# List of top-scoring protein chains for t06-100-40-40-str2+CB_burial_14_7-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 1z2lA 423 1.95e-02 1cnzA 363 3.53e-02 1cnzA c.77.1.1 35061 1c9kA 180 4.21e-02 1c9kB c.37.1.11 32363 1nu0A 138 1.00e-01 c.55.3.8 92165 1lwdA 413 1.18e-01 c.77.1.1 78265 2anuA 255 1.42e-01 1vk9A 151 1.89e-01 c.139.1.1 108640 1mb3A 124 3.28e-01 c.23.1.1 78907 1vp8A 201 3.31e-01 2f4nA 273 3.68e-01 1hh1A 143 4.01e-01 1gefA c.52.1.18 61036 1srrA 124 4.84e-01 1dz3A c.23.1.1 31110 1ig8A 486 5.00e-01 2yhx c.55.1.3,c.55.1.3 64746,64747 2b5gA 171 5.02e-01 1ccwA 137 5.62e-01 1be1 c.23.6.1 31238 1t0fA 276 5.72e-01 1eo1A 124 5.88e-01 1eo1A c.55.5.1 33739 1ualA 274 6.50e-01 c.116.1.4 88383 1vhxA 150 7.52e-01 c.55.3.8 100712 1gs5A 258 8.03e-01 c.73.1.2 70395 1i39A 225 8.44e-01 1ekeA c.55.3.1 61585 1z4eA 153 8.66e-01 1jf8A 131 8.87e-01 c.44.1.1 66621 1gheA 177 9.11e-01 d.108.1.1 76222 1on0A 158 1.12e+00 d.108.1.1 87095 1xewX 182 1.14e+00 2aa4A 289 1.19e+00 2sak 121 1.20e+00 2sak d.15.5.1 37711 1hqsA 423 1.35e+00 1iso c.77.1.1 61154 1vyrA 364 1.38e+00 c.1.4.1 108906 1e4fT 419 1.55e+00 1e4fT c.55.1.1,c.55.1.1 33453,33454 1z47A 355 1.68e+00 1msc 129 1.75e+00 1msc d.85.1.1 40039 1vp2A 208 1.84e+00 1es9A 232 2.03e+00 1wab c.23.10.3 31340 1u04A 771 2.09e+00 b.34.14.1,c.55.3.10 107539,107540 1tmy 120 2.41e+00 1dbwA c.23.1.1 31083 2b99A 156 2.55e+00 1jmvA 141 2.63e+00 c.26.2.4 66897 1dkiA 371 2.64e+00 1dkiA d.3.1.1 37090 1wraA 308 2.83e+00 1ghhA 81 3.12e+00 1ghhA d.57.1.1 38940 1yvoA 172 3.48e+00 2gm5A 139 3.53e+00 2gshA 414 3.71e+00 1jksA 294 3.72e+00 d.144.1.7 71710 1u0sY 118 3.74e+00 c.23.1.1 107566 1vpqA 273 3.80e+00 2ftxB 64 3.99e+00 1n0wA 243 4.13e+00 c.37.1.11 79772 1ek0A 170 4.15e+00 1ctqA c.37.1.8 32076 2acaA 189 4.18e+00 2fe7A 166 4.28e+00 1q77A 138 4.47e+00 c.26.2.4 96023 2cr5A 109 4.47e+00 1p4fA 293 4.78e+00 d.144.1.7 104063 1k1eA 180 4.90e+00 c.108.1.5 67995 1lshB 319 4.93e+00 f.7.1.1 74245 1q1oA 98 5.06e+00 d.15.2.2 95596 2fl4A 149 5.25e+00 2g9iA 249 5.30e+00 1w0dA 337 5.45e+00 2bibA 547 5.50e+00 1wi0A 113 6.02e+00 2d4pA 141 6.08e+00 1m8jA 181 6.08e+00 c.26.1.3 84875 1g7sA 594 6.13e+00 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1zhvA 134 6.21e+00 2cvhA 220 6.32e+00 2a67A 167 6.43e+00 1mzbA 136 6.49e+00 a.4.5.42 91497 1kcfA 258 6.73e+00 a.140.2.1,c.55.3.7 68434,68435 1svfB 38 6.78e+00 1svfB h.3.2.1 45764 1k77A 260 7.01e+00 c.1.15.5 72096 1io2A 213 7.28e+00 1ekeA c.55.3.1 62612 1np6A 174 7.49e+00 c.37.1.10 85954 1zfjA 491 7.49e+00 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1zzgA 415 7.79e+00 1xm7A 195 7.80e+00 1hjrA 158 8.21e+00 1hjrA c.55.3.6 33727 1chuA 540 8.31e+00 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1w8iA 156 8.43e+00 1vctA 205 8.70e+00 1amx 180 8.93e+00 1amx b.2.3.1 22410 1vqoV 71 9.33e+00 1ivnA 190 9.33e+00 c.23.10.5 83719 1xdnA 277 9.43e+00 1u7bA 261 9.70e+00 1j7xA 302 9.76e+00 c.14.1.2 66425 1l2tA 235 9.83e+00 c.37.1.12 73514 1nhkL 144 9.87e+00 1npk d.58.6.1 39142 1wr2A 238 9.96e+00 2bkfA 87 1.00e+01 1v58A 241 1.04e+01 c.47.1.9,d.17.3.1 108371,108372 2a5sA 284 1.04e+01 2etvA 346 1.05e+01 1iukA 140 1.06e+01 c.2.1.8 83712 1i12A 160 1.11e+01 1i21A d.108.1.1 61515 1ieaB 228 1.11e+01 1iakB b.1.1.2,d.19.1.1 21632,38206 1uqrA 154 1.13e+01 c.23.13.1 99779 1wt4A 73 1.13e+01 2b49A 287 1.15e+01 1vcsA 102 1.18e+01 2ethA 154 1.19e+01 1o1zA 234 1.21e+01 c.1.18.3 86555 1hp1A 516 1.21e+01 d.114.1.1,d.159.1.2 70976,70977 1ig3A 263 1.21e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1b77A 228 1.25e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1qv9A 283 1.26e+01 c.127.1.1 96356 1wwuA 99 1.26e+01 1g291 372 1.27e+01 1g291 2ae6A 166 1.28e+01 2gqrA 237 1.31e+01 1ye8A 178 1.32e+01 1bx1A 314 1.33e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1bazA 53 1.33e+01 1bazA a.43.1.1 17421 1gxuA 91 1.34e+01 d.58.10.1 76378 2cqnA 77 1.34e+01 1h2eA 207 1.36e+01 c.60.1.1 70857 2ap1A 327 1.37e+01 1pm3A 78 1.40e+01 b.41.1.2 94889 2aioA 269 1.45e+01 1r2qA 170 1.46e+01 c.37.1.8 96874 1x1rA 178 1.46e+01 1r6xA 395 1.47e+01 b.122.1.3,c.26.1.5 97167,97168 1syxB 86 1.48e+01 1v8fA 276 1.48e+01 c.26.1.4 100503 1pkoA 139 1.50e+01 b.1.1.1 88147 1xmxA 385 1.52e+01 2gm3A 175 1.55e+01 1i60A 278 1.55e+01 c.1.15.4 71118 2bfdA 400 1.56e+01 2beiA 170 1.56e+01 1wb0A 445 1.56e+01 1rvgA 305 1.59e+01 c.1.10.2 97920 2basA 431 1.62e+01 1vioA 243 1.64e+01 d.265.1.3,d.66.1.5 100762,100763 1vc1A 110 1.70e+01 c.13.2.1 108493 1zy9A 564 1.72e+01 2fexA 188 1.77e+01 1xewY 172 1.78e+01 1d2nA 272 1.80e+01 1d2nA c.37.1.20 32428 1s12A 94 1.81e+01 1hdoA 206 1.82e+01 1he2A c.2.1.2 60965 1qwgA 251 1.88e+01 c.1.27.1 96473 1jndA 420 1.92e+01 c.1.8.5,d.26.3.1 71757,71758 1q6oA 216 1.92e+01 c.1.2.3 95986 1i4mA 108 1.93e+01 d.6.1.1 66025 1hqz1 141 1.97e+01 1m2kA 249 1.98e+01 c.31.1.5 84754 1xx6A 191 1.99e+01 1e7wA 291 1.99e+01 c.2.1.2 59373 1x7yA 400 2.00e+01 1pvdA 537 2.02e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1whsB 153 2.03e+01 1whtB 2cglA 489 2.03e+01 1k0hA 117 2.06e+01 b.106.1.2 71975 1xppA 115 2.08e+01 2f57A 317 2.11e+01 1vbwA 68 2.14e+01 1r85A 379 2.16e+01 c.1.8.3 104839 1tq4A 413 2.17e+01 c.37.1.8 107201 1y80A 210 2.21e+01 2fbiA 142 2.25e+01 7odcA 424 2.27e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1v54H 85 2.27e+01 a.51.1.1 100329 1vr3A 191 2.28e+01 1o13A 136 2.32e+01 c.55.5.1 80762 1yd7A 395 2.32e+01 1augA 215 2.33e+01 1a2zA c.56.4.1 33798 1e6uA 321 2.34e+01 1bsvA c.2.1.2 29805 2f9lA 199 2.35e+01 3grs 478 2.37e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 2c30A 321 2.38e+01 1meoA 209 2.40e+01 c.65.1.1 79035 2f9zC 159 2.42e+01 1s7iA 124 2.47e+01 d.58.4.9 105353 1mjhA 162 2.50e+01 1mjhA c.26.2.4 31639 1s8nA 205 2.51e+01 c.23.1.1 105374 1vhyA 257 2.52e+01 b.122.1.2,c.116.1.5 100714,100715 1bupA 386 2.52e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1zuhA 168 2.53e+01 1ocsA 162 2.58e+01 d.189.1.1 92776 1xg8A 111 2.59e+01 1ec7A 446 2.60e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1bzg 34 2.60e+01 1bzg j.15.1.1 46166 1ispA 181 2.60e+01 c.69.1.18 76778 1z2mA 155 2.60e+01 1vetA 124 2.61e+01 d.110.7.1 108553 1sz2A 332 2.66e+01 1ej2A 181 2.74e+01 1f9aA c.26.1.3 59414 1kqpA 271 2.74e+01 c.26.2.1 72883 1qwiA 143 2.75e+01 d.227.1.1 96474 1t5bA 201 2.76e+01 c.23.5.3 106433 1lyvA 306 2.79e+01 c.45.1.2 74348 1nni1 174 2.80e+01 1u7zA 226 2.82e+01 1qipA 183 2.86e+01 1qipA d.32.1.1 38470 1amuA 563 2.88e+01 1amuA e.23.1.1 43351 2aeeA 211 2.90e+01 2eu8A 216 2.94e+01 1h54A 754 2.95e+01 a.102.1.4,b.30.5.3 60634,60635 1p90A 145 2.97e+01 c.55.5.2 94377 1ma3A 253 3.03e+01 c.31.1.5 78883 1wyzA 242 3.08e+01 1ub1A 133 3.09e+01 d.10.1.3 99140 1v7rA 186 3.13e+01 c.51.4.1 100482 2dclA 127 3.14e+01 2gupA 292 3.15e+01 1b63A 333 3.17e+01 1b63A d.14.1.3,d.122.1.2 37566,41107 1n7kA 234 3.17e+01 c.1.10.1 85374 2c34A 116 3.18e+01 2a9sA 171 3.18e+01 2avyM 117 3.21e+01 1wvhA 134 3.23e+01 2c31A 568 3.24e+01 1pueE 89 3.25e+01 1awcA a.4.5.21 16165 1wmhA 89 3.28e+01 2cohA 202 3.30e+01 2esbA 188 3.30e+01 1vicA 262 3.31e+01 c.68.1.13 100756 1t13A 158 3.31e+01 1f0kA 364 3.33e+01 1f0kA c.87.1.2 35465 1s3zA 165 3.33e+01 d.108.1.1 105250 2a5hA 416 3.35e+01 2bdwA 362 3.38e+01 2a1rA 430 3.43e+01 1lw7A 365 3.44e+01 c.26.1.3,c.37.1.1 74295,74296 1v37A 177 3.46e+01 1j54A 186 3.47e+01 c.55.3.5 77077 1o66A 275 3.47e+01 c.1.12.8 92547 2h6bA 250 3.50e+01 1y9uA 323 3.50e+01 1dfuP 94 3.53e+01 1dfuP b.53.1.1 26936 1qhfA 240 3.54e+01 1qhfA c.60.1.1 33960 1opd 85 3.59e+01 1ptf d.94.1.1 40560 1ex2A 189 3.65e+01 1ex2A c.51.4.2 33225 2bswA 146 3.67e+01 1kngA 156 3.67e+01 c.47.1.10 72777 1yqbA 100 3.68e+01 1m3uA 264 3.72e+01 c.1.12.8 84784 1y0eA 223 3.73e+01 1i24A 404 3.73e+01 c.2.1.2 83663 2fxqA 264 3.75e+01 1x0lA 333 3.75e+01 1w6uA 302 3.81e+01 1dciA 275 3.81e+01 1dciA c.14.1.3 30918 1vf8A 377 3.83e+01 1vplA 256 3.85e+01 1zjcA 418 3.87e+01 2a10A 125 3.87e+01 1xb4A 202 3.88e+01 1z3eA 132 3.88e+01 1uw4B 248 3.94e+01 a.118.1.14 100072 1bn8A 420 3.94e+01 1pcl b.80.1.1 28022 1ywxA 102 3.95e+01 1ve3A 227 3.99e+01 1yn9A 169 4.00e+01 1s2dA 167 4.00e+01 c.23.14.1 98377 1rd5A 262 4.00e+01 1s14A 194 4.02e+01 d.122.1.2 98329 1fl2A 310 4.03e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1ujcA 161 4.09e+01 1a8q 274 4.11e+01 1brt c.69.1.12 34702 1mvoA 136 4.12e+01 c.23.1.1 79513 2gptA 523 4.15e+01 2f6uA 234 4.17e+01 1owlA 484 4.20e+01 a.99.1.1,c.28.1.1 93647,93648 1zgzA 122 4.21e+01 2avtA 378 4.22e+01 1rp3B 88 4.23e+01 a.137.11.1 97681 1z23A 163 4.23e+01 2bhvA 246 4.24e+01 1icpA 376 4.27e+01 1oyc c.1.4.1 62270 2ch0A 133 4.27e+01 2fo1D 85 4.27e+01 1g0cA 364 4.30e+01 7a3hA c.1.8.3 60165 2czqA 205 4.32e+01 1w9gA 104 4.34e+01 1bdb 277 4.34e+01 1bdb c.2.1.2 29874 1ogiA 303 4.36e+01 b.43.4.2,c.25.1.1 92914,92915 1v60A 123 4.37e+01 2ckzA 161 4.42e+01 1pkhA 204 4.46e+01 b.85.4.1 94832 1ycdA 243 4.49e+01 1xmtA 103 4.51e+01 1fnd 314 4.52e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1omhA 293 4.54e+01 d.89.1.5 93348 1xubA 298 4.55e+01 1w7jB 151 4.56e+01 2dc4A 165 4.57e+01 1gw5S 142 4.57e+01 d.110.4.2 70633 1nnwA 252 4.58e+01 d.159.1.5 80674 1ekeA 230 4.59e+01 1ekeA c.55.3.1 33572 2rslA 140 4.59e+01 2rslA c.53.1.1 33345 1rhfA 182 4.61e+01 b.1.1.1,b.1.1.4 97469,97470 1tu1A 148 4.62e+01 d.107.1.3 107316 2bm8A 236 4.65e+01 1uwvA 433 4.72e+01 b.40.4.12,c.66.1.40 100128,100129 1y43B 173 4.74e+01 1t8tA 271 4.76e+01 c.37.1.5 106685 2c46A 241 4.80e+01 2axtK 37 4.82e+01 1vfvA 366 4.95e+01 c.37.1.9 108592 1z9lA 128 4.95e+01 4pgaA 337 4.97e+01 4pgaA c.88.1.1 35565 1qwkA 317 5.05e+01 c.1.7.1 96482 2gk3A 256 5.05e+01 1vfsA 386 5.05e+01 b.49.2.2,c.1.6.1 108584,108585 2di4A 238 5.05e+01 1ln4A 104 5.08e+01 d.68.4.1 74043 2acmB 55 5.13e+01 1sg0A 230 5.13e+01 1q74A 303 5.14e+01 c.134.1.1 96019 1ut7A 171 5.15e+01 b.143.1.1 99906 1naqA 112 5.20e+01 d.58.5.2 91761 1wdiA 345 5.20e+01 1f6yA 262 5.23e+01 1f6yA c.1.21.2 29673 1xc3A 302 5.25e+01 1n2sA 299 5.26e+01 c.2.1.2 79857 1zin 217 5.27e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1zx1A 231 5.28e+01 1b0uA 262 5.35e+01 1b0uA c.37.1.12 32370 1g6uA 48 5.35e+01 1g6uA k.9.1.1 46425 1sznA 417 5.36e+01 b.71.1.1,c.1.8.1 106162,106163 1jkxA 212 5.36e+01 c.65.1.1 66813 1t46A 313 5.42e+01 d.144.1.7 106397 1u9yA 284 5.45e+01 1a76 326 5.56e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1ppjG 81 5.59e+01 f.23.13.1 104263 1qhxA 178 5.62e+01 1qhsA c.37.1.3 31936 1dozA 309 5.62e+01 1ak1 c.92.1.1 35592 1tvnA 293 5.63e+01 1sqsA 242 5.65e+01 c.23.5.5 98968 1zh2A 121 5.70e+01 1hrkA 359 5.70e+01 1hrkA c.92.1.1 61228 1iktA 120 5.72e+01 d.106.1.1 66188 2blnA 305 5.83e+01 1vhcA 224 5.89e+01 c.1.10.1 100661 1vliA 385 5.90e+01 b.85.1.1,c.1.10.6 108830,108831 1vkcA 158 5.95e+01 1dgwY 93 5.98e+01 1caxB 1to2I 64 6.03e+01 1j55A 95 6.04e+01 a.39.1.2 77078 2fggA 101 6.05e+01 1lbvA 252 6.05e+01 e.7.1.1 73813 1vqoH 171 6.08e+01 1egpA 45 6.09e+01 1egpA d.40.1.1 38561 2iufA 688 6.11e+01 1wzuA 300 6.13e+01 1pot 325 6.13e+01 1pot c.94.1.1 35807 1o0iA 138 6.16e+01 d.38.1.5 86532 1wwzA 159 6.16e+01 2ai4A 119 6.19e+01 1tfr 305 6.20e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1u24A 337 6.22e+01 2d0oA 610 6.23e+01 1e19A 314 6.24e+01 1b7bA c.73.1.1 34967 1ny4A 82 6.25e+01 b.40.4.5 92316 1ei6A 406 6.26e+01 c.76.1.4 90443 1wy5A 317 6.28e+01 1g5cA 170 6.29e+01 1g5cA c.53.2.1 60264 2a9gA 418 6.31e+01 1kjnA 157 6.32e+01 c.115.1.1 72614 1l7dA 384 6.32e+01 c.2.1.4,c.23.12.2 77774,77775 1dz3A 130 6.33e+01 1dz3A c.23.1.1 31105 1d8bA 81 6.35e+01 1d8bA a.60.8.1 18094 2av4A 162 6.40e+01 2az4A 429 6.42e+01 1isiA 265 6.43e+01 e.4.1.1 71394 1f2tA 149 6.44e+01 1f2tA c.37.1.12 32373 1tzzA 392 6.46e+01 1xfcA 384 6.50e+01 1vknA 351 6.58e+01 c.2.1.3,d.81.1.1 108676,108677 1xbbA 291 6.62e+01 1yzfA 195 6.62e+01 1geqA 248 6.69e+01 2tysA c.1.2.4 28589 1scy 32 6.71e+01 1pnh g.3.7.2 44155 2a1fA 247 6.73e+01 1vd6A 224 6.74e+01 1xsvA 113 6.79e+01 1qgvA 142 6.81e+01 1qgvA c.47.1.8 33056 1f2tB 148 6.90e+01 1f2tB 1res 43 6.96e+01 1ret a.4.1.2 16023 2cy5A 140 6.98e+01 1zu4A 320 7.03e+01 1bu6O 501 7.06e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1z5zA 271 7.12e+01 1sg4A 260 7.12e+01 1ucnA 152 7.14e+01 d.58.6.1 99183 2bw4A 340 7.15e+01 1tfzA 424 7.15e+01 d.32.1.3,d.32.1.3 106886,106887 2gsfA 373 7.17e+01 2f2hA 773 7.19e+01 1he7A 126 7.21e+01 1wwcA b.1.1.4 60970 1km4A 247 7.22e+01 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