# List of top-scoring protein chains for t06-100-30-n_sep-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 1yyqA 374 2.62e-01 1zejA 293 3.08e-01 1f45B 197 3.65e-01 1f45B a.26.1.1 59642 1ry6A 360 5.15e-01 c.37.1.9 98090 1huxA 270 1.01e+00 1huxA c.55.1.5 61278 2fbnA 198 1.02e+00 1b3uA 588 1.21e+00 1b3uA a.118.1.2 19135 3gcb 470 1.32e+00 3gcb d.3.1.1 37032 1w33A 181 1.49e+00 2grrB 170 1.60e+00 2g38B 198 1.74e+00 1rqjA 299 1.83e+00 a.128.1.1 97744 2bvfA 459 1.95e+00 1zs3A 182 2.16e+00 2gyqA 175 2.22e+00 2chnA 716 2.59e+00 1fs1B 141 3.01e+00 1vcbB a.157.1.1,d.42.1.1 19252,38664 1ofcX 304 3.14e+00 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1e7lA 157 3.48e+00 1en7A a.140.4.1,d.4.1.5 64728,64729 1t0fA 276 3.85e+00 1b5pA 385 4.19e+00 c.67.1.1 90403 1mkiA 330 4.30e+00 e.3.1.2 84994 1wzdA 215 4.31e+00 2b1eA 564 4.41e+00 2choA 716 4.86e+00 1mo9A 523 5.24e+00 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1hu3A 260 5.37e+00 1hu3A a.118.1.14 19137 2absA 383 5.86e+00 2b67A 204 5.96e+00 2br9A 234 6.02e+00 1z77A 200 6.51e+00 1lmzA 187 6.60e+00 a.96.1.4 74037 1m32A 366 6.83e+00 c.67.1.3 78508 1tafA 68 6.89e+00 1tafA a.22.1.3 16481 1wkqA 164 6.97e+00 c.97.1.2 109393 1kxpD 458 7.21e+00 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 2ahqA 76 7.56e+00 1f5nA 592 7.64e+00 1dg3A a.114.1.1,c.37.1.8 19077,32152 1ju3A 583 7.66e+00 b.18.1.13,c.69.1.21 67300,67301 1w9gA 104 7.81e+00 1zb1A 392 7.89e+00 1paqA 189 8.03e+00 a.118.1.14 94413 1m70A 190 8.21e+00 a.3.1.4,a.3.1.4 91200,91201 1g3mA 294 8.52e+00 c.37.1.5 83268 1myt 146 8.53e+00 1a6m a.1.1.2 15207 1nc5A 373 8.61e+00 a.102.1.6 85548 1jk0B 345 8.65e+00 a.25.1.2 63143 1iw0A 215 8.94e+00 a.132.1.1 83720 1x1nA 524 9.27e+00 1b8dA 164 9.31e+00 1cpcA a.1.1.3 15665 1w7jA 795 9.31e+00 1aisB 200 9.33e+00 1aisB a.74.1.2,a.74.1.2 18384,18385 1qlpA 394 9.33e+00 1ovaA e.1.1.1 42628 1yfsA 465 9.44e+00 1vqrA 297 9.49e+00 1e5rA 290 9.57e+00 1e5rA b.82.2.4 59276 1nfvA 179 9.93e+00 a.25.1.1 85642 1rzhL 281 9.97e+00 f.26.1.1 98164 1r0vA 305 1.03e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1wusA 180 1.04e+01 1v9nA 360 1.06e+01 2azjA 289 1.10e+01 2gmyA 153 1.17e+01 1ej2A 181 1.19e+01 1f9aA c.26.1.3 59414 1hyp 80 1.22e+01 1hyp a.52.1.1 17806 1wwpA 119 1.23e+01 1s7zA 117 1.28e+01 a.159.3.1 98715 1nznA 126 1.28e+01 a.118.8.1 92382 1x46A 150 1.29e+01 1vf1A 229 1.31e+01 1jnyA 435 1.31e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1vkeA 133 1.31e+01 a.152.1.2 108650 1t3wA 148 1.33e+01 1g60A 260 1.34e+01 c.66.1.11 70151 2b3hA 329 1.34e+01 2db0A 253 1.38e+01 1x3kA 152 1.38e+01 1pc3A 350 1.41e+01 c.94.1.1 104102 2beqA 38 1.42e+01 1di1A 300 1.43e+01 1di1A a.128.1.4 19446 1oe8A 211 1.48e+01 a.45.1.1,c.47.1.5 86905,86906 1eqfA 280 1.50e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1qhlA 227 1.51e+01 1qhlA c.37.1.12 32382 2c6cA 707 1.52e+01 2sqcA 631 1.52e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1gntA 553 1.57e+01 e.26.1.1 70290 2ap3A 199 1.57e+01 1xfhA 422 1.59e+01 1ow4A 129 1.59e+01 a.39.2.1 93628 1axn 323 1.61e+01 1avc a.65.1.1 18149 1uc2A 481 1.67e+01 d.261.1.1 99161 2fx0A 201 1.69e+01 1rp4A 389 1.71e+01 a.227.1.1 105027 2auwA 170 1.73e+01 1ll2A 333 1.76e+01 c.68.1.14 74005 1p4oA 322 1.77e+01 d.144.1.7 87775 1m8jA 181 1.78e+01 c.26.1.3 84875 1tn6A 382 1.79e+01 2gdqA 382 1.79e+01 1a9xA 1058 1.82e+01 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 1o08A 221 1.83e+01 c.108.1.6 86525 1l3lA 234 1.83e+01 a.4.6.2,d.110.5.1 73541,73542 2aq8A 269 1.85e+01 1eny 268 1.87e+01 1eny c.2.1.2 29910 2fpqA 444 1.88e+01 1ttzA 87 1.88e+01 c.47.1.1 107309 1yrcA 414 1.89e+01 1dp4A 435 1.90e+01 1dp4A c.93.1.1 35710 1yuzA 202 1.91e+01 1wcrA 103 1.91e+01 1s3cA 141 1.94e+01 1dkiA 371 1.95e+01 1dkiA d.3.1.1 37090 1t06A 235 1.96e+01 a.118.1.17 106194 1y7yA 74 1.97e+01 2bptA 861 1.99e+01 1z5hA 780 2.00e+01 1rlzA 369 2.06e+01 c.31.1.1 104989 1vf7A 369 2.08e+01 f.46.1.1 108557 1xsvA 113 2.09e+01 1w5fA 353 2.10e+01 1vqoB 338 2.10e+01 1d2zA 108 2.14e+01 1d2zA a.77.1.2 18437 1cs0A 1073 2.15e+01 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 1yiiA 320 2.15e+01 2dfkA 402 2.18e+01 1kpsB 171 2.18e+01 a.118.12.1 68787 1elkA 157 2.19e+01 1dvpA a.118.9.2 19217 2a19A 175 2.22e+01 1f60A 458 2.22e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1a3aA 148 2.30e+01 1a3aA d.112.1.1 40917 1unlD 208 2.31e+01 1wudA 89 2.34e+01 1dxeA 256 2.34e+01 1dxeA c.1.12.5 29310 1oxjA 173 2.39e+01 a.60.1.2,a.118.1.13 87517,87518 1h3nA 878 2.43e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1po5A 476 2.44e+01 a.104.1.1 94963 1khyA 148 2.45e+01 a.174.1.1 77410 2fnaA 357 2.46e+01 1vkmA 297 2.49e+01 c.138.1.1 108670 1l8rA 101 2.50e+01 a.6.1.4 73700 1ro7A 259 2.50e+01 c.130.1.1 97667 1hz4A 373 2.52e+01 a.118.8.2 65960 1dvkA 173 2.56e+01 1dvkA a.72.1.1 18319 1lycA 343 2.59e+01 a.93.1.1 74344 1sedA 117 2.63e+01 a.219.1.1 105449 1u00A 227 2.63e+01 1f7uA 607 2.66e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1ulyA 192 2.67e+01 1tffA 234 2.70e+01 d.3.1.11 106854 1je8A 82 2.72e+01 a.4.6.2 77108 2cmwA 310 2.77e+01 2g3kA 94 2.79e+01 1ho8A 480 2.86e+01 1ho8A a.118.1.9 61107 2bk9A 153 2.86e+01 1i5nA 146 2.92e+01 1i5nA a.24.10.3 61805 2evwX 166 2.93e+01 1h3qA 140 2.94e+01 d.110.4.3 76652 1c02A 166 2.97e+01 1qspA a.24.10.2 16633 2h1rA 299 3.01e+01 1d9cA 121 3.02e+01 1d9cA a.26.1.3 16901 1io7A 368 3.04e+01 1f4tA a.104.1.1 18971 1wmiA 90 3.06e+01 2c12A 439 3.07e+01 1dowA 205 3.11e+01 1dovA a.24.9.1 16626 2fiyA 309 3.12e+01 1e85A 127 3.13e+01 1bbhA a.24.3.2 16549 1oyzA 280 3.17e+01 a.118.1.16 93775 2etdA 171 3.19e+01 1rxqA 178 3.20e+01 a.213.1.1 105118 1z0xA 220 3.22e+01 1u59A 287 3.24e+01 d.144.1.7 107681 1ux5A 411 3.25e+01 a.207.1.1 100144 1lqtA 456 3.28e+01 c.3.1.1,c.4.1.1 74198,74199 2a35A 215 3.29e+01 1ufbA 127 3.30e+01 a.24.16.3 99331 1hf8A 289 3.31e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 2ez6A 221 3.33e+01 1xkgA 312 3.33e+01 2h58A 330 3.36e+01 2fswA 107 3.41e+01 1w9cA 321 3.43e+01 1gkpA 458 3.48e+01 b.92.1.3,c.1.9.6 70231,70232 1q1fA 151 3.49e+01 a.1.1.2 104476 2bkrA 212 3.50e+01 1umwA 237 3.53e+01 d.223.1.2,d.223.1.2 99631,99632 1xr4A 509 3.62e+01 1kn1B 161 3.63e+01 a.1.1.3 77456 2f2gA 221 3.67e+01 1efnB 152 3.69e+01 1efnB d.102.1.1 40699 1mg7A 417 3.71e+01 d.14.1.6,d.58.26.6 84954,84955 1zcjA 463 3.78e+01 1dq3A 454 3.81e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1vh6A 145 3.82e+01 a.24.19.1 100644 1ecmA 109 3.86e+01 1ecmA a.130.1.1 19492 1q5nA 454 3.88e+01 a.127.1.1 95901 1kw4A 89 3.90e+01 a.60.1.2 73077 1x52A 124 3.92e+01 1ovlA 271 3.92e+01 a.123.1.1 87455 1ash 150 3.95e+01 1ash a.1.1.2 15622 1v4aA 440 3.97e+01 a.24.16.4,d.218.1.9 108350,108351 1it2A 146 3.99e+01 a.1.1.2 66365 1k2xA 177 4.01e+01 d.153.1.5 90929 1tkeA 224 4.01e+01 1za0A 275 4.06e+01 1vi0A 206 4.06e+01 a.4.1.9,a.121.1.1 100720,100721 1wt4A 73 4.09e+01 2bfxA 284 4.14e+01 1aquA 297 4.18e+01 1aquA c.37.1.5 31942 1gt1A 159 4.19e+01 b.60.1.1 90515 1ixmA 192 4.22e+01 1ixmA d.123.1.1 41114 1xo1A 291 4.23e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1q0eA 152 4.30e+01 b.1.8.1 95504 1j1iA 296 4.33e+01 c.69.1.10 83977 1h05A 146 4.35e+01 c.23.13.1 76433 1guxB 152 4.36e+01 1guxB a.74.1.3 18389 1sz9A 144 4.38e+01 a.118.9.4 106139 1rp0A 284 4.41e+01 2b69A 343 4.44e+01 1pprM 312 4.45e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1wmwA 330 4.48e+01 1jfbA 404 4.49e+01 a.104.1.1 66624 2bnlA 136 4.50e+01 1hxiA 121 4.55e+01 1hxiA a.118.8.1 61366 2b9hA 353 4.63e+01 2ge3A 170 4.65e+01 1oaoC 729 4.66e+01 e.26.1.3 86746 1ail 73 4.75e+01 1ail a.16.1.1 16381 1hw1A 239 4.80e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1xdzA 240 4.81e+01 1y1nA 291 4.82e+01 1ufaA 520 4.82e+01 a.8.3.3,c.6.2.4 99329,99330 1hm6A 346 4.84e+01 1avc a.65.1.1 18147 1vqoM 195 4.89e+01 1ayx 492 4.89e+01 1ayx a.102.1.1 18825 1lj8A 493 5.00e+01 a.100.1.9,c.2.1.6 90392,90393 1u7lA 392 5.01e+01 1t7lA 766 5.11e+01 2cz2A 223 5.13e+01 1tf0B 53 5.15e+01 a.8.1.2 106825 1jyeA 349 5.21e+01 c.93.1.1 67455 1ois 223 5.25e+01 1a36A e.15.1.1 43267 1aba 87 5.32e+01 1aba c.47.1.1 32760 1ugpB 226 5.34e+01 b.34.4.4 107832 1n46A 258 5.35e+01 a.123.1.1 85315 2cj4A 150 5.39e+01 1rw1A 114 5.41e+01 1oohA 126 5.42e+01 a.39.2.1 93383 2amxA 376 5.47e+01 1kblA 873 5.50e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1z21A 112 5.52e+01 1ockA 412 5.53e+01 c.117.1.1 86802 1xhcA 367 5.55e+01 1m5wA 243 5.58e+01 c.1.24.1 84836 1jpaA 312 5.59e+01 d.144.1.7 67011 1k0dA 260 5.60e+01 a.45.1.1,c.47.1.5 67930,67931 1f3vA 179 5.62e+01 1f3vA d.58.22.1 39382 1p0yA 444 5.63e+01 a.166.1.1,b.85.7.3 87654,87655 1tcvA 287 5.64e+01 1fc4A 401 5.65e+01 1bs0A c.67.1.4 59760 1y7lA 316 5.66e+01 2gsvA 80 5.67e+01 2b4jC 98 5.69e+01 2bbrA 195 5.71e+01 1jboA 162 5.72e+01 a.1.1.3 84150 2d28C 149 5.73e+01 1b5l 172 5.74e+01 1b5l a.26.1.3 16900 1rq2A 382 5.75e+01 c.32.1.1,d.79.2.1 105048,105049 1zk8A 183 5.77e+01 1cpcA 162 5.77e+01 1cpcA a.1.1.3 15643 1xfrA 128 5.80e+01 1pbjA 125 5.81e+01 d.37.1.1,d.37.1.1 94414,94415 1t56A 216 5.83e+01 a.4.1.9,a.121.1.1 106428,106429 1tqgA 105 5.83e+01 a.24.10.3 107224 1v93A 296 5.84e+01 c.1.23.1 100532 2ab0A 205 5.84e+01 1wrjA 156 5.87e+01 2basA 431 5.90e+01 1vlbA 907 5.92e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 2d3dA 88 5.95e+01 1zu4A 320 5.96e+01 2iugA 120 5.96e+01 1x93A 55 5.99e+01 1mp1A 111 6.00e+01 a.188.1.1 91382 2gb7A 305 6.03e+01 1p4kA 295 6.07e+01 d.153.1.5 87772 1uixA 71 6.08e+01 h.1.27.1 99446 1sflA 238 6.15e+01 1zm7A 230 6.18e+01 1z3xA 238 6.22e+01 2fs3A 282 6.22e+01 1xteA 154 6.22e+01 2f6mB 109 6.27e+01 2fbaA 492 6.27e+01 1ybdA 239 6.32e+01 1xewX 182 6.35e+01 1mtzA 293 6.44e+01 c.69.1.7 79467 1mla 309 6.49e+01 1mla c.19.1.1,d.58.23.1 31031,39383 1j3bA 529 6.52e+01 c.91.1.1,c.109.1.1 77071,77072 1r4gA 53 6.54e+01 a.8.5.1 96996 1jqnA 883 6.73e+01 c.1.12.3 77159 1d4oA 184 6.75e+01 1d4oA c.31.1.4 31748 1dm5A 315 6.75e+01 1avc a.65.1.1 18186 256bA 106 6.77e+01 256bA a.24.3.1 16539 1omhA 293 6.83e+01 d.89.1.5 93348 1ngnA 155 6.83e+01 a.96.1.2 85697 1xx6A 191 6.85e+01 1xqrA 296 6.88e+01 2cpgA 45 6.93e+01 2cpgA a.43.1.3 17455 1x9mA 698 7.02e+01 2f6hX 419 7.03e+01 1rtwA 220 7.06e+01 a.132.1.3 97823 1tdpA 111 7.07e+01 a.29.8.1 106781 1jh6A 189 7.08e+01 d.61.1.1 66707 2h21A 440 7.09e+01 2bt2A 161 7.09e+01 1zowA 313 7.12e+01 1lmb3 92 7.16e+01 1lmb3 1px5A 349 7.19e+01 a.160.1.2,d.218.1.6 95277,95278 1irqA 71 7.19e+01 a.43.1.4 66297 1y8aA 332 7.19e+01 1m7yA 435 7.27e+01 c.67.1.4 78761 5eau 548 7.41e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1c3cA 429 7.45e+01 1c3cA a.127.1.1 19425 1s4bP 674 7.51e+01 d.92.1.5 105252 1ta9A 450 7.52e+01 1jalA 363 7.53e+01 c.37.1.8,d.15.10.2 84138,84139 1ualA 274 7.56e+01 c.116.1.4 88383 1tx4A 198 7.63e+01 1tx4A a.116.1.1 19098 2cwsA 237 7.72e+01 1nnwA 252 7.80e+01 d.159.1.5 80674 2gnoA 305 7.82e+01 1nu7D 282 7.86e+01 a.8.6.1,a.8.6.1 92191,92192 1ivyA 452 7.91e+01 1ivyA c.69.1.5 34654 1uok 558 7.92e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1wv8A 73 7.95e+01 3grs 478 8.02e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1wu7A 434 8.07e+01 1q8bA 105 8.15e+01 d.58.4.6 96201 1bg1A 722 8.17e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1ru3A 732 8.17e+01 e.26.1.3 97835 1p4xA 250 8.37e+01 a.4.5.28,a.4.5.28 87784,87785 1l8dA 112 8.38e+01 h.4.12.1 73687 1owfA 99 8.39e+01 a.55.1.1 87487 1dqzA 280 8.41e+01 1dqyA c.69.1.3 34638 1xb2B 291 8.42e+01 1r71A 178 8.60e+01 a.4.14.1 104823 1sfuA 75 8.60e+01 a.4.5.19 105503 2fexA 188 8.65e+01 2e2aA 105 8.67e+01 a.7.2.1 88499 2ftxA 90 8.70e+01 1s3eA 520 8.72e+01 c.3.1.2,d.16.1.5 98426,98427 1zavA 180 8.73e+01 1qazA 351 8.86e+01 1qazA a.102.3.1 18848 1a6m 151 8.90e+01 1a6m a.1.1.2 15018 1pq1A 196 8.91e+01 f.1.4.1 94986 1yovA 537 8.94e+01 2bl0C 142 8.95e+01 1t9iA 163 8.96e+01