# List of top-scoring protein chains for t04-100-30-n_sep-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 1uekA 275 3.71e-01 d.14.1.5,d.58.26.5 88483,88484 1tq4A 413 9.39e-01 c.37.1.8 107201 2f6hX 419 1.36e+00 1zbmA 280 1.49e+00 1f0iA 504 1.50e+00 1f0iA d.136.1.2,d.136.1.2 59566,59567 1yovA 537 1.69e+00 1el5A 389 1.70e+00 1b3mA c.3.1.2,d.16.1.3 30369,37937 1wlmA 151 1.73e+00 1utg 70 2.12e+00 1utg a.101.1.1 18813 2utgA 70 2.16e+00 1utg a.101.1.1 18814 2f6kA 307 2.79e+00 1wz7A 111 2.80e+00 1rvgA 305 3.21e+00 c.1.10.2 97920 1q5nA 454 3.61e+00 a.127.1.1 95901 1xklA 273 4.01e+00 2f9fA 177 4.18e+00 1z6nA 167 4.44e+00 1c3pA 375 4.44e+00 1c3pA c.42.1.2 32606 1x8dA 104 4.45e+00 2d1eA 248 4.58e+00 1tadA 324 4.85e+00 1cipA a.66.1.1,c.37.1.8 18194,32077 1tag 324 4.87e+00 1cipA a.66.1.1,c.37.1.8 18197,32080 1mjnA 179 5.29e+00 c.62.1.1 79210 2c07A 285 5.33e+00 1g6oA 330 5.37e+00 1g6oA c.37.1.11 32430 1je0A 236 6.05e+00 c.56.2.1 66581 1p5zB 263 6.11e+00 c.37.1.1 87815 1r45A 204 6.12e+00 1agi 125 6.14e+00 7rsa d.5.1.1 37303 1pzqA 60 7.08e+00 a.34.3.1 95466 2fz0A 149 7.38e+00 1z41A 338 7.43e+00 1c4rA 182 7.92e+00 1c4rA b.29.1.4 24229 1o0xA 262 8.64e+00 d.127.1.1 80755 1w9gA 104 9.71e+00 1khdA 345 9.92e+00 a.46.2.1,c.27.1.1 77400,77401 1yd9A 193 1.04e+01 1lfaA 187 1.05e+01 1ido c.62.1.1 34122 1zcbA 362 1.06e+01 1u09A 476 1.08e+01 e.8.1.4 107545 1mxiA 160 1.10e+01 c.116.1.1 79646 1h2eA 207 1.12e+01 c.60.1.1 70857 1j1uA 306 1.18e+01 c.26.1.1 83980 2be3A 226 1.19e+01 2avdA 219 1.19e+01 1w24A 182 1.20e+01 1bouB 302 1.21e+01 1bouB c.56.6.1 33859 1xrsA 516 1.24e+01 1b1cA 181 1.30e+01 1amoA c.23.5.2 31212 2gwfB 134 1.31e+01 1zr5A 214 1.31e+01 1reqB 637 1.32e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1fknA 391 1.32e+01 1fknA b.50.1.2 26879 1cc5 83 1.33e+01 1cc5 a.3.1.1 15901 1o94A 729 1.36e+01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1uu1A 335 1.36e+01 c.67.1.1 99993 2ew2A 316 1.37e+01 1jtdB 273 1.38e+01 b.69.5.2 67265 1djqA 729 1.40e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1vqzA 341 1.40e+01 2fi9A 128 1.42e+01 1k9uA 78 1.45e+01 a.39.1.10 84348 1pmzA 86 1.47e+01 a.39.1.10 104195 2prd 174 1.48e+01 2prd b.40.5.1 25435 1aq0A 306 1.49e+01 1aq0A c.1.8.3 28842 1p9qC 256 1.62e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1d3vA 323 1.70e+01 1d3vA c.42.1.1 32559 1z2wA 192 1.73e+01 1hm9A 468 1.73e+01 b.81.1.4,c.68.1.5 65866,65867 2fvtA 135 1.74e+01 1z2aA 168 1.75e+01 1e5xA 486 1.88e+01 c.79.1.1 59283 1lc5A 364 1.89e+01 c.67.1.1 73827 1n6jG 35 1.89e+01 1hl9A 449 1.90e+01 b.71.1.3,c.1.8.11 90650,90651 1v9jA 113 1.93e+01 d.52.6.1 100542 1r6lA 239 1.94e+01 d.14.1.4,d.101.1.1 97153,97154 1mo7A 213 1.94e+01 d.220.1.1 85028 1o08A 221 1.97e+01 c.108.1.6 86525 1ycdA 243 2.00e+01 1l6rA 227 2.02e+01 c.108.1.10 77768 1mbyA 88 2.03e+01 d.223.1.1 78931 1hqz1 141 2.06e+01 1cipA 353 2.06e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1ehiA 377 2.07e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1j0aA 325 2.08e+01 c.79.1.1 83871 1k3rA 268 2.16e+01 b.40.4.10,c.116.1.2 72018,72019 8pchA 220 2.17e+01 1cs8A 1n35A 1267 2.18e+01 e.8.1.4 79935 1n6aA 259 2.22e+01 b.76.2.1,b.85.7.1 80121,80122 1t4hA 290 2.23e+01 d.144.1.7 106420 1aj8A 371 2.23e+01 1aj8A a.103.1.1 18900 1bjx 110 2.27e+01 1bjx c.47.1.2 32774 1h7mA 102 2.32e+01 d.79.3.1 83485 1t5oA 351 2.36e+01 c.124.1.5 106459 1g5aA 628 2.37e+01 b.71.1.1,c.1.8.1 65152,65153 1e0nA 27 2.38e+01 b.72.1.1 27807 2ae5B 528 2.39e+01 1sgzA 389 2.46e+01 b.50.1.2 98872 1ur1A 378 2.46e+01 c.1.8.3 99804 1hnr 47 2.55e+01 1hnr a.155.1.1 17896 1e6cA 173 2.56e+01 1shkA c.37.1.2 59296 1hkhA 279 2.61e+01 c.69.1.12 90628 1m7bA 184 2.65e+01 c.37.1.8 74572 1svsA 353 2.65e+01 c.37.1.8 106051 1rrmA 386 2.66e+01 e.22.1.2 105081 1svy 114 2.66e+01 1svy d.109.1.1 40831 1ujrA 110 2.75e+01 1lyxA 248 2.76e+01 c.1.1.1 78304 1o5xA 248 2.80e+01 c.1.1.1 92528 1f75A 249 2.80e+01 1f75A c.101.1.1 59662 1lucA 355 2.86e+01 1lucA c.1.16.1 29547 1djnA 729 2.88e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28612,30313,30598 1xdwA 331 2.90e+01 2cyeA 133 2.94e+01 1fgkA 310 2.96e+01 1fgkA d.144.1.7 41693 1j7nA 776 2.97e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 2cygA 312 2.97e+01 1qu9A 128 3.04e+01 1qu9A d.79.1.1 39755 1u7gA 385 3.06e+01 f.44.1.1 107723 1wmmA 145 3.07e+01 1bvyF 191 3.13e+01 1bvyF c.23.5.1 31207 1k6xA 352 3.18e+01 c.2.1.2 68238 1txgA 335 3.20e+01 1keaA 221 3.21e+01 a.96.1.2 68491 1ja9A 274 3.21e+01 c.2.1.2 62817 1ay7B 89 3.22e+01 1ay7B c.9.1.1 30836 1sxvA 172 3.23e+01 1ad2 228 3.24e+01 1ad2 e.24.1.1 43353 2fyxA 143 3.25e+01 1lk9A 448 3.26e+01 c.67.1.1 78057 1ywnA 316 3.27e+01 1irqA 71 3.28e+01 a.43.1.4 66297 2tmdA 729 3.30e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 2c31A 568 3.31e+01 2c30A 321 3.33e+01 2aghC 31 3.33e+01 1ucpA 91 3.37e+01 a.77.1.5 99186 1jvwA 167 3.39e+01 d.26.1.1 71907 1xgkA 352 3.39e+01 1qo7A 394 3.40e+01 1qo7A c.69.1.11 34697 1jw2A 72 3.43e+01 a.23.5.1 67372 1z54A 132 3.45e+01 1eg7A 557 3.45e+01 1eg7A c.37.1.10 32241 1f20A 435 3.48e+01 b.43.4.1,c.25.1.4 64932,64933 1kwgA 645 3.51e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1d7oA 297 3.51e+01 1enp c.2.1.2 29907 1un3A 123 3.53e+01 d.5.1.1 99646 1abv 134 3.58e+01 1abv a.70.1.1 18317 1chd 203 3.58e+01 1chd c.40.1.1 32478 2av9A 147 3.58e+01 1oaoA 674 3.60e+01 e.26.1.2 86744 1gtkA 313 3.66e+01 c.94.1.1,d.50.2.1 76346,76347 1y5mA 276 3.72e+01 1i6iA 366 3.77e+01 1bg2 c.37.1.9 61844 2aaa 484 3.79e+01 7taa b.71.1.1,c.1.8.1 27777,28764 2bwkA 121 3.82e+01 2b3yA 888 3.82e+01 1i6pA 220 3.85e+01 1ddzA c.53.2.1 61848 1qwgA 251 3.85e+01 c.1.27.1 96473 1vgwA 231 3.88e+01 c.68.1.13 100612 1alvA 173 3.97e+01 1alvA a.39.1.8 17370 1s9jA 341 3.99e+01 1a8q 274 4.02e+01 1brt c.69.1.12 34702 1qmgA 524 4.02e+01 1qmgA a.100.1.2,c.2.1.6 18785,30182 1g97A 459 4.04e+01 1fwyA b.81.1.4,c.68.1.5 60394,60395 1q1aA 289 4.05e+01 c.31.1.5 95561 1t5bA 201 4.11e+01 c.23.5.3 106433 1r6jA 82 4.11e+01 b.36.1.1 97151 1o4yA 288 4.13e+01 b.29.1.2 92473 1vp8A 201 4.14e+01 1s7kA 182 4.17e+01 1q0rA 298 4.26e+01 c.69.1.28 95508 1n9lA 109 4.27e+01 d.110.3.6 85468 1w41A 101 4.28e+01 2fzsA 193 4.31e+01 1wtjA 343 4.33e+01 2b7kA 200 4.33e+01 1vcc 77 4.34e+01 1vcc d.121.1.1 41092 2ceyA 306 4.35e+01 1inlA 296 4.39e+01 c.66.1.17 66220 2eboA 74 4.45e+01 2eboA h.3.2.1 45754 1gw5S 142 4.49e+01 d.110.4.2 70633 1vpzA 73 4.50e+01 1vfvA 366 4.50e+01 c.37.1.9 108592 2c1vA 338 4.51e+01 1lfo 128 4.52e+01 1hmt b.60.1.2 27223 1diiC 80 4.53e+01 1diiC a.3.1.1 15925 1vk8A 106 4.55e+01 d.58.48.1 108636 2bo3A 94 4.57e+01 1b5qA 472 4.58e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1u53A 196 4.58e+01 1clvI 32 4.59e+01 1qfdA g.3.2.1 44075 1oahA 519 4.59e+01 a.138.1.3 86736 2d28C 149 4.62e+01 1y6hA 177 4.65e+01 1zwwA 256 4.69e+01 1v0wA 506 4.73e+01 d.136.1.2,d.136.1.2 108220,108221 1pp7U 131 4.75e+01 a.4.5.44 94973 1qy6A 274 4.75e+01 b.47.1.1 96574 2culA 232 4.77e+01 1zwxA 301 4.81e+01 1y7yA 74 4.83e+01 1v5tA 90 4.85e+01 d.15.1.1 108385 1pmmA 466 4.87e+01 c.67.1.6 94901 1wy2A 351 4.90e+01 2g8lA 299 4.92e+01 2gz4A 207 4.93e+01 1a8p 258 5.02e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1zejA 293 5.04e+01 1b25A 619 5.12e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1izoA 417 5.17e+01 a.104.1.1 83851 1sviA 195 5.19e+01 c.37.1.8 106048 1qxoA 388 5.26e+01 d.258.1.1 96539 1yb3A 175 5.29e+01 1tw4A 125 5.31e+01 1qc7A 101 5.35e+01 1qc7A a.118.14.1 18456 1ejdA 419 5.36e+01 1uae d.68.2.2 39576 1tvjA 166 5.38e+01 1enp 312 5.40e+01 1enp c.2.1.2 29906 1m8jA 181 5.42e+01 c.26.1.3 84875 1apmE 350 5.46e+01 1cdkA d.144.1.7 41628 1iy8A 267 5.48e+01 c.2.1.2 83774 1wz8A 264 5.50e+01 2b18A 164 5.50e+01 1pmy 123 5.52e+01 1bqk b.6.1.1 22888 1ah7 245 5.53e+01 1ah7 a.124.1.1 19339 1uhkA 191 5.55e+01 1o63A 219 5.59e+01 c.94.1.1 92540 3ladA 476 5.61e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1rcf 169 5.64e+01 1rcf c.23.5.1 31170 1wveC 80 5.65e+01 2f02A 323 5.65e+01 2ew8A 249 5.65e+01 1knqA 175 5.67e+01 c.37.1.17 72786 2aebA 322 5.68e+01 1xhcA 367 5.70e+01 2blkA 122 5.70e+01 1qavA 90 5.70e+01 1qauA b.36.1.1 24777 1mjhA 162 5.72e+01 1mjhA c.26.2.4 31639 1qnaA 200 5.75e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1t95A 240 5.76e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1mvwC 147 5.76e+01 i.15.1.1 79525 1a4yB 123 5.78e+01 7rsa d.5.1.1 37296 1e5mA 416 5.85e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1cvl 319 5.86e+01 1cvl c.69.1.18 34786 2awiA 317 5.86e+01 1fm2B 520 5.87e+01 1fm2B 1ja1A 622 5.88e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1ghsA 306 5.88e+01 1aq0A c.1.8.3 28840 1z3eA 132 5.88e+01 1f4pA 147 5.90e+01 5nul c.23.5.1 59651 1tp9A 162 5.93e+01 1nteA 82 5.95e+01 b.36.1.1 86163 1whzA 70 5.98e+01 1yqyA 523 6.00e+01 2dgkA 452 6.02e+01 1nz6A 101 6.08e+01 a.2.3.1 86441 2a5vA 213 6.08e+01 1v37A 177 6.10e+01 1or0B 528 6.12e+01 1f1eA 154 6.13e+01 a.22.1.2 64927 1is2A 661 6.14e+01 a.29.3.2,a.29.3.2,e.6.1.2 71382,71383,71384 1h05A 146 6.18e+01 c.23.13.1 76433 2ffjA 300 6.20e+01 1zdzA 302 6.28e+01 1uqrA 154 6.31e+01 c.23.13.1 99779 1t9bA 677 6.32e+01 1jyrA 96 6.33e+01 d.93.1.1 71969 1vi2A 300 6.37e+01 c.2.1.7,c.58.1.5 100726,100727 1y81A 138 6.37e+01 1exbA 332 6.39e+01 1qrqA c.1.7.1 28666 1tz9A 367 6.44e+01 c.1.15.6 107466 1am2 199 6.50e+01 1am2 b.86.1.2 28381 1zpvA 91 6.53e+01 1q3eA 207 6.57e+01 b.82.3.2 95669 1y71A 130 6.57e+01 1whxA 111 6.58e+01 1rdqE 350 6.63e+01 d.144.1.7 97314 1fjgN 61 6.72e+01 1fjfN g.39.1.7 45154 1f3mA 80 6.75e+01 1f3mA j.66.1.1 46358 1t4gA 322 6.75e+01 a.60.4.1,c.37.1.11 106418,106419 1t8tA 271 6.79e+01 c.37.1.5 106685 1ox0A 430 6.80e+01 c.95.1.1,c.95.1.1 87495,87496 1s1hM 132 6.82e+01 i.1.1.1 105165 1aisA 182 6.85e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1azpA 66 6.85e+01 1azpA b.34.13.1 37467 1ryp2 233 6.88e+01 1ryp2 1r6wA 322 6.91e+01 c.1.11.2,d.54.1.1 97165,97166 1bylA 125 6.91e+01 1bylA d.32.1.2 38495 2b30A 301 6.94e+01 1xh9A 350 6.99e+01 1qjtA 99 7.02e+01 1eh2 a.39.1.6 17335 1bbzA 58 7.03e+01 1bbzA b.34.2.1 24477 1xhlA 297 7.04e+01 c.2.1.2 109591 1aboA 62 7.04e+01 1bbzA b.34.2.1 24474 2fhzA 109 7.06e+01 1iupA 282 7.06e+01 c.69.1.10 76815 1ukuA 102 7.08e+01 d.58.5.2 99533 1bjwA 382 7.11e+01 1bjwA c.67.1.1 34349 1xfjA 261 7.15e+01 d.194.1.2 109585 1r71A 178 7.17e+01 a.4.14.1 104823 1sfuA 75 7.18e+01 a.4.5.19 105503 1cojA 212 7.23e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 2gvkA 317 7.26e+01 1rxwA 336 7.26e+01 a.60.7.1,c.120.1.2 98059,98060 1rkqA 282 7.31e+01 c.108.1.10 97621 1b5pA 385 7.37e+01 c.67.1.1 90403 1ex1A 605 7.41e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 1rreA 200 7.44e+01 d.14.1.10 97791 1v7cA 351 7.46e+01 c.79.1.1 100446 1vkkA 154 7.47e+01 d.109.1.2 108669 1d0qA 103 7.48e+01 1d0qA g.41.3.2 45208 1yg6A 193 7.49e+01 2a6tA 271 7.50e+01 1eg5A 384 7.51e+01 1ecxA c.67.1.3 34429 1gr3A 160 7.56e+01 b.22.1.1 65476 2aobA 99 7.56e+01 1ep3B 262 7.62e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1xrkA 124 7.62e+01 2fpmA 322 7.65e+01 1s57A 153 7.67e+01 2fztA 79 7.70e+01 1ud9A 245 7.73e+01 d.131.1.2,d.131.1.2 107768,107769 1q6hA 224 7.73e+01 d.26.1.1 95975 1yj7A 171 7.74e+01 2anuA 255 7.80e+01 1dtdB 61 7.83e+01 1dtvA g.30.1.1 44962 1vetB 125 7.86e+01 d.110.7.1 108554 1cpcA 162 8.01e+01 1cpcA a.1.1.3 15643 1nrvA 105 8.01e+01 d.93.1.1 86126 1ctf 74 8.03e+01 1ctf d.45.1.1 38759 1evsA 187 8.04e+01 1evsA a.26.1.1 16845 2btiA 63 8.10e+01 1jv4A 162 8.15e+01 b.60.1.1 67343 1xocA 520 8.15e+01 1na3A 91 8.19e+01 k.38.1.1 85481 1m9xC 146 8.26e+01 a.73.1.1 84907 1cb8A 678 8.28e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 2act 220 8.35e+01 1cs8A d.3.1.1 37002 1tph1 247 8.45e+01 1amk 1zd8A 227 8.48e+01 1e4yA 214 8.50e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1fs5A 266 8.52e+01 c.124.1.1 65044 1ako 268 8.53e+01 1ako d.151.1.1 41779 1xu9A 286 8.58e+01 1mjfA 281 8.60e+01 c.66.1.17 79198 1xvaA 292 8.61e+01 1xvaA c.66.1.5 34183 1b8gA 429 8.62e+01 1b8gA c.67.1.4 34499 2cvjA 180 8.62e+01 1m5yA 408 8.63e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1yobA 179 8.65e+01 2tct 207 8.65e+01 2tct a.4.1.9,a.121.1.1 16063,19240 2czrA 226 8.66e+01 1thv 207 8.66e+01 1thv b.25.1.1 23904 1olsA 400 8.71e+01 c.36.1.11 93331 2b8eA 273 8.72e+01 1oboA 169 8.73e+01 c.23.5.1 86776 1udc 338 8.77e+01 1xel c.2.1.2 29785 1l3kA 196 8.77e+01 d.58.7.1,d.58.7.1 73539,73540 1t0iA 191 8.78e+01 c.23.5.4 106209 1atzA 189 8.83e+01 1atzA c.62.1.1 34132 1qy1A 174 8.84e+01 b.60.1.1 96568 1zndA 174 8.84e+01 1yriA 35 8.85e+01 1e8uA 454 8.90e+01 1e8tA b.68.1.1 59389 2lbp 346 8.93e+01 2liv c.93.1.1 35709 1m2kA 249 8.95e+01 c.31.1.5 84754 1kpgA 287 8.96e+01 c.66.1.18 68735