# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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 7.92e-67 1bg2 c.37.1.9 32189 1i6iA 366 7.49e-62 1bg2 c.37.1.9 61844 1q0bA 367 1.57e-61 c.37.1.9 95502 1x88A 359 1.86e-61 1vfvA 366 3.05e-60 c.37.1.9 108592 1f9vA 347 5.79e-57 1bg2 c.37.1.9 59745 1ry6A 360 8.25e-52 c.37.1.9 98090 2kinA 238 4.24e-47 1bg2 c.37.1.9 32190 2kinB 100 3.61e-16 3kinB 1wf3A 301 1.86e-02 2akaB 299 7.05e-02 1d2mA 665 1.85e-01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1inlA 296 4.70e-01 c.66.1.17 66220 1c4oA 664 5.42e-01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1fw9A 164 6.26e-01 1fw9A d.190.1.1 60059 1tt8A 164 6.26e-01 1jx2B 315 8.93e-01 c.37.1.8 67404 2fsjA 346 9.37e-01 1ls1A 295 1.18e+00 a.24.13.1,c.37.1.10 78170,78171 1tljA 213 1.20e+00 d.282.1.1 107126 1q5qA 259 1.48e+00 d.153.1.4 95904 2ng1 293 1.64e+00 1ng1 a.24.13.1,c.37.1.10 16962,32273 1vraB 215 1.70e+00 1cliA 345 1.71e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 2ghpA 292 1.94e+00 1pzgA 331 1.97e+00 c.2.1.5,d.162.1.1 95425,95426 1zk7A 467 2.41e+00 1thtA 305 2.45e+00 1thtA c.69.1.13 34711 2b67A 204 2.54e+00 1tvjA 166 2.57e+00 1yewA 382 2.58e+00 1gvnB 287 2.67e+00 c.37.1.21 76354 2g39A 497 3.01e+00 1aerA 205 3.09e+00 1aerA d.166.1.1 42249 2aq4A 434 3.29e+00 2bwvA 440 3.51e+00 1i6pA 220 3.60e+00 1ddzA c.53.2.1 61848 1azwA 313 4.02e+00 1qtrA c.69.1.7 34658 1wl9A 440 4.26e+00 1l7aA 318 4.31e+00 c.69.1.25 77772 2fqxA 318 4.46e+00 1odfA 290 4.56e+00 c.37.1.6 92782 1az9 457 4.64e+00 1az9 c.55.2.1,d.127.1.1 33547,41164 1htjF 210 4.70e+00 1htjF a.91.1.1 61254 1vz6A 393 4.71e+00 d.154.1.2 108949 1f7sA 139 4.90e+00 1cof d.109.1.2 40857 1jx4A 352 4.99e+00 d.240.1.1,e.8.1.7 90378,90379 2ao0A 324 5.10e+00 1dxy 333 5.26e+00 1dxy c.2.1.4,c.23.12.1 30094,31354 1u2eA 289 5.45e+00 1qfjA 232 5.69e+00 1qfjA b.43.4.2,c.25.1.1 25655,31545 1ex2A 189 6.21e+00 1ex2A c.51.4.2 33225 1ivyA 452 6.24e+00 1ivyA c.69.1.5 34654 1zj6A 187 6.57e+00 1k7kA 221 7.11e+00 c.51.4.1 72104 1nm1G 125 7.35e+00 d.109.1.1 80653 1d4xG 126 7.37e+00 1d0nA d.109.1.1 59109 2bf6A 449 7.84e+00 1vbuA 328 8.10e+00 1w4tA 299 8.69e+00 1hjxA 362 9.08e+00 c.1.8.5,d.26.3.1 83512,83513 1vzyA 291 9.17e+00 1jb7B 260 9.74e+00 1otcB b.40.4.3 62839 1ji0A 240 9.85e+00 c.37.1.12 71665 1jmcA 246 9.87e+00 1jmcA b.40.4.3,b.40.4.3 25300,25301 1nd4A 264 9.92e+00 d.144.1.6 91815 2b7oA 464 1.01e+01 1ihuA 589 1.02e+01 c.37.1.10,c.37.1.10 62394,62395 1vmeA 410 1.07e+01 c.23.5.1,d.157.1.3 108893,108894 1vkkA 154 1.07e+01 d.109.1.2 108669 2napA 723 1.08e+01 2napA b.52.2.2,c.81.1.1 26926,35334 3bamA 213 1.11e+01 1bam c.52.1.3 33288 1esgA 213 1.11e+01 1bam c.52.1.3 33286 1vjjA 692 1.12e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1r4xA 275 1.13e+01 b.1.10.3,d.105.1.2 97054,97055 1t71A 281 1.14e+01 2afwA 329 1.19e+01 1r2qA 170 1.20e+01 c.37.1.8 96874 1q5dA 419 1.21e+01 a.104.1.1 95891 1fg7A 356 1.22e+01 1gewA c.67.1.1 59819 1oe9A 795 1.22e+01 b.34.3.1,c.37.1.9 92792,92793 1tc6A 236 1.22e+01 d.122.1.1 106756 1g8kA 825 1.28e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1yobA 179 1.29e+01 1h8dH 260 1.30e+01 5ptp 1w85A 368 1.31e+01 1ifrA 121 1.33e+01 b.1.16.1 71203 1w7jA 795 1.35e+01 2aiqA 231 1.36e+01 1sa3A 262 1.41e+01 c.52.1.23 105400 1sr9A 644 1.46e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1vom 762 1.48e+01 1lvk b.34.3.1,c.37.1.9 24577,32174 1rthA 560 1.48e+01 1rthA c.55.3.1,e.8.1.2 33576,43028 1h6kZ 98 1.53e+01 d.58.7.1 60686 1sheA 103 1.53e+01 d.274.1.1 105551 1owqA 361 1.53e+01 c.1.8.5,d.26.3.1 104041,104042 1vecA 206 1.54e+01 c.37.1.19 100575 1qy5A 269 1.56e+01 d.122.1.1 96573 1dj0A 264 1.57e+01 1dj0A d.265.1.1 90337 1egaA 301 1.63e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 1f42A 306 1.67e+01 1f42A b.1.1.4,b.1.2.1,b.1.2.1 59636,59637,59638 1va4A 279 1.67e+01 c.69.1.12 108458 1tp9A 162 1.71e+01 1gewA 356 1.72e+01 1gewA c.67.1.1 60470 1nffA 260 1.73e+01 c.2.1.2 80457 1wn5A 130 1.78e+01 1jihA 531 1.83e+01 d.240.1.1,e.8.1.7 90374,90375 1g291 372 1.86e+01 1g291 1nb8A 353 1.88e+01 d.3.1.9 80385 2azeA 155 1.88e+01 1h8eG 272 1.93e+01 1e79G c.49.2.1 60756 2pia 321 1.96e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1mvwA 840 1.96e+01 i.15.1.1 79523 1cr5A 189 1.97e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1vrtA 560 2.00e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1lvk 762 2.00e+01 1lvk b.34.3.1,c.37.1.9 24576,32173 1o54A 277 2.04e+01 c.66.1.13 92482 1qx4A 274 2.07e+01 b.43.4.2,c.25.1.1 104624,104625 1j1iA 296 2.07e+01 c.69.1.10 83977 1vzqH 250 2.08e+01 1wi6A 88 2.10e+01 2d0oA 610 2.11e+01 2a9sA 171 2.14e+01 2bcgG 453 2.19e+01 2b1xB 172 2.22e+01 1knqA 175 2.24e+01 c.37.1.17 72786 1vkmA 297 2.28e+01 c.138.1.1 108670 1y14A 187 2.35e+01 1xuvA 178 2.37e+01 1d0yA 761 2.37e+01 1lvk b.34.3.1,c.37.1.9 24581,32178 1q7zA 566 2.47e+01 c.1.21.2,c.1.26.1 96090,96091 2cdnA 201 2.48e+01 1a88A 275 2.56e+01 1brt c.69.1.12 34707 1cf1A 404 2.57e+01 1cf1A b.1.18.11,b.1.18.11 21907,21908 1vqoE 178 2.62e+01 2adcA 229 2.66e+01 1xhlA 297 2.66e+01 c.2.1.2 109591 1dl5A 317 2.67e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1f3lA 321 2.71e+01 1g6q2 c.66.1.6 59630 2bzlA 325 2.73e+01 2a5yB 549 2.75e+01 1ei1A 391 2.77e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1z0jA 170 2.77e+01 1ta9A 450 2.80e+01 1cqmA 101 2.89e+01 1ris d.58.14.1 39321 1w36B 1180 2.90e+01 1ltlA 279 2.91e+01 b.40.4.11 84701 1p8xA 344 2.91e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1vg0A 650 2.97e+01 c.3.1.3,d.16.1.6 108596,108597 1rvkA 382 3.01e+01 c.1.11.2,d.54.1.1 97928,97929 1ukvG 453 3.02e+01 c.3.1.3,c.3.1.3,d.16.1.6 107915,107916,107917 1ofuA 320 3.22e+01 c.32.1.1,d.79.2.1 86972,86973 1qgxA 357 3.23e+01 1qgxA e.7.1.1 42973 1jj2E 177 3.31e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1nfkA 325 3.36e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 2cy7A 396 3.38e+01 1vj5A 555 3.47e+01 c.108.1.2,c.69.1.11 100799,100800 1jz8A 1023 3.51e+01 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 2b4lA 268 3.51e+01 1mp9A 198 3.51e+01 d.129.1.1,d.129.1.1 91385,91386 1rypJ 204 3.54e+01 d.153.1.4 41878 1dp0A 1023 3.55e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22073,22074,23722,24346,28845 1zd3A 555 3.55e+01 1xe0A 114 3.61e+01 1ka1A 357 3.65e+01 e.7.1.1 68369 1xqwA 293 3.66e+01 1n62B 809 3.69e+01 d.41.1.1,d.133.1.1 80092,80093 1m4jA 142 3.73e+01 d.109.1.2 78602 1nbfA 353 3.74e+01 d.3.1.9 80387 1r6wA 322 3.74e+01 c.1.11.2,d.54.1.1 97165,97166 1s3eA 520 3.74e+01 c.3.1.2,d.16.1.5 98426,98427 1lv7A 257 3.79e+01 c.37.1.20 78232 1wohA 305 3.84e+01 c.42.1.1 109446 2f5tX 233 3.86e+01 2bd0A 244 3.91e+01 1e79G 272 3.95e+01 1e79G c.49.2.1 33158 2fytA 340 3.95e+01 1u4nA 310 3.95e+01 2bjvA 265 4.00e+01 1unnC 115 4.06e+01 d.240.1.1 99680 1rypC 244 4.06e+01 1rypC d.153.1.4 41934 1qdeA 224 4.06e+01 1qvaA c.37.1.19 32410 2cbzA 237 4.09e+01 3pmgA 561 4.10e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 2fggA 101 4.13e+01 1r9cA 139 4.14e+01 d.32.1.2 97255 1wyzA 242 4.16e+01 1rkiA 102 4.17e+01 1e9rA 437 4.19e+01 c.37.1.11 64827 1s7kA 182 4.21e+01 1yzgA 179 4.25e+01 1a8s 273 4.26e+01 1brt c.69.1.12 34710 1zxiB 809 4.26e+01 1zoiA 276 4.30e+01 1g8pA 350 4.33e+01 1g8pA c.37.1.20 60376 1ynpA 317 4.39e+01 1tmxA 293 4.43e+01 1qj2B 809 4.46e+01 1qj2B 1zd9A 188 4.51e+01 2gk4A 232 4.59e+01 2azqA 311 4.66e+01 1zboA 210 4.74e+01 1s28A 132 4.80e+01 d.198.1.1 105223 1f60A 458 4.85e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1l1lA 739 4.90e+01 c.7.1.4 73470 1vflA 356 4.90e+01 1mdl 359 4.92e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 2be3A 226 4.93e+01 1on3A 523 4.95e+01 c.14.1.4,c.14.1.4 87107,87108 1c4xA 285 4.96e+01 1c4xA c.69.1.10 34684 1uwwA 191 4.97e+01 b.18.1.23 108079 1ti6A 875 5.02e+01 b.52.2.2,c.81.1.1 106974,106975 2akaA 776 5.05e+01 1sw5A 275 5.10e+01 c.94.1.1 106069 2afbA 351 5.15e+01 1w1iE 357 5.17e+01 c.1.9.1 109051 2ap1A 327 5.19e+01 5ukdA 194 5.21e+01 1zin c.37.1.1 31851 1v6fA 151 5.24e+01 d.109.1.2 108395 1ytfB 53 5.26e+01 1ytfB a.32.1.1 16997 1wdtA 665 5.27e+01 1zxxA 319 5.29e+01 1yz4A 160 5.30e+01 1s72E 178 5.33e+01 d.141.1.1,d.141.1.1 105323,105324 1hkkA 364 5.39e+01 c.1.8.5,d.26.3.1 90634,90635 1q0uA 219 5.52e+01 c.37.1.19 95512 1j5vA 351 5.55e+01 c.72.1.1 71585 1j8mF 297 5.61e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1qf9A 194 5.64e+01 1zin c.37.1.1 31848 1f3aA 222 5.64e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1tjyA 316 5.69e+01 c.93.1.1 107062 1nh2B 53 5.70e+01 a.32.1.1 91874 1vhzA 198 5.77e+01 d.113.1.1 100718 1vd3A 217 5.79e+01 1howA 373 5.85e+01 1hcl d.144.1.7 41679 1ukvY 206 5.86e+01 c.37.1.8 107918 1k2yX 463 5.89e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 2bcgY 206 5.92e+01 1dmgA 225 5.99e+01 1dmgA c.22.1.1 31036 1lam 484 5.99e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1f08A 148 6.03e+01 1f08A d.89.1.2 59564 2c07A 285 6.05e+01 1nonA 179 6.06e+01 c.61.1.1 103868 2por 301 6.10e+01 2por f.4.3.1 43759 1j24A 143 6.11e+01 c.52.1.20 84008 1r6lA 239 6.14e+01 d.14.1.4,d.101.1.1 97153,97154 1dar 691 6.15e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1ooyA 481 6.35e+01 c.124.1.3,c.124.1.2 93388,93389 1h7sA 365 6.44e+01 d.14.1.3,d.122.1.2 65705,65706 1p5dX 463 6.45e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1f3iA 481 6.46e+01 1b7eA 2bycA 137 6.48e+01 2ax4A 198 6.54e+01 1cfzA 162 6.58e+01 1cfzA c.56.1.1 33754 1vjoA 393 6.61e+01 c.67.1.3 100827 1czyA 168 6.72e+01 1d0aB b.8.1.1,h.1.2.1 23220,45427 2g09A 297 6.84e+01 2dg5B 190 6.84e+01 1huqA 164 6.90e+01 1byuA c.37.1.8 32020 1xmrA 243 6.91e+01 2bgiA 272 6.93e+01 1ro5A 201 6.94e+01 d.108.1.3 105023 1qpxA 218 6.96e+01 1qpxA b.1.11.1,b.7.2.1 22318,23200 1cl1A 395 7.01e+01 1cl2A c.67.1.3 34395 1mtzA 293 7.03e+01 c.69.1.7 79467 1a8y 367 7.04e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1k3yA 221 7.05e+01 a.45.1.1,c.47.1.5 77245,77246 1jmkC 230 7.11e+01 c.69.1.22 71747 1xewY 172 7.15e+01 1g3qA 237 7.30e+01 1hyqA c.37.1.10 60237 1yqtA 538 7.34e+01 1sfp 114 7.37e+01 1sfp b.23.1.1 23895 1z6aA 500 7.41e+01 1w78A 422 7.43e+01 1c0pA 363 7.48e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1xznA 179 7.52e+01 1q9uA 130 7.54e+01 d.129.7.1 96314 2ahuA 531 7.60e+01 1uirA 314 7.63e+01 c.66.1.17 99429 1wm1A 317 7.63e+01 c.69.1.7 109405 1udxA 416 7.65e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1qynA 153 7.85e+01 d.33.1.1 96597 1zc6A 305 7.85e+01 1jvwA 167 7.87e+01 d.26.1.1 71907 1pjcA 361 7.89e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1bouB 302 7.93e+01 1bouB c.56.6.1 33859 1t2dA 322 8.10e+01 c.2.1.5,d.162.1.1 99084,99085 2b8tA 223 8.11e+01 1wmhA 89 8.11e+01 16pk 415 8.15e+01 16pk c.86.1.1 35454 1t0gA 109 8.19e+01 d.120.1.2 99063 1gl4A 285 8.22e+01 d.22.1.2,g.3.11.5 65286,65287 1ll2A 333 8.25e+01 c.68.1.14 74005 1ln1A 214 8.28e+01 d.129.3.2 74038 1ybdA 239 8.39e+01 1r9fA 136 8.52e+01 d.255.1.1 97257 1g6oA 330 8.55e+01 1g6oA c.37.1.11 32430 1xvaA 292 8.60e+01 1xvaA c.66.1.5 34183 1xkpC 143 8.64e+01 1ni9A 338 8.67e+01 e.7.1.2 85739 1kay 381 8.70e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1vns 609 8.74e+01 1vns a.111.1.3 19061 1y44A 320 8.75e+01 1xs0A 136 8.77e+01 1wddS 128 8.79e+01 2atrA 138 8.85e+01