# List of top-scoring protein chains for t06-100-30-o_notor2-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 2f4qA 346 7.49e-02 1ffyA 917 9.68e-02 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 2c3vA 102 2.30e-01 1qx4A 274 3.49e-01 b.43.4.2,c.25.1.1 104624,104625 1qjpA 171 9.56e-01 1bxwA f.4.1.1 43742 1zkdA 387 1.28e+00 1tp6A 128 1.45e+00 d.17.4.12 107184 1qhoA 686 1.51e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 2cu3A 64 2.06e+00 1lktA 104 2.10e+00 1lktA b.90.1.1 28398 1umkA 275 2.17e+00 1y14B 171 2.23e+00 1yaxA 153 2.28e+00 1cr5A 189 2.43e+00 1cr5A b.52.2.3,d.31.1.1 26931,38465 2a25A 193 2.50e+00 1iscA 192 2.74e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1z02A 446 2.81e+00 2a2pA 129 2.94e+00 1m65A 245 3.05e+00 c.6.3.1 84847 2h3jA 75 3.41e+00 1yx1A 264 3.99e+00 1e19A 314 4.48e+00 1b7bA c.73.1.1 34967 3ezmA 101 4.67e+00 3ezmA b.89.1.1 28395 1xfsA 178 5.03e+00 d.129.3.5 109589 1pylA 97 5.23e+00 d.1.1.2 104391 1z0wA 207 5.69e+00 1cqyA 99 5.99e+00 1b9zA b.3.1.1 22527 1pufB 73 6.34e+00 a.4.1.1 95132 1pz7A 204 6.57e+00 b.29.1.4 95405 1vetA 124 6.69e+00 d.110.7.1 108553 1b9wA 89 6.74e+00 1b9wA g.3.11.4,g.3.11.4 44334,44335 1vr9A 213 6.79e+00 1xvsA 126 6.86e+00 1b24A 188 6.95e+00 1b24A d.95.2.1,d.95.2.1 40573,40574 1qauA 112 6.98e+00 1qauA b.36.1.1 24779 1gpeA 587 7.34e+00 1gpeA c.3.1.2,d.16.1.1 30387,37951 1txkA 498 7.56e+00 b.1.18.2,b.30.5.9 107425,107426 1u58A 253 7.86e+00 1who 96 8.14e+00 1who b.7.3.1 23215 1nrlA 316 8.39e+00 a.123.1.1 92091 1ui0A 205 8.51e+00 c.18.1.2 99411 2cwzA 141 9.15e+00 1gqzA 274 9.43e+00 d.21.1.1,d.21.1.1 83311,83312 1vq2A 193 9.45e+00 1woyA 500 9.68e+00 2bgcA 238 9.83e+00 1v74A 107 1.01e+01 d.243.1.1 100442 1q7fA 286 1.01e+01 b.68.9.1 96036 1bywA 110 1.02e+01 1bywA d.110.3.6 40912 1lkkA 105 1.05e+01 1lckA d.93.1.1 40412 1k55A 246 1.05e+01 e.3.1.1 68156 1am2 199 1.06e+01 1am2 b.86.1.2 28381 1xksA 450 1.09e+01 1xkiA 162 1.11e+01 1vjvA 415 1.14e+01 d.3.1.9 108632 1th7A 81 1.15e+01 1ktbA 405 1.15e+01 b.71.1.1,c.1.8.1 72960,72961 1uhvA 500 1.16e+01 b.71.1.2,c.1.8.3 99402,99403 1ijqA 316 1.17e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 2gkeA 274 1.21e+01 2gwnA 452 1.22e+01 2fh5A 185 1.22e+01 1m93C 41 1.26e+01 1iow 306 1.29e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1csn 298 1.29e+01 1csn d.144.1.7 41664 2cr5A 109 1.31e+01 2gaiA 633 1.33e+01 1gy6A 127 1.41e+01 d.17.4.2 70736 1ro5A 201 1.45e+01 d.108.1.3 105023 1i88A 389 1.45e+01 c.95.1.2,c.95.1.2 66070,66071 1z47A 355 1.46e+01 1hg8A 349 1.48e+01 b.80.1.3 65830 2jdxA 385 1.50e+01 1jdw d.126.1.2 41139 2bjbA 462 1.55e+01 1s6xA 34 1.61e+01 1lniA 96 1.61e+01 d.1.1.2 74046 16pk 415 1.67e+01 16pk c.86.1.1 35454 1p2hA 571 1.69e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1ig8A 486 1.70e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1fjgP 88 1.70e+01 1emwA d.27.1.1 38444 1szoA 257 1.72e+01 c.14.1.3 106164 1jb7B 260 1.73e+01 1otcB b.40.4.3 62839 1hxrA 115 1.76e+01 1fwqA b.88.1.1 28392 2ge3A 170 1.84e+01 1dg9A 157 1.85e+01 1dg9A c.44.1.1 32637 1pm1X 180 1.88e+01 b.60.1.1 104189 1vemA 516 1.88e+01 2fafA 608 1.91e+01 1vrbA 342 1.91e+01 1d8hA 311 1.99e+01 1d8iA d.63.1.1 39544 1oshA 232 2.07e+01 a.123.1.1 93496 1s4nA 348 2.11e+01 c.68.1.16 98501 2bgiA 272 2.18e+01 1ttzA 87 2.20e+01 c.47.1.1 107309 2gclA 261 2.20e+01 1vkcA 158 2.25e+01 1fepA 724 2.35e+01 1fepA f.4.3.3 43808 1upiA 225 2.39e+01 b.82.1.1 99757 2arcA 164 2.40e+01 2arcA b.82.4.1 28148 1kfwA 435 2.43e+01 c.1.8.5,d.26.3.1 77376,77377 2fa8A 105 2.47e+01 2bt9A 90 2.47e+01 1xvqA 175 2.50e+01 1kzfA 230 2.50e+01 d.108.1.3 73354 1w9hA 427 2.51e+01 1f00I 282 2.55e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1jdw 423 2.59e+01 1jdw d.126.1.2 41129 1n5nA 180 2.61e+01 d.167.1.1 85336 1mhnA 59 2.62e+01 b.34.9.1 84964 1b8aA 438 2.66e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1b2pA 119 2.80e+01 1b2pA b.78.1.1 27998 2cn3A 737 2.85e+01 1m0dA 138 2.87e+01 c.52.1.17 74354 1twuA 139 2.88e+01 d.32.1.8 107413 1g8kA 825 2.96e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1m4iA 181 3.01e+01 d.108.1.1 74457 1gmuA 143 3.07e+01 b.107.1.1,d.58.38.1 65335,65336 1uasA 362 3.08e+01 b.71.1.1,c.1.8.1 88388,88389 1bquA 215 3.09e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 1kllA 130 3.12e+01 d.32.1.2 72720 1qwlA 505 3.18e+01 e.5.1.1 96483 2a4hA 126 3.25e+01 1qmvA 197 3.29e+01 1qq2A c.47.1.10 33066 1i0rA 169 3.29e+01 1i0rA b.45.1.2 61489 1xwwA 157 3.29e+01 1h6hA 143 3.31e+01 d.189.1.1 65681 1h4rA 314 3.33e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1uliA 460 3.36e+01 b.33.1.2,d.129.3.3 107921,107922 1jmxA 494 3.36e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1iakA 199 3.37e+01 1iakA b.1.1.2,d.19.1.1 21625,38199 1i2uA 44 3.39e+01 g.3.7.4 65987 2go8A 122 3.40e+01 1m1zA 513 3.42e+01 c.26.2.1,d.153.1.1 78457,78458 1v0jA 399 3.46e+01 1cv8 174 3.48e+01 1cv8 d.3.1.1 37089 1kjvA 284 3.51e+01 b.1.1.2,d.19.1.1 77421,77422 2b59B 172 3.51e+01 1vjfA 180 3.54e+01 d.116.1.1 100809 1wm3A 72 3.54e+01 1k8kA 418 3.63e+01 c.55.1.1,c.55.1.1 68305,68306 1epfA 191 3.63e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 2bkrA 212 3.63e+01 1vggA 161 3.63e+01 1ospO 257 3.69e+01 1ospO b.76.1.1 27971 1uvqA 197 3.75e+01 b.1.1.2,d.19.1.1 100062,100063 1omhA 293 3.78e+01 d.89.1.5 93348 1gt1A 159 3.82e+01 b.60.1.1 90515 1wj9A 211 3.82e+01 1wvqA 167 3.85e+01 1iwdA 215 3.86e+01 d.3.1.1 83756 1whzA 70 3.88e+01 1hd2A 161 3.89e+01 c.47.1.10 60962 1yifA 533 3.90e+01 1ecfA 504 3.90e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1q7lB 88 3.91e+01 1p80A 753 3.92e+01 c.23.16.3,e.5.1.1 94337,94338 1dcjA 81 3.93e+01 1dcjA d.68.3.3 59115 1gtkA 313 3.93e+01 c.94.1.1,d.50.2.1 76346,76347 1fp1D 372 4.00e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1mgqA 83 4.00e+01 b.38.1.1 79099 1h9oA 112 4.03e+01 1qadA d.93.1.1 60837 1u00A 227 4.06e+01 1yuzA 202 4.07e+01 1e25A 282 4.09e+01 1e25A e.3.1.1 42731 1iq9A 61 4.10e+01 g.7.1.1 90669 2b49A 287 4.11e+01 1lkoA 191 4.11e+01 a.25.1.1,g.41.5.1 78063,78064 1zsyA 357 4.12e+01 1ne9A 335 4.12e+01 d.108.1.4,d.108.1.4 91839,91840 1xkzA 255 4.12e+01 1xkgA 312 4.14e+01 1ri9A 102 4.14e+01 b.34.2.1 97506 1va4A 279 4.17e+01 c.69.1.12 108458 2fc7A 82 4.20e+01 3nul 130 4.24e+01 3nul d.110.1.1 40891 1qqp1 213 4.24e+01 1qqp1 1pjxA 314 4.27e+01 b.68.6.1 104167 1f2tB 148 4.30e+01 1f2tB 4tsvA 150 4.31e+01 2tnfA b.22.1.1 23860 1ayaA 101 4.31e+01 1qadA d.93.1.1 40460 1wywA 230 4.31e+01 2ey4C 82 4.33e+01 1ofzA 312 4.36e+01 b.68.8.1 86978 1pcfA 66 4.37e+01 1pcfA d.18.1.1 38142 2c2aA 258 4.37e+01 1fnd 314 4.38e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1ny1A 240 4.39e+01 c.6.2.3 86395 1qfxA 460 4.42e+01 1qfxA c.60.1.2 33994 1f39A 101 4.49e+01 1umuA b.87.1.1 28386 1bhtA 176 4.57e+01 1bhtA g.10.1.1,g.14.1.1 44603,44663 2cspA 130 4.59e+01 1vbvA 105 4.62e+01 1pl3A 186 4.62e+01 b.1.9.1 88158 2cfuA 658 4.68e+01 1lgpA 116 4.73e+01 b.26.1.2 73890 1pvmA 184 4.75e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1r0uA 148 4.79e+01 b.60.1.5 96741 1b63A 333 4.82e+01 1b63A d.14.1.3,d.122.1.2 37566,41107 1lwdA 413 4.83e+01 c.77.1.1 78265 1i3dA 146 4.84e+01 a.1.1.2 61587 1mxiA 160 4.87e+01 c.116.1.1 79646 1ey4A 149 4.87e+01 1snc b.40.1.1 24815 1bx1A 314 4.90e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 2sli 679 4.92e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1xqaA 113 4.96e+01 1w41A 101 5.00e+01 1zghA 260 5.04e+01 1zo2A 129 5.07e+01 1xebA 150 5.11e+01 1euvB 86 5.14e+01 1a5r d.15.1.1 37598 1huxA 270 5.19e+01 1huxA c.55.1.5 61278 1vqoS 85 5.21e+01 1vhnA 318 5.23e+01 c.1.4.1 100693 1yfqA 342 5.23e+01 2esnA 310 5.24e+01 1tkeA 224 5.30e+01 1xrkA 124 5.31e+01 1jbwA 428 5.32e+01 c.59.1.2,c.72.2.2 62860,62861 2ciaA 102 5.33e+01 1npsA 88 5.34e+01 1prs b.11.1.1 23622 1ng2A 193 5.38e+01 b.34.2.1,b.34.2.1 85660,85661 1y88A 199 5.47e+01 1r53A 382 5.51e+01 d.258.1.1 97063 1xf1A 926 5.54e+01 1z2mA 155 5.55e+01 2bjfA 329 5.64e+01 1y4hA 188 5.67e+01 1byrA 155 5.67e+01 1byrA d.136.1.1 41450 1yb3A 175 5.68e+01 1hkfA 122 5.70e+01 b.1.1.1 83553 1jyeA 349 5.73e+01 c.93.1.1 67455 2sns 149 5.76e+01 1snc b.40.1.1 24860 1azsA 220 5.77e+01 1azsA d.58.29.1 39416 2bcgY 206 5.80e+01 1b77A 228 5.81e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1e3dA 266 5.82e+01 2frvA e.19.1.1 59188 1u14A 172 5.83e+01 c.51.4.3 107579 1ju2A 536 5.87e+01 c.3.1.2,d.16.1.1 77169,77170 1w4tA 299 5.88e+01 1jofA 365 5.93e+01 b.69.10.1 71775 2fb1A 226 5.94e+01 1nkiA 135 5.96e+01 d.32.1.2 91941 1oxdA 227 5.97e+01 d.22.1.1 93687 1vcdA 126 6.05e+01 1n9lA 109 6.11e+01 d.110.3.6 85468 1xhcA 367 6.16e+01 2g09A 297 6.17e+01 1kpsB 171 6.21e+01 a.118.12.1 68787 1ksiA 642 6.22e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1qveA 126 6.24e+01 d.24.1.1 104594 2ci9A 102 6.24e+01 1cbf 285 6.25e+01 1cbf c.90.1.1 35587 1k1eA 180 6.26e+01 c.108.1.5 67995 1tqxA 227 6.31e+01 1qhdA 398 6.36e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1vqoE 178 6.49e+01 1htrB 329 6.50e+01 1smrA 1nd4A 264 6.54e+01 d.144.1.6 91815 2czrA 226 6.66e+01 1wkyA 464 6.71e+01 1uliB 187 6.72e+01 d.17.4.4 107923 1gmyA 261 6.76e+01 d.3.1.1 76236 2cmuA 342 6.77e+01 2gu3A 136 6.77e+01 1l6sA 323 6.79e+01 c.1.10.3 73627 2aa4A 289 6.81e+01 1id0A 152 6.85e+01 d.122.1.3 66111 2grrB 170 6.88e+01 1b6rA 355 6.90e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28241,31648,41493 1vefA 395 6.93e+01 1gskA 513 6.95e+01 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 1s4iA 175 6.95e+01 1aj2 282 7.00e+01 1aj2 c.1.21.1 29665 1rkqA 282 7.04e+01 c.108.1.10 97621 1yirA 408 7.09e+01 1utyA 187 7.09e+01 b.147.1.1 108036 1gweA 503 7.16e+01 e.5.1.1 70667 1jb0E 75 7.17e+01 1pse b.34.4.2 62824 1yqtA 538 7.26e+01 2g6yA 217 7.29e+01 1v4xB 146 7.31e+01 a.1.1.2 108364 2ct5A 73 7.34e+01 1bupA 386 7.35e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1um5H 217 7.35e+01 1xuvA 178 7.43e+01 1te7A 103 7.47e+01 2fl7A 232 7.50e+01 1x3sA 195 7.54e+01 1zczA 464 7.60e+01 1wn5A 130 7.61e+01 1o7iA 119 7.64e+01 b.40.4.3 86642 2ao9A 155 7.71e+01 1r77A 103 7.72e+01 1qr0A 228 7.78e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1ztcA 221 7.81e+01 1dpgA 485 7.85e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 2b6dA 345 7.87e+01 2b7eA 59 7.89e+01 2bukA 196 7.90e+01 1ugjA 141 7.90e+01 b.41.1.3 107826 1wosA 364 7.92e+01 b.44.2.1,d.250.1.1 109468,109469 1s5jA 847 7.93e+01 2mprA 421 7.94e+01 2mprA f.4.3.2 43788 1vjlA 164 7.98e+01 d.257.1.1 100822 1aop 497 8.01e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 2a8eA 220 8.21e+01 1pxvA 183 8.25e+01 d.3.1.1 95301 1r4pB 70 8.30e+01 b.40.2.1 97026 2bvcA 486 8.36e+01 1g8aA 227 8.40e+01 c.66.1.3 90506 1y9wA 140 8.41e+01 1k94A 165 8.41e+01 a.39.1.8 68333 1tqzA 133 8.43e+01 1vbiA 344 8.44e+01 1m5q1 130 8.51e+01 1tedA 393 8.52e+01 c.95.1.2 106807 1i07A 60 8.57e+01 1aojA b.34.2.1 61477 8fabA 212 8.58e+01 8fabA b.1.1.1,b.1.1.2 19772,20882 2afaA 425 8.60e+01 1vkiA 181 8.73e+01 d.116.1.1 108664 2g45A 129 8.75e+01 1qe3A 489 8.76e+01 2bce c.69.1.1 34630 1h0hA 977 8.86e+01 b.52.2.2,c.81.1.1 76435,76436 1wruA 379 8.90e+01 1oz2A 331 8.95e+01 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783