# List of top-scoring protein chains for t04-100-30-str2-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.soe.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 3lmmA 583 4.08e-08 1yzgA 179 7.11e-02 c.37.1.8 124276 1zwyA 185 1.13e+00 c.51.4.3 125753 3blzA 128 1.37e+00 d.17.4.14 155403 3gzaA 443 1.42e+00 1hw7A 255 1.59e+00 1i7fA d.193.1.1 61297 2a5dA 175 2.53e+00 c.37.1.8 126172 1uptA 171 3.09e+00 c.37.1.8 99767 1o3yA 166 3.28e+00 c.37.1.8 86618 2pqvA 154 3.47e+00 2w83A 165 4.14e+00 3fhrA 336 4.68e+00 2vapA 364 4.81e+00 c.32.1.1,d.79.2.1 152828,152829 3f7sA 142 5.02e+00 1kshA 186 5.02e+00 c.37.1.8 72914 1qw2A 102 5.60e+00 d.249.1.1 96456 3ckwA 304 5.76e+00 2pnqA 467 6.33e+00 2wbmA 252 6.38e+00 1mzyA 333 6.48e+00 b.6.1.3,b.6.1.3 103848,103849 3ke7A 134 6.83e+00 1skoB 130 6.99e+00 d.110.7.1 105677 2gwmA 200 7.00e+00 3kr4A 528 7.07e+00 2zxdA 455 7.56e+00 1fzyA 149 8.48e+00 d.20.1.1 65072 1hl9A 449 8.65e+00 b.71.1.3,c.1.8.11 90650,90651 1ib8A 164 8.78e+00 b.38.2.1,d.52.4.1 71168,71169 1s9rA 410 8.99e+00 d.126.1.4 98758 2vfxA 206 9.74e+00 1imuA 107 9.97e+00 d.204.1.1 66218 2iihA 157 1.02e+01 1vlmA 219 1.05e+01 c.66.1.41 108836 1gycA 499 1.09e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1zc1A 208 1.11e+01 3cptB 131 1.17e+01 3gwrA 144 1.25e+01 2cxcA 144 1.28e+01 1evxA 162 1.28e+01 1a73A d.4.1.3 37149 1wcuA 153 1.28e+01 1eyeA 280 1.33e+01 1aj2 c.1.21.1 29672 2a6tA 271 1.35e+01 a.242.1.1,d.113.1.7 126309,126310 2ux0A 143 1.36e+01 d.17.4.7 152231 1zj6A 187 1.36e+01 c.37.1.8 125145 1onqA 283 1.40e+01 b.1.1.2,d.19.1.1 93365,93366 2h17A 181 1.45e+01 3d36A 244 1.52e+01 2v6gA 364 1.53e+01 2oezA 247 1.53e+01 e.68.1.1 148758 1u14A 172 1.54e+01 c.51.4.3 107579 2c2aA 258 1.55e+01 a.30.2.1,d.122.1.3 129662,129663 2v95A 371 1.58e+01 3da1A 561 1.59e+01 1f6bA 198 1.63e+01 c.37.1.8 64986 1ln1A 214 1.63e+01 d.129.3.2 74038 2h6eA 344 1.64e+01 3fpqA 290 1.69e+01 3c0dA 119 1.71e+01 b.33.1.3 155819 1rz3A 201 1.72e+01 c.37.1.6 98132 3ff0A 163 1.72e+01 3fqgA 360 1.79e+01 1ukvY 206 1.79e+01 c.37.1.8 107918 2j7tA 302 1.80e+01 1u58A 253 1.85e+01 b.1.1.2,d.19.1.1 144387,144388 2opeA 128 1.86e+01 3mesA 424 1.89e+01 3dxnA 287 1.91e+01 1r7mA 235 1.94e+01 d.95.2.1,d.95.2.1 111713,111714 1iznA 286 1.95e+01 e.43.1.1 83847 1hh1A 143 1.98e+01 1gefA c.52.1.18 61036 2a7lA 136 2.02e+01 d.20.1.1 126350 3fcdA 134 2.03e+01 1ooeA 236 2.06e+01 c.2.1.2 87196 3iehA 276 2.07e+01 2fk6A 320 2.16e+01 d.157.1.7 133646 2ae8A 221 2.23e+01 d.14.1.9,d.14.1.9 126604,126605 2jfrA 234 2.25e+01 3gokA 334 2.29e+01 1xqaA 113 2.29e+01 d.32.1.2 115837 3jumA 185 2.29e+01 2whlA 294 2.36e+01 1gtdA 85 2.46e+01 d.284.1.1 76344 2qzbA 166 2.47e+01 1wkyA 464 2.48e+01 b.18.1.31,c.1.8.3 120992,120993 1z57A 339 2.48e+01 2ej8A 160 2.52e+01 1xocA 520 2.53e+01 c.94.1.1 122201 2qdfA 335 2.54e+01 3lv0A 267 2.55e+01 1ygtA 111 2.57e+01 1r4aA 165 2.65e+01 c.37.1.8 96986 2r3iA 298 2.67e+01 1hkxA 147 2.71e+01 d.17.4.7 83567 2qt6A 498 2.74e+01 1uc2A 481 2.74e+01 d.261.1.1 99161 2avdA 219 2.74e+01 c.66.1.1 127377 3c0iA 351 2.75e+01 2covD 104 2.76e+01 1pqzA 238 2.76e+01 b.1.1.2,d.19.1.1 104297,104298 3glaA 100 2.79e+01 1v10A 521 2.87e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1r8sA 164 2.89e+01 c.37.1.8 97247 3cnmA 185 2.92e+01 1lurA 339 2.93e+01 b.30.5.4 84717 1j3bA 529 3.02e+01 c.91.1.1,c.109.1.1 77071,77072 2gq0A 303 3.03e+01 1sjwA 144 3.05e+01 d.17.4.9 98899 2qu8A 228 3.07e+01 2hc5A 117 3.10e+01 d.352.1.1 147255 1fngA 192 3.11e+01 1iakA b.1.1.2,d.19.1.1 59904,59905 2q0zX 339 3.14e+01 a.289.1.1,b.1.18.22 149993,149994 2rfrA 155 3.16e+01 d.17.4.28 152000 2wg5A 109 3.19e+01 1xtmA 175 3.19e+01 2k54A 123 3.20e+01 d.17.4.29 148271 3jslA 318 3.24e+01 3c0wA 235 3.27e+01 3b42A 135 3.27e+01 2ipxA 233 3.28e+01 2abyA 146 3.35e+01 3kd8A 399 3.40e+01 3a6sA 129 3.41e+01 2aznA 219 3.45e+01 c.71.1.2 127608 2wn6A 463 3.45e+01 2dy1A 665 3.47e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 146607,146608,146609,146610,146611 1oixA 191 3.49e+01 c.37.1.8 118710 3f1sA 385 3.49e+01 3kw7A 502 3.50e+01 1ieaA 192 3.51e+01 1iakA b.1.1.2,d.19.1.1 21631,38205 2ftsA 419 3.53e+01 b.85.6.1,b.103.1.1,c.57.1.2 134079,134080,134081 2retA 103 3.54e+01 d.24.1.7 151983 2gxfA 142 3.56e+01 d.17.4.22 147191 1mkyA 439 3.57e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 2e5vA 472 3.58e+01 2dykA 161 3.60e+01 3i84A 98 3.61e+01 2bw4A 340 3.64e+01 b.6.1.3,b.6.1.3 129320,129321 1x3sA 195 3.65e+01 c.37.1.8 121670 3hztA 467 3.67e+01 1rgxA 114 3.67e+01 g.77.1.1 104932 1z0jA 170 3.69e+01 c.37.1.8 124319 1v7rA 186 3.69e+01 c.51.4.1 100482 2bcgY 206 3.70e+01 c.37.1.8 128285 3h4fA 336 3.73e+01 2jbwA 386 3.77e+01 c.69.1.41 147962 3k9wA 170 3.81e+01 1vetB 125 3.84e+01 d.110.7.1 108554 3f44A 220 3.84e+01 2kjzA 144 3.92e+01 2ppeA 343 3.93e+01 b.6.1.3,b.6.1.3 149769,149770 3d9rA 135 4.00e+01 d.17.4.27 157459 2a5jA 191 4.00e+01 c.37.1.8 126175 2isnA 364 4.03e+01 2yr1A 257 4.04e+01 3c8cA 240 4.04e+01 2c2nA 339 4.05e+01 3ikzA 170 4.05e+01 2whjA 308 4.07e+01 3kr9A 225 4.07e+01 1vmkA 277 4.08e+01 c.56.2.1 113680 1t23A 93 4.10e+01 d.247.1.1 112216 2wn4A 463 4.15e+01 2dtxA 264 4.15e+01 1jr7A 311 4.19e+01 b.82.2.3 63255 1go3E 187 4.19e+01 b.40.4.5,d.230.1.1 83054,83055 1yqdA 366 4.19e+01 2qm4A 235 4.21e+01 3rabA 169 4.23e+01 1ctqA c.37.1.8 32018 3cwxA 176 4.25e+01 2z51A 154 4.27e+01 2wjiA 165 4.28e+01 2p02A 396 4.28e+01 d.130.1.1,d.130.1.1,d.130.1.1 149132,149133,149134 1r62A 160 4.33e+01 d.122.1.3 104816 1iybA 208 4.33e+01 d.124.1.1 90720 1lamA 484 4.34e+01 c.50.1.1,c.56.5.3 33166,33829 3duwA 223 4.35e+01 2oxgA 108 4.35e+01 2wjgA 188 4.42e+01 1kmqA 184 4.42e+01 c.37.1.8 84412 2gcoA 201 4.42e+01 1xodA 118 4.43e+01 b.55.1.4 122202 2q4zA 312 4.53e+01 3ebyA 163 4.53e+01 d.17.4.4 158087 3jrnA 176 4.53e+01 2dyjA 95 4.55e+01 d.52.7.1 146613 3dlaA 680 4.59e+01 1obrA 326 4.60e+01 c.56.5.2 33828 2f9lA 199 4.61e+01 c.37.1.8 133166 3htvA 310 4.64e+01 2fu5C 183 4.64e+01 c.37.1.8 134104 2wjjA 168 4.66e+01 2wcwA 139 4.68e+01 2flhA 155 4.69e+01 1uvqB 198 4.70e+01 b.1.1.2,d.19.1.1 100064,100065 1y44A 320 4.72e+01 d.157.1.7 122608 2mbrA 340 4.77e+01 d.145.1.2,d.146.1.1 41749,41762 1snrA 341 4.77e+01 b.6.1.3,b.6.1.3 105823,105824 2a2jA 246 4.77e+01 b.45.1.1 126033 1t11A 392 4.80e+01 a.223.1.1,d.241.2.1,d.26.1.1 106236,106237,106238 3ijdA 315 4.82e+01 1oygA 447 4.84e+01 b.67.2.2 93726 2ahdA 165 4.90e+01 d.159.1.7 126752 1iyxA 432 4.93e+01 c.1.11.1,d.54.1.1 83815,83816 2iyfA 430 4.98e+01 2drvA 200 4.99e+01 1v70A 105 5.00e+01 b.82.1.9 113555 1mh1 186 5.06e+01 1eesA 1mh1A 186 5.06e+01 c.37.1.8 32002 1gtkA 313 5.06e+01 c.94.1.1,d.50.2.1 76346,76347 2j5zA 221 5.09e+01 2h57A 190 5.09e+01 3divA 499 5.09e+01 2it2A 200 5.15e+01 2ek0A 90 5.21e+01 1v5sA 126 5.33e+01 d.129.6.1 108384 2hbtA 247 5.36e+01 2vavA 444 5.36e+01 c.69.1.40 152844 3g12A 128 5.37e+01 1o5zA 442 5.44e+01 c.59.1.2,c.72.2.2 92530,92531 2vatA 444 5.50e+01 c.69.1.40 152831 2elaA 175 5.50e+01 1vqwA 457 5.53e+01 c.3.1.5,c.3.1.5 114028,114029 2osxA 481 5.59e+01 3iabB 140 5.60e+01 1uzxA 169 5.63e+01 d.20.1.2 100238 3fpxA 499 5.64e+01 3a7iA 303 5.64e+01 2gebA 185 5.64e+01 1xtlA 175 5.69e+01 1zdsA 336 5.76e+01 b.6.1.3,b.6.1.3 124952,124953 1x9nA 688 5.78e+01 a.235.1.1,b.40.4.6,d.142.2.1 115002,115003,115004 1rjwA 339 5.84e+01 b.35.1.2,c.2.1.1 97582,97583 2r41A 110 5.85e+01 1aisA 182 5.86e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 3kpiA 434 5.92e+01 1zoyA 622 5.94e+01 1wucA 250 5.97e+01 1gteA 1025 6.06e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 2carA 196 6.09e+01 c.51.4.1 130161 1j9qA 341 6.09e+01 1nif b.6.1.3,b.6.1.3 62765,62766 1v2bA 177 6.12e+01 d.107.1.2 108279 2omdA 154 6.13e+01 2og5A 357 6.13e+01 3d37A 381 6.16e+01 b.106.1.1,b.106.1.1 157269,157270 3kalA 499 6.17e+01 2cx4A 164 6.22e+01 c.47.1.10 130973 1zmdA 474 6.22e+01 3c5jA 181 6.23e+01 2qdrA 303 6.26e+01 1hfuA 503 6.29e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 2f9iB 285 6.29e+01 2eu9A 355 6.30e+01 2gu2A 312 6.36e+01 c.56.5.7 147177 1gskA 513 6.38e+01 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 2qugA 394 6.50e+01 2wc5A 142 6.52e+01 2d9zA 129 6.53e+01 3hkvA 217 6.56e+01 1bvoA 175 6.60e+01 1a3qA b.2.5.3 22457 2zv3A 115 6.61e+01 2uubJ 105 6.63e+01 d.58.15.1 139941 3hyiA 295 6.66e+01 2i79A 172 6.73e+01 3bevA 274 6.76e+01 3d79A 179 6.86e+01 2q14A 410 6.88e+01 2wq4A 156 6.90e+01 2p3nA 256 6.90e+01 2gysA 419 7.00e+01 b.1.2.1,b.1.2.1,b.1.2.1,b.1.2.1 135865,135866,135867,135868 1kwmA 402 7.09e+01 c.56.5.1,d.58.3.1 73079,73080 3ctkA 248 7.13e+01 d.165.1.1 156985 2c21A 144 7.16e+01 d.32.1.1 129649 1g79A 218 7.21e+01 1ci0A b.45.1.1 25752 1fm4A 159 7.27e+01 1bv1 d.129.3.1 76186 1ieaB 228 7.31e+01 1iakB b.1.1.2,d.19.1.1 21632,38206 1xm7A 195 7.31e+01 d.159.1.8 115473 1t4hA 290 7.34e+01 d.144.1.7 106420 1j3kC 328 7.39e+01 d.117.1.1 84072 2zjrG 174 7.41e+01 c.21.1.1 154560 3e4zA 990 7.42e+01 2vu6A 207 7.42e+01 1nwwA 149 7.49e+01 d.17.4.8 86306 2gbwB 174 7.50e+01 2wjhA 166 7.52e+01 2phjA 251 7.56e+01 2wqkA 251 7.56e+01 3fspA 369 7.57e+01 3a0yA 152 7.62e+01 3c96A 415 7.64e+01 c.3.1.2,d.16.1.2 156122,156123 2eo0A 147 7.70e+01 2a4xA 138 7.72e+01 d.32.1.2 126166 1yztA 184 7.74e+01 c.37.1.8 124288 1xe1A 116 7.75e+01 b.43.3.1 109571 1bwvS 138 7.76e+01 1rboC d.73.1.1 39662 2rexA 121 7.76e+01 1gz8A 299 7.83e+01 d.144.1.7 83405 2qkmB 266 7.83e+01 1twfB 1224 7.84e+01 e.29.1.1 112726 2byoA 207 7.86e+01 b.125.1.3 129497 3fruA 269 7.87e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 1uv4A 293 7.88e+01 b.67.2.1 119705 2ew1A 201 7.90e+01 c.37.1.8 132446 2qmaA 497 7.91e+01 2av5A 120 7.91e+01 d.58.59.1 146070 1ryaA 160 7.92e+01 d.113.1.5 105122