# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1.68e-53 1bg2 c.37.1.9 32189 1i6iA 366 4.44e-51 1bg2 c.37.1.9 61844 1x88A 359 1.15e-50 1q0bA 367 2.99e-50 c.37.1.9 95502 1vfvA 366 4.13e-50 c.37.1.9 108592 1f9vA 347 7.80e-48 1bg2 c.37.1.9 59745 1ry6A 360 1.61e-43 c.37.1.9 98090 2kinA 238 4.75e-38 1bg2 c.37.1.9 32190 2kinB 100 8.25e-13 3kinB 1wf3A 301 4.39e-02 1cliA 345 5.58e-01 1cliA d.79.4.1,d.139.1.1 39816,41459 2akaB 299 6.33e-01 1inlA 296 6.55e-01 c.66.1.17 66220 1esgA 213 7.44e-01 1bam c.52.1.3 33286 2bmaA 470 8.38e-01 1nd4A 264 1.08e+00 d.144.1.6 91815 1vraB 215 1.17e+00 1yewA 382 1.36e+00 1thtA 305 1.43e+00 1thtA c.69.1.13 34711 2fsjA 346 1.69e+00 1q5qA 259 2.20e+00 d.153.1.4 95904 1pzgA 331 2.50e+00 c.2.1.5,d.162.1.1 95425,95426 1fw9A 164 2.57e+00 1fw9A d.190.1.1 60059 1tt8A 164 2.57e+00 1ls1A 295 2.74e+00 a.24.13.1,c.37.1.10 78170,78171 3bamA 213 3.01e+00 1bam c.52.1.3 33288 2ng1 293 3.40e+00 1ng1 a.24.13.1,c.37.1.10 16962,32273 2napA 723 3.41e+00 2napA b.52.2.2,c.81.1.1 26926,35334 1nm1G 125 3.56e+00 d.109.1.1 80653 1d4xG 126 3.62e+00 1d0nA d.109.1.1 59109 1hjxA 362 3.65e+00 c.1.8.5,d.26.3.1 83512,83513 1j1iA 296 3.82e+00 c.69.1.10 83977 1n62B 809 3.88e+00 d.41.1.1,d.133.1.1 80092,80093 1htjF 210 3.93e+00 1htjF a.91.1.1 61254 2b67A 204 3.94e+00 1tvjA 166 4.00e+00 1bouB 302 4.15e+00 1bouB c.56.6.1 33859 1jx2B 315 4.51e+00 c.37.1.8 67404 1w7jA 795 4.58e+00 1qj2B 809 4.92e+00 1qj2B 1l7aA 318 5.22e+00 c.69.1.25 77772 1owqA 361 5.23e+00 c.1.8.5,d.26.3.1 104041,104042 1egaA 301 5.34e+00 1egaA c.37.1.8,d.52.3.1 32150,38836 1g8kA 825 5.54e+00 1g8jA b.52.2.2,c.81.1.1 26920,35328 1tljA 213 6.29e+00 d.282.1.1 107126 1on3A 523 6.43e+00 c.14.1.4,c.14.1.4 87107,87108 1ta9A 450 6.62e+00 1t71A 281 6.64e+00 1jb7B 260 6.82e+00 1otcB b.40.4.3 62839 1zxiB 809 7.04e+00 1qfjA 232 7.29e+00 1qfjA b.43.4.2,c.25.1.1 25655,31545 1hkkA 364 7.74e+00 c.1.8.5,d.26.3.1 90634,90635 2azeA 155 8.66e+00 1oe9A 795 8.68e+00 b.34.3.1,c.37.1.9 92792,92793 2bf6A 449 8.76e+00 1lv7A 257 9.13e+00 c.37.1.20 78232 1ln1A 214 9.20e+00 d.129.3.2 74038 1c4oA 664 9.56e+00 1d2mA c.37.1.19,c.37.1.19 32415,32416 2b1xB 172 9.73e+00 2bwvA 440 9.81e+00 2b7oA 464 1.02e+01 2adcA 229 1.06e+01 1w4tA 299 1.07e+01 1d2mA 665 1.08e+01 1d2mA c.37.1.19,c.37.1.19 32417,32418 2aq4A 434 1.10e+01 1f7sA 139 1.10e+01 1cof d.109.1.2 40857 1wl9A 440 1.12e+01 1esmA 316 1.15e+01 1esmA c.37.1.6 31953 1r4xA 275 1.17e+01 b.1.10.3,d.105.1.2 97054,97055 1gvnB 287 1.23e+01 c.37.1.21 76354 1p8xA 344 1.24e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1ng4A 390 1.25e+01 c.3.1.2,d.16.1.3 85666,85667 3pmgA 561 1.33e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1zk7A 467 1.35e+01 1odfA 290 1.36e+01 c.37.1.6 92782 1wd3A 482 1.41e+01 b.29.1.21,b.42.8.1 109233,109234 1wohA 305 1.42e+01 c.42.1.1 109446 1sr9A 644 1.44e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1k2eA 156 1.46e+01 d.113.1.1 72010 1qynA 153 1.48e+01 d.33.1.1 96597 1u2eA 289 1.48e+01 1yobA 179 1.51e+01 1txvB 440 1.52e+01 1zj6A 187 1.53e+01 1q5dA 419 1.54e+01 a.104.1.1 95891 1zq1A 438 1.54e+01 1ofuA 320 1.58e+01 c.32.1.1,d.79.2.1 86972,86973 1q7zA 566 1.59e+01 c.1.21.2,c.1.26.1 96090,96091 1h6kZ 98 1.60e+01 d.58.7.1 60686 1ti6A 875 1.62e+01 b.52.2.2,c.81.1.1 106974,106975 1fg7A 356 1.64e+01 1gewA c.67.1.1 59819 1k2yX 463 1.69e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1z0jA 170 1.72e+01 1sa3A 262 1.74e+01 c.52.1.23 105400 1zavA 180 1.77e+01 2d0oA 610 1.78e+01 1zc6A 305 1.78e+01 1s7kA 182 1.81e+01 2ghpA 292 1.83e+01 1wn5A 130 1.84e+01 1q9uA 130 1.93e+01 d.129.7.1 96314 1of5A 221 1.94e+01 d.17.4.2 86933 1nbfA 353 1.97e+01 d.3.1.9 80387 2fqxA 318 1.99e+01 1vj5A 555 2.00e+01 c.108.1.2,c.69.1.11 100799,100800 1wi6A 88 2.08e+01 1fzoA 274 2.10e+01 1agdA b.1.1.2,d.19.1.1 60155,60156 1xk5A 204 2.10e+01 1cfzA 162 2.11e+01 1cfzA c.56.1.1 33754 1wmhA 89 2.13e+01 2bycA 137 2.14e+01 1zd3A 555 2.16e+01 1xuvA 178 2.25e+01 1lwjA 441 2.26e+01 b.71.1.1,c.1.8.1 74303,74304 1vmeA 410 2.29e+01 c.23.5.1,d.157.1.3 108893,108894 1g3qA 237 2.36e+01 1hyqA c.37.1.10 60237 1v6fA 151 2.36e+01 d.109.1.2 108395 1vbuA 328 2.37e+01 2a5yB 549 2.37e+01 1ji0A 240 2.44e+01 c.37.1.12 71665 1bupA 386 2.46e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1jx4A 352 2.48e+01 d.240.1.1,e.8.1.7 90378,90379 1r6wA 322 2.50e+01 c.1.11.2,d.54.1.1 97165,97166 1zd9A 188 2.51e+01 1vjjA 692 2.51e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 2cdnA 201 2.55e+01 1ble 163 2.58e+01 1ble c.38.1.1 32475 1vd2A 89 2.58e+01 d.15.2.2 108517 2be3A 226 2.59e+01 1t3qB 788 2.62e+01 d.41.1.1,d.133.1.1 106369,106370 1wb0A 445 2.63e+01 1a8s 273 2.63e+01 1brt c.69.1.12 34710 1ka1A 357 2.68e+01 e.7.1.1 68369 1g8pA 350 2.68e+01 1g8pA c.37.1.20 60376 1rthA 560 2.72e+01 1rthA c.55.3.1,e.8.1.2 33576,43028 1qgxA 357 2.73e+01 1qgxA e.7.1.1 42973 1lk2A 274 2.73e+01 b.1.1.2,d.19.1.1 91056,91057 1ihuA 589 2.76e+01 c.37.1.10,c.37.1.10 62394,62395 1fuiA 591 2.78e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1kay 381 2.79e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1wv2A 265 2.81e+01 1a8q 274 2.83e+01 1brt c.69.1.12 34702 1ex0A 731 2.85e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1ig8A 486 2.86e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1vkkA 154 2.87e+01 d.109.1.2 108669 1ooyA 481 2.89e+01 c.124.1.3,c.124.1.2 93388,93389 1sheA 103 2.91e+01 d.274.1.1 105551 1dekA 241 2.94e+01 1dekA c.37.1.1 31842 1ex2A 189 2.97e+01 1ex2A c.51.4.2 33225 1cb8A 678 2.99e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1j8mF 297 3.01e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1vrtA 560 3.03e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1h4uA 265 3.03e+01 1h4uA d.22.1.2,g.3.11.5 60622,60623 1p5dX 463 3.10e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2d2eA 250 3.11e+01 2por 301 3.14e+01 2por f.4.3.1 43759 1yzgA 179 3.16e+01 1q77A 138 3.21e+01 c.26.2.4 96023 1nffA 260 3.27e+01 c.2.1.2 80457 2bzlA 325 3.27e+01 3inkC 133 3.43e+01 3inkC a.26.1.2 16881 1wlfA 179 3.45e+01 b.52.2.3,d.31.1.1 109396,109397 2b4lA 268 3.45e+01 1gewA 356 3.47e+01 1gewA c.67.1.1 60470 1cf1A 404 3.47e+01 1cf1A b.1.18.11,b.1.18.11 21907,21908 1aa6 715 3.52e+01 2napA b.52.2.2,c.81.1.1 26916,35324 2bzuA 181 3.60e+01 1c0pA 363 3.63e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1ltlA 279 3.67e+01 b.40.4.11 84701 1gh9A 71 3.68e+01 1gh9A g.41.6.1 45266 1tuoA 464 3.71e+01 1tp9A 162 3.73e+01 1va4A 279 3.77e+01 c.69.1.12 108458 1ep3B 262 3.77e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1u8vA 490 3.82e+01 1jvwA 167 3.86e+01 d.26.1.1 71907 1s28A 132 4.00e+01 d.198.1.1 105223 1xhlA 297 4.02e+01 c.2.1.2 109591 1z7gA 217 4.08e+01 1ryiA 382 4.09e+01 1sq5A 308 4.10e+01 c.37.1.6 105882 2cy7A 396 4.16e+01 2fggA 101 4.18e+01 1ab4 477 4.19e+01 1ab4 e.11.1.1 43251 1mrzA 293 4.19e+01 b.43.5.1,c.26.1.3 91452,91453 2a6hA 315 4.20e+01 2gk4A 232 4.21e+01 2bd0A 244 4.21e+01 2ap1A 327 4.32e+01 2cb5A 453 4.34e+01 3gcb d.3.1.1 37035 1xmrA 243 4.38e+01 1c4xA 285 4.43e+01 1c4xA c.69.1.10 34684 2fbmA 291 4.44e+01 1r9cA 139 4.53e+01 d.32.1.2 97255 1g291 372 4.53e+01 1g291 2fytA 340 4.55e+01 1lylA 504 4.60e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1m4jA 142 4.64e+01 d.109.1.2 78602 1tc6A 236 4.65e+01 d.122.1.1 106756 1vz6A 393 4.65e+01 d.154.1.2 108949 1mp9A 198 4.69e+01 d.129.1.1,d.129.1.1 91385,91386 1knqA 175 4.75e+01 c.37.1.17 72786 1y44A 320 4.79e+01 1w1kA 560 4.80e+01 d.58.32.1,d.145.1.1 109059,109060 1e58A 249 4.80e+01 1qhfA c.60.1.1 59262 2azqA 311 4.81e+01 1jsdB 176 5.00e+01 h.3.1.1 63259 1zvdA 380 5.24e+01 1rvkA 382 5.29e+01 c.1.11.2,d.54.1.1 97928,97929 1ad3A 452 5.30e+01 1ad3A c.82.1.1 35335 1ifrA 121 5.30e+01 b.1.16.1 71203 2cx9A 387 5.36e+01 1nb8A 353 5.38e+01 d.3.1.9 80385 1az9 457 5.58e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 1j24A 143 5.68e+01 c.52.1.20 84008 1rkiA 102 5.75e+01 1vecA 206 5.76e+01 c.37.1.19 100575 2ao0A 324 5.77e+01 1z6aA 500 5.83e+01 2an3A 289 5.88e+01 1fecA 490 5.89e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1kqfB 294 5.93e+01 d.58.1.5,f.23.22.1 75900,75901 1s72E 178 5.93e+01 d.141.1.1,d.141.1.1 105323,105324 1h8eG 272 5.96e+01 1e79G c.49.2.1 60756 1vqoE 178 5.98e+01 1xe0A 114 6.02e+01 2g7zA 282 6.08e+01 1t8hA 277 6.13e+01 d.194.1.2 106664 1qwtA 255 6.14e+01 b.26.1.3 96501 1jj2E 177 6.15e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1w85A 368 6.15e+01 2d29A 387 6.16e+01 1mdl 359 6.19e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1vom 762 6.27e+01 1lvk b.34.3.1,c.37.1.9 24577,32174 1k3sA 113 6.30e+01 d.198.1.1 68120 1hnnA 282 6.36e+01 c.66.1.15 65895 1ogiA 303 6.55e+01 b.43.4.2,c.25.1.1 92914,92915 1grx 85 6.57e+01 1kte c.47.1.1 32766 1qf6A 642 6.71e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 1hjzA 192 6.76e+01 c.50.1.2 83520 1qpxA 218 6.79e+01 1qpxA b.1.11.1,b.7.2.1 22318,23200 1vl4A 447 6.83e+01 d.283.1.1 108718 1vns 609 6.85e+01 1vns a.111.1.3 19061 1yqtA 538 6.91e+01 2cbzA 237 6.91e+01 2gimA 106 6.94e+01 1vzyA 291 7.07e+01 1f60A 458 7.08e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1fjhA 257 7.13e+01 1fjhB c.2.1.2 29870 1dxy 333 7.13e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1ws9A 387 7.25e+01 1que 303 7.29e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1vg8A 207 7.29e+01 c.37.1.8 108606 1m1cA 680 7.31e+01 e.42.1.1 78395 1e6pA 499 7.37e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 1lehA 364 7.41e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1dl2A 511 7.42e+01 1dl2A a.102.2.1 18844 2c5uA 375 7.44e+01 1hrdA 449 7.47e+01 1k89 c.2.1.7,c.58.1.1 30219,33867 1xewY 172 7.51e+01 2akaA 776 7.54e+01 1kshA 186 7.57e+01 c.37.1.8 72914 1xesA 413 7.57e+01 1mzgA 146 7.61e+01 d.224.1.1 79696 1bjmA 216 7.63e+01 8fabA b.1.1.1,b.1.1.2 20524,21460 1vg0A 650 7.64e+01 c.3.1.3,d.16.1.6 108596,108597 2aa4A 289 7.67e+01 1g6oA 330 7.69e+01 1g6oA c.37.1.11 32430 2g39A 497 7.77e+01 1914 232 7.77e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1unnC 115 7.79e+01 d.240.1.1 99680 1uptA 171 7.86e+01 c.37.1.8 99767 1ewqA 765 7.86e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1w78A 422 7.88e+01 2blcA 238 7.89e+01 1ll2A 333 7.91e+01 c.68.1.14 74005 1ujnA 348 7.94e+01 e.22.1.1 99460 1f6bA 198 7.96e+01 c.37.1.8 64986 1pyaB 228 7.97e+01 1pyaB 1goiA 499 7.97e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1uirA 314 7.97e+01 c.66.1.17 99429 1yr0A 175 8.01e+01 1dmgA 225 8.03e+01 1dmgA c.22.1.1 31036 1amf 233 8.04e+01 1wod c.94.1.1 35833 1x3sA 195 8.08e+01 1hqz1 141 8.11e+01 1wod 233 8.14e+01 1wod c.94.1.1 35832 1k3yA 221 8.14e+01 a.45.1.1,c.47.1.5 77245,77246 1amuA 563 8.15e+01 1amuA e.23.1.1 43351 1tjyA 316 8.17e+01 c.93.1.1 107062 1jeyA 609 8.20e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1ivyA 452 8.26e+01 1ivyA c.69.1.5 34654 1z6nA 167 8.29e+01 1cqmA 101 8.31e+01 1ris d.58.14.1 39321 1u20A 212 8.34e+01 1har 216 8.37e+01 1rthA e.8.1.2 43025 1y9lA 115 8.43e+01 1hh2P 344 8.58e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 1dj0A 264 8.64e+01 1dj0A d.265.1.1 90337 1dar 691 8.68e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 2dg5B 190 8.69e+01 1f42A 306 8.73e+01 1f42A b.1.1.4,b.1.2.1,b.1.2.1 59636,59637,59638 1vhuA 211 8.76e+01 c.50.1.2 100703 1zz1A 369 8.76e+01 1u9yA 284 8.79e+01 1spxA 278 8.84e+01 c.2.1.2 98958 1lla 628 8.92e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1nox 205 9.00e+01 1nox d.90.1.1 40242 2bx2L 517 9.00e+01