# List of top-scoring protein chains for t06-100-30-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.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 1bg2 325 7.47e-49 1bg2 c.37.1.9 32189 1x88A 359 2.16e-45 1vfvA 366 3.64e-45 c.37.1.9 108592 1f9vA 347 1.57e-43 1bg2 c.37.1.9 59745 1ry6A 360 3.55e-39 c.37.1.9 98090 1wf3A 301 7.64e-02 1ex2A 189 1.41e-01 1ex2A c.51.4.2 33225 1w7jA 795 2.35e-01 1jx4A 352 3.43e-01 d.240.1.1,e.8.1.7 90378,90379 1ms9A 648 4.30e-01 b.29.1.15,b.68.1.1 85088,85089 1d2mA 665 5.28e-01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1odfA 290 7.72e-01 c.37.1.6 92782 2aq4A 434 7.97e-01 1tljA 213 8.00e-01 d.282.1.1 107126 2ghpA 292 8.94e-01 1n62B 809 1.04e+00 d.41.1.1,d.133.1.1 80092,80093 1t3qB 788 1.16e+00 d.41.1.1,d.133.1.1 106369,106370 1c4oA 664 1.23e+00 1d2mA c.37.1.19,c.37.1.19 32415,32416 1w9iA 770 1.25e+00 1go4A 205 1.28e+00 d.135.1.1 70292 1ukkA 142 1.46e+00 d.227.1.1 99491 1of5A 221 1.50e+00 d.17.4.2 86933 1vjjA 692 1.59e+00 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 2napA 723 1.84e+00 2napA b.52.2.2,c.81.1.1 26926,35334 1vpkA 378 1.97e+00 1amuA 563 2.01e+00 1amuA e.23.1.1 43351 1jz8A 1023 2.07e+00 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1n1tA 641 2.12e+00 b.29.1.15,b.68.1.1 79821,79822 1yewA 382 2.30e+00 1gvnB 287 2.33e+00 c.37.1.21 76354 1ihuA 589 2.38e+00 c.37.1.10,c.37.1.10 62394,62395 1wn5A 130 2.55e+00 1rypJ 204 2.82e+00 d.153.1.4 41878 2atrA 138 3.06e+00 1ujnA 348 3.12e+00 e.22.1.1 99460 1h6kZ 98 3.57e+00 d.58.7.1 60686 2b67A 204 3.60e+00 1ls1A 295 3.69e+00 a.24.13.1,c.37.1.10 78170,78171 1nd4A 264 4.02e+00 d.144.1.6 91815 1lnsA 763 4.27e+00 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1zd3A 555 4.28e+00 2a5yB 549 4.37e+00 1unnC 115 4.43e+00 d.240.1.1 99680 1lv7A 257 4.49e+00 c.37.1.20 78232 1d4xG 126 4.74e+00 1d0nA d.109.1.1 59109 1vkkA 154 4.79e+00 d.109.1.2 108669 1fg7A 356 4.88e+00 1gewA c.67.1.1 59819 2bwvA 440 4.92e+00 1jb7B 260 5.07e+00 1otcB b.40.4.3 62839 1u9iA 519 5.18e+00 1qwiA 143 5.20e+00 d.227.1.1 96474 1bouB 302 5.44e+00 1bouB c.56.6.1 33859 1t2dA 322 5.50e+00 c.2.1.5,d.162.1.1 99084,99085 1q5dA 419 5.88e+00 a.104.1.1 95891 1k7kA 221 5.95e+00 c.51.4.1 72104 1tu5A 746 5.96e+00 1f7sA 139 6.03e+00 1cof d.109.1.2 40857 1t3tA 1303 6.18e+00 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 2cdcA 366 6.31e+00 1mkyA 439 6.39e+00 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1t71A 281 7.01e+00 1wv2A 265 7.04e+00 1zy9A 564 7.04e+00 1tmxA 293 7.23e+00 1qy5A 269 7.96e+00 d.122.1.1 96573 2fggA 101 7.97e+00 2fsrA 195 8.03e+00 1xkrA 206 8.22e+00 1fuiA 591 8.22e+00 1fuiA b.43.2.1,c.85.1.1 25674,35444 1g2rA 100 8.29e+00 1g2rA d.192.1.1 60231 1e8gA 560 8.54e+00 1qltA d.58.32.1,d.145.1.1 39455,41718 1qksA 567 8.63e+00 1qksA a.3.1.2,b.70.2.1 15951,27710 2cdnA 201 9.12e+00 1e8cA 498 9.13e+00 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1wddS 128 9.13e+00 1y14A 187 9.17e+00 2f5tX 233 9.40e+00 1ka1A 357 9.86e+00 e.7.1.1 68369 1i19A 561 1.00e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1j8mF 297 1.01e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1wi6A 88 1.06e+01 2azeA 155 1.08e+01 2akaB 299 1.10e+01 1inlA 296 1.14e+01 c.66.1.17 66220 1rsy 152 1.15e+01 1rsy b.7.1.2 23192 1pzgA 331 1.17e+01 c.2.1.5,d.162.1.1 95425,95426 1xvaA 292 1.17e+01 1xvaA c.66.1.5 34183 1cs0A 1073 1.19e+01 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 1vicA 262 1.21e+01 c.68.1.13 100756 1dhn 121 1.24e+01 1dhn d.96.1.3 40663 1a8s 273 1.29e+01 1brt c.69.1.12 34710 1nv8A 284 1.32e+01 c.66.1.30 86224 2bycA 137 1.41e+01 2d29A 387 1.48e+01 2be3A 226 1.57e+01 1xdpA 687 1.59e+01 1e19A 314 1.67e+01 1b7bA c.73.1.1 34967 1qf5A 431 1.68e+01 1adeA c.37.1.10 32212 2an3A 289 1.69e+01 2bzlA 325 1.70e+01 2fqxA 318 1.79e+01 1oi2A 366 1.82e+01 c.119.1.2 103802 1xtzA 264 1.82e+01 1m1zA 513 1.83e+01 c.26.2.1,d.153.1.1 78457,78458 1c0pA 363 1.84e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1t8hA 277 1.86e+01 d.194.1.2 106664 1tfzA 424 1.88e+01 d.32.1.3,d.32.1.3 106886,106887 1s7kA 182 1.90e+01 2fpeA 62 1.94e+01 1ryp2 233 1.94e+01 1ryp2 1qx4A 274 1.95e+01 b.43.4.2,c.25.1.1 104624,104625 1hdoA 206 1.98e+01 1he2A c.2.1.2 60965 1cr5A 189 2.00e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1hdiA 413 2.01e+01 16pk c.86.1.1 60964 1wohA 305 2.04e+01 c.42.1.1 109446 2av4A 162 2.08e+01 1k2eA 156 2.08e+01 d.113.1.1 72010 1rx0A 393 2.13e+01 a.29.3.1,e.6.1.1 98007,98008 1p1mA 406 2.16e+01 b.92.1.4,c.1.9.9 87696,87697 1oacA 727 2.18e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1r9cA 139 2.20e+01 d.32.1.2 97255 2f8mA 244 2.20e+01 1itxA 419 2.21e+01 c.1.8.5,d.26.3.1 71425,71426 1j5sA 463 2.24e+01 c.1.9.8 71580 1bo4A 168 2.26e+01 1bo4A d.108.1.1 40798 2dg5B 190 2.27e+01 1rq2A 382 2.37e+01 c.32.1.1,d.79.2.1 105048,105049 1cqmA 101 2.38e+01 1ris d.58.14.1 39321 1m8jA 181 2.41e+01 c.26.1.3 84875 1x38A 602 2.43e+01 2bmaA 470 2.44e+01 1fxkC 133 2.48e+01 1fxkC a.2.5.1 15702 1v30A 124 2.50e+01 1j1iA 296 2.52e+01 c.69.1.10 83977 1ej2A 181 2.52e+01 1f9aA c.26.1.3 59414 1g8pA 350 2.56e+01 1g8pA c.37.1.20 60376 2bf6A 449 2.57e+01 1sdoA 203 2.61e+01 c.52.1.21 98809 1t94A 459 2.62e+01 d.240.1.1,e.8.1.7 106701,106702 1f60A 458 2.63e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1xksA 450 2.63e+01 1e58A 249 2.65e+01 1qhfA c.60.1.1 59262 1lk2A 274 2.68e+01 b.1.1.2,d.19.1.1 91056,91057 1q45A 391 2.73e+01 c.1.4.1 95780 1cliA 345 2.74e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1twfA 1733 2.74e+01 1uzxA 169 2.78e+01 d.20.1.2 100238 1vrmA 325 2.84e+01 2f7fA 494 2.84e+01 1v25A 541 2.86e+01 e.23.1.1 108275 1xx1A 285 2.89e+01 1ybdA 239 2.89e+01 1n9lA 109 2.91e+01 d.110.3.6 85468 1m2oA 768 2.95e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 2gcc 70 3.00e+01 2gcc d.10.1.2 37484 1efvB 255 3.02e+01 1efvB c.26.2.3 31634 1t64A 377 3.07e+01 c.42.1.2 106543 1fxlA 167 3.10e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1m4jA 142 3.10e+01 d.109.1.2 78602 1w85A 368 3.10e+01 1ne9A 335 3.12e+01 d.108.1.4,d.108.1.4 91839,91840 1vg0A 650 3.22e+01 c.3.1.3,d.16.1.6 108596,108597 1fyeA 229 3.23e+01 1fyeA c.23.16.4 31477 2ajrA 331 3.27e+01 1rkuA 206 3.27e+01 c.108.1.11 97627 8rucI 123 3.27e+01 1rboC d.73.1.1 39629 1wyzA 242 3.28e+01 1tp9A 162 3.41e+01 1v7rA 186 3.49e+01 c.51.4.1 100482 2axtI 38 3.52e+01 1p5dX 463 3.52e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1am2 199 3.55e+01 1am2 b.86.1.2 28381 1onwA 390 3.59e+01 b.92.1.7,c.1.9.13 87172,87173 1wruA 379 3.64e+01 2fytA 340 3.67e+01 1nnlA 225 3.67e+01 c.108.1.4 85906 1q7zA 566 3.68e+01 c.1.21.2,c.1.26.1 96090,96091 1u4nA 310 3.70e+01 1m33A 258 3.71e+01 c.69.1.26 78514 1dmgA 225 3.73e+01 1dmgA c.22.1.1 31036 1n0uA 842 3.77e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1xuvA 178 3.80e+01 1nh2B 53 3.80e+01 a.32.1.1 91874 1tjxA 159 3.83e+01 1u6zA 513 3.83e+01 2faoA 309 3.83e+01 1vns 609 3.89e+01 1vns a.111.1.3 19061 1vgjA 184 3.91e+01 1gl4A 285 3.93e+01 d.22.1.2,g.3.11.5 65286,65287 1wb0A 445 3.95e+01 1gr0A 367 3.99e+01 c.2.1.3,d.81.1.3 70379,70380 3pmgA 561 4.02e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1ti6A 875 4.04e+01 b.52.2.2,c.81.1.1 106974,106975 1vfrA 218 4.05e+01 1vfrA d.90.1.1 40247 1uluA 261 4.10e+01 1eswA 500 4.18e+01 1cwyA c.1.8.1 59500 1sx7A 164 4.18e+01 1h12A 405 4.22e+01 a.102.1.2 83447 2b1xB 172 4.26e+01 1vyrA 364 4.26e+01 c.1.4.1 108906 1efpB 252 4.31e+01 1efvB c.26.2.3 31636 1wznA 252 4.31e+01 1jc4A 148 4.31e+01 1jc4A d.32.1.4 62863 1z0jA 170 4.32e+01 1yvoA 172 4.48e+01 1xewY 172 4.49e+01 1sheA 103 4.51e+01 d.274.1.1 105551 1y51A 88 4.51e+01 1zhhB 242 4.52e+01 1lfpA 249 4.55e+01 e.39.1.1 73885 1sfp 114 4.57e+01 1sfp b.23.1.1 23895 1spxA 278 4.57e+01 c.2.1.2 98958 1g291 372 4.58e+01 1g291 1vf8A 377 4.62e+01 1cbf 285 4.63e+01 1cbf c.90.1.1 35587 1zavA 180 4.67e+01 1vlbA 907 4.69e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 2cxxA 190 4.74e+01 1c7qA 445 4.75e+01 2pgi c.80.1.2 35307 1ynpA 317 4.79e+01 1zk7A 467 4.82e+01 1xw8A 252 4.84e+01 1z2mA 155 4.86e+01 1bjt 793 4.87e+01 1bjt e.11.1.1 43249 1k3yA 221 4.89e+01 a.45.1.1,c.47.1.5 77245,77246 2aiqA 231 4.91e+01 1knqA 175 4.93e+01 c.37.1.17 72786 1ib8A 164 4.95e+01 b.38.2.1,d.52.4.1 71168,71169 1vp2A 208 4.97e+01 1r7mA 235 5.00e+01 1z06A 189 5.06e+01 1xe0A 114 5.15e+01 1i6pA 220 5.21e+01 1ddzA c.53.2.1 61848 1d5rA 324 5.25e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1t7vA 278 5.26e+01 2f1fA 164 5.27e+01 1x3sA 195 5.31e+01 2db3A 434 5.32e+01 1cfzA 162 5.33e+01 1cfzA c.56.1.1 33754 1ptmA 329 5.37e+01 c.77.1.3 95104 1zu4A 320 5.37e+01 1rypG 244 5.44e+01 d.153.1.4 41938 1f3lA 321 5.44e+01 1g6q2 c.66.1.6 59630 1r4xA 275 5.45e+01 b.1.10.3,d.105.1.2 97054,97055 1r7aA 504 5.50e+01 b.71.1.1,c.1.8.1 97192,97193 1jx6A 342 5.51e+01 c.93.1.1 67406 1yz4A 160 5.52e+01 1m48A 133 5.53e+01 a.26.1.2 74443 2c07A 285 5.55e+01 1hqz1 141 5.56e+01 1lehA 364 5.60e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1uscA 178 5.62e+01 b.45.1.2 99860 2gd9A 189 5.65e+01 1z6nA 167 5.66e+01 2cu5A 129 5.71e+01 1ifrA 121 5.71e+01 b.1.16.1 71203 1d7uA 433 5.72e+01 2dkb c.67.1.4 34439 2b0tA 738 5.73e+01 1zhvA 134 5.74e+01 1ur4A 399 5.76e+01 1csn 298 5.78e+01 1csn d.144.1.7 41664 1ltqA 301 5.83e+01 c.108.1.9,c.37.1.1 78208,78209 1thtA 305 5.85e+01 1thtA c.69.1.13 34711 1bf6A 291 5.86e+01 1pscA c.1.9.3 29065 1y8aA 332 5.87e+01 1w4tA 299 5.91e+01 1qhfA 240 5.95e+01 1qhfA c.60.1.1 33960 1nhs 447 6.03e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2a1fA 247 6.06e+01 1ldfA 281 6.06e+01 f.19.1.1 73845 1xg0C 177 6.09e+01 1w96A 554 6.11e+01 1n7kA 234 6.12e+01 c.1.10.1 85374 1zz1A 369 6.13e+01 1q5xA 161 6.17e+01 c.8.7.1 95947 1r31A 428 6.19e+01 d.58.20.1,d.179.1.1 96897,96898 1fviA 297 6.19e+01 1fviA b.40.4.6,d.142.2.1 25364,41578 2fb1A 226 6.21e+01 1q6uA 245 6.27e+01 d.26.1.1 95998 1jmkC 230 6.28e+01 c.69.1.22 71747 1yp2A 451 6.29e+01 2asfA 137 6.32e+01 1gpmA 525 6.34e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1x74A 360 6.35e+01 1yb2A 275 6.36e+01 1wlsA 328 6.37e+01 1hl9A 449 6.39e+01 b.71.1.3,c.1.8.11 90650,90651 1nffA 260 6.41e+01 c.2.1.2 80457 1scfA 273 6.44e+01 1exzA a.26.1.2 16873 2cvxA 888 6.45e+01 1ooyA 481 6.49e+01 c.124.1.3,c.124.1.2 93388,93389 1xhcA 367 6.51e+01 2bfwA 200 6.53e+01 2afbA 351 6.57e+01 1xq6A 253 6.58e+01 1ni9A 338 6.59e+01 e.7.1.2 85739 1ttwA 138 6.60e+01 d.198.1.1 107308 2cx7A 130 6.76e+01 1uxzA 131 6.76e+01 b.18.1.10 100170 1u69A 163 6.77e+01 d.32.1.7 107699 1h6lA 353 6.79e+01 b.68.3.1 60687 2g8lA 299 6.80e+01 1in4A 334 6.81e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1gesA 450 6.83e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 2bllA 345 6.93e+01 1txkA 498 6.94e+01 b.1.18.2,b.30.5.9 107425,107426 2d7vA 162 6.96e+01 1qf9A 194 7.01e+01 1zin c.37.1.1 31848 1jhfA 202 7.13e+01 a.4.5.2,b.87.1.1 63057,63058 1z1zA 131 7.15e+01 1sviA 195 7.17e+01 c.37.1.8 106048 1pvtA 238 7.19e+01 c.74.1.1 95189 1i88A 389 7.23e+01 c.95.1.2,c.95.1.2 66070,66071 1uj6A 227 7.25e+01 c.124.1.4,d.58.40.1 107898,107899 1ryp1 222 7.27e+01 1ryp1 1zhsA 113 7.29e+01 1php 394 7.30e+01 16pk c.86.1.1 35452 1nf3A 195 7.30e+01 c.37.1.8 85594 2cunA 410 7.32e+01 2fnaA 357 7.32e+01 1fmtA 314 7.32e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1g8kA 825 7.38e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 2gokA 429 7.39e+01 2bd0A 244 7.41e+01 1yqzA 438 7.50e+01 1e2kA 331 7.50e+01 1qhiA c.37.1.1 31854 1z94A 147 7.60e+01 1v0jA 399 7.61e+01 1fp2A 352 7.63e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1uwkA 557 7.64e+01 e.51.1.1 108065 1qwgA 251 7.66e+01 c.1.27.1 96473 1bgvA 449 7.68e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1vflA 356 7.69e+01 1svy 114 7.71e+01 1svy d.109.1.1 40831 1q2yA 140 7.74e+01 d.108.1.1 95655 2eutA 294 7.76e+01 1xs0A 136 7.79e+01 1w44A 331 7.81e+01 1su8A 636 7.84e+01 e.26.1.2 98999 1fna 93 7.94e+01 1fnf b.1.2.1 21971 2bcgY 206 7.99e+01 1rw6A 210 8.02e+01 a.47.4.1 105113 1u7iA 136 8.13e+01 d.32.1.7 107724 1p8xA 344 8.19e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 2ahqA 76 8.21e+01 1hd7A 318 8.26e+01 1bix d.151.1.1 41780 1q6hA 224 8.37e+01 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