# List of top-scoring protein chains for t04-100-30-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 1v4eA 299 2.48e-01 a.128.1.1 100296 2aelA 374 4.63e-01 1f45B 197 5.38e-01 1f45B a.26.1.1 59642 1yyqA 374 5.74e-01 1zejA 293 5.77e-01 1htjF 210 7.89e-01 1htjF a.91.1.1 61254 1gcb 454 8.52e-01 3gcb d.3.1.1 37034 1kiyA 374 9.31e-01 a.128.1.5 72555 2fbnA 198 1.11e+00 1ry6A 360 1.56e+00 c.37.1.9 98090 1huxA 270 1.57e+00 1huxA c.55.1.5 61278 1w33A 181 1.79e+00 1b3uA 588 1.80e+00 1b3uA a.118.1.2 19135 1de4C 640 1.84e+00 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1omwA 689 2.03e+00 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 3gcb 470 2.13e+00 3gcb d.3.1.1 37032 2grrB 170 2.57e+00 1rqjA 299 2.86e+00 a.128.1.1 97744 2bvfA 459 2.90e+00 2chnA 716 3.21e+00 2g38B 198 4.02e+00 1zs3A 182 4.47e+00 2gyqA 175 4.62e+00 1fs1B 141 4.93e+00 1vcbB a.157.1.1,d.42.1.1 19252,38664 1e7lA 157 5.05e+00 1en7A a.140.4.1,d.4.1.5 64728,64729 1t0fA 276 5.62e+00 1wtyA 119 5.82e+00 1wn0A 145 5.91e+00 1wzdA 215 5.93e+00 1f1zA 273 6.05e+00 1f1zA a.4.5.27,c.52.1.16 16081,33334 2choA 716 6.07e+00 1mkiA 330 6.36e+00 e.3.1.2 84994 2eueA 279 6.41e+00 1b5pA 385 6.56e+00 c.67.1.1 90403 1ofcX 304 7.02e+00 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2b1eA 564 7.18e+00 1bjwA 382 7.30e+00 1bjwA c.67.1.1 34349 2br9A 234 7.49e+00 1mo9A 523 8.22e+00 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1zb1A 392 8.70e+00 1vqrA 297 8.77e+00 1wdgA 94 8.90e+00 h.3.3.1 109248 1lmzA 187 8.99e+00 a.96.1.4 74037 1m32A 366 9.40e+00 c.67.1.3 78508 1tafA 68 9.82e+00 1tafA a.22.1.3 16481 2absA 383 1.01e+01 1z77A 200 1.07e+01 1wkqA 164 1.12e+01 c.97.1.2 109393 1kxpD 458 1.20e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1axn 323 1.20e+01 1avc a.65.1.1 18149 1ju3A 583 1.21e+01 b.18.1.13,c.69.1.21 67300,67301 1m70A 190 1.21e+01 a.3.1.4,a.3.1.4 91200,91201 1w9gA 104 1.23e+01 1iw0A 215 1.24e+01 a.132.1.1 83720 1aisB 200 1.24e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1jk0B 345 1.25e+01 a.25.1.2 63143 2ahqA 76 1.26e+01 2b67A 204 1.26e+01 1e5rA 290 1.33e+01 1e5rA b.82.2.4 59276 1hu3A 260 1.35e+01 1hu3A a.118.1.14 19137 1t3wA 148 1.38e+01 1f5nA 592 1.41e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1cktA 71 1.43e+01 1cktA a.21.1.1 16417 2auwA 170 1.46e+01 1myt 146 1.47e+01 1a6m a.1.1.2 15207 1paqA 189 1.48e+01 a.118.1.14 94413 1rzhL 281 1.48e+01 f.26.1.1 98164 1d8dA 377 1.53e+01 1ft1A a.118.6.1 19185 1w7jA 795 1.56e+01 1r0vA 305 1.58e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1s7zA 117 1.60e+01 a.159.3.1 98715 1nc5A 373 1.62e+01 a.102.1.6 85548 1x3kA 152 1.62e+01 1qlpA 394 1.64e+01 1ovaA e.1.1.1 42628 2azjA 289 1.65e+01 2astA 159 1.66e+01 1nznA 126 1.69e+01 a.118.8.1 92382 1yfsA 465 1.75e+01 1ej2A 181 1.77e+01 1f9aA c.26.1.3 59414 1g60A 260 1.77e+01 c.66.1.11 70151 1l5jA 865 1.78e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1wwpA 119 1.78e+01 1v9nA 360 1.85e+01 1nfvA 179 1.85e+01 a.25.1.1 85642 1ass 159 1.90e+01 1a6dA c.8.5.2 30818 1vf1A 229 1.91e+01 1hyp 80 1.94e+01 1hyp a.52.1.1 17806 1b8dA 164 1.95e+01 1cpcA a.1.1.3 15665 1liiA 363 1.95e+01 c.72.1.1 73921 1wz7A 111 1.96e+01 2gmyA 153 1.98e+01 1ciy 590 1.98e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1jnyA 435 1.98e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1s72B 338 2.00e+01 b.43.3.2 105320 1yiiA 320 2.03e+01 2db0A 253 2.04e+01 1wusA 180 2.08e+01 1gntA 553 2.08e+01 e.26.1.1 70290 2b3hA 329 2.10e+01 1oe8A 211 2.12e+01 a.45.1.1,c.47.1.5 86905,86906 2fnaA 357 2.13e+01 1tn6A 382 2.14e+01 1xfhA 422 2.17e+01 1x1nA 524 2.19e+01 1tiyA 164 2.20e+01 c.97.1.2 107012 2sqcA 631 2.25e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1e2uA 553 2.26e+01 1e1dA e.26.1.1 43362 1jj2B 337 2.27e+01 1ffkB b.43.3.2 63086 1oe9A 795 2.31e+01 b.34.3.1,c.37.1.9 92792,92793 2c6cA 707 2.32e+01 1riqA 465 2.33e+01 a.203.1.1,d.104.1.1 97516,97517 2ap3A 199 2.33e+01 1y7yA 74 2.33e+01 1qhlA 227 2.35e+01 1qhlA c.37.1.12 32382 2masA 314 2.36e+01 2masA c.70.1.1 34810 2beqA 38 2.38e+01 1eqfA 280 2.39e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1m8jA 181 2.44e+01 c.26.1.3 84875 2fx0A 201 2.44e+01 1ow4A 129 2.47e+01 a.39.2.1 93628 1eny 268 2.48e+01 1eny c.2.1.2 29910 1jlwA 219 2.50e+01 a.45.1.1,c.47.1.5 71741,71742 2aq8A 269 2.50e+01 1pc3A 350 2.51e+01 c.94.1.1 104102 1g3mA 294 2.53e+01 c.37.1.5 83268 1t9kA 347 2.56e+01 c.124.1.5 106721 1vf7A 369 2.59e+01 f.46.1.1 108557 1khyA 148 2.62e+01 a.174.1.1 77410 1a9xA 1058 2.63e+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 1ll2A 333 2.65e+01 c.68.1.14 74005 1yrcA 414 2.67e+01 2dfkA 402 2.75e+01 1ttzA 87 2.81e+01 c.47.1.1 107309 1x46A 150 2.81e+01 1vkeA 133 2.82e+01 a.152.1.2 108650 1uc2A 481 2.83e+01 d.261.1.1 99161 1vqoB 338 2.88e+01 1s3cA 141 2.97e+01 1cs0A 1073 3.00e+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 1unlD 208 3.01e+01 2fpqA 444 3.01e+01 1t06A 235 3.02e+01 a.118.1.17 106194 1ohgA 282 3.04e+01 d.183.1.1 93018 1wcrA 103 3.06e+01 2bptA 861 3.06e+01 1io7A 368 3.11e+01 1f4tA a.104.1.1 18971 1xsvA 113 3.12e+01 1dkiA 371 3.13e+01 1dkiA d.3.1.1 37090 1je8A 82 3.14e+01 a.4.6.2 77108 1vi0A 206 3.15e+01 a.4.1.9,a.121.1.1 100720,100721 1elkA 157 3.16e+01 1dvpA a.118.9.2 19217 1z5hA 780 3.16e+01 1tffA 234 3.25e+01 d.3.1.11 106854 1j9bA 141 3.26e+01 c.47.1.12 66459 1tlfA 301 3.29e+01 1tlfA c.93.1.1 35687 1kpsB 171 3.30e+01 a.118.12.1 68787 2gdqA 382 3.32e+01 1dxeA 256 3.33e+01 1dxeA c.1.12.5 29310 1ro7A 259 3.38e+01 c.130.1.1 97667 1f60A 458 3.39e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1l8rA 101 3.43e+01 a.6.1.4 73700 2g3kA 94 3.43e+01 1rp4A 389 3.53e+01 a.227.1.1 105027 1p4oA 322 3.54e+01 d.144.1.7 87775 1yoyA 175 3.57e+01 1rkeA 262 3.61e+01 a.24.9.1,a.24.9.1 97608,97609 1di1A 300 3.67e+01 1di1A a.128.1.4 19446 2a19A 175 3.68e+01 1xt9A 212 3.69e+01 2bkrA 212 3.72e+01 2bkqA 212 3.72e+01 1or7C 90 3.79e+01 a.180.1.1 87336 1oxjA 173 3.79e+01 a.60.1.2,a.118.1.13 87517,87518 1l3lA 234 3.80e+01 a.4.6.2,d.110.5.1 73541,73542 1a04A 215 3.81e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1lycA 343 3.83e+01 a.93.1.1 74344 2etdA 171 3.87e+01 1h3nA 878 3.91e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1rlzA 369 3.93e+01 c.31.1.1 104989 1dp4A 435 3.96e+01 1dp4A c.93.1.1 35710 1c02A 166 3.97e+01 1qspA a.24.10.2 16633 1dvkA 173 3.97e+01 1dvkA a.72.1.1 18319 1wudA 89 3.98e+01 1w5fA 353 3.99e+01 1a3aA 148 4.05e+01 1a3aA d.112.1.1 40917 1ld8A 382 4.06e+01 a.118.6.1 73838 1ulyA 192 4.10e+01 1lqtA 456 4.12e+01 c.3.1.1,c.4.1.1 74198,74199 1wmiA 90 4.16e+01 1yuzA 202 4.18e+01 2fiyA 309 4.23e+01 1e85A 127 4.23e+01 1bbhA a.24.3.2 16549 1hz4A 373 4.26e+01 a.118.8.2 65960 1ho8A 480 4.27e+01 1ho8A a.118.1.9 61107 1qgrA 876 4.30e+01 1qgrA a.118.1.1 19119 1g7oA 215 4.31e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 2evwX 166 4.32e+01 1o08A 221 4.39e+01 c.108.1.6 86525 1sedA 117 4.42e+01 a.219.1.1 105449 2h1rA 299 4.44e+01 1h3qA 140 4.47e+01 d.110.4.3 76652 1hf8A 289 4.47e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1aru 344 4.48e+01 1arv a.93.1.1 18589 1d2zA 108 4.49e+01 1d2zA a.77.1.2 18437 1q5nA 454 4.54e+01 a.127.1.1 95901 1it2A 146 4.59e+01 a.1.1.2 66365 1ezvH 74 4.59e+01 1be3H f.28.1.1 59552 1dz4A 414 4.61e+01 1phd a.104.1.1 18903 1f7uA 607 4.61e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1xo1A 291 4.67e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1bmtA 246 4.77e+01 1bmtA a.46.1.1,c.23.6.1 17757,31235 1vkmA 297 4.78e+01 c.138.1.1 108670 1pwhA 327 4.79e+01 c.79.1.1 95224 1rxqA 178 4.80e+01 a.213.1.1 105118 2fswA 107 4.85e+01 1fftC 204 4.87e+01 1fftC f.25.1.1 43629 1u00A 227 4.92e+01 1i5nA 146 4.99e+01 1i5nA a.24.10.3 61805 1w6tA 444 4.99e+01 2dhqA 146 5.00e+01 2dhqA c.23.13.1 31382 2bk9A 153 5.01e+01 1xkgA 312 5.03e+01 1dowA 205 5.05e+01 1dovA a.24.9.1 16626 2a35A 215 5.13e+01 1oohA 126 5.15e+01 a.39.2.1 93383 1dm5A 315 5.18e+01 1avc a.65.1.1 18186 1j1iA 296 5.24e+01 c.69.1.10 83977 1kn1B 161 5.25e+01 a.1.1.3 77456 1fo1A 271 5.27e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 1umwA 237 5.29e+01 d.223.1.2,d.223.1.2 99631,99632 2f2gA 221 5.30e+01 1ufbA 127 5.36e+01 a.24.16.3 99331 1xr4A 509 5.38e+01 1u7lA 392 5.39e+01 1ho1A 242 5.40e+01 1ho1A c.1.24.1 61097 1obpA 159 5.42e+01 1obpA b.60.1.1 27092 1t7pA 698 5.45e+01 1t7pA c.55.3.5,e.8.1.1 33712,43005 1tkeA 224 5.46e+01 2h58A 330 5.47e+01 1qmqA 414 5.48e+01 1phd a.104.1.1 18907 2bvyA 475 5.48e+01 2c12A 439 5.49e+01 1efnB 152 5.50e+01 1efnB d.102.1.1 40699 1dq3A 454 5.52e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1ixmA 192 5.57e+01 1ixmA d.123.1.1 41114 1zmbA 290 5.57e+01 1re9A 414 5.61e+01 1kb9F 74 5.69e+01 f.28.1.1 77321 1mg7A 417 5.70e+01 d.14.1.6,d.58.26.6 84954,84955 1d9cA 121 5.71e+01 1d9cA a.26.1.3 16901 2cmwA 310 5.74e+01 2ge3A 170 5.80e+01 1ash 150 5.82e+01 1ash a.1.1.2 15622 1w9cA 321 5.87e+01 1pv9A 348 5.87e+01 c.55.2.1,d.127.1.1 95157,95158 2ez6A 221 5.87e+01 2bfxA 284 5.89e+01 1aquA 297 5.89e+01 1aquA c.37.1.5 31942 1gkpA 458 5.89e+01 b.92.1.3,c.1.9.6 70231,70232 1cbjA 151 5.90e+01 1mfmA b.1.8.1 22213 1jfbA 404 5.93e+01 a.104.1.1 66624 1rp0A 284 5.97e+01 1q0eA 152 6.01e+01 b.1.8.1 95504 1h05A 146 6.03e+01 c.23.13.1 76433 1jyeA 349 6.06e+01 c.93.1.1 67455 2b9hA 353 6.15e+01 1ecmA 109 6.21e+01 1ecmA a.130.1.1 19492 1guxB 152 6.24e+01 1guxB a.74.1.3 18389 1q1fA 151 6.36e+01 a.1.1.2 104476 1sz9A 144 6.39e+01 a.118.9.4 106139 1j3bA 529 6.39e+01 c.91.1.1,c.109.1.1 77071,77072 1wt4A 73 6.40e+01 1gt1A 159 6.40e+01 b.60.1.1 90515 1hn2A 159 6.40e+01 b.60.1.1 65890 1k2xA 177 6.43e+01 d.153.1.5 90929 1gg1A 350 6.45e+01 1qr7A c.1.10.4 29187 1vh6A 145 6.48e+01 a.24.19.1 100644 2bbrA 195 6.55e+01 1zu4A 320 6.56e+01 1u59A 287 6.71e+01 d.144.1.7 107681 1nx8A 273 6.72e+01 b.82.2.8 86374 1x52A 124 6.72e+01 1kw4A 89 6.73e+01 a.60.1.2 73077 2cj4A 150 6.78e+01 2gsvA 80 6.78e+01 1y1nA 291 6.79e+01 1oyzA 280 6.89e+01 a.118.1.16 93775 1za0A 275 6.90e+01 2amxA 376 6.90e+01 1wmwA 330 6.95e+01 1rj1A 151 6.98e+01 a.29.6.1 97526 1kblA 873 7.08e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1ufaA 520 7.10e+01 a.8.3.3,c.6.2.4 99329,99330 2bl0C 142 7.11e+01 1etxA 98 7.16e+01 1fipA a.4.1.12 18978 1ail 73 7.24e+01 1ail a.16.1.1 16381 1ux5A 411 7.24e+01 a.207.1.1 100144 1pprM 312 7.30e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1lj8A 493 7.36e+01 a.100.1.9,c.2.1.6 90392,90393 1m5wA 243 7.37e+01 c.1.24.1 84836 1zk8A 183 7.37e+01 1ovlA 271 7.38e+01 a.123.1.1 87455 1zcjA 463 7.39e+01 1k1xA 659 7.42e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1fh6A 282 7.43e+01 1fh6A 2bt2A 161 7.53e+01 1xdzA 240 7.54e+01 1x93A 55 7.66e+01 1tf0B 53 7.68e+01 a.8.1.2 106825 1tcvA 287 7.70e+01 2bnlA 136 7.73e+01 1hxiA 121 7.73e+01 1hxiA a.118.8.1 61366 1v4aA 440 7.74e+01 a.24.16.4,d.218.1.9 108350,108351 1ockA 412 7.76e+01 c.117.1.1 86802 1ois 223 7.79e+01 1a36A e.15.1.1 43267 1z21A 112 7.80e+01 2d3dA 88 7.84e+01 1oaoC 729 7.85e+01 e.26.1.3 86746 1tqgA 105 7.88e+01 a.24.10.3 107224 1k0dA 260 7.88e+01 a.45.1.1,c.47.1.5 67930,67931 1cpcA 162 7.89e+01 1cpcA a.1.1.3 15643 1a8b 318 7.89e+01 1avc a.65.1.1 18171 2f8kA 88 7.93e+01 2cz2A 223 7.94e+01 2b69A 343 7.96e+01 1p0yA 444 7.97e+01 a.166.1.1,b.85.7.3 87654,87655 1zm7A 230 8.00e+01 1t7lA 766 8.01e+01 1tdpA 111 8.11e+01 a.29.8.1 106781 2f1sA 186 8.16e+01 1rw1A 114 8.29e+01 1jh6A 189 8.30e+01 d.61.1.1 66707 2basA 431 8.31e+01 1q4mA 221 8.32e+01 a.132.1.3 95805 2azqA 311 8.33e+01 1maz 221 8.35e+01 1maz f.1.4.1 43393 1nnwA 252 8.38e+01 d.159.1.5 80674 1hw1A 239 8.44e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1b5l 172 8.46e+01 1b5l a.26.1.3 16900 1xqrA 296 8.47e+01 1mp1A 111 8.47e+01 a.188.1.1 91382 1xhcA 367 8.49e+01 1t5eA 360 8.50e+01 f.46.1.1 106436 1c3cA 429 8.52e+01 1c3cA a.127.1.1 19425 1z0xA 220 8.54e+01 1vlbA 907 8.58e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 2iugA 120 8.60e+01 1hlrA 907 8.60e+01 1jalA 363 8.69e+01 c.37.1.8,d.15.10.2 84138,84139 1ugpB 226 8.71e+01 b.34.4.4 107832 1mvwB 145 8.72e+01 i.15.1.1 79524 2ab0A 205 8.73e+01 1n46A 258 8.73e+01 a.123.1.1 85315 1y8aA 332 8.74e+01 1y7lA 316 8.78e+01 256bA 106 8.78e+01 256bA a.24.3.1 16539 1px5A 349 8.78e+01 a.160.1.2,d.218.1.6 95277,95278 1qbkB 890 8.83e+01 1qbkB a.118.1.1 19127 1x9mA 698 8.83e+01 1mc0A 368 8.87e+01 d.110.2.1,d.110.2.1 78937,78938 1fc4A 401 8.88e+01 1bs0A c.67.1.4 59760 1wrjA 156 8.90e+01 1cei 94 8.91e+01 1cei a.28.2.1 16939 1fiy 883 8.92e+01 1fiy c.1.12.3 29307 1xfrA 128 8.94e+01