# List of top-scoring protein chains for t06-100-30-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 2ghrA 302 7.74e-41 1o1yA 239 1.25e-19 c.23.16.1 86554 1wl8A 189 1.64e-19 1gpmA 525 3.04e-18 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1a9xB 379 2.42e-14 1c3oB c.8.3.1,c.23.16.1 30732,31409 1c30B 382 5.27e-14 c.8.3.1,c.23.16.1 30736,31413 1i1qB 192 1.54e-12 1qdlB c.23.16.1 61544 1vcoA 550 1.94e-12 c.23.16.1,c.37.1.10 108508,108509 1g2iA 166 2.01e-11 1g2iA c.23.16.2 31438 2abwA 227 9.20e-11 1l9xA 315 1.70e-09 c.23.16.1 73762 1ka9H 200 7.05e-09 c.23.16.1 77308 2fexA 188 3.85e-07 1t3tA 1303 7.05e-07 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 1p5fA 189 1.30e-06 c.23.16.2 94142 1u9cA 224 1.86e-06 1vhqA 232 3.41e-05 c.23.16.2 100696 2ab0A 205 1.35e-04 1n57A 291 1.97e-04 c.23.16.2 85328 1rw7A 243 2.70e-04 c.23.16.2 97963 1qvzA 237 2.85e-04 c.23.16.2 96453 2gk3A 256 1.14e-03 2ajrA 331 1.22e-02 2d0iA 333 2.86e-02 1fyeA 229 6.37e-02 1fyeA c.23.16.4 31477 1mkzA 172 8.67e-02 c.57.1.1 84998 1jg1A 235 1.95e-01 c.66.1.7 66661 1ydmA 187 2.53e-01 1jixA 351 2.69e-01 1c3jA c.87.1.1 63081 2cw6A 298 3.27e-01 1l7mA 211 3.43e-01 c.108.1.4 73664 1mldA 314 3.49e-01 2cmd c.2.1.5,d.162.1.1 30122,42089 1xq6A 253 3.61e-01 1t0bA 252 5.18e-01 c.23.16.6 106199 1ytlA 174 5.46e-01 2f02A 323 5.47e-01 5nul 138 5.76e-01 5nul c.23.5.1 31191 1o4vA 183 6.21e-01 c.23.8.1 86628 1ii7A 333 6.26e-01 1ii7A d.159.1.4 62415 1ku1A 230 6.34e-01 a.118.3.1 72996 2pgd 482 6.68e-01 2pgd a.100.1.1,c.2.1.6 18778,30190 2c4wA 176 6.91e-01 1u02A 239 7.54e-01 c.108.1.15 107538 1v6sA 390 8.53e-01 c.86.1.1 100424 2feaA 236 9.71e-01 1mxgA 435 9.98e-01 b.71.1.1,c.1.8.1 85193,85194 1q0rA 298 1.09e+00 c.69.1.28 95508 1mo9A 523 1.10e+00 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1din 236 1.26e+00 1din c.69.1.9 34682 1zxxA 319 1.28e+00 1f06A 320 1.30e+00 1dapA c.2.1.3,d.81.1.3 59556,59557 1akz 223 1.31e+00 3eugA c.18.1.1 31007 1php 394 1.45e+00 16pk c.86.1.1 35452 2b0aA 186 1.45e+00 1w8kA 447 1.46e+00 2g09A 297 1.51e+00 1h4pA 408 1.56e+00 c.1.8.3 90617 1z0sA 278 1.59e+00 2b5dX 528 1.65e+00 1hl2A 297 1.69e+00 c.1.10.1 83581 1cruA 454 1.72e+00 1c9uA b.68.2.1 27617 1nhs 447 1.84e+00 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1xttA 216 1.85e+00 1tjyA 316 1.85e+00 c.93.1.1 107062 1v2bA 177 1.88e+00 d.107.1.2 108279 1ktbA 405 1.88e+00 b.71.1.1,c.1.8.1 72960,72961 1p4cA 380 1.94e+00 c.1.4.1 94100 2aeuA 374 1.96e+00 1jflA 228 2.02e+00 c.78.2.1,c.78.2.1 71656,71657 1yqzA 438 2.18e+00 1mx3A 347 2.19e+00 c.2.1.4,c.23.12.1 79638,79639 1ymqA 261 2.19e+00 1zosA 230 2.65e+00 1yt5A 258 2.69e+00 1augA 215 2.70e+00 1a2zA c.56.4.1 33798 1jysA 242 2.73e+00 c.56.2.1 77216 2bl9A 238 2.79e+00 1hdoA 206 2.92e+00 1he2A c.2.1.2 60965 1wcgA 464 3.02e+00 1d4oA 184 3.05e+00 1d4oA c.31.1.4 31748 1dyr 206 3.18e+00 1aoeA c.71.1.1 34916 1tx2A 297 3.21e+00 c.1.21.1 107420 1x3mA 415 3.27e+00 1j93A 353 3.46e+00 c.1.22.1 66454 1eokA 290 3.77e+00 1eokA c.1.8.5 28991 1t5oA 351 3.83e+00 c.124.1.5 106459 1rkuA 206 4.01e+00 c.108.1.11 97627 2a7kA 250 4.03e+00 1suwA 249 4.18e+00 e.52.1.1 106027 1im5A 180 4.20e+00 c.33.1.3 66211 1o5xA 248 4.31e+00 c.1.1.1 92528 1eiwA 111 4.36e+00 1eiwA c.23.3.1 31130 2g5cA 281 4.37e+00 1t2dA 322 4.52e+00 c.2.1.5,d.162.1.1 99084,99085 1wr8A 231 4.57e+00 8abp 306 4.60e+00 8abp c.93.1.1 35647 1pzgA 331 4.62e+00 c.2.1.5,d.162.1.1 95425,95426 1ualA 274 4.68e+00 c.116.1.4 88383 1hyeA 313 4.73e+00 2cmd c.2.1.5,d.162.1.1 61400,61401 1mj3A 260 4.84e+00 c.14.1.3 79183 1o0sA 605 5.21e+00 c.2.1.7,c.58.1.3 86540,86541 7a3hA 303 5.23e+00 7a3hA c.1.8.3 28817 1nnlA 225 5.30e+00 c.108.1.4 85906 1eq2A 310 5.33e+00 1eq2A c.2.1.2 29814 1gsa 316 5.49e+00 1gsa c.30.1.3,d.142.1.1 31718,41477 1zd0A 150 5.63e+00 2b4wA 315 5.68e+00 1guzA 310 5.73e+00 c.2.1.5,d.162.1.1 65586,65587 1xmpA 170 5.84e+00 1v8aA 265 6.06e+00 c.72.1.2 100494 1trb 320 6.24e+00 1trb c.3.1.5,c.3.1.5 30529,30530 1ma3A 253 6.34e+00 c.31.1.5 78883 4eugA 229 6.49e+00 3eugA c.18.1.1 31019 1y9aA 360 6.54e+00 1fecA 490 6.77e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1t9bA 677 6.84e+00 1fqtA 112 6.85e+00 1fqtA b.33.1.1 24441 2abqA 306 6.92e+00 1fh9A 312 7.03e+00 1taxA c.1.8.3 28913 1ve3A 227 7.34e+00 1jljA 189 7.37e+00 c.57.1.1 63169 1w4rA 195 7.73e+00 1ycdA 243 8.19e+00 1zp4A 304 8.24e+00 1f4pA 147 8.25e+00 5nul c.23.5.1 59651 1o7jA 327 8.50e+00 c.88.1.1 81140 1j0hA 588 8.70e+00 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1rrmA 386 8.74e+00 e.22.1.2 105081 1eyeA 280 8.76e+00 1aj2 c.1.21.1 29672 1kgsA 225 8.79e+00 a.4.6.1,c.23.1.1 68596,68597 2aa4A 289 8.85e+00 1gy8A 397 8.99e+00 c.2.1.2 83376 1toaA 313 9.05e+00 1toaA c.92.2.2 35598 1wehA 171 9.07e+00 1c8uA 285 9.58e+00 1c8uA d.38.1.3,d.38.1.3 38547,38548 1neyA 247 1.02e+01 c.1.1.1 80449 1cnv 299 1.05e+01 1cnv c.1.8.5 28989 1q1rA 431 1.06e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1wwkA 307 1.07e+01 1wkyA 464 1.07e+01 1pot 325 1.08e+01 1pot c.94.1.1 35807 1vjzA 341 1.09e+01 c.1.8.3 100838 1sjdA 368 1.11e+01 c.1.11.2,d.54.1.1 105632,105633 1f0kA 364 1.11e+01 1f0kA c.87.1.2 35465 1vljA 407 1.12e+01 e.22.1.2 108832 1z15A 344 1.14e+01 1xg4A 295 1.15e+01 1lldA 319 1.16e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 2gjlA 328 1.23e+01 1wkcA 184 1.23e+01 1sazA 381 1.24e+01 1l5aA 436 1.25e+01 c.43.1.2,c.43.1.2 75923,75924 1m0uA 249 1.27e+01 a.45.1.1,c.47.1.5 78359,78360 2a3nA 355 1.29e+01 1dqwA 267 1.33e+01 1dqwA c.1.2.3 28551 2dri 271 1.38e+01 2dri c.93.1.1 35637 1xdwA 331 1.38e+01 1bu8A 452 1.38e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1jmkC 230 1.39e+01 c.69.1.22 71747 2bllA 345 1.40e+01 1qfjA 232 1.42e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1l6wA 220 1.42e+01 c.1.10.1 73632 1e4fT 419 1.43e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1o4sA 389 1.44e+01 c.67.1.1 86620 1fj2A 232 1.45e+01 1auoA c.69.1.14 34720 1e5kA 201 1.46e+01 1fr9A c.68.1.8 34578 1nbaA 264 1.46e+01 1nbaA c.33.1.3 31753 1hdiA 413 1.47e+01 16pk c.86.1.1 60964 1vhrA 184 1.47e+01 1vhrA c.45.1.1 32651 1o2dA 371 1.47e+01 e.22.1.2 86591 1f89A 291 1.49e+01 d.160.1.1 64988 1ohvA 472 1.49e+01 c.67.1.4 93031 1yacA 208 1.51e+01 1yacA c.33.1.3 31757 1wkvA 389 1.53e+01 1m65A 245 1.55e+01 c.6.3.1 84847 1jr2A 286 1.56e+01 c.113.1.1 67111 1iu8A 206 1.56e+01 c.56.4.1 71436 1kv5A 250 1.62e+01 c.1.1.1 73052 1vizA 240 1.64e+01 c.1.4.1 100784 16pk 415 1.64e+01 16pk c.86.1.1 35454 1htwA 158 1.67e+01 c.37.1.18 71083 1d3gA 367 1.67e+01 1d3gA c.1.4.1 28600 1xs5A 241 1.70e+01 2f62A 161 1.73e+01 1zowA 313 1.75e+01 1zdzA 302 1.76e+01 1o08A 221 1.79e+01 c.108.1.6 86525 1n82A 331 1.79e+01 c.1.8.3 91703 1lucA 355 1.83e+01 1lucA c.1.16.1 29547 1k77A 260 1.83e+01 c.1.15.5 72096 1ohlA 342 1.83e+01 c.1.10.3 87035 1sq5A 308 1.84e+01 c.37.1.6 105882 1ylkA 172 1.85e+01 1qwnA 1045 1.86e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 2azpA 318 1.93e+01 1dbqA 289 1.99e+01 1qpzA c.93.1.1 35666 1fus 106 2.00e+01 9rnt d.1.1.4 36050 1wbhA 214 2.01e+01 1edg 380 2.02e+01 1edg c.1.8.3 28807 1ju2A 536 2.03e+01 c.3.1.2,d.16.1.1 77169,77170 1dxeA 256 2.05e+01 1dxeA c.1.12.5 29310 1v7cA 351 2.09e+01 c.79.1.1 100446 1uptA 171 2.09e+01 c.37.1.8 99767 1w32A 348 2.10e+01 1b93A 152 2.11e+01 1b93A c.24.1.2 31507 1zkpA 268 2.11e+01 1i0vA 104 2.14e+01 9rnt d.1.1.4 36054 1l3iA 192 2.20e+01 c.66.1.22 77676 1un7A 400 2.20e+01 b.92.1.5,c.1.9.10 99657,99658 1sc6A 404 2.23e+01 1uypA 432 2.24e+01 b.29.1.19,b.67.2.3 100176,100177 1nq6A 302 2.24e+01 c.1.8.3 92046 1z41A 338 2.24e+01 1xeaA 323 2.25e+01 c.2.1.3,d.81.1.5 109572,109573 1lam 484 2.26e+01 1lam c.50.1.1,c.56.5.3 33166,33829 4pgaA 337 2.29e+01 4pgaA c.88.1.1 35565 1cr1A 296 2.30e+01 1cr1A c.37.1.11 32286 1k3iA 656 2.30e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1wa3A 205 2.30e+01 1onwA 390 2.31e+01 b.92.1.7,c.1.9.13 87172,87173 1v71A 323 2.33e+01 3thiA 371 2.35e+01 2thiA c.94.1.1 35792 1udh 244 2.39e+01 3eugA c.18.1.1 31015 1w2tA 432 2.40e+01 1gbs 185 2.43e+01 153l d.2.1.5 36986 2fomB 185 2.43e+01 1ywfA 296 2.47e+01 1nriA 306 2.51e+01 c.80.1.3 86123 1x7oA 287 2.53e+01 2aamA 309 2.54e+01 1rtu 114 2.57e+01 9rnt d.1.1.4 36139 1xd8A 289 2.57e+01 1qczA 169 2.57e+01 1qczA c.23.8.1 31276 1gtkA 313 2.60e+01 c.94.1.1,d.50.2.1 76346,76347 1ydwA 362 2.63e+01 1kshB 152 2.68e+01 b.1.18.8 72915 1d1gA 168 2.69e+01 1d1gA c.71.1.1 34889 1dxy 333 2.75e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1lhpA 312 2.78e+01 c.72.1.5 77960 1uxjA 309 2.79e+01 c.2.1.5,d.162.1.1 108112,108113 2gnoA 305 2.79e+01 1jftA 340 2.79e+01 a.35.1.5,c.93.1.1 66652,66653 2bdeA 470 2.83e+01 1gox 370 2.85e+01 1gox c.1.4.1 28607 1xwyA 264 2.89e+01 1g8kA 825 2.89e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1bupA 386 2.89e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 2fug1 438 2.92e+01 2b99A 156 2.93e+01 1n55A 251 2.93e+01 c.1.1.1 80007 1qwgA 251 2.93e+01 c.1.27.1 96473 1ad1A 266 2.94e+01 1aj2 c.1.21.1 29668 1o54A 277 2.96e+01 c.66.1.13 92482 1bw0A 416 2.97e+01 1bw0A c.67.1.1 34385 1fo0B 112 2.98e+01 1kb5B b.1.1.1 20631 1hd7A 318 2.98e+01 1bix d.151.1.1 41780 1yxcA 292 2.99e+01 1np3A 338 3.00e+01 a.100.1.2,c.2.1.6 85946,85947 1dkuA 317 3.03e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1tl2A 236 3.05e+01 1tl2A b.67.1.1 27541 1s5pA 235 3.07e+01 c.31.1.5 98569 2a5lA 200 3.09e+01 2b4yA 271 3.11e+01 1xx6A 191 3.13e+01 1o98A 511 3.13e+01 c.105.1.1,c.76.1.3 86684,86685 1v7zA 260 3.14e+01 c.125.1.1 100488 2ew2A 316 3.16e+01 2gnpA 266 3.18e+01 5pal 109 3.20e+01 1a75A a.39.1.4 17215 2fvvA 194 3.20e+01 1qlpA 394 3.22e+01 1ovaA e.1.1.1 42628 1nzyA 269 3.22e+01 1nzyA c.14.1.3 30903 1lc0A 294 3.26e+01 c.2.1.3,d.81.1.4 73823,73824 1bvyF 191 3.29e+01 1bvyF c.23.5.1 31207 1i7nA 309 3.31e+01 c.30.1.5,d.142.1.3 83681,83682 1srvA 145 3.35e+01 1derA c.8.5.1 30817 2gdzA 267 3.37e+01 1gesA 450 3.39e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1vdmA 153 3.42e+01 1j8mF 297 3.42e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 2g0dA 409 3.42e+01 1j4aA 333 3.43e+01 c.2.1.4,c.23.12.1 71502,71503 2fp7B 172 3.43e+01 1hd2A 161 3.44e+01 c.47.1.10 60962 1y5eA 169 3.45e+01 1ne2A 200 3.47e+01 c.66.1.32 85586 1pt6A 213 3.50e+01 c.62.1.1 95091 1xyzA 347 3.51e+01 1taxA c.1.8.3 28804 1jf9A 408 3.51e+01 1c0nA c.67.1.3 62931 1fcqA 350 3.54e+01 c.1.8.9 65006 1vixA 420 3.56e+01 c.56.5.4,d.58.19.1 100777,100778 1p5dX 463 3.63e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1j5xA 342 3.71e+01 c.80.1.1 71591 1mjnA 179 3.75e+01 c.62.1.1 79210 1ro0A 216 3.77e+01 d.264.1.2 97664 1mtzA 293 3.85e+01 c.69.1.7 79467 1sy7A 715 3.87e+01 1m2kA 249 3.90e+01 c.31.1.5 84754 1p1xA 260 3.94e+01 c.1.10.1 104060 2act 220 3.94e+01 1cs8A d.3.1.1 37002 1xqwA 293 3.94e+01 1v0lA 313 3.96e+01 c.1.8.3 108207 1jeoA 180 3.97e+01 c.80.1.3 66611 1s9pA 227 4.04e+01 a.123.1.1 105384 1vi9A 299 4.06e+01 c.72.1.5 100750 1u5tA 233 4.07e+01 a.4.5.54,a.4.5.54 107684,107685 1vmeA 410 4.09e+01 c.23.5.1,d.157.1.3 108893,108894 2cz2A 223 4.11e+01 2bx6A 350 4.15e+01 1ns5A 155 4.16e+01 c.116.1.3 80705 1ewkA 490 4.22e+01 1ewkA c.93.1.1 35712 1xv5A 401 4.25e+01 1uwsA 489 4.27e+01 c.1.8.4 108073 1vemA 516 4.27e+01 1wduA 245 4.29e+01 d.151.1.1 109286 1q35A 320 4.30e+01 c.94.1.1 95661 1bdmA 327 4.33e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1d7uA 433 4.36e+01 2dkb c.67.1.4 34439 1h72C 296 4.38e+01 d.14.1.5,d.58.26.1 60712,60713 1rh9A 373 4.40e+01 2bikB 313 4.41e+01 1gsoA 431 4.42e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1squA 155 4.43e+01 d.252.1.1 98971 1wtjA 343 4.48e+01 2cvjA 180 4.49e+01 2gfoA 396 4.53e+01 1mo0A 275 4.55e+01 c.1.1.1 79329 1dp4A 435 4.58e+01 1dp4A c.93.1.1 35710 1lvmA 229 4.62e+01 b.47.1.3 78243 2ap1A 327 4.65e+01 1m6jA 261 4.69e+01 c.1.1.1 78693 1bykA 255 4.70e+01 1bykA c.93.1.1 35706 1mv8A 436 4.70e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1wlsA 328 4.73e+01 2b4lA 268 4.74e+01 1a99A 344 4.74e+01 1pot c.94.1.1 35812 7fd1A 106 4.80e+01 1a6l d.58.1.2 38953 1zhrA 238 4.84e+01 1cb0A 283 4.84e+01 1cb0A c.56.2.1 33790 1xc3A 302 4.85e+01 1qj4A 257 4.86e+01 1qj4A c.69.1.20 34796 1ta3B 303 4.89e+01 c.1.8.3 106732 2bkaA 242 4.95e+01 1bouB 302 4.97e+01 1bouB c.56.6.1 33859 2an1A 292 4.98e+01 1xhcA 367 5.00e+01 1sviA 195 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