+01 2ew8A 249 8.99e+01 1rkuA 206 8.99e+01 c.108.1.11 97627