# 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 2bt2A 161 1.01e-19 1fqiA 147 1.08e-19 1agrE a.91.1.1 18542 2a72A 146 2.54e-19 1dk8A 147 2.50e-16 1agrE a.91.1.1 18548 1omwA 689 1.58e-10 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1htjF 210 5.52e-07 1htjF a.91.1.1 61254 1iapA 211 7.11e-03 a.91.1.1 62119 1eljA 381 1.07e-01 4mbp c.94.1.1 35791 1y3nA 490 1.81e-01 1xx4A 261 3.93e-01 2azjA 289 5.12e-01 1mnaA 298 9.61e-01 c.69.1.22 79322 1wixA 164 9.82e-01 1alu 186 9.87e-01 1alu a.26.1.1 16826 1t46A 313 1.14e+00 d.144.1.7 106397 1x3kA 152 1.28e+00 1h5uA 842 1.68e+00 1a8i c.87.1.4 60655 1a8i 842 1.94e+00 1a8i c.87.1.4 35490 1wa5B 530 2.54e+00 1p32A 209 2.86e+00 1p32A d.25.1.1 38379 1ngnA 155 3.24e+00 a.96.1.2 85697 1k3yA 221 3.54e+00 a.45.1.1,c.47.1.5 77245,77246 2ilk 160 3.62e+00 2ilk a.26.1.3 16885 1y6nL 145 4.31e+00 2lhb 149 4.50e+00 2fal a.1.1.2 15597 1ibrB 462 4.80e+00 1qgrA a.118.1.1 19120 1k0mA 241 5.48e+00 a.45.1.1,c.47.1.5 67949,67950 1edg 380 5.50e+00 1edg c.1.8.3 28807 1geqA 248 6.59e+00 2tysA c.1.2.4 28589 1wozA 177 7.11e+00 1mq4A 272 7.16e+00 d.144.1.7 91391 1ee4A 423 7.50e+00 1ee4A a.118.1.1 19128 1ykuA 136 7.71e+00 1otkA 249 7.76e+00 a.25.1.2 93521 1j1nA 492 9.73e+00 c.94.1.1 83978 1n9dA 199 9.83e+00 a.26.1.1 85464 1zpdA 568 1.10e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1tvlA 454 1.13e+01 c.1.16.4 107366 2d29A 387 1.19e+01 1k8kG 151 1.19e+01 a.118.13.1 68313 1t1vA 93 1.27e+01 c.47.1.14 106278 1z5vA 474 1.28e+01 1lrrA 131 1.34e+01 d.228.1.1 78165 1v9sA 208 1.38e+01 1j0fA 100 1.39e+01 c.47.1.14 90739 1eca 136 1.40e+01 1flp a.1.1.2 15209 1fs7A 485 1.41e+01 1qdbA a.138.1.3 19691 1b25A 619 1.46e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1ws9A 387 1.52e+01 1pmzA 86 1.52e+01 a.39.1.10 104195 6mhtA 327 1.53e+01 6mhtA c.66.1.26 34226 1ayl 541 1.55e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1sg4A 260 1.66e+01 2cb5A 453 1.69e+01 3gcb d.3.1.1 37035 1i2sA 282 1.70e+01 e.3.1.1 71104 1cm5A 759 1.70e+01 1cm5A c.7.1.1 30671 2c7pA 327 1.73e+01 1y82A 157 1.74e+01 1h4lD 147 1.78e+01 a.74.1.1 70873 1xc3A 302 1.84e+01 1g5hA 454 1.86e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1ltqA 301 1.99e+01 c.108.1.9,c.37.1.1 78208,78209 2bnlA 136 2.05e+01 1pvtA 238 2.06e+01 c.74.1.1 95189 1ir3A 306 2.06e+01 1fmk d.144.1.7 41702 1yovA 537 2.11e+01 1b43A 340 2.23e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 2aeuA 374 2.24e+01 1q4mA 221 2.28e+01 a.132.1.3 95805 1vf1A 229 2.29e+01 1xkpA 246 2.33e+01 1h16A 759 2.37e+01 c.7.1.1 76462 1ja1A 622 2.39e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1qlaC 256 2.39e+01 1qlaC f.21.2.1 43722 1nm2A 317 2.40e+01 c.19.1.1,d.58.23.1 80654,80655 1z63A 500 2.43e+01 1f3aA 222 2.43e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1xjjA 644 2.49e+01 1c3cA 429 2.56e+01 1c3cA a.127.1.1 19425 1ct9A 553 2.57e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1yozA 116 2.59e+01 1nznA 126 2.63e+01 a.118.8.1 92382 1lj2A 110 2.71e+01 h.1.13.2 73926 1n35A 1267 2.72e+01 e.8.1.4 79935 1xnpA 202 2.73e+01 1syyA 346 2.74e+01 a.25.1.2 106126 1ufkA 254 2.76e+01 c.66.1.39 99340 1unlD 208 2.77e+01 2fbmA 291 2.78e+01 1yz7A 188 2.82e+01 2ran 316 2.85e+01 1avc a.65.1.1 18170 1z6aA 500 2.87e+01 1xjeA 644 2.93e+01 1eu8A 409 2.94e+01 1eu8A c.94.1.1 59502 1m7kA 99 2.95e+01 a.7.7.1 74573 1a76 326 2.95e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1nal1 297 2.96e+01 1nal3 1gjwA 637 3.05e+01 b.71.1.1,c.1.8.1 60582,60583 1nm8A 616 3.05e+01 c.43.1.3,c.43.1.3 85872,85873 1z1lA 345 3.14e+01 1ug3A 339 3.19e+01 2b33A 140 3.26e+01 1atiA 505 3.28e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1io2A 213 3.31e+01 1ekeA c.55.3.1 62612 1qgrA 876 3.42e+01 1qgrA a.118.1.1 19119 1a8b 318 3.42e+01 1avc a.65.1.1 18171 1noyA 388 3.47e+01 1clqA c.55.3.5 33713 2fw2A 260 3.49e+01 1ile 821 3.57e+01 1ile a.27.1.1,b.51.1.1,c.26.1.1 16924,26889,31591 1r0pA 312 3.58e+01 d.144.1.7 96734 2bs3C 256 3.58e+01 1hl2A 297 3.61e+01 c.1.10.1 83581 2c12A 439 3.61e+01 1hzoA 271 3.61e+01 e.3.1.1 71092 2hbg 147 3.62e+01 2hbg a.1.1.2 15014 1jli 112 3.64e+01 1jli a.26.1.2 16884 1rvgA 305 3.66e+01 c.1.10.2 97920 2ffeA 311 3.73e+01 2cx9A 387 3.76e+01 1jq5A 370 3.80e+01 e.22.1.2 67084 4blmA 265 3.82e+01 1btl e.3.1.1 42721 2evaA 307 3.83e+01 1h7sA 365 3.90e+01 d.14.1.3,d.122.1.2 65705,65706 1vljA 407 3.94e+01 e.22.1.2 108832 1dv1A 449 3.94e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1p6oA 161 4.00e+01 c.97.1.2 94185 1b24A 188 4.01e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1xm8A 254 4.03e+01 2f2gA 221 4.03e+01 1qgiA 259 4.06e+01 1qgiA d.2.1.7 37001 1txuA 273 4.08e+01 a.222.1.1 107439 1kgnA 329 4.09e+01 a.25.1.2 68584 1p99A 295 4.12e+01 c.94.1.1 94384 1f2tB 148 4.14e+01 1f2tB 2d2eA 250 4.17e+01 2bjvA 265 4.21e+01 1n08A 163 4.22e+01 b.43.5.1 79730 2bfxA 284 4.25e+01 1q15A 503 4.25e+01 c.26.2.1,d.153.1.1 95538,95539 1de4C 640 4.29e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1f2dA 341 4.32e+01 1f2dA c.79.1.1 35298 1zy7A 403 4.37e+01 1k8kB 394 4.38e+01 c.55.1.1 68307 1vd5A 377 4.45e+01 a.102.1.7 108518 1na6A 404 4.52e+01 b.142.1.1,c.52.1.22 91748,91749 2fe7A 166 4.63e+01 2bxkA 585 4.67e+01 1y14A 187 4.74e+01 1a7tA 232 4.78e+01 1a7tA d.157.1.1 42041 1dc1A 323 4.82e+01 1dc1A c.52.1.11 33321 2gdnA 267 4.89e+01 1o17A 345 4.91e+01 a.46.2.1,c.27.1.1 80765,80766 1r89A 437 4.93e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1qjbA 245 4.95e+01 1qjaA a.118.7.1 19202 1uxjA 309 4.95e+01 c.2.1.5,d.162.1.1 108112,108113 1jk0B 345 4.95e+01 a.25.1.2 63143 1gjsA 65 4.96e+01 1gab a.8.1.2 60578 1o5oA 221 4.98e+01 c.61.1.1 92509 1h8mA 140 5.03e+01 1h8mA d.110.4.1 60782 1qlaA 656 5.03e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1p42A 270 5.07e+01 d.14.1.7,d.14.1.7 87754,87755 1aa7A 158 5.10e+01 1aa7A a.95.1.1 18741 1n5uA 585 5.12e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 1h1yA 228 5.15e+01 c.1.2.2 76506 1kay 381 5.19e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1hx0A 496 5.36e+01 b.71.1.1,c.1.8.1 61346,61347 2bs3A 656 5.36e+01 2f7fA 494 5.39e+01 1ur5A 309 5.45e+01 c.2.1.5,d.162.1.1 99807,99808 1m2tA 254 5.45e+01 d.165.1.1 84761 1dcfA 136 5.47e+01 1dcfA c.23.1.2 31124 1q18A 332 5.48e+01 c.55.1.7,c.55.1.7 104470,104471 2csbA 519 5.60e+01 3sdhA 146 5.61e+01 3sdhA a.1.1.2 14984 2fflA 756 5.62e+01 1a48 306 5.63e+01 1a48 d.143.1.1 41590 2pviA 157 5.70e+01 3pviA c.52.1.6 33302 1qh8B 519 5.70e+01 1qguB c.92.2.3 35634 1w2wA 211 5.71e+01 c.124.1.5 109130 2c0cA 362 5.72e+01 1ywnA 316 5.75e+01 1j0dA 341 5.79e+01 c.79.1.1 83902 1eueA 86 5.79e+01 1cyo d.120.1.1 59504 1lj8A 493 5.81e+01 a.100.1.9,c.2.1.6 90392,90393 1s58A 554 5.82e+01 b.121.5.2 105262 1jr8A 117 5.84e+01 a.24.15.1 67115 1bdfA 235 5.93e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1obdA 306 5.95e+01 d.143.1.1 86767 1j2jB 45 6.01e+01 a.7.8.1 84017 1v37A 177 6.16e+01 1ne9A 335 6.16e+01 d.108.1.4,d.108.1.4 91839,91840 1h0oA 390 6.22e+01 a.25.1.2 70845 1vjgA 218 6.25e+01 c.23.10.6 100810 1eswA 500 6.28e+01 1cwyA c.1.8.1 59500 1qhfA 240 6.29e+01 1qhfA c.60.1.1 33960 2a6hA 315 6.31e+01 1wvfA 520 6.36e+01 1xsm 390 6.37e+01 1xsm a.25.1.2 16804 1ib2A 349 6.41e+01 1ib2A a.118.1.8 62141 1w68A 390 6.42e+01 a.25.1.2 109216 1gnd 447 6.44e+01 1gnd c.3.1.3,d.16.1.6 30423,37987 1smd 496 6.46e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1d5tA 433 6.49e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1o9iA 266 6.50e+01 a.25.1.3 92671 1yiiA 320 6.56e+01 3pviA 157 6.57e+01 3pviA c.52.1.6 33300 1r9kA 172 6.61e+01 a.168.1.1 104869 1jv1A 505 6.63e+01 c.68.1.5 71892 1i39A 225 6.67e+01 1ekeA c.55.3.1 61585 1g3qA 237 6.69e+01 1hyqA c.37.1.10 60237 1xocA 520 6.73e+01 2b0jA 358 6.74e+01 1pgtA 210 6.86e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1ez3A 127 6.88e+01 1dn1B a.47.2.1 17768 1ks8A 433 6.90e+01 a.102.1.2 77519 1jkvA 266 6.96e+01 a.25.1.3 71719 1lbkA 208 7.01e+01 a.45.1.1,c.47.1.5 73809,73810 1s3eA 520 7.02e+01 c.3.1.2,d.16.1.5 98426,98427 1ojaA 520 7.05e+01 c.3.1.2,d.16.1.5 93096,93097 1rxwA 336 7.11e+01 a.60.7.1,c.120.1.2 98059,98060 1auiB 169 7.11e+01 1auiB a.39.1.5 17325 1s72X 92 7.17e+01 d.29.1.1 105343 1vqoX 92 7.17e+01 1jj2W 91 7.25e+01 1ffkU d.29.1.1 63108 2bdwA 362 7.26e+01 1sazA 381 7.27e+01 1uk5A 111 7.30e+01 a.7.7.1 99487 1xvhA 129 7.35e+01 1ly1A 181 7.36e+01 c.37.1.1 74334 1wg8A 285 7.37e+01 1vjyA 303 7.41e+01 d.144.1.7 108633 1csn 298 7.47e+01 1csn d.144.1.7 41664 1h3fA 432 7.48e+01 c.26.1.1,d.66.1.4 76631,76632 1irdB 146 7.50e+01 a.1.1.2 66287 1bupA 386 7.53e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 2gtrA 261 7.57e+01 1l5wA 796 7.58e+01 c.87.1.4 73605 1a41 234 7.62e+01 1a41 d.163.1.2 42174 1b0nA 111 7.64e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 2ghjA 118 7.64e+01 1z9hA 290 7.65e+01 1t7lA 766 7.68e+01 1swvA 267 7.74e+01 1ouoA 210 7.74e+01 d.4.1.6 93554 1py5A 326 7.75e+01 d.144.1.7 104389 1b4pA 217 7.83e+01 a.45.1.1,c.47.1.5 83158,83159 1qo7A 394 7.85e+01 1qo7A c.69.1.11 34697 1e6pA 499 7.88e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 1qazA 351 7.90e+01 1qazA a.102.3.1 18848 2a6tA 271 7.94e+01 1rtwA 220 8.02e+01 a.132.1.3 97823 1j5sA 463 8.05e+01 c.1.9.8 71580 1cy9A 264 8.14e+01 1ecl e.10.1.1 43236 1fpoA 171 8.21e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 2kfnA 605 8.23e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 1isiA 265 8.24e+01 e.4.1.1 71394 1xg7A 250 8.26e+01 1rcwA 231 8.26e+01 a.132.1.4 97299 2be4A 272 8.27e+01 1vcvA 226 8.30e+01 1bcfA 158 8.31e+01 1bcfA a.25.1.1 16648 4tmkA 213 8.40e+01 5tmpA c.37.1.1 31930 2bd0A 244 8.41e+01 2ct9A 208 8.44e+01 1ruxA 951 8.46e+01 1dhx 1d2rA 326 8.46e+01 1d2rB c.26.1.1 31572 1ln1A 214 8.57e+01 d.129.3.2 74038 1orsC 132 8.57e+01 f.14.1.1 87353 1pv9A 348 8.68e+01 c.55.2.1,d.127.1.1 95157,95158 1qtoA 122 8.75e+01 1bylA d.32.1.2 38494 1omrA 201 8.85e+01 a.39.1.5 93349 1p30A 952 8.94e+01 b.121.2.2,b.121.2.2 93964,93965 1qzmA 94 8.94e+01 c.37.1.20 96651 1lbeA 258 8.99e+01 1lbeA e.4.1.1 42773