# 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 1atg 231 1.81e-01 1atg c.94.1.1 35834 1fp1D 372 1.95e-01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1u0sA 86 4.14e-01 d.58.24.1 107565 1tib 269 4.87e-01 3tgl c.69.1.17 34738 1t6nA 220 6.28e-01 c.37.1.19 106576 1zghA 260 8.41e-01 2a10A 125 8.79e-01 1uarA 285 9.28e-01 c.46.1.2,c.46.1.2 107762,107763 1prxA 224 9.75e-01 1prxA c.47.1.10 33076 2ajrA 331 1.60e+00 1qtqA 553 2.10e+00 1gtrA b.53.1.2,c.26.1.1 26940,31579 1yqgA 263 2.13e+00 1x9iA 302 2.43e+00 1k87A 669 2.58e+00 a.176.1.1,c.1.23.2 77286,77287 2bvfA 459 2.69e+00 1ys7A 233 2.74e+00 1rg9A 383 2.98e+00 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 2cg4A 152 3.11e+00 1xu9A 286 3.15e+00 1qwkA 317 3.30e+00 c.1.7.1 96482 1vggA 161 3.41e+00 1v25A 541 3.62e+00 e.23.1.1 108275 1v72A 356 3.73e+00 1ispA 181 3.74e+00 c.69.1.18 76778 1mzhA 225 3.86e+00 c.1.10.1 79698 1zn6A 227 4.11e+00 2g6tA 306 4.41e+00 2g0wA 296 4.46e+00 1u5tB 169 4.71e+00 a.4.5.54,a.4.5.54 107686,107687 2cw8A 537 4.82e+00 1ywqA 200 5.16e+00 1i3cA 149 5.31e+00 c.23.1.1 71112 1cjwA 166 5.40e+00 1cjwA d.108.1.1 40818 1xccA 220 5.55e+00 1eluA 390 5.96e+00 1elqA c.67.1.3 34434 2a3nA 355 6.26e+00 1whvA 100 6.34e+00 2f9sA 151 6.41e+00 1luaA 287 6.46e+00 c.2.1.7,c.58.1.4 78216,78217 1wekA 217 6.65e+00 1o4sA 389 6.84e+00 c.67.1.1 86620 1wmaA 276 6.92e+00 1spxA 278 7.19e+00 c.2.1.2 98958 1k9uA 78 7.24e+00 a.39.1.10 84348 1cydA 244 7.72e+00 1cydA c.2.1.2 29825 1ogsA 497 7.77e+00 b.71.1.2,c.1.8.3 86997,86998 1c7gA 456 8.03e+00 c.67.1.2 90415 1zavA 180 8.66e+00 1xocA 520 9.03e+00 1wohA 305 9.58e+00 c.42.1.1 109446 1l3kA 196 9.73e+00 d.58.7.1,d.58.7.1 73539,73540 1amf 233 9.73e+00 1wod c.94.1.1 35833 1w3iA 293 9.86e+00 c.1.10.1 109152 1j5xA 342 1.00e+01 c.80.1.1 71591 1oi7A 288 1.02e+01 c.2.1.8,c.23.4.1 87049,87050 1lssA 140 1.04e+01 c.2.1.9 74246 1zzmA 259 1.08e+01 1sheA 103 1.09e+01 d.274.1.1 105551 2f4iA 197 1.12e+01 1sd4A 126 1.14e+01 a.4.5.39 105428 1zjkA 403 1.14e+01 1vk9A 151 1.15e+01 c.139.1.1 108640 2bkkA 264 1.17e+01 1uxtA 501 1.18e+01 c.82.1.1 108125 1st9A 143 1.22e+01 c.47.1.10 98987 1w9hA 427 1.26e+01 1yt8A 539 1.26e+01 2a2fX 325 1.28e+01 1v4pA 157 1.31e+01 1y1pA 342 1.39e+01 1qd9A 124 1.41e+01 1qu9A d.79.1.1 39758 1obbA 480 1.47e+01 c.2.1.5,d.162.1.2 86760,86761 2atzA 180 1.48e+01 1m45A 148 1.51e+01 a.39.1.5 78598 1io2A 213 1.51e+01 1ekeA c.55.3.1 62612 1u02A 239 1.53e+01 c.108.1.15 107538 1qu9A 128 1.54e+01 1qu9A d.79.1.1 39755 1ecsA 126 1.56e+01 1ecsA d.32.1.2 59407 2g0dA 409 1.57e+01 2cvdA 198 1.57e+01 1j5pA 253 1.60e+01 d.81.1.3,c.2.1.3 71577,83092 2gdjA 264 1.60e+01 1w7jB 151 1.61e+01 1i19A 561 1.65e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1wlsA 328 1.68e+01 1vj1A 363 1.72e+01 b.35.1.2,c.2.1.1 100794,100795 1t5hX 504 1.74e+01 e.23.1.1 106449 1j79A 347 1.80e+01 1j79A c.1.9.4 62675 1mho 88 1.84e+01 1b4cA a.39.1.2 17171 2f1fA 164 1.86e+01 1ccwA 137 1.89e+01 1be1 c.23.6.1 31238 1q35A 320 1.89e+01 c.94.1.1 95661 1vecA 206 1.90e+01 c.37.1.19 100575 1wdjA 187 1.91e+01 1exrA 148 1.91e+01 1cll a.39.1.5 17299 1mvoA 136 1.91e+01 c.23.1.1 79513 1el5A 389 1.92e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1jetA 517 1.93e+01 1jevA c.94.1.1 35718 1jh6A 189 1.96e+01 d.61.1.1 66707 1sc3A 178 1.98e+01 c.17.1.1 105416 1fxlA 167 2.00e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1iyhA 198 2.05e+01 a.45.1.1,c.47.1.5 83790,83791 1nox 205 2.08e+01 1nox d.90.1.1 40242 1hdoA 206 2.09e+01 1he2A c.2.1.2 60965 1vj0A 380 2.11e+01 b.35.1.2,c.2.1.1 100786,100787 1iugA 352 2.12e+01 c.67.1.3 90699 1ei6A 406 2.15e+01 c.76.1.4 90443 1kk8B 139 2.16e+01 a.39.1.5 77430 2glzA 153 2.18e+01 1x0pA 143 2.18e+01 1s95A 333 2.23e+01 d.159.1.3 105375 1lvaA 258 2.27e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1wy9A 147 2.30e+01 1lfpA 249 2.36e+01 e.39.1.1 73885 1t6aA 126 2.38e+01 d.129.8.1 106555 1h4vB 421 2.38e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1s4nA 348 2.39e+01 c.68.1.16 98501 1iwmA 186 2.45e+01 b.125.1.2 83758 1jysA 242 2.54e+01 c.56.2.1 77216 1kqfB 294 2.57e+01 d.58.1.5,f.23.22.1 75900,75901 1eybA 471 2.57e+01 1ey2A b.82.1.4 28115 1d5yA 292 2.59e+01 1d5yA a.4.1.8,a.4.1.8,d.60.1.2 16055,16056,39532 1z2aA 168 2.66e+01 1txnA 328 2.68e+01 1dcfA 136 2.71e+01 1dcfA c.23.1.2 31124 1ad1A 266 2.73e+01 1aj2 c.1.21.1 29668 2bl0B 145 2.79e+01 1o60A 292 2.81e+01 c.1.10.4 92532 1z5zA 271 2.82e+01 1jd1A 129 2.82e+01 1qu9A d.79.1.1 62890 1gca 309 2.83e+01 1gca c.93.1.1 35659 1v3vA 333 2.84e+01 b.35.1.2,c.2.1.1 108345,108346 1aisA 182 2.85e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1vddA 228 2.98e+01 e.49.1.1 108519 1x1oA 286 3.04e+01 2fb1A 226 3.08e+01 1jq5A 370 3.09e+01 e.22.1.2 67084 1rkqA 282 3.12e+01 c.108.1.10 97621 8abp 306 3.12e+01 8abp c.93.1.1 35647 1szoA 257 3.15e+01 c.14.1.3 106164 2af4C 333 3.18e+01 3pmgA 561 3.20e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1t95A 240 3.20e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1w6vA 141 3.20e+01 1zsyA 357 3.30e+01 1k20A 310 3.36e+01 c.107.1.1 68027 1fxkB 109 3.42e+01 1fxkA a.2.5.1 15704 1o4vA 183 3.44e+01 c.23.8.1 86628 1ga8A 311 3.46e+01 1ga8A c.68.1.4 34516 1vmbA 140 3.50e+01 1y9uA 323 3.51e+01 1vicA 262 3.52e+01 c.68.1.13 100756 1gnlA 544 3.53e+01 e.26.1.1 70287 1ub3A 220 3.54e+01 c.1.10.1 88395 1pdo 135 3.55e+01 1pdo c.54.1.1 33376 2bjnA 160 3.57e+01 1kvkA 395 3.64e+01 d.14.1.5,d.58.26.3 73060,73061 1tqyB 415 3.66e+01 c.95.1.1,c.95.1.1 107247,107248 1h2eA 207 3.67e+01 c.60.1.1 70857 1zdrA 164 3.79e+01 1yh1A 359 3.86e+01 1ylhA 560 3.87e+01 1k0fA 277 3.91e+01 c.92.2.2 71974 1vjvA 415 3.94e+01 d.3.1.9 108632 2dcnA 311 3.96e+01 1yw3A 208 3.98e+01 1ixkA 315 3.99e+01 c.66.1.38 90716 1tca 317 3.99e+01 1tca c.69.1.17 34726 2au3A 407 4.09e+01 1ss9A 311 4.10e+01 c.68.1.4 105978 2fkiA 126 4.13e+01 1xtyA 120 4.14e+01 1pjhA 280 4.18e+01 c.14.1.3 94761 1vknA 351 4.19e+01 c.2.1.3,d.81.1.1 108676,108677 1orvA 728 4.19e+01 b.70.3.1,c.69.1.24 87354,87355 1rkuA 206 4.22e+01 c.108.1.11 97627 1uc7A 125 4.24e+01 c.47.1.1 99163 2a5yB 549 4.25e+01 1khbA 625 4.26e+01 c.91.1.1,c.109.1.1 68606,68607 2g9iA 249 4.29e+01 1wqaA 455 4.31e+01 1odfA 290 4.32e+01 c.37.1.6 92782 1uu1A 335 4.33e+01 c.67.1.1 99993 1i12A 160 4.34e+01 1i21A d.108.1.1 61515 2b9hA 353 4.49e+01 1us0A 316 4.54e+01 c.1.7.1 99850 2fokA 579 4.55e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1x6mA 196 4.56e+01 1tbxA 99 4.56e+01 a.4.5.48 106748 1x7dA 350 4.59e+01 1me8A 503 4.64e+01 c.1.5.1 79028 1om1A 332 4.67e+01 d.144.1.7 93347 1y7lA 316 4.73e+01 1j55A 95 4.77e+01 a.39.1.2 77078 1xfkA 336 4.79e+01 2abk 211 4.79e+01 2abk a.96.1.1 18743 1qx2A 76 4.80e+01 a.39.1.1 104622 1kkhA 317 4.84e+01 d.14.1.5,d.58.26.3 72645,72646 1bkpA 278 4.97e+01 1bkpA d.117.1.1 41029 1u6tA 121 4.98e+01 1o57A 291 4.99e+01 a.4.5.40,c.61.1.1 92483,92484 1lyvA 306 5.05e+01 c.45.1.2 74348 2arhA 203 5.06e+01 1ww8A 439 5.09e+01 1bvyF 191 5.12e+01 1bvyF c.23.5.1 31207 1wnaA 131 5.12e+01 1vhh 162 5.14e+01 1vhh d.65.1.2 39550 1neeA 138 5.20e+01 d.241.1.1,g.59.1.1 91841,91842 1xx1A 285 5.20e+01 1wdcB 156 5.20e+01 1wdcB a.39.1.5 17302 1pyoA 167 5.21e+01 c.17.1.1 95370 1wr8A 231 5.23e+01 1qv1A 195 5.24e+01 a.39.1.5 96347 2cxcA 144 5.26e+01 2aieP 203 5.26e+01 1mngA 203 5.26e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1xg5A 279 5.27e+01 1fus 106 5.31e+01 9rnt d.1.1.4 36050 1bgvA 449 5.35e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1g57A 217 5.44e+01 1g57A d.115.1.2 60253 1k94A 165 5.45e+01 a.39.1.8 68333 1mo9A 523 5.45e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1ykhB 132 5.52e+01 1onrA 316 5.55e+01 1onrA c.1.10.1 29169 1mdl 359 5.64e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1k0hA 117 5.68e+01 b.106.1.2 71975 1eljA 381 5.69e+01 4mbp c.94.1.1 35791 1o20A 427 5.71e+01 c.82.1.1 86556 2g40A 224 5.75e+01 1ylqA 96 5.81e+01 1inp 400 5.83e+01 1inp e.7.1.1 42972 1zupA 315 5.87e+01 1ly1A 181 5.88e+01 c.37.1.1 74334 1qahA 136 5.90e+01 d.79.1.1 96338 1gyxA 76 5.91e+01 d.80.1.1 76387 1ia9A 280 5.96e+01 1ia9A d.144.1.5 62113 1o04A 500 6.01e+01 c.82.1.1 86508 2bh1X 96 6.01e+01 2ct9A 208 6.08e+01 2fnuA 375 6.10e+01 1xcbA 211 6.11e+01 a.4.5.38,c.2.1.12 109552,109553 1u2eA 289 6.14e+01 2bwrA 401 6.20e+01 1zr6A 503 6.20e+01 1vqoB 338 6.22e+01 1pvtA 238 6.23e+01 c.74.1.1 95189 1obdA 306 6.30e+01 d.143.1.1 86767 1z90A 469 6.38e+01 1o9iA 266 6.39e+01 a.25.1.3 92671 2d1sA 548 6.41e+01 1ve1A 304 6.58e+01 2b4lA 268 6.62e+01 1i1wA 303 6.66e+01 c.1.8.3 76732 1zx8A 136 6.71e+01 1gdeA 389 6.72e+01 c.67.1.1 60456 2ck3D 482 6.76e+01 1e6yC 247 6.77e+01 1mroC d.58.31.1 39441 1cqmA 101 6.82e+01 1ris d.58.14.1 39321 1xzoA 174 6.89e+01 2cybA 323 6.89e+01 1wxxA 382 6.92e+01 1hgxA 183 6.97e+01 1tc1A c.61.1.1 34027 1xm7A 195 6.98e+01 2avtA 378 7.05e+01 2aotA 292 7.07e+01 1u5tA 233 7.09e+01 a.4.5.54,a.4.5.54 107684,107685 1qksA 567 7.16e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1ggzA 148 7.18e+01 a.39.1.5 70176 1jmsA 381 7.22e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1r9cA 139 7.23e+01 d.32.1.2 97255 1a3c 181 7.24e+01 1a3c c.61.1.1 34095 2g0qA 173 7.30e+01 1kafA 108 7.43e+01 d.199.1.1 68372 1pbjA 125 7.44e+01 d.37.1.1,d.37.1.1 94414,94415 1kllA 130 7.47e+01 d.32.1.2 72720 1h8eD 482 7.50e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1j05A 111 7.59e+01 b.1.1.1 90735 1k07A 263 7.60e+01 d.157.1.1 77218 1dz3A 130 7.63e+01 1dz3A c.23.1.1 31105 1eayC 74 7.63e+01 1eayC d.58.24.1 39386 1yzfA 195 7.64e+01 1uzbA 516 7.73e+01 c.82.1.1 100220 1ctf 74 7.75e+01 1ctf d.45.1.1 38759 1gnuA 117 7.77e+01 d.15.1.3 65403 1ugiA 84 7.78e+01 1ugiA d.17.5.1 38125 2c2xA 281 7.79e+01 1tk9A 188 7.79e+01 c.80.1.3 107082 1euhA 475 7.84e+01 1euhA c.82.1.1 35369 2coeA 120 7.87e+01 1m1zA 513 7.87e+01 c.26.2.1,d.153.1.1 78457,78458 1dd9A 338 7.93e+01 1dd9A e.13.1.1 43254 1v95A 130 7.99e+01 c.51.1.1 108435 2b4vA 468 8.01e+01 1o12A 376 8.04e+01 b.92.1.5,c.1.9.10 80758,80759 1q77A 138 8.12e+01 c.26.2.4 96023 2bjkA 516 8.16e+01 2g8lA 299 8.24e+01 1ywfA 296 8.31e+01 1r6vA 671 8.31e+01 1x8dA 104 8.42e+01 1suwA 249 8.43e+01 e.52.1.1 106027 1sqgA 429 8.50e+01 a.79.1.3,c.66.1.38 105912,105913 2bkaA 242 8.57e+01 1o7qA 289 8.64e+01 c.68.1.9 92626 1j3mA 129 8.66e+01 d.129.7.1 103836 1brwA 433 8.68e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1yirA 408 8.72e+01 1qnaA 200 8.75e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1wvqA 167 8.75e+01 1tqgA 105 8.79e+01 a.24.10.3 107224 1h7eA 245 8.81e+01 c.68.1.13 60717 2a9sA 171 8.82e+01 1nh8A 304 8.83e+01 c.94.1.1,d.58.5.3 80507,80508