# List of top-scoring protein chains for t06-100-30-dssp-ebghstl-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 3proC 166 4.54e-01 3proC d.52.1.1,d.52.1.1 38812,38813 1obdA 306 7.44e-01 d.143.1.1 86767 2cnqA 306 8.76e-01 d.143.1.1 130646 1s5jA 847 9.17e-01 c.55.3.5,e.8.1.1 112040,112041 1kveB 77 1.08e+00 1kveB 1ospO 257 1.18e+00 1ospO b.76.1.1 27971 1zbfA 142 1.32e+00 c.55.3.1 124850 1n91A 108 1.55e+00 d.206.1.1 80326 2gu3A 136 1.62e+00 1yzsA 121 1.76e+00 1vpkA 378 1.99e+00 d.131.1.1,d.131.1.1,d.131.1.1 113963,113964,113965 1f1xA 322 2.57e+00 d.32.1.3,d.32.1.3 83208,83209 1f1uA 323 2.89e+00 d.32.1.3,d.32.1.3 83200,83201 2gu2A 312 2.91e+00 1ylxA 103 2.93e+00 d.82.5.1 123677 1in0A 163 3.65e+00 d.58.49.1,d.58.49.1 83694,83695 1r8gA 372 4.07e+00 d.128.1.3 104845 1c44A 123 4.16e+00 1qndA d.106.1.1 40795 1vjvA 415 4.22e+00 d.3.1.9 108632 1ohtA 215 4.29e+00 d.118.1.1 87036 1rypK 198 4.30e+00 d.153.1.4 41879 1t6sA 162 4.30e+00 a.4.5.60,a.4.5.60 112271,112272 1w53A 84 4.41e+00 a.186.1.2 109175 1qcsA 211 4.60e+00 1qcsA b.52.2.3,d.31.1.1 26927,38461 1lm4A 194 4.72e+00 d.167.1.1 84626 1914 232 4.82e+00 1914 1ifqA 138 4.82e+00 1ifqA d.110.4.1 62350 2nr1 27 5.33e+00 1s6cA 183 5.64e+00 a.39.1.5 98594 1ob8A 135 5.65e+00 c.52.1.18 111627 1zchA 255 5.86e+00 d.90.1.1 124908 2gk9A 426 5.98e+00 1crzA 403 6.13e+00 1crzA b.68.4.1,c.51.2.1 27629,33211 1a9xA 1058 6.14e+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 1z5bA 469 6.50e+00 a.156.1.3,d.14.1.3,d.122.1.2 124464,124465,124466 1xw3A 110 6.51e+00 1cs0A 1073 6.72e+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 1wq3A 322 6.85e+00 1v7cA 351 6.92e+00 c.79.1.1 100446 1zceA 155 7.40e+00 b.122.1.8 124907 1ykdA 398 7.74e+00 1iujA 106 7.94e+00 d.58.4.5 90701 2a2lA 145 8.63e+00 d.110.9.1 126035 830cA 168 8.82e+00 1ck7A d.92.1.11 40400 2ajrA 331 9.04e+00 c.72.1.1 126892 2cunA 410 9.23e+00 1wr2A 238 9.28e+00 1o8xA 146 9.55e+00 c.47.1.10 86681 1nw1A 429 9.57e+00 d.144.1.8 86286 1u04A 771 9.60e+00 b.34.14.1,c.55.3.10 107539,107540 2bwqA 129 9.73e+00 b.7.1.2 129380 1o26A 232 9.74e+00 d.207.1.1 86566 1mjhA 162 9.82e+00 1mjhA c.26.2.4 31639 1kugA 203 9.89e+00 d.92.1.9 73008 1kufA 203 9.89e+00 d.92.1.9 73007 2bvfA 459 9.91e+00 2c7hA 86 1.02e+01 1vkkA 154 1.02e+01 d.109.1.2 108669 1nqkA 381 1.04e+01 c.1.16.4 92050 2essA 248 1.08e+01 d.38.1.8,d.38.1.8 132346,132347 1fit 147 1.08e+01 1fit 1vk8A 106 1.08e+01 d.58.48.1 108636 1sh8A 154 1.10e+01 d.38.1.5 105549 2c6cA 707 1.11e+01 a.48.2.1,c.8.4.1,c.56.5.5 129989,129990,129991 2g3aA 152 1.15e+01 d.108.1.1 134557 2fckA 181 1.15e+01 d.108.1.1 133272 1xr4A 509 1.16e+01 c.124.1.2,c.124.1.2 115860,115861 2cyjA 118 1.18e+01 c.103.1.1 131026 1txvA 452 1.20e+01 b.69.8.1 112783 1ebfA 358 1.20e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1gw5S 142 1.22e+01 d.110.4.2 70633 1em2A 229 1.24e+01 1em2A d.129.3.2 41321 1p5dX 463 1.27e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1mixA 206 1.29e+01 a.11.2.1,b.55.1.5 79166,79167 1j3bA 529 1.31e+01 c.91.1.1,c.109.1.1 77071,77072 2b9hA 353 1.34e+01 1rypA 243 1.35e+01 1pmaA d.153.1.4 41932 1yewA 382 1.36e+01 1a0p 290 1.39e+01 1a0p 1j6qA 136 1.39e+01 b.40.9.1 77091 2afbA 351 1.39e+01 c.72.1.1 126674 2es7A 142 1.41e+01 c.47.1.20 132314 1gxrA 337 1.45e+01 b.69.4.1 70722 1ash 150 1.45e+01 1ash 1dkzA 219 1.46e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1atlA 202 1.51e+01 1atlA d.92.1.9 40322 1dq3A 454 1.51e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1jovA 270 1.53e+01 b.30.5.7 84192 1tr0A 108 1.59e+01 d.58.4.4 107261 2fclA 169 1.60e+01 d.218.1.11 133273 1bif 469 1.65e+01 1bif 1xv2A 237 1.66e+01 d.290.1.1 116076 1yb2A 275 1.69e+01 c.66.1.13 122868 1pguA 615 1.72e+01 b.69.4.1,b.69.4.1 88069,88070 2aq4A 434 1.72e+01 1pz4A 116 1.72e+01 d.106.1.1 95400 1hbkA 94 1.75e+01 1aca a.11.1.1 60887 1gzcA 239 1.77e+01 b.29.1.1 70803 1jnyA 435 1.77e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1oo0A 147 1.78e+01 d.232.1.1 87182 2igd 61 1.78e+01 2igd 1aqcA 172 1.80e+01 1x11A b.55.1.2 26983 1xqoA 256 1.81e+01 a.96.1.6 115853 1qmvA 197 1.81e+01 1qq2A c.47.1.10 33066 1ym5A 300 1.82e+01 1mi3A 322 1.85e+01 c.1.7.1 91274 2f9lA 199 1.86e+01 c.37.1.8 133166 1bywA 110 1.89e+01 1bywA d.110.3.6 40912 1d0cA 444 1.94e+01 d.174.1.1 64769 1p4fA 293 1.95e+01 d.144.1.7 104063 1rwiA 270 1.97e+01 b.68.9.1 97987 1nwzA 125 1.98e+01 d.110.3.1 86370 1squA 155 2.00e+01 d.252.1.1 98971 2g0wA 296 2.00e+01 c.1.15.4 134503 1yarH 217 2.01e+01 d.153.1.4 122844 1utcA 363 2.03e+01 a.118.1.4,b.69.6.1 99914,99915 1sviA 195 2.05e+01 c.37.1.8 106048 1o04A 500 2.07e+01 c.82.1.1 86508 2gi9A 56 2.11e+01 2bo9A 308 2.14e+01 c.56.5.1 128897 1e0cA 271 2.17e+01 1e0cA c.46.1.2,c.46.1.2 32717,32718 2bgkA 278 2.17e+01 c.2.1.2 128480 1vh5A 148 2.18e+01 d.38.1.5 100642 1r7aA 504 2.20e+01 b.71.1.1,c.1.8.1 97192,97193 1a64A 97 2.22e+01 1cdcA b.1.1.1 19750 1u4bA 580 2.23e+01 c.55.3.5,e.8.1.1 107664,107665 2bklA 695 2.25e+01 1go4A 205 2.26e+01 d.135.1.1 70292 1zwyA 185 2.34e+01 c.51.4.3 125753 1qh5A 260 2.36e+01 1qh5A d.157.1.2 42057 1v74A 107 2.37e+01 d.243.1.1 100442 1y08A 323 2.37e+01 d.3.1.12 116280 1mzbA 136 2.40e+01 a.4.5.42 91497 1rypB 250 2.43e+01 1rypB d.153.1.4 41933 1q7sA 117 2.45e+01 c.131.1.1 96055 1ukkA 142 2.54e+01 d.227.1.1 99491 1fj2A 232 2.58e+01 1auoA c.69.1.14 34720 1d4oA 184 2.58e+01 1d4oA c.31.1.4 31748 1t95A 240 2.60e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1zjcA 418 2.61e+01 e.60.1.1 125147 2cfuA 658 2.61e+01 1cdcA 99 2.63e+01 1cdcA b.1.1.1 19746 1quqB 121 2.68e+01 1quqB b.40.4.3 25305 1x7yA 400 2.70e+01 c.36.1.11 114944 1mngA 203 2.70e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1vggA 161 2.76e+01 d.256.1.1 113647 1u00A 227 2.78e+01 a.8.4.1,b.130.1.1 112900,112901 1a5t 334 2.79e+01 1a5t 1rypD 241 2.81e+01 1rypD d.153.1.4 41935 1zatA 250 2.83e+01 b.160.1.1,d.335.1.1 124845,124846 1gqzA 274 2.84e+01 d.21.1.1,d.21.1.1 83311,83312 1nscA 390 2.89e+01 2qwc b.68.1.1 27591 1jvbA 347 2.90e+01 b.35.1.2,c.2.1.1 77181,77182 1yduA 170 2.91e+01 b.162.1.1 123003 1e8gA 560 2.91e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 2bfdA 400 2.95e+01 1cby 259 2.97e+01 1cby 1z2nX 324 3.01e+01 1v3wA 173 3.02e+01 b.81.1.5 100291 2gkeA 274 3.08e+01 d.21.1.1,d.21.1.1 135329,135330 1nrlA 316 3.08e+01 a.123.1.1 92091 1scfA 273 3.12e+01 1exzA a.26.1.2 16873 1vkcA 158 3.12e+01 d.108.1.1 113663 1u5uA 374 3.14e+01 e.5.1.2 113052 1ad2 228 3.17e+01 1ad2 1u84A 90 3.23e+01 a.230.1.1 113114 1uy4A 145 3.34e+01 b.18.1.10 108131 1vd3A 217 3.35e+01 1usyA 275 3.37e+01 d.104.1.1 113422 1x3mA 415 3.37e+01 c.55.1.2,c.55.1.2 121664,121665 1iybA 208 3.38e+01 d.124.1.1 90720 1moq 368 3.41e+01 1moq 1a1x 108 3.44e+01 1a1x 1tuaA 191 3.45e+01 d.51.1.1,d.51.1.1 107321,107322 1t1uA 639 3.51e+01 c.43.1.3,c.43.1.3 119110,119111 1r7mA 235 3.53e+01 d.95.2.1,d.95.2.1 111713,111714 1tm9A 137 3.54e+01 a.225.1.1 107150 2bw4A 340 3.57e+01 b.6.1.3,b.6.1.3 129320,129321 1yarA 233 3.57e+01 d.153.1.4 122837 1gwyA 175 3.59e+01 b.97.1.1 83356 2b06A 155 3.69e+01 d.113.1.1 127624 1u07A 90 3.69e+01 d.212.1.2 112902 1vl2A 421 3.71e+01 c.26.2.1,d.210.1.1 108708,108709 2gjgA 248 3.71e+01 1bazA 53 3.80e+01 1bazA a.43.1.1 17421 2aeuA 374 3.81e+01 c.67.1.8 126646 1zj8A 566 3.87e+01 2ex3B 264 3.88e+01 a.263.1.1 132500 1bf6A 291 3.89e+01 1pscA c.1.9.3 29065 1gnlA 544 3.89e+01 e.26.1.1 70287 1rdqE 350 3.91e+01 d.144.1.7 97314 1ls1A 295 3.92e+01 a.24.13.1,c.37.1.10 78170,78171 1weyA 104 3.94e+01 d.58.7.1 114569 1fc6A 388 3.96e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1vclA 432 3.99e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1lam 484 3.99e+01 1lam 1k7iA 479 4.04e+01 b.80.7.1,d.92.1.6 77281,77282 1wy0A 342 4.11e+01 1fcdA 401 4.11e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1cdzA 96 4.15e+01 1cdzA c.15.1.1 30925 1jayA 212 4.16e+01 c.2.1.6 66478 1u14A 172 4.17e+01 c.51.4.3 107579 1t0hB 224 4.21e+01 c.37.1.1 106208 1ok7A 366 4.24e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1trb 320 4.27e+01 1trb 2cfxA 144 4.32e+01 a.4.5.32,d.58.4.2 130395,130396 1lfb 99 4.32e+01 1lfb 1zaiA 363 4.33e+01 c.1.10.1 124828 1ta8A 332 4.35e+01 d.142.2.2 112375 1kutA 230 4.37e+01 d.143.1.1 73017 1mlwA 301 4.40e+01 d.178.1.1 79289 1f2tB 148 4.40e+01 1f2tB 2fflA 756 4.41e+01 1j1iA 296 4.46e+01 c.69.1.10 83977 1skhA 30 4.48e+01 1xhdA 173 4.48e+01 b.81.1.5 115295 1u9yA 284 4.49e+01 c.61.1.2,c.61.1.2 119655,119656 1ekeA 230 4.50e+01 1ekeA c.55.3.1 33572 1yvhA 329 4.50e+01 a.39.1.7,a.48.1.1,d.93.1.1 124096,124097,124098 1a99A 344 4.50e+01 1pot c.94.1.1 35812 1wvqA 167 4.51e+01 1ud0A 113 4.51e+01 a.8.4.1 99198 1iq5B 27 4.57e+01 1k0wA 231 4.58e+01 c.74.1.1 77220 2h4uA 145 4.59e+01 d.38.1.5 136082 1ryp1 222 4.60e+01 1ryp1 1c8cA 64 4.78e+01 1azpA b.34.13.1 59084 1vlaA 150 4.80e+01 d.227.1.2 108735 2gqrA 237 4.81e+01 1oz9A 150 4.84e+01 d.92.1.15 93808 1ovnA 248 4.84e+01 a.71.1.1,c.47.1.7 93602,93603 1xovA 326 4.94e+01 b.34.11.4,c.56.5.6 122206,122207 1fzcA 87 4.95e+01 1fzcA h.1.8.1 45590 1qd1A 325 5.05e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1vjzA 341 5.05e+01 c.1.8.3 100838 1h2kA 349 5.09e+01 b.82.2.6 76572 1xn5A 146 5.11e+01 d.129.3.5 115574 2bbkH 355 5.13e+01 2bbkH b.69.2.1 27634 2freA 200 5.15e+01 d.90.1.1 133985 2gnqA 336 5.20e+01 1e2kA 331 5.21e+01 1qhiA c.37.1.1 31854 1avwB 171 5.22e+01 1wba b.42.4.1 25599 1lehA 364 5.24e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1h5wA 309 5.26e+01 e.27.1.1 65635 2f9zC 159 5.26e+01 2cdnA 201 5.30e+01 c.37.1.1 130289 1nlfA 279 5.31e+01 c.37.1.11 85850 1pme 380 5.34e+01 1hcl 2gv8A 447 5.34e+01 c.3.1.5,c.3.1.5 135759,135760 1vjlA 164 5.34e+01 d.257.1.1 100822 1gmiA 136 5.43e+01 b.7.1.1 65309 1t6t1 118 5.43e+01 1ykhB 132 5.50e+01 a.252.1.1 123519 1nffA 260 5.53e+01 c.2.1.2 80457 1vp2A 208 5.58e+01 c.51.4.1 113933 1v3yA 192 5.58e+01 d.167.1.1 113508 1e2wA 251 5.61e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 2f57A 317 5.62e+01 2g7uA 257 5.63e+01 1ksiA 642 5.67e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1tn6B 437 5.68e+01 a.102.4.3 112528 1oxxK 353 5.69e+01 b.40.6.3,c.37.1.12 93715,93716 1l0qA 391 5.71e+01 b.1.3.1,b.69.2.3 77644,77645 1kid 203 5.78e+01 1derA 1b06A 210 5.82e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1edqA 540 5.87e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1odmA 331 5.88e+01 b.82.2.1 86875 1tiqA 180 5.89e+01 d.108.1.1 107010 1iv3A 152 5.95e+01 d.79.5.1 76828 1n9lA 109 5.95e+01 d.110.3.6 85468 2a1vA 144 5.96e+01 d.198.3.1 126019 1dkuA 317 5.97e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 2cw6A 298 5.98e+01 1ekgA 127 6.02e+01 1dlxA d.82.2.1 40021 1pot 325 6.05e+01 1pot 1r2zA 274 6.06e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 2ptd 298 6.08e+01 2plc 5csmA 256 6.09e+01 5csmA a.130.1.2 19494 1obbA 480 6.13e+01 c.2.1.5,d.162.1.2 86760,86761 1xccA 220 6.13e+01 c.47.1.10 115113 1xbiA 120 6.13e+01 d.79.3.1 121840 2aieP 203 6.14e+01 1tif 78 6.14e+01 1tif 1r2jA 366 6.15e+01 a.29.3.1,e.6.1.1 96869,96870 2a8eA 220 6.17e+01 d.296.1.1 126397 1uv7A 110 6.18e+01 d.67.4.1 100040 1wi6A 88 6.23e+01 d.58.7.1 120974 2bwvA 440 6.24e+01 c.55.2.1,d.127.1.1 129387,129388 1lm8C 96 6.24e+01 d.42.1.1 74034 1sc6A 404 6.29e+01 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1fjgK 129 6.30e+01 1fjfK c.55.4.1 33733 1iz6A 138 6.32e+01 b.34.5.2,b.40.4.5 76976,76977 1vpqA 273 6.35e+01 c.1.32.1 113974 1pswA 348 6.36e+01 c.87.1.7 88287 1ehiA 377 6.37e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1t4hA 290 6.38e+01 d.144.1.7 106420 2d1sA 548 6.40e+01 2fgtA 417 6.42e+01 1ykuA 136 6.48e+01 1ywqA 200 6.52e+01 d.90.1.1 124162 1i58A 189 6.55e+01 1b3qA d.122.1.3 61773 1nf2A 268 6.55e+01 c.108.1.10 91849 1jksA 294 6.57e+01 d.144.1.7 71710 1sxrA 183 6.57e+01 d.118.1.1 106101 1ctj 89 6.57e+01 1ctj 1yp1A 202 6.61e+01 1q1vA 70 6.63e+01 a.159.4.1 104479 1sz7A 200 6.65e+01 1r4pB 70 6.73e+01 b.40.2.1 97026 1ly1A 181 6.75e+01 c.37.1.1 74334 1n6zA 105 6.79e+01 d.263.1.1 85369 2erbA 125 6.81e+01 1fuxA 166 6.84e+01 1fjjA b.17.1.2 60034 2bkkA 264 6.86e+01 1u6zA 513 6.91e+01 a.211.1.5,c.55.1.8,c.55.1.8 119608,119609,119610 1v8dA 235 6.93e+01 c.140.1.1 108425 1vhoA 346 6.98e+01 b.49.3.1,c.56.5.4 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