# List of top-scoring protein chains for t06-100-30-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 1gadO 330 1.02e-46 1dssG c.2.1.3,d.81.1.1 29950,39865 1gd1O 334 1.27e-46 1dssG c.2.1.3,d.81.1.1 29962,39877 1obfO 335 1.16e-43 c.2.1.3,d.81.1.1 86768,86769 1t4bA 367 1.91e-37 c.2.1.3,d.81.1.1 106406,106407 1vknA 351 8.94e-37 c.2.1.3,d.81.1.1 108676,108677 1nvmB 312 1.21e-17 c.2.1.3,d.81.1.1 86251,86252 1drw 273 1.64e-09 1drw c.2.1.3,d.81.1.3 30057,39972 1hyeA 313 2.67e-07 2cmd c.2.1.5,d.162.1.1 61400,61401 1f06A 320 3.02e-07 1dapA c.2.1.3,d.81.1.3 59556,59557 1lc0A 294 4.38e-06 c.2.1.3,d.81.1.4 73823,73824 2bkaA 242 6.15e-06 1mldA 314 6.20e-06 2cmd c.2.1.5,d.162.1.1 30122,42089 1j5pA 253 6.60e-06 d.81.1.3,c.2.1.3 71577,83092 1oc2A 348 1.36e-05 c.2.1.2 92765 1oi7A 288 2.98e-05 c.2.1.8,c.23.4.1 87049,87050 1h6dA 433 3.43e-05 c.2.1.3,d.81.1.5 65656,65657 1hdoA 206 6.22e-05 1he2A c.2.1.2 60965 1jayA 212 6.79e-05 c.2.1.6 66478 1ff9A 450 8.25e-05 1ff9A c.2.1.3,d.81.1.2 30039,39954 1xgkA 352 8.48e-05 1xq6A 253 1.16e-04 1c0pA 363 1.20e-04 1an9A c.4.1.2,d.16.1.3 30647,37934 1e6uA 321 1.57e-04 1bsvA c.2.1.2 29805 1bdmA 327 2.33e-04 1bmdA c.2.1.5,d.162.1.1 30137,42104 1r6dA 337 2.62e-04 c.2.1.2 97148 4uagA 437 3.36e-04 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1jw9B 249 3.54e-04 c.111.1.1 67377 1hyhA 309 4.09e-04 1hyhA c.2.1.5,d.162.1.1 30150,42117 1t2dA 322 4.90e-04 c.2.1.5,d.162.1.1 99084,99085 1ek6A 348 5.22e-04 1xel c.2.1.2 29800 1rq2A 382 5.52e-04 c.32.1.1,d.79.2.1 105048,105049 1gy8A 397 1.01e-03 c.2.1.2 83376 1q1rA 431 1.26e-03 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1gsoA 431 1.34e-03 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1pzgA 331 1.47e-03 c.2.1.5,d.162.1.1 95425,95426 1guzA 310 1.96e-03 c.2.1.5,d.162.1.1 65586,65587 1i36A 264 2.22e-03 a.100.1.8,c.2.1.6 71108,71109 1q0qA 406 2.33e-03 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1w4xA 542 2.62e-03 c.3.1.5,c.3.1.5 109171,109172 1txgA 335 2.63e-03 1k0iA 394 2.70e-03 c.3.1.2,d.16.1.2 67942,67943 1ryiA 382 3.05e-03 1vpdA 299 3.11e-03 1eq2A 310 4.42e-03 1eq2A c.2.1.2 29814 1np3A 338 5.11e-03 a.100.1.2,c.2.1.6 85946,85947 1ebfA 358 5.47e-03 1ebuA c.2.1.3,d.81.1.2 30033,39948 1y81A 138 6.05e-03 1bg6 359 7.21e-03 1bg6 a.100.1.5,c.2.1.6 18810,30214 1kewA 361 7.81e-03 c.2.1.2 68544 1k6iA 352 7.86e-03 c.2.1.2 68223 1fecA 490 1.23e-02 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1gr0A 367 1.29e-02 c.2.1.3,d.81.1.3 70379,70380 1fcdA 401 1.29e-02 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1p77A 272 1.86e-02 c.2.1.7,c.58.1.5 94214,94215 1rsgA 516 1.94e-02 1dljA 402 1.99e-02 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1f0kA 364 2.24e-02 1f0kA c.87.1.2 35465 1lssA 140 2.26e-02 c.2.1.9 74246 1f8rA 498 2.47e-02 1f8rA c.3.1.2,d.16.1.5 30410,37974 1usgA 346 2.60e-02 c.93.1.1 99864 1n2sA 299 2.60e-02 c.2.1.2 79857 1ks9A 291 3.00e-02 a.100.1.7,c.2.1.6 68857,68858 1o6zA 303 3.07e-02 c.2.1.5,d.162.1.1 81107,81108 1b5qA 472 3.22e-02 1b37B c.3.1.2,d.16.1.5 30404,37968 1sb8A 352 3.37e-02 c.2.1.2 105410 1xg5A 279 3.52e-02 1v4vA 376 3.66e-02 c.87.1.3 100313 1iukA 140 3.78e-02 c.2.1.8 83712 1g0oA 283 4.22e-02 1ybvA c.2.1.2 60181 1nhs 447 4.48e-02 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1gpjA 404 4.71e-02 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1h3fA 432 5.10e-02 c.26.1.1,d.66.1.4 76631,76632 1vl2A 421 5.84e-02 c.26.2.1,d.210.1.1 108708,108709 1gdhA 320 6.66e-02 1gdhA c.2.1.4,c.23.12.1 30095,31355 1kyqA 274 6.94e-02 c.2.1.11,e.37.1.1 73281,73282 1sbzA 197 7.31e-02 1frb 315 8.23e-02 1frb c.1.7.1 28665 1rp0A 284 9.60e-02 1dv1A 449 9.87e-02 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1sqgA 429 1.05e-01 a.79.1.3,c.66.1.38 105912,105913 1snyA 267 1.09e-01 c.2.1.2 105833 1thfD 253 1.42e-01 1thfD c.1.2.1 28535 1dcfA 136 1.42e-01 1dcfA c.23.1.2 31124 1orrA 347 1.58e-01 c.2.1.2 93460 1sbyA 254 1.62e-01 1c1dA 355 1.66e-01 1bw9A c.2.1.7,c.58.1.1 30270,33918 1luaA 287 1.81e-01 c.2.1.7,c.58.1.4 78216,78217 1xu9A 286 1.81e-01 1jx4A 352 1.90e-01 d.240.1.1,e.8.1.7 90378,90379 1evyA 366 1.96e-01 1evyA a.100.1.6,c.2.1.6 18811,30215 1svvA 359 2.31e-01 c.67.1.1 106054 1cv8 174 2.49e-01 1cv8 d.3.1.1 37089 1g3qA 237 2.53e-01 1hyqA c.37.1.10 60237 1geqA 248 2.59e-01 2tysA c.1.2.4 28589 1o5kA 306 2.63e-01 c.1.10.1 92504 1uufA 369 2.66e-01 b.35.1.2,c.2.1.1 100006,100007 1q6oA 216 2.77e-01 c.1.2.3 95986 1qo0D 196 2.81e-01 1qo0D c.23.1.3 31125 1vjpA 394 2.83e-01 c.2.1.3,d.81.1.3 100828,100829 1nijA 318 2.87e-01 c.37.1.10,d.237.1.1 85741,85742 1w96A 554 2.96e-01 1cl1A 395 2.99e-01 1cl2A c.67.1.3 34395 1gpeA 587 3.06e-01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1pj5A 830 3.09e-01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1cb0A 283 3.11e-01 1cb0A c.56.2.1 33790 1jnrA 643 3.22e-01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1nytA 271 3.29e-01 c.2.1.7,c.58.1.5 86417,86418 1k7kA 221 3.47e-01 c.51.4.1 72104 1p5dX 463 3.48e-01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1mv8A 436 3.57e-01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1pea 385 3.68e-01 1pea c.93.1.1 35662 1cydA 244 3.74e-01 1cydA c.2.1.2 29825 1sc6A 404 3.78e-01 1gc0A 398 3.80e-01 c.67.1.3 70168 1kdgA 546 3.94e-01 c.3.1.2,d.16.1.1 77337,77338 1us0A 316 3.96e-01 c.1.7.1 99850 1pl8A 356 4.12e-01 b.35.1.2,c.2.1.1 94878,94879 1fjhA 257 4.22e-01 1fjhB c.2.1.2 29870 1iugA 352 4.41e-01 c.67.1.3 90699 1j4aA 333 4.56e-01 c.2.1.4,c.23.12.1 71502,71503 1pswA 348 4.70e-01 c.87.1.7 88287 1wvgA 359 4.78e-01 1n3lA 372 4.79e-01 c.26.1.1 79966 1t71A 281 4.95e-01 1jeoA 180 5.94e-01 c.80.1.3 66611 1rkxA 357 6.16e-01 c.2.1.2 97631 1mdbA 539 6.17e-01 e.23.1.1 79008 1f0yA 302 6.49e-01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1oaa 259 6.50e-01 1oaa c.2.1.2 29829 1dp4A 435 6.67e-01 1dp4A c.93.1.1 35710 1eo1A 124 7.12e-01 1eo1A c.55.5.1 33739 1s1pA 331 7.17e-01 c.1.7.1 98350 1ooeA 236 7.65e-01 c.2.1.2 87196 1n7hA 381 7.75e-01 c.2.1.2 80250 1g8sA 230 8.28e-01 c.66.1.3 90507 1e6wA 260 8.34e-01 1e6wA c.2.1.2 59326 1i24A 404 8.57e-01 c.2.1.2 83663 1mtzA 293 8.65e-01 c.69.1.7 79467 1kjqA 391 8.78e-01 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1hdcA 253 8.79e-01 1e6wA c.2.1.2 29862 1ooyA 481 8.98e-01 c.124.1.3,c.124.1.2 93388,93389 1kao 167 9.34e-01 1ctqA c.37.1.8 32014 1vhwA 253 9.36e-01 c.56.2.1 100706 1d3gA 367 9.55e-01 1d3gA c.1.4.1 28600 1dd9A 338 9.76e-01 1dd9A e.13.1.1 43254 1x74A 360 9.84e-01 1el5A 389 9.87e-01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1mo0A 275 1.04e+00 c.1.1.1 79329 1xk7A 408 1.07e+00 1wcv1 257 1.16e+00 1tksA 204 1.17e+00 d.115.1.2 107114 1ni4B 341 1.18e+00 c.36.1.7,c.48.1.2 85729,85730 1of5A 221 1.31e+00 d.17.4.2 86933 1fl2A 310 1.31e+00 1hyuA c.3.1.5,c.3.1.5 59869,59870 1ve2A 235 1.35e+00 1k0eA 453 1.36e+00 d.161.1.1 67938 1cp2A 269 1.49e+00 1cp2A c.37.1.10 32269 1p0kA 349 1.51e+00 c.1.4.1 87648 1m6sA 347 1.52e+00 c.67.1.1 78701 1pyfA 312 1.53e+00 c.1.7.1 95334 1gteA 1025 1.53e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1nt2A 210 1.59e+00 c.66.1.3 86149 1wvfA 520 1.63e+00 1l3iA 192 1.64e+00 c.66.1.22 77676 1hxhA 253 1.64e+00 c.2.1.2 76725 1odkA 235 1.66e+00 c.56.2.1 86863 1geeA 261 1.70e+00 c.2.1.2 90509 1bouB 302 1.71e+00 1bouB c.56.6.1 33859 1gegA 256 1.72e+00 1ybvA c.2.1.2 29888 3nul 130 1.75e+00 3nul d.110.1.1 40891 1p3dA 475 1.76e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1jr2A 286 1.79e+00 c.113.1.1 67111 1mi3A 322 1.80e+00 c.1.7.1 91274 1cbf 285 1.81e+00 1cbf c.90.1.1 35587 1h5wA 309 1.81e+00 e.27.1.1 65635 1jysA 242 1.81e+00 c.56.2.1 77216 1l3lA 234 1.85e+00 a.4.6.2,d.110.5.1 73541,73542 1ve1A 304 1.87e+00 1nofA 383 1.87e+00 b.71.1.2,c.1.8.3 92020,92021 1r9jA 673 1.89e+00 1mh1 186 1.90e+00 1eesA c.37.1.8 32002 1rw7A 243 1.91e+00 c.23.16.2 97963 1kq3A 376 1.91e+00 e.22.1.2 68790 1onrA 316 1.92e+00 1onrA c.1.10.1 29169 1vhnA 318 1.94e+00 c.1.4.1 100693 1pq4A 291 1.95e+00 c.92.2.2 94995 1es9A 232 1.99e+00 1wab c.23.10.3 31340 1j8mF 297 2.00e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 1jdpA 441 2.02e+00 c.93.1.1 62906 1ogdA 131 2.03e+00 c.133.1.1 92893 1xd3A 230 2.11e+00 1vpt 348 2.13e+00 3mag c.66.1.25 34207 1qsgA 265 2.14e+00 1eny c.2.1.2 29935 1exbA 332 2.16e+00 1qrqA c.1.7.1 28666 1tr0A 108 2.17e+00 d.58.4.4 107261 1f0xA 571 2.20e+00 1f0xA d.58.32.2,d.145.1.1 39483,41746 1ojrA 274 2.25e+00 c.74.1.1 93147 1ja9A 274 2.26e+00 c.2.1.2 62817 1snnA 227 2.28e+00 d.115.1.2 105821 1wmaA 276 2.30e+00 2nacA 393 2.34e+00 2nadA c.2.1.4,c.23.12.1 30088,31348 1dxy 333 2.36e+00 1dxy c.2.1.4,c.23.12.1 30094,31354 1fg7A 356 2.38e+00 1gewA c.67.1.1 59819 2gjlA 328 2.43e+00 1a99A 344 2.46e+00 1pot c.94.1.1 35812 1jmvA 141 2.46e+00 c.26.2.4 66897 1cs0A 1073 2.48e+00 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1jdc 429 2.48e+00 1jdc b.71.1.1,c.1.8.1 27789,28776 1iy8A 267 2.49e+00 c.2.1.2 83774 1chuA 540 2.50e+00 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1ihuA 589 2.52e+00 c.37.1.10,c.37.1.10 62394,62395 1i0dA 332 2.55e+00 1pscA c.1.9.3 61487 1dhn 121 2.61e+00 1dhn d.96.1.3 40663 1t1gA 364 2.73e+00 c.41.1.2 106246 1bd3A 243 2.75e+00 1bd3A c.61.1.1 34098 1r6xA 395 2.79e+00 b.122.1.3,c.26.1.5 97167,97168 1jfrA 262 2.83e+00 1jfrA c.69.1.16 34724 1ptmA 329 2.85e+00 c.77.1.3 95104 1qz9A 416 2.86e+00 c.67.1.3 96621 1rvgA 305 2.94e+00 c.1.10.2 97920 1dl5A 317 2.96e+00 1dl5A c.66.1.7,d.197.1.1 64720,64721 1k7hA 476 3.09e+00 c.76.1.1 72101 1fmtA 314 3.19e+00 1fmtA b.46.1.1,c.65.1.1 25758,34174 1jtvA 327 3.21e+00 c.2.1.2 84230 1zjjA 263 3.26e+00 1gqnA 252 3.28e+00 c.1.10.1 90514 1hl9A 449 3.36e+00 b.71.1.3,c.1.8.11 90650,90651 1p2hA 571 3.43e+00 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1tg7A 971 3.44e+00 1vkfA 188 3.45e+00 c.1.29.1 108656 1nwaA 203 3.48e+00 d.58.28.1 86295 1ctqA 166 3.55e+00 1ctqA c.37.1.8 31965 1bd0A 388 3.61e+00 1bd0A b.49.2.2,c.1.6.1 26480,28642 1rrmA 386 3.70e+00 e.22.1.2 105081 1m3sA 186 3.72e+00 c.80.1.3 78573 1neyA 247 3.77e+00 c.1.1.1 80449 1rd5A 262 3.84e+00 1pn0A 665 3.87e+00 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1k4iA 233 3.87e+00 d.115.1.2 72056 1cnv 299 3.88e+00 1cnv c.1.8.5 28989 1a9xA 1058 4.05e+00 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1nmoA 247 4.07e+00 c.135.1.1 91980 1nbaA 264 4.16e+00 1nbaA c.33.1.3 31753 1php 394 4.24e+00 16pk c.86.1.1 35452 1i6pA 220 4.36e+00 1ddzA c.53.2.1 61848 1khxA 227 4.38e+00 b.26.1.1 68631 1l9xA 315 4.56e+00 c.23.16.1 73762 1pz1A 333 4.67e+00 c.1.7.1 95390 1r5lA 262 4.70e+00 a.5.3.1,c.13.1.1 97099,97100 1qmgA 524 4.72e+00 1qmgA a.100.1.2,c.2.1.6 18785,30182 1npyA 271 4.73e+00 c.2.1.7,c.58.1.5 85995,85996 1qvzA 237 4.76e+00 c.23.16.2 96453 1d4aA 273 4.78e+00 1d4aA c.23.5.3 31219 1q8fA 313 4.85e+00 c.70.1.1 96203 1o97C 264 4.85e+00 c.26.2.3 81232 1jq5A 370 4.89e+00 e.22.1.2 67084 1r6vA 671 4.92e+00 1jkxA 212 4.94e+00 c.65.1.1 66813 1qhoA 686 4.97e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1q0rA 298 5.02e+00 c.69.1.28 95508 1u7lA 392 5.09e+00 1mnaA 298 5.15e+00 c.69.1.22 79322 1io2A 213 5.15e+00 1ekeA c.55.3.1 62612 1m65A 245 5.21e+00 c.6.3.1 84847 1jfuA 186 5.22e+00 c.47.1.10 62940 1xkpB 124 5.34e+00 1x9iA 302 5.40e+00 1vp8A 201 5.42e+00 1s0aA 429 5.49e+00 c.67.1.4 98263 1vimA 200 5.68e+00 c.80.1.3 100758 1b7yA 350 5.70e+00 1pysA d.104.1.1 40776 1bx4A 345 5.71e+00 1bx4A c.72.1.1 34935 1dq3A 454 5.76e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1vmeA 410 5.80e+00 c.23.5.1,d.157.1.3 108893,108894 1cjcA 460 5.84e+00 1cjcA c.3.1.1,c.4.1.1 30319,30604 1kwgA 645 5.87e+00 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1v77A 212 5.92e+00 c.6.3.2 108402 1nvvS 481 5.92e+00 a.117.1.1 86279 1qo2A 241 6.02e+00 1qo2A c.1.2.1 28533 1aj2 282 6.05e+00 1aj2 c.1.21.1 29665 1qf9A 194 6.05e+00 1zin c.37.1.1 31848 1in0A 163 6.26e+00 d.58.49.1,d.58.49.1 83694,83695 1pe1A 267 6.46e+00 c.1.10.4 94591 1d5tA 433 6.46e+00 1gnd c.3.1.3,d.16.1.6 30422,37986 1xttA 216 6.50e+00 1j31A 262 6.57e+00 d.160.1.2 90808 1eg5A 384 6.58e+00 1ecxA c.67.1.3 34429 1p1jA 533 6.59e+00 c.2.1.3,d.81.1.3 87687,87688 1jx6A 342 6.59e+00 c.93.1.1 67406 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