# List of top-scoring protein chains for t04-100-30-CB_burial_14_7-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 2fh7A 595 6.36e-67 1larA 575 1.52e-66 1larA c.45.1.2,c.45.1.2 32693,32694 1p15A 253 4.71e-60 c.45.1.2 93894 1g7fA 298 7.82e-59 1pty c.45.1.2 60330 2f71A 298 9.67e-59 2shpA 525 1.96e-58 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1pa1A 310 2.41e-58 c.45.1.2 94404 2b3oA 532 2.66e-58 2b49A 287 1.19e-57 1ptvA 321 1.47e-57 1pty c.45.1.2 32665 1wchA 315 2.91e-56 2bzlA 325 8.47e-56 1jlnA 297 8.95e-56 1pty c.45.1.2 63172 2bijA 305 1.59e-54 2bv5A 282 1.80e-54 1ytw 306 1.95e-26 1ytw c.45.1.2 32689 1lyvA 306 2.55e-25 c.45.1.2 74348 1g4wR 383 8.29e-18 1g4uS a.24.11.1,c.45.1.2 16644,32692 1oheA 348 6.42e-13 c.45.1.1,c.45.1.1 87013,87014 1x24A 180 2.19e-11 1zclA 180 1.34e-10 1zckA 154 8.17e-10 1rxdA 159 9.06e-10 1d5rA 324 3.31e-09 1d5rA b.7.1.1,c.45.1.1 23181,32697 1fpzA 212 3.66e-08 1fpzA c.45.1.1 59976 1vhrA 184 4.27e-08 1vhrA c.45.1.1 32651 1wrmA 165 3.75e-07 1yz4A 160 3.68e-06 1yn9A 169 1.37e-05 1i9sA 210 1.37e-05 1i9sA c.45.1.1 62099 2c46A 241 1.89e-05 1ywfA 296 7.10e-05 1xriA 151 8.07e-05 1mkp 144 1.10e-04 1vhrA c.45.1.1 32654 1zsqA 528 1.61e-04 1lw3A 657 2.17e-04 b.55.1.8,c.45.1.3 91152,91153 1u24A 337 1.67e-03 1gvhA 396 2.61e-01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 2d5cA 263 2.65e-01 1ihuA 589 3.11e-01 c.37.1.10,c.37.1.10 62394,62395 1z3iX 644 3.24e-01 1e0cA 271 3.24e-01 1e0cA c.46.1.2,c.46.1.2 32717,32718 1i45A 248 3.63e-01 1amk c.1.1.1 61665 1wxdA 263 4.01e-01 2cy0A 263 4.61e-01 1t9kA 347 4.96e-01 c.124.1.5 106721 1xzwA 426 6.32e-01 1cp2A 269 8.35e-01 1cp2A c.37.1.10 32269 1h7sA 365 1.03e+00 d.14.1.3,d.122.1.2 65705,65706 1rj9A 304 1.21e+00 a.24.13.1,c.37.1.10 97553,97554 1nnsA 326 1.35e+00 c.88.1.1 85910 1ogiA 303 1.56e+00 b.43.4.2,c.25.1.1 92914,92915 1yt8A 539 1.62e+00 1ako 268 1.76e+00 1ako d.151.1.1 41779 1jkmB 361 1.93e+00 1jkmA c.69.1.2 34634 3tgl 269 2.13e+00 3tgl c.69.1.17 34733 1up8A 598 2.29e+00 a.111.1.2 99710 1j33A 335 2.37e+00 c.39.1.1 77069 1vmaA 306 2.55e+00 a.24.13.1,c.37.1.10 108887,108888 1tvkA 440 2.65e+00 c.32.1.1,d.79.2.1 107362,107363 1wr2A 238 2.68e+00 1z8oA 404 2.81e+00 1z5vA 474 2.87e+00 1tz9A 367 3.05e+00 c.1.15.6 107466 1i6wA 181 3.40e+00 1i6wA c.69.1.18 61859 1go2A 304 3.43e+00 b.43.4.2,c.25.1.1 76243,76244 1k66A 149 3.45e+00 c.23.1.1 90941 2bepA 159 3.50e+00 1wx1A 335 3.65e+00 2bsaA 303 3.71e+00 1jipA 403 3.74e+00 a.104.1.1 66748 1w34A 304 3.85e+00 1brwA 433 3.88e+00 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1jffA 451 3.98e+00 c.32.1.1,d.79.2.1 62932,62933 2bm8A 236 4.15e+00 1npyA 271 4.52e+00 c.2.1.7,c.58.1.5 85995,85996 1neyA 247 4.86e+00 c.1.1.1 80449 1yb5A 351 5.18e+00 1que 303 5.19e+00 1fnc b.43.4.2,c.25.1.1 25647,31537 1sffA 426 5.21e+00 c.67.1.4 105482 1j0aA 325 5.35e+00 c.79.1.1 83871 1uarA 285 5.42e+00 c.46.1.2,c.46.1.2 107762,107763 1w7jA 795 5.47e+00 1vkhA 273 5.99e+00 c.69.1.32 108662 1jhdA 396 6.24e+00 b.122.1.3,c.26.1.5 66712,66713 2bklA 695 6.41e+00 1wj7A 104 6.90e+00 1cojA 212 7.43e+00 1avmA a.2.11.1,d.44.1.1 15737,38734 1aop 497 7.53e+00 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1dbqA 289 7.67e+00 1qpzA c.93.1.1 35666 1m1zA 513 7.78e+00 c.26.2.1,d.153.1.1 78457,78458 1mnaA 298 7.80e+00 c.69.1.22 79322 1v37A 177 7.90e+00 1vj1A 363 7.98e+00 b.35.1.2,c.2.1.1 100794,100795 2f46A 156 8.04e+00 1drw 273 8.06e+00 1drw c.2.1.3,d.81.1.3 30057,39972 1i1qB 192 8.26e+00 1qdlB c.23.16.1 61544 2btoA 473 8.46e+00 1kbpA 432 8.81e+00 4kbpA b.1.12.1,d.159.1.1 22349,42068 1eupA 403 9.26e+00 1rom a.104.1.1 18967 1nnvA 110 9.48e+00 d.17.7.1 92012 1g3mA 294 9.52e+00 c.37.1.5 83268 1ry6A 360 9.66e+00 c.37.1.9 98090 1yyaA 250 9.83e+00 1b74A 254 1.02e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 4pgaA 337 1.02e+01 4pgaA c.88.1.1 35565 1h4pA 408 1.06e+01 c.1.8.3 90617 1ispA 181 1.08e+01 c.69.1.18 76778 1ac5 483 1.09e+01 1ac5 c.69.1.5 34653 1earA 147 1.11e+01 b.107.1.1,d.58.38.1 64875,64876 1ox0A 430 1.12e+01 c.95.1.1,c.95.1.1 87495,87496 2gzqA 200 1.19e+01 1ypvA 313 1.19e+01 1gskA 513 1.20e+01 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 1ve6A 582 1.22e+01 2awfA 172 1.23e+01 2cbiA 594 1.25e+01 1wlpB 138 1.26e+01 1x0lA 333 1.26e+01 1gxyA 226 1.29e+01 d.166.1.3 76380 1qo7A 394 1.33e+01 1qo7A c.69.1.11 34697 1geqA 248 1.34e+01 2tysA c.1.2.4 28589 1ynpA 317 1.41e+01 1cqxA 403 1.45e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1mswD 883 1.46e+01 e.8.1.3 79427 1o7jA 327 1.56e+01 c.88.1.1 81140 1i7qB 193 1.63e+01 1qdlB c.23.16.1 61902 1g60A 260 1.65e+01 c.66.1.11 70151 1gox 370 1.68e+01 1gox c.1.4.1 28607 1w3oA 216 1.68e+01 1wkbA 810 1.71e+01 1exrA 148 1.73e+01 1cll a.39.1.5 17299 4kbpA 432 1.74e+01 4kbpA b.1.12.1,d.159.1.1 22345,42064 2ajtA 500 1.77e+01 2g8lA 299 1.78e+01 1h65A 270 1.79e+01 c.37.1.8 65640 1xg9A 260 1.91e+01 1li5A 461 1.92e+01 a.27.1.1,c.26.1.1 73912,73913 1ir6A 424 1.97e+01 c.107.1.2 71342 1kqpA 271 2.04e+01 c.26.2.1 72883 1havA 217 2.08e+01 1havA b.47.1.4 26423 1r4kA 169 2.09e+01 b.34.14.1 96997 1x9mA 698 2.11e+01 2db3A 434 2.11e+01 1l0bA 229 2.12e+01 c.15.1.3,c.15.1.3 73391,73392 1z41A 338 2.12e+01 1tzjA 338 2.16e+01 1zghA 260 2.20e+01 2ng1 293 2.21e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1ig8A 486 2.21e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1auiB 169 2.26e+01 1auiB a.39.1.5 17325 1li5B 461 2.33e+01 a.27.1.1,c.26.1.1 73914,73915 1g3qA 237 2.36e+01 1hyqA c.37.1.10 60237 2a9kB 223 2.38e+01 1ltqA 301 2.39e+01 c.108.1.9,c.37.1.1 78208,78209 1kpeA 126 2.40e+01 1kpf d.13.1.1 37508 2ex4A 241 2.45e+01 1g1cA 99 2.46e+01 b.1.1.4 65078 1b5tA 275 2.47e+01 1b5tA c.1.23.1 29676 1wcv1 257 2.52e+01 1p2fA 220 2.52e+01 a.4.6.1,c.23.1.1 87720,87721 1ntyA 311 2.53e+01 a.87.1.1,b.55.1.1 103873,103874 1xm7A 195 2.64e+01 1u4nA 310 2.65e+01 1oe9A 795 2.65e+01 b.34.3.1,c.37.1.9 92792,92793 1ei6A 406 2.68e+01 c.76.1.4 90443 2ptd 298 2.70e+01 2plc c.1.18.2 29605 1t3qB 788 2.72e+01 d.41.1.1,d.133.1.1 106369,106370 1g4yR 148 2.90e+01 1cll a.39.1.5 60252 1xbtA 193 2.93e+01 1yo8A 634 2.95e+01 1vloA 381 2.97e+01 b.44.2.1,d.250.1.1 108838,108839 1ltlA 279 3.03e+01 b.40.4.11 84701 1wddS 128 3.04e+01 2b5oA 402 3.05e+01 1jftA 340 3.07e+01 a.35.1.5,c.93.1.1 66652,66653 1c25 161 3.08e+01 1c25 c.46.1.1 32698 1qfjA 232 3.09e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 2as0A 396 3.11e+01 1j0dA 341 3.13e+01 c.79.1.1 83902 1mgpA 313 3.14e+01 c.119.1.1 79098 1vjhA 122 3.14e+01 d.129.3.1 100811 1ih8A 271 3.15e+01 2nsyA c.26.2.1 62377 1euwA 152 3.19e+01 1dupA b.85.4.1 28349 1xkqA 280 3.22e+01 2tpt 440 3.23e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1y7lA 316 3.24e+01 1mq7A 154 3.26e+01 b.85.4.1 79404 2aamA 309 3.32e+01 1bw0A 416 3.35e+01 1bw0A c.67.1.1 34385 1fgs 428 3.35e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 1f2dA 341 3.47e+01 1f2dA c.79.1.1 35298 1zp4A 304 3.59e+01 1xfkA 336 3.69e+01 1tia 279 3.73e+01 3tgl c.69.1.17 34737 1iirA 415 3.77e+01 1iirA c.87.1.5 62453 1zoiA 276 3.78e+01 1z9hA 290 3.81e+01 1kpf 126 3.84e+01 1kpf d.13.1.1 37507 1de4C 640 3.90e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1zhcA 76 3.98e+01 1xvaA 292 3.99e+01 1xvaA c.66.1.5 34183 2bbsA 290 4.02e+01 1wnfA 328 4.06e+01 2f8lA 344 4.08e+01 2atpB 115 4.09e+01 1t2dA 322 4.14e+01 c.2.1.5,d.162.1.1 99084,99085 1eg7A 557 4.36e+01 1eg7A c.37.1.10 32241 2av4A 162 4.37e+01 1kyfA 247 4.46e+01 b.1.10.1,d.105.1.1 73220,73221 2fk8A 318 4.46e+01 1t7sA 137 4.47e+01 a.7.7.1 106636 1qtsA 247 4.50e+01 1qtsA b.1.10.1,d.105.1.1 22313,40789 1cpt 412 4.53e+01 1cpt a.104.1.1 18968 1t8qA 336 4.55e+01 c.1.18.3 106669 1g24A 211 4.68e+01 1g24A d.166.1.1 42270 2cw6A 298 4.77e+01 1s6cA 183 4.80e+01 a.39.1.5 98594 1vgwA 231 4.81e+01 c.68.1.13 100612 1mo9A 523 4.86e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1rqbA 539 4.86e+01 a.5.7.2,c.1.10.5 105057,105058 1wlzA 105 4.87e+01 1jlwA 219 4.87e+01 a.45.1.1,c.47.1.5 71741,71742 1nxjA 183 4.89e+01 c.8.7.1 86382 1qdeA 224 4.95e+01 1qvaA c.37.1.19 32410 1lfwA 470 4.98e+01 c.56.5.4,d.58.19.1 77942,77943 1ggzA 148 5.01e+01 a.39.1.5 70176 1upaA 573 5.03e+01 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 1nf3C 128 5.04e+01 b.36.1.1 85596 1wlsA 328 5.07e+01 1k47A 337 5.12e+01 d.14.1.5,d.58.26.4 72040,72041 1rhs 296 5.30e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1ydyA 356 5.31e+01 1k8kA 418 5.33e+01 c.55.1.1,c.55.1.1 68305,68306 1wzaA 488 5.36e+01 1xfxO 149 5.38e+01 2avuE 192 5.46e+01 1t2bA 397 5.47e+01 1jbwA 428 5.49e+01 c.59.1.2,c.72.2.2 62860,62861 1mvwC 147 5.51e+01 i.15.1.1 79525 1pfzA 380 5.53e+01 1smrA b.50.1.2 26881 1f9vA 347 5.55e+01 1bg2 c.37.1.9 59745 2g9iA 249 5.57e+01 2aotA 292 5.58e+01 1czaN 917 5.66e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1ud0A 113 5.75e+01 a.8.4.1 99198 1d3yA 301 5.76e+01 1d3yA e.12.1.1 43252 1cvl 319 5.82e+01 1cvl c.69.1.18 34786 2aw5A 541 5.84e+01 1jr5A 90 5.98e+01 a.150.1.1 67113 1pjhA 280 6.10e+01 c.14.1.3 94761 1evfA 264 6.13e+01 1bkpA d.117.1.1 40932 1ls1A 295 6.18e+01 a.24.13.1,c.37.1.10 78170,78171 1isuA 62 6.24e+01 1isuA g.35.1.1 44978 1apmE 350 6.27e+01 1cdkA d.144.1.7 41628 1qqqA 264 6.39e+01 1bkpA d.117.1.1 40931 1uufA 369 6.42e+01 b.35.1.2,c.2.1.1 100006,100007 1hnuA 280 6.43e+01 1hnoA c.14.1.3 61096 1ig3A 263 6.57e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 2fn4A 181 6.66e+01 1ys4A 354 6.71e+01 1vheA 373 6.71e+01 b.49.3.1,c.56.5.4 100669,100670 1ctn 540 6.81e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 1g8yA 279 6.81e+01 1g8yA c.37.1.11 32302 1wlxA 129 6.85e+01 1jtaA 361 6.86e+01 b.80.1.1 71859 1wqaA 455 6.88e+01 1qr6A 584 6.92e+01 1qr6A c.2.1.7,c.58.1.3 30293,33941 1qj5A 429 7.03e+01 1dtyA c.67.1.4 34493 1thfD 253 7.04e+01 1thfD c.1.2.1 28535 1fa0A 537 7.04e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1h7cA 108 7.19e+01 a.7.5.1 70914 2fsqA 243 7.35e+01 1mqeA 207 7.37e+01 d.113.1.1 91394 1uebA 184 7.38e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1koqA 253 7.40e+01 2cba b.74.1.1 27964 1nvmA 345 7.42e+01 a.5.7.1,c.1.10.5 86249,86250 1l5oA 356 7.51e+01 c.39.1.1 77711 1edqA 540 7.52e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1jqeA 292 7.53e+01 c.66.1.19 71789 2d4rA 147 7.56e+01 1d2mA 665 7.56e+01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1yloA 348 7.70e+01 2masA 314 7.74e+01 2masA c.70.1.1 34810 1kb9D 246 7.77e+01 a.3.1.3,f.23.11.1 77317,77318 2fp3A 316 7.77e+01 1nm8A 616 7.77e+01 c.43.1.3,c.43.1.3 85872,85873 1gk8A 475 7.82e+01 c.1.14.1,d.58.9.1 65234,65235 1jj2F 119 7.87e+01 1ffkE d.79.3.1 63091 1y0vH 146 7.87e+01 1gsa 316 7.98e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1emvB 134 8.03e+01 1bxiB d.4.1.1 37135 1e0tA 470 8.15e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 2f3yA 148 8.18e+01 1gk9A 260 8.25e+01 d.153.1.2 65246 1wp5A 323 8.26e+01 1lnzA 342 8.31e+01 b.117.1.1,c.37.1.8 78112,78113 1g99A 408 8.32e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1wh2A 78 8.34e+01 1mr8A 93 8.40e+01 1b4cA a.39.1.2 17186 2g8mA 264 8.42e+01 1d0vA 356 8.48e+01 1d0vA c.39.1.1 32476 2gl5A 410 8.50e+01 1ryiA 382 8.50e+01 1onjA 61 8.52e+01 g.7.1.1 93358 1br1B 150 8.53e+01 1wdcC a.39.1.5 17309 1nd7A 374 8.54e+01 d.148.1.1 91817 1zpdA 568 8.59e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1lw7A 365 8.66e+01 c.26.1.3,c.37.1.1 74295,74296 1e5xA 486 8.68e+01 c.79.1.1 59283 1pwhA 327 8.68e+01 c.79.1.1 95224 1tr0A 108 8.74e+01 d.58.4.4 107261