# List of top-scoring protein chains for t06-100-30-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 2.11e-59 1bg2 c.37.1.9 32189 1x88A 359 6.04e-56 1vfvA 366 7.46e-56 c.37.1.9 108592 1f9vA 347 6.48e-53 1bg2 c.37.1.9 59745 1ry6A 360 5.25e-48 c.37.1.9 98090 1wf3A 301 1.41e-03 1nd4A 264 8.03e-02 d.144.1.6 91815 2akaB 299 9.68e-02 2bmaA 470 1.71e-01 1thtA 305 4.16e-01 1thtA c.69.1.13 34711 1bouB 302 5.71e-01 1bouB c.56.6.1 33859 1ms9A 648 5.93e-01 b.29.1.15,b.68.1.1 85088,85089 1vjjA 692 6.07e-01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 2napA 723 7.07e-01 2napA b.52.2.2,c.81.1.1 26926,35334 1inlA 296 8.05e-01 c.66.1.17 66220 1tljA 213 8.22e-01 d.282.1.1 107126 1w7jA 795 1.12e+00 1lv7A 257 1.18e+00 c.37.1.20 78232 2cdcA 366 1.22e+00 1yewA 382 1.58e+00 1tt8A 164 1.60e+00 1j1iA 296 1.72e+00 c.69.1.10 83977 1zd3A 555 1.74e+00 1fuiA 591 1.89e+00 1fuiA b.43.2.1,c.85.1.1 25674,35444 1d4xG 126 1.97e+00 1d0nA d.109.1.1 59109 2aq4A 434 2.61e+00 1xuvA 178 2.88e+00 1jz8A 1023 2.94e+00 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 1cliA 345 3.26e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1qfjA 232 3.31e+00 1qfjA b.43.4.2,c.25.1.1 25655,31545 3bamA 213 3.46e+00 1bam c.52.1.3 33288 1a8s 273 3.48e+00 1brt c.69.1.12 34710 1jb7B 260 4.02e+00 1otcB b.40.4.3 62839 1pzgA 331 4.16e+00 c.2.1.5,d.162.1.1 95425,95426 2an3A 289 4.24e+00 2fytA 340 4.37e+00 1ls1A 295 4.45e+00 a.24.13.1,c.37.1.10 78170,78171 1t3tA 1303 4.49e+00 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 1fg7A 356 4.51e+00 1gewA c.67.1.1 59819 1n1tA 641 4.51e+00 b.29.1.15,b.68.1.1 79821,79822 1zk7A 467 4.78e+00 1t71A 281 4.83e+00 1ex2A 189 5.37e+00 1ex2A c.51.4.2 33225 1of5A 221 5.47e+00 d.17.4.2 86933 2a5yB 549 6.09e+00 2bf6A 449 6.20e+00 1s7kA 182 6.25e+00 1zc6A 305 6.45e+00 1u2eA 289 6.85e+00 1wn5A 130 7.04e+00 1t8hA 277 7.22e+00 d.194.1.2 106664 1odfA 290 7.59e+00 c.37.1.6 92782 1h6kZ 98 7.94e+00 d.58.7.1 60686 1vns 609 8.03e+00 1vns a.111.1.3 19061 1j5sA 463 8.21e+00 c.1.9.8 71580 1w4tA 299 8.89e+00 1cb8A 678 9.19e+00 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1j8mF 297 9.20e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 1wb0A 445 9.20e+00 2fsjA 346 9.21e+00 1ka1A 357 9.24e+00 e.7.1.1 68369 2bwvA 440 9.54e+00 2b67A 204 9.81e+00 1f60A 458 9.89e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1s28A 132 1.09e+01 d.198.1.1 105223 1gvnB 287 1.12e+01 c.37.1.21 76354 2fqxA 318 1.12e+01 1u4nA 310 1.16e+01 1ujnA 348 1.17e+01 e.22.1.1 99460 1vraB 215 1.17e+01 2be3A 226 1.20e+01 1vg0A 650 1.26e+01 c.3.1.3,d.16.1.6 108596,108597 1ta9A 450 1.30e+01 1q5dA 419 1.31e+01 a.104.1.1 95891 2azeA 155 1.32e+01 1ihuA 589 1.37e+01 c.37.1.10,c.37.1.10 62394,62395 1g8kA 825 1.38e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1wmhA 89 1.38e+01 1tmxA 293 1.40e+01 2ghpA 292 1.40e+01 2fggA 101 1.40e+01 1q9uA 130 1.41e+01 d.129.7.1 96314 1on3A 523 1.43e+01 c.14.1.4,c.14.1.4 87107,87108 1amuA 563 1.44e+01 1amuA e.23.1.1 43351 1n62B 809 1.44e+01 d.41.1.1,d.133.1.1 80092,80093 1g8pA 350 1.45e+01 1g8pA c.37.1.20 60376 1p8xA 344 1.47e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1wd3A 482 1.55e+01 b.29.1.21,b.42.8.1 109233,109234 1qx4A 274 1.57e+01 b.43.4.2,c.25.1.1 104624,104625 1qksA 567 1.59e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1nb8A 353 1.59e+01 d.3.1.9 80385 1lehA 364 1.62e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 2cb5A 453 1.64e+01 3gcb d.3.1.1 37035 2b1xB 172 1.67e+01 1ib8A 164 1.67e+01 b.38.2.1,d.52.4.1 71168,71169 1w85A 368 1.69e+01 1zj6A 187 1.72e+01 1vbuA 328 1.74e+01 1a8q 274 1.76e+01 1brt c.69.1.12 34702 1wi6A 88 1.77e+01 1jx4A 352 1.79e+01 d.240.1.1,e.8.1.7 90378,90379 1knqA 175 1.84e+01 c.37.1.17 72786 1z0jA 170 1.89e+01 1fyeA 229 1.90e+01 1fyeA c.23.16.4 31477 1f7sA 139 1.90e+01 1cof d.109.1.2 40857 1l7aA 318 1.91e+01 c.69.1.25 77772 1q7zA 566 1.96e+01 c.1.21.2,c.1.26.1 96090,96091 1tp9A 162 1.96e+01 1w9iA 770 1.98e+01 1k2eA 156 2.00e+01 d.113.1.1 72010 1vkhA 273 2.02e+01 c.69.1.32 108662 1ln1A 214 2.04e+01 d.129.3.2 74038 1aa6 715 2.07e+01 2napA b.52.2.2,c.81.1.1 26916,35324 1vf8A 377 2.10e+01 1wv2A 265 2.11e+01 1va4A 279 2.15e+01 c.69.1.12 108458 1e58A 249 2.18e+01 1qhfA c.60.1.1 59262 1e8cA 498 2.22e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1wlfA 179 2.23e+01 b.52.2.3,d.31.1.1 109396,109397 1c4oA 664 2.24e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1qynA 153 2.28e+01 d.33.1.1 96597 1wohA 305 2.36e+01 c.42.1.1 109446 1gh9A 71 2.44e+01 1gh9A g.41.6.1 45266 1t3qB 788 2.53e+01 d.41.1.1,d.133.1.1 106369,106370 2dg5B 190 2.54e+01 1ryiA 382 2.59e+01 1pixA 587 2.60e+01 c.14.1.4 94708 1cfzA 162 2.62e+01 1cfzA c.56.1.1 33754 1zz1A 369 2.62e+01 1epwA 1290 2.64e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1uwkA 557 2.68e+01 e.51.1.1 108065 1rvkA 382 2.71e+01 c.1.11.2,d.54.1.1 97928,97929 1lk2A 274 2.74e+01 b.1.1.2,d.19.1.1 91056,91057 2f1fA 164 2.77e+01 1f3lA 321 2.80e+01 1g6q2 c.66.1.6 59630 1sr9A 644 2.85e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1gpc 218 2.86e+01 1gpc b.40.4.7 25393 2por 301 2.96e+01 2por f.4.3.1 43759 2bjvA 265 2.99e+01 1qwtA 255 3.04e+01 b.26.1.3 96501 1g2rA 100 3.06e+01 1g2rA d.192.1.1 60231 1ypfA 336 3.09e+01 2db3A 434 3.11e+01 2bycA 137 3.13e+01 1ex0A 731 3.15e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1fecA 490 3.15e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1wxrA 1048 3.16e+01 1cr5A 189 3.18e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 2gcc 70 3.22e+01 2gcc d.10.1.2 37484 1qopB 396 3.24e+01 2tysB c.79.1.1 35270 1u9yA 284 3.25e+01 2cdnA 201 3.25e+01 1r6wA 322 3.26e+01 c.1.11.2,d.54.1.1 97165,97166 1h8eG 272 3.39e+01 1e79G c.49.2.1 60756 1vzyA 291 3.41e+01 1pyaB 228 3.44e+01 1pyaB 1cjcA 460 3.44e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1dj0A 264 3.50e+01 1dj0A d.265.1.1 90337 1spxA 278 3.58e+01 c.2.1.2 98958 1ti6A 875 3.58e+01 b.52.2.2,c.81.1.1 106974,106975 1yd9A 193 3.62e+01 2bzlA 325 3.65e+01 1twfA 1733 3.70e+01 1rkiA 102 3.73e+01 2bd0A 244 3.80e+01 1vqoE 178 3.82e+01 2aa4A 289 3.82e+01 1d2mA 665 3.84e+01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1xe0A 114 3.87e+01 1ifrA 121 3.91e+01 b.1.16.1 71203 1bdb 277 3.93e+01 1bdb c.2.1.2 29874 1nffA 260 3.96e+01 c.2.1.2 80457 1k3yA 221 4.00e+01 a.45.1.1,c.47.1.5 77245,77246 1xksA 450 4.05e+01 1ehiA 377 4.07e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1f8rA 498 4.10e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 1p35A 299 4.12e+01 1p35A b.28.1.1 23925 1y51A 88 4.24e+01 2bhvA 246 4.24e+01 2bkkA 264 4.34e+01 1dhn 121 4.43e+01 1dhn d.96.1.3 40663 2fpeA 62 4.49e+01 1t64A 377 4.66e+01 c.42.1.2 106543 1bueA 265 4.72e+01 1btl e.3.1.1 42727 1r9cA 139 4.74e+01 d.32.1.2 97255 1tu5A 746 4.75e+01 1sq5A 308 4.80e+01 c.37.1.6 105882 1oacA 727 4.82e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1auk 489 4.87e+01 1auk c.76.1.2 35030 1u20A 212 4.88e+01 1qy5A 269 4.93e+01 d.122.1.1 96573 1nmeA 146 4.96e+01 c.17.1.1 85874 2bhuA 602 4.99e+01 1jsdB 176 5.00e+01 h.3.1.1 63259 1wznA 252 5.03e+01 1jhfA 202 5.08e+01 a.4.5.2,b.87.1.1 63057,63058 2fsrA 195 5.09e+01 1dmgA 225 5.11e+01 1dmgA c.22.1.1 31036 1bupA 386 5.19e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1uirA 314 5.27e+01 c.66.1.17 99429 1mdl 359 5.32e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 2aefA 234 5.32e+01 2b0tA 738 5.36e+01 1q8yA 373 5.39e+01 d.144.1.7 96234 1zavA 180 5.39e+01 2cy7A 396 5.42e+01 1914 232 5.46e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1unnC 115 5.50e+01 d.240.1.1 99680 1x3sA 195 5.51e+01 1mi3A 322 5.55e+01 c.1.7.1 91274 1bu6O 501 5.55e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1ooyA 481 5.58e+01 c.124.1.3,c.124.1.2 93388,93389 1wyzA 242 5.59e+01 1n7kA 234 5.62e+01 c.1.10.1 85374 1mrzA 293 5.69e+01 b.43.5.1,c.26.1.3 91452,91453 1zdyA 307 5.73e+01 1m4jA 142 5.74e+01 d.109.1.2 78602 1i6pA 220 5.76e+01 1ddzA c.53.2.1 61848 1hdcA 253 5.77e+01 1e6wA c.2.1.2 29862 1jvwA 167 5.89e+01 d.26.1.1 71907 1gqiA 708 5.90e+01 c.1.8.10,d.92.2.2 76279,76280 1r88A 280 6.07e+01 c.69.1.3 97219 2ftwA 521 6.10e+01 1x38A 602 6.13e+01 2ac3A 316 6.16e+01 1tuoA 464 6.17e+01 1zpsA 138 6.31e+01 1gesA 450 6.34e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1t2wA 145 6.34e+01 b.100.1.1 106289 1ef8A 261 6.37e+01 1ef8A c.14.1.3 30921 1n9lA 109 6.39e+01 d.110.3.6 85468 1j5pA 253 6.40e+01 d.81.1.3,c.2.1.3 71577,83092 2atrA 138 6.44e+01 1wlsA 328 6.51e+01 1g291 372 6.53e+01 1g291 2b3yA 888 6.60e+01 1q77A 138 6.61e+01 c.26.2.4 96023 1g8sA 230 6.62e+01 c.66.1.3 90507 1woqA 267 6.75e+01 c.55.1.10,c.55.1.10 109462,109463 1eu1A 780 6.76e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1xkwA 665 6.86e+01 1mp9A 198 6.88e+01 d.129.1.1,d.129.1.1 91385,91386 2d29A 387 6.88e+01 1zhvA 134 6.88e+01 1nh2B 53 6.96e+01 a.32.1.1 91874 1xq6A 253 7.00e+01 1q5xA 161 7.01e+01 c.8.7.1 95947 2gk4A 232 7.05e+01 1itxA 419 7.09e+01 c.1.8.5,d.26.3.1 71425,71426 1nn5A 215 7.19e+01 c.37.1.1 85892 2bcgG 453 7.30e+01 1dpgA 485 7.31e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1cqmA 101 7.37e+01 1ris d.58.14.1 39321 1vkkA 154 7.40e+01 d.109.1.2 108669 1nhs 447 7.45e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1uptA 171 7.47e+01 c.37.1.8 99767 1xg8A 111 7.48e+01 2a7kA 250 7.49e+01 2cbuA 468 7.58e+01 1yhtA 367 7.62e+01 2c2xA 281 7.66e+01 1nr0A 611 7.67e+01 b.69.4.1,b.69.4.1 86078,86079 1q45A 391 7.81e+01 c.1.4.1 95780 1wyuB 474 7.96e+01 1ivyA 452 7.98e+01 1ivyA c.69.1.5 34654 1h65A 270 8.02e+01 c.37.1.8 65640 1c0pA 363 8.05e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1lqtA 456 8.06e+01 c.3.1.1,c.4.1.1 74198,74199 1z6nA 167 8.07e+01 1vecA 206 8.12e+01 c.37.1.19 100575 1sfp 114 8.15e+01 1sfp b.23.1.1 23895 1svy 114 8.17e+01 1svy d.109.1.1 40831 1bvoA 175 8.18e+01 1a3qA b.2.5.3 22457 1f6bA 198 8.21e+01 c.37.1.8 64986 1vflA 356 8.28e+01 1vpkA 378 8.29e+01 1t0iA 191 8.31e+01 c.23.5.4 106209 1u8vA 490 8.36e+01 1mkyA 439 8.40e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1yh1A 359 8.47e+01 1ep3B 262 8.48e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 2cu5A 129 8.51e+01 1sheA 103 8.51e+01 d.274.1.1 105551 1jyaA 130 8.52e+01 d.198.1.1 67453 1mv8A 436 8.54e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1atlA 202 8.59e+01 1atlA d.92.1.9 40322 1fxkC 133 8.60e+01 1fxkC a.2.5.1 15702 1z57A 339 8.65e+01 2pia 321 8.69e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1ne9A 335 8.77e+01 d.108.1.4,d.108.1.4 91839,91840 1ll2A 333 8.77e+01 c.68.1.14 74005 1hqz1 141 8.82e+01 1nw3A 416 8.85e+01 c.66.1.31 86288 2ch4A 320 8.87e+01 1m2oA 768 8.93e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1vjeA 166 8.94e+01 d.185.1.2 100807 1z5zA 271 8.97e+01 2c07A 285 8.97e+01 1rx0A 393 8.98e+01 a.29.3.1,e.6.1.1 98007,98008