# List of top-scoring protein chains for t06-100-30-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 2.64e-65 1bg2 c.37.1.9 32189 1x88A 359 4.25e-60 1vfvA 366 2.57e-59 c.37.1.9 108592 1f9vA 347 5.32e-56 1bg2 c.37.1.9 59745 1ry6A 360 7.92e-51 c.37.1.9 98090 1wf3A 301 1.55e-03 2akaB 299 2.15e-02 1tljA 213 2.76e-01 d.282.1.1 107126 1tt8A 164 4.22e-01 1vjjA 692 5.39e-01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1jz8A 1023 5.80e-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 1d2mA 665 7.81e-01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1zk7A 467 9.82e-01 1odfA 290 1.08e+00 c.37.1.6 92782 1i6pA 220 1.09e+00 1ddzA c.53.2.1 61848 1inlA 296 1.18e+00 c.66.1.17 66220 1ms9A 648 1.45e+00 b.29.1.15,b.68.1.1 85088,85089 1cliA 345 1.49e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1thtA 305 1.49e+00 1thtA c.69.1.13 34711 1w7jA 795 1.59e+00 1ex2A 189 1.76e+00 1ex2A c.51.4.2 33225 2ghpA 292 2.08e+00 1yewA 382 2.32e+00 2aq4A 434 2.48e+00 1c4oA 664 2.57e+00 1d2mA c.37.1.19,c.37.1.19 32415,32416 1jb7B 260 2.76e+00 1otcB b.40.4.3 62839 1tmxA 293 3.06e+00 1xuvA 178 3.20e+00 1w85A 368 3.38e+00 2bwvA 440 3.45e+00 1ls1A 295 3.51e+00 a.24.13.1,c.37.1.10 78170,78171 1f60A 458 3.59e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1qy5A 269 3.65e+00 d.122.1.1 96573 1gvnB 287 3.85e+00 c.37.1.21 76354 1t71A 281 3.90e+00 2g39A 497 3.93e+00 1qx4A 274 4.15e+00 b.43.4.2,c.25.1.1 104624,104625 1k7kA 221 4.30e+00 c.51.4.1 72104 1qfjA 232 4.36e+00 1qfjA b.43.4.2,c.25.1.1 25655,31545 1w4tA 299 4.85e+00 1cr5A 189 4.90e+00 1cr5A b.52.2.3,d.31.1.1 26931,38465 1vzyA 291 4.92e+00 1u4nA 310 5.18e+00 1vbuA 328 5.69e+00 1nd4A 264 5.75e+00 d.144.1.6 91815 1jx4A 352 5.78e+00 d.240.1.1,e.8.1.7 90378,90379 1va4A 279 6.08e+00 c.69.1.12 108458 1eu1A 780 6.22e+00 1dmr b.52.2.2,c.81.1.1 26903,35311 1ihuA 589 6.26e+00 c.37.1.10,c.37.1.10 62394,62395 2fsjA 346 6.77e+00 1fg7A 356 6.80e+00 1gewA c.67.1.1 59819 1n1tA 641 6.94e+00 b.29.1.15,b.68.1.1 79821,79822 2fqxA 318 7.03e+00 2b67A 204 7.10e+00 1zoiA 276 7.18e+00 1tp9A 162 7.62e+00 1zd3A 555 7.71e+00 1h6kZ 98 7.81e+00 d.58.7.1 60686 2fytA 340 7.83e+00 1d4xG 126 8.02e+00 1d0nA d.109.1.1 59109 2napA 723 8.09e+00 2napA b.52.2.2,c.81.1.1 26926,35334 2bmaA 470 8.15e+00 1nb8A 353 8.24e+00 d.3.1.9 80385 1a8s 273 8.39e+00 1brt c.69.1.12 34710 1u2eA 289 8.44e+00 2bf6A 449 8.54e+00 3bamA 213 8.56e+00 1bam c.52.1.3 33288 1knqA 175 8.73e+00 c.37.1.17 72786 1j1iA 296 8.85e+00 c.69.1.10 83977 2aiqA 231 9.26e+00 1ivyA 452 9.45e+00 1ivyA c.69.1.5 34654 1f7sA 139 9.57e+00 1cof d.109.1.2 40857 1dj0A 264 9.67e+00 1dj0A d.265.1.1 90337 2f1fA 164 9.91e+00 1wn5A 130 1.04e+01 1vns 609 1.06e+01 1vns a.111.1.3 19061 1vg0A 650 1.07e+01 c.3.1.3,d.16.1.6 108596,108597 1q5dA 419 1.12e+01 a.104.1.1 95891 2bjvA 265 1.13e+01 1f3lA 321 1.14e+01 1g6q2 c.66.1.6 59630 2dg5B 190 1.15e+01 1ifrA 121 1.17e+01 b.1.16.1 71203 1s28A 132 1.18e+01 d.198.1.1 105223 1vraB 215 1.22e+01 1ka1A 357 1.23e+01 e.7.1.1 68369 1q7zA 566 1.23e+01 c.1.21.2,c.1.26.1 96090,96091 1fuiA 591 1.24e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1xtzA 264 1.25e+01 2afwA 329 1.26e+01 1j5sA 463 1.29e+01 c.1.9.8 71580 1pzgA 331 1.44e+01 c.2.1.5,d.162.1.1 95425,95426 1h8eG 272 1.55e+01 1e79G c.49.2.1 60756 1s7kA 182 1.58e+01 2cdcA 366 1.59e+01 2fggA 101 1.67e+01 2a5yB 549 1.70e+01 1y14A 187 1.71e+01 1w9iA 770 1.78e+01 1bouB 302 1.81e+01 1bouB c.56.6.1 33859 1zz1A 369 1.83e+01 1wb0A 445 1.87e+01 1rypJ 204 1.90e+01 d.153.1.4 41878 2bzlA 325 1.91e+01 1g8kA 825 1.97e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 2pia 321 1.99e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1uwkA 557 2.01e+01 e.51.1.1 108065 1ynpA 317 2.01e+01 2b0tA 738 2.02e+01 1t3tA 1303 2.04e+01 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 1y51A 88 2.08e+01 2ahuA 531 2.09e+01 1oacA 727 2.09e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 2fsrA 195 2.10e+01 1xksA 450 2.11e+01 1l7aA 318 2.12e+01 c.69.1.25 77772 1xe0A 114 2.17e+01 1j8mF 297 2.21e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 2a9sA 171 2.23e+01 1wi6A 88 2.28e+01 1r6lA 239 2.28e+01 d.14.1.4,d.101.1.1 97153,97154 1g8pA 350 2.28e+01 1g8pA c.37.1.20 60376 1x38A 602 2.29e+01 1vecA 206 2.35e+01 c.37.1.19 100575 1k3yA 221 2.35e+01 a.45.1.1,c.47.1.5 77245,77246 1zj6A 187 2.38e+01 2atrA 138 2.42e+01 1nffA 260 2.45e+01 c.2.1.2 80457 1r6wA 322 2.49e+01 c.1.11.2,d.54.1.1 97165,97166 1mdl 359 2.59e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 2c07A 285 2.59e+01 1d2nA 272 2.66e+01 1d2nA c.37.1.20 32428 2an3A 289 2.68e+01 1r2qA 170 2.69e+01 c.37.1.8 96874 1wznA 252 2.77e+01 2azeA 155 2.77e+01 1vmeA 410 2.79e+01 c.23.5.1,d.157.1.3 108893,108894 1wxrA 1048 2.83e+01 1wm1A 317 2.89e+01 c.69.1.7 109405 1wyzA 242 2.90e+01 1g291 372 2.94e+01 1g291 1unnC 115 3.02e+01 d.240.1.1 99680 1lv7A 257 3.06e+01 c.37.1.20 78232 1vkkA 154 3.09e+01 d.109.1.2 108669 1vqoE 178 3.09e+01 1cqmA 101 3.25e+01 1ris d.58.14.1 39321 1rvkA 382 3.33e+01 c.1.11.2,d.54.1.1 97928,97929 1z0jA 170 3.34e+01 1z5zA 271 3.39e+01 2bd0A 244 3.43e+01 1e8cA 498 3.46e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1rkiA 102 3.50e+01 1nh2B 53 3.67e+01 a.32.1.1 91874 2c2xA 281 3.67e+01 1r9cA 139 3.68e+01 d.32.1.2 97255 2por 301 3.73e+01 2por f.4.3.1 43759 2gokA 429 3.83e+01 1dl5A 317 3.88e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1dxy 333 3.93e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 2cdnA 201 3.94e+01 1uwwA 191 3.95e+01 b.18.1.23 108079 1zc6A 305 3.99e+01 1jmcA 246 4.02e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1a8q 274 4.02e+01 1brt c.69.1.12 34702 1h7sA 365 4.04e+01 d.14.1.3,d.122.1.2 65705,65706 1t64A 377 4.05e+01 c.42.1.2 106543 2f5tX 233 4.15e+01 1wohA 305 4.20e+01 c.42.1.1 109446 1fecA 490 4.24e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1lehA 364 4.34e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1q9uA 130 4.34e+01 d.129.7.1 96314 1lc5A 364 4.47e+01 c.67.1.1 73827 1amuA 563 4.49e+01 1amuA e.23.1.1 43351 1uirA 314 4.49e+01 c.66.1.17 99429 1cb8A 678 4.53e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1j5pA 253 4.65e+01 d.81.1.3,c.2.1.3 71577,83092 2be3A 226 4.65e+01 1g8aA 227 4.68e+01 c.66.1.3 90506 1dhn 121 4.77e+01 1dhn d.96.1.3 40663 1f08A 148 4.80e+01 1f08A d.89.1.2 59564 1e58A 249 4.86e+01 1qhfA c.60.1.1 59262 1ib8A 164 4.89e+01 b.38.2.1,d.52.4.1 71168,71169 1yp2A 451 4.91e+01 1vflA 356 4.98e+01 1sheA 103 4.99e+01 d.274.1.1 105551 2afbA 351 5.03e+01 1itxA 419 5.04e+01 c.1.8.5,d.26.3.1 71425,71426 2cvxA 888 5.08e+01 1zboA 210 5.10e+01 2aegA 268 5.15e+01 1zkkA 167 5.15e+01 1v3eA 431 5.16e+01 b.68.1.1 100287 1vkmA 297 5.16e+01 c.138.1.1 108670 1dmgA 225 5.19e+01 1dmgA c.22.1.1 31036 1jyeA 349 5.21e+01 c.93.1.1 67455 1ti6A 875 5.21e+01 b.52.2.2,c.81.1.1 106974,106975 1kamA 194 5.25e+01 c.26.1.3 72254 1m6jA 261 5.26e+01 c.1.1.1 78693 1vjoA 393 5.36e+01 c.67.1.3 100827 1ukkA 142 5.37e+01 d.227.1.1 99491 1s3eA 520 5.38e+01 c.3.1.2,d.16.1.5 98426,98427 2cr9A 139 5.39e+01 1q0uA 219 5.45e+01 c.37.1.19 95512 1php 394 5.55e+01 16pk c.86.1.1 35452 1qksA 567 5.65e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1zhvA 134 5.72e+01 2cxnA 557 5.75e+01 1svmA 377 5.76e+01 1jmkC 230 5.77e+01 c.69.1.22 71747 1rypC 244 5.78e+01 1rypC d.153.1.4 41934 2a7kA 250 5.81e+01 1q8yA 373 5.83e+01 d.144.1.7 96234 1d7uA 433 6.04e+01 2dkb c.67.1.4 34439 2b1xB 172 6.07e+01 2cy7A 396 6.13e+01 1tzfA 259 6.22e+01 c.68.1.13 107476 1cfzA 162 6.25e+01 1cfzA c.56.1.1 33754 1vd3A 217 6.26e+01 1wmhA 89 6.31e+01 2gcc 70 6.31e+01 2gcc d.10.1.2 37484 1tkiA 321 6.41e+01 1tkiA d.144.1.7 41638 1jsdB 176 6.42e+01 h.3.1.1 63259 1euhA 475 6.43e+01 1euhA c.82.1.1 35369 2bcgG 453 6.43e+01 2bhvA 246 6.50e+01 2ck3D 482 6.50e+01 1n7oA 721 6.50e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 2db3A 434 6.51e+01 1qdeA 224 6.54e+01 1qvaA c.37.1.19 32410 1tu5A 746 6.55e+01 1sfp 114 6.57e+01 1sfp b.23.1.1 23895 1pguA 615 6.63e+01 b.69.4.1,b.69.4.1 88069,88070 2b3yA 888 6.63e+01 2cu5A 129 6.74e+01 1z57A 339 6.79e+01 1n0uA 842 6.81e+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 1n0lA 224 6.98e+01 b.1.11.1,b.7.2.1 79744,79745 1lh0A 213 7.00e+01 c.61.1.1 73896 1t9bA 677 7.00e+01 1wdtA 665 7.05e+01 1nhs 447 7.19e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1qwtA 255 7.21e+01 b.26.1.3 96501 2bcqA 335 7.22e+01 1jihA 531 7.24e+01 d.240.1.1,e.8.1.7 90374,90375 1of5A 221 7.28e+01 d.17.4.2 86933 2cb5A 453 7.33e+01 3gcb d.3.1.1 37035 1h4gA 207 7.33e+01 b.29.1.11 70863 1g2oA 268 7.38e+01 1b8oA c.56.2.1 60228 1bueA 265 7.45e+01 1btl e.3.1.1 42727 1wddS 128 7.52e+01 1bgvA 449 7.52e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1ybdA 239 7.57e+01 1ll2A 333 7.58e+01 c.68.1.14 74005 1o5zA 442 7.62e+01 c.59.1.2,c.72.2.2 92530,92531 1zbsA 291 7.63e+01 1ptf 88 7.67e+01 1ptf d.94.1.1 40549 1dpgA 485 7.73e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1qf9A 194 7.75e+01 1zin c.37.1.1 31848 1u0fA 564 7.79e+01 1epwA 1290 7.83e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1lam 484 7.85e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1spxA 278 7.86e+01 c.2.1.2 98958 2ch4A 320 7.93e+01 1m4jA 142 7.94e+01 d.109.1.2 78602 1sr9A 644 7.97e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1twfA 1733 7.98e+01 1g2rA 100 8.00e+01 1g2rA d.192.1.1 60231 1h65A 270 8.09e+01 c.37.1.8 65640 1o5xA 248 8.10e+01 c.1.1.1 92528 1xewY 172 8.11e+01 1mp9A 198 8.29e+01 d.129.1.1,d.129.1.1 91385,91386 1wlfA 179 8.31e+01 b.52.2.3,d.31.1.1 109396,109397 1jhfA 202 8.32e+01 a.4.5.2,b.87.1.1 63057,63058 1qyiA 384 8.35e+01 c.108.1.13 96595 1t94A 459 8.38e+01 d.240.1.1,e.8.1.7 106701,106702 1fsgA 233 8.40e+01 1qk3A c.61.1.1 34029 1iznB 277 8.53e+01 e.43.1.2 83848 1fl0A 171 8.54e+01 1eujA b.40.4.4 25315 2ex4A 241 8.58e+01 1ta9A 450 8.62e+01 1xkpC 143 8.69e+01 3fruA 269 8.74e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 1pch 88 8.76e+01 1ptf d.94.1.1 40564 1lnsA 763 8.76e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 2fpeA 62 8.79e+01 2fzsA 193 8.81e+01 2f7tA 227 8.85e+01 1ye8A 178 8.92e+01 1xkwA 665 8.97e+01