# 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 1v6tA 255 1.26e-02 1xm8A 254 1.07e-01 1xw8A 252 7.68e-01 1sh0A 510 8.93e-01 e.8.1.4 98876 1u9yA 284 9.15e-01 1mi3A 322 9.86e-01 c.1.7.1 91274 1t0bA 252 9.90e-01 c.23.16.6 106199 1m3qA 317 1.02e+00 a.96.1.3,d.129.1.2 91184,91185 1h4pA 408 1.02e+00 c.1.8.3 90617 2c71A 216 1.21e+00 2ng1 293 1.45e+00 1ng1 a.24.13.1,c.37.1.10 16962,32273 1ebmA 317 1.48e+00 1ebmA a.96.1.3,d.129.1.2 18751,41300 2b43A 526 1.54e+00 1ny1A 240 1.77e+00 c.6.2.3 86395 1ls1A 295 2.14e+00 a.24.13.1,c.37.1.10 78170,78171 1vi9A 299 2.16e+00 c.72.1.5 100750 1zzmA 259 2.27e+00 1zbmA 280 2.38e+00 1ra0A 430 2.42e+00 1wd5A 208 2.72e+00 1j8mF 297 2.89e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 1vl5A 260 3.34e+00 c.66.1.41 108720 1qzzA 374 3.71e+00 a.4.5.29,c.66.1.12 96719,96720 1w6tA 444 3.83e+00 1yzfA 195 3.98e+00 1ws6A 171 3.98e+00 1vl4A 447 4.12e+00 d.283.1.1 108718 2blnA 305 4.27e+00 1s0aA 429 4.66e+00 c.67.1.4 98263 2agyA 361 4.87e+00 1eceA 358 4.88e+00 1eceA c.1.8.3 28813 2ah5A 210 5.36e+00 1p9eA 331 5.77e+00 d.157.1.5 104088 2cvbA 188 5.86e+00 1h1yA 228 6.01e+00 c.1.2.2 76506 1td2A 287 6.14e+00 c.72.1.5 106765 1gca 309 6.45e+00 1gca c.93.1.1 35659 2bgkA 278 6.46e+00 1z2nX 324 6.66e+00 1cqmA 101 6.72e+00 1ris d.58.14.1 39321 1j31A 262 7.13e+00 d.160.1.2 90808 1v7rA 186 7.25e+00 c.51.4.1 100482 1fxjA 331 7.33e+00 1fwyA b.81.1.4,c.68.1.5 28062,34520 1z6aA 500 7.60e+00 2gbp 309 7.86e+00 1gca c.93.1.1 35657 1d2fA 390 7.89e+00 1d2fA c.67.1.3 34411 2czlA 272 8.11e+00 1lt8A 406 8.62e+00 c.1.26.1 78186 1vhrA 184 8.85e+00 1vhrA c.45.1.1 32651 1fp1D 372 8.99e+00 1fpqA a.4.5.29,c.66.1.12 59939,59940 1m65A 245 9.45e+00 c.6.3.1 84847 1x9dA 538 1.03e+01 1louA 101 1.06e+01 1ris d.58.14.1 39323 1fmcA 255 1.13e+01 1cydA c.2.1.2 29856 1xg5A 279 1.15e+01 1j8yF 297 1.19e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1k6wA 426 1.20e+01 b.92.1.2,c.1.9.5 68236,68237 1b7gO 340 1.23e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1qj5A 429 1.24e+01 1dtyA c.67.1.4 34493 1om1A 332 1.24e+01 d.144.1.7 93347 1cjxA 357 1.27e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1vm7A 311 1.27e+01 c.72.1.1 108884 1v37A 177 1.30e+01 1sgwA 214 1.31e+01 c.37.1.12 105541 1v02A 565 1.32e+01 c.1.8.4 108194 1zcoA 262 1.39e+01 1ksiA 642 1.40e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 2aaa 484 1.41e+01 7taa b.71.1.1,c.1.8.1 27777,28764 1ymiA 334 1.45e+01 1xwyA 264 1.49e+01 2c1gA 431 1.51e+01 1scuA 288 1.52e+01 2scuA c.2.1.8,c.23.4.1 30307,31135 1w5nA 337 1.58e+01 1jflA 228 1.60e+01 c.78.2.1,c.78.2.1 71656,71657 2ccjA 205 1.62e+01 1w5qA 337 1.65e+01 1snyA 267 1.68e+01 c.2.1.2 105833 1f8yA 157 1.69e+01 1f8xA c.23.14.1 31395 1h2bA 359 1.72e+01 b.35.1.2,c.2.1.1 90543,90544 1pvyA 227 1.74e+01 d.115.1.2 95195 1ituA 369 1.74e+01 c.1.9.7 71423 2frnA 278 1.74e+01 1vi2A 300 1.80e+01 c.2.1.7,c.58.1.5 100726,100727 2f9lA 199 1.82e+01 2b0jA 358 1.83e+01 1snnA 227 1.87e+01 d.115.1.2 105821 1s3iA 310 1.93e+01 b.46.1.1,c.65.1.1 98435,98436 1amy 403 1.94e+01 1jdc b.71.1.1,c.1.8.1 27799,28786 1umdA 367 1.97e+01 c.36.1.11 99599 1smd 496 1.98e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1z41A 338 2.03e+01 1m2rA 327 2.04e+01 d.144.1.7 84760 1o5iA 249 2.04e+01 c.2.1.2 92499 1fzrA 138 2.09e+01 1fzrA c.52.1.17 33336 1g2oA 268 2.09e+01 1b8oA c.56.2.1 60228 1fmtA 314 2.11e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1bqcA 302 2.17e+01 1bqcA c.1.8.3 28831 1jztA 246 2.17e+01 c.104.1.1 63319 1m0dA 138 2.20e+01 c.52.1.17 74354 1jlnA 297 2.20e+01 1pty c.45.1.2 63172 1pyaB 228 2.21e+01 1pyaB 1knwA 425 2.25e+01 b.49.2.3,c.1.6.1 90969,90970 2c1iA 431 2.25e+01 1o60A 292 2.26e+01 c.1.10.4 92532 1uarA 285 2.28e+01 c.46.1.2,c.46.1.2 107762,107763 1oixA 191 2.28e+01 1vecA 206 2.28e+01 c.37.1.19 100575 1zclA 180 2.32e+01 2bv5A 282 2.32e+01 1t5bA 201 2.32e+01 c.23.5.3 106433 1l9vA 317 2.32e+01 d.13.2.1,d.216.1.1 73760,73761 1x6vA 630 2.35e+01 1knqA 175 2.35e+01 c.37.1.17 72786 1vp8A 201 2.36e+01 2cbzA 237 2.36e+01 1lwjA 441 2.36e+01 b.71.1.1,c.1.8.1 74303,74304 1k1xA 659 2.38e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1e8gA 560 2.46e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1q0rA 298 2.47e+01 c.69.1.28 95508 1d8wA 426 2.47e+01 1de5A c.1.15.2 29394 1j0aA 325 2.48e+01 c.79.1.1 83871 1zckA 154 2.50e+01 1iukA 140 2.52e+01 c.2.1.8 83712 2amxA 376 2.54e+01 2fauA 341 2.54e+01 1nffA 260 2.58e+01 c.2.1.2 80457 1x24A 180 2.60e+01 1sbyA 254 2.61e+01 1r85A 379 2.64e+01 c.1.8.3 104839 1zoyB 252 2.66e+01 1meoA 209 2.71e+01 c.65.1.1 79035 1w1kA 560 2.78e+01 d.58.32.1,d.145.1.1 109059,109060 1qwkA 317 2.85e+01 c.1.7.1 96482 1pwmA 316 2.85e+01 c.1.7.1 95231 2fliA 220 2.85e+01 1hx0A 496 2.87e+01 b.71.1.1,c.1.8.1 61346,61347 1a8e 329 2.89e+01 1cb6A c.94.1.2 35888 1us0A 316 2.90e+01 c.1.7.1 99850 1uh4A 637 2.91e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1vk3A 615 2.92e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 2gokA 429 2.98e+01 1h3nA 878 3.03e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 2cx9A 387 3.07e+01 1ji1A 637 3.08e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 2ex4A 241 3.08e+01 1b16A 254 3.10e+01 1b16A c.2.1.2 29875 2aotA 292 3.13e+01 1puoA 170 3.17e+01 a.101.1.1,a.101.1.1 95134,95135 1ryoA 327 3.20e+01 c.94.1.2 98108 1nxqA 251 3.23e+01 c.2.1.2 86388 1u9cA 224 3.24e+01 1kz7A 353 3.28e+01 a.87.1.1,b.55.1.1 73333,73334 1jmvA 141 3.30e+01 c.26.2.4 66897 1wduA 245 3.31e+01 d.151.1.1 109286 7taa 478 3.32e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1icfI 65 3.36e+01 1icfI g.28.1.1 44958 1rloA 271 3.38e+01 1t8xA 267 3.44e+01 2d29A 387 3.46e+01 2aqjA 538 3.50e+01 1vjgA 218 3.55e+01 c.23.10.6 100810 2ae8A 221 3.57e+01 1vr6A 350 3.58e+01 1b0uA 262 3.58e+01 1b0uA c.37.1.12 32370 1rxdA 159 3.59e+01 1reqB 637 3.64e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 3nul 130 3.65e+01 3nul d.110.1.1 40891 1a4mA 349 3.65e+01 1a4mA c.1.9.1 29014 1avaA 403 3.66e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 2bmaA 470 3.70e+01 1acf 125 3.76e+01 3nul d.110.1.1 40882 1vsd 152 3.76e+01 1cxqA c.55.3.2 33625 1q35A 320 3.78e+01 c.94.1.1 95661 1zk4A 251 3.79e+01 1j96A 323 3.80e+01 c.1.7.1 71616 1ff9A 450 3.84e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1zhaA 267 3.87e+01 1i88A 389 3.89e+01 c.95.1.2,c.95.1.2 66070,66071 2agtA 319 3.90e+01 1ws9A 387 3.93e+01 1xtoA 311 3.94e+01 1yk3A 210 3.97e+01 1nu5A 370 4.03e+01 c.1.11.2,d.54.1.1 92183,92184 1ads 315 4.04e+01 1frb c.1.7.1 28671 1ri5A 298 4.04e+01 c.66.1.34 97502 1zotA 358 4.05e+01 2fbwB 252 4.05e+01 1oivA 191 4.06e+01 c.37.1.8 93076 1fc1A 224 4.06e+01 1igtB b.1.1.2,b.1.1.2 21520,21521 1uehA 253 4.09e+01 c.101.1.1 99259 1vcoA 550 4.11e+01 c.23.16.1,c.37.1.10 108508,108509 1s1pA 331 4.18e+01 c.1.7.1 98350 1l6xA 207 4.20e+01 b.1.1.2,b.1.1.2 73642,73643 2csbA 519 4.21e+01 1s1dA 331 4.23e+01 b.67.3.1 98344 1dxy 333 4.25e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1q92A 197 4.25e+01 c.108.1.8 96250 1jlwA 219 4.31e+01 a.45.1.1,c.47.1.5 71741,71742 1ga3A 113 4.32e+01 1ga3A a.26.1.2 60411 2bw0A 329 4.32e+01 1xriA 151 4.33e+01 1z6oM 191 4.35e+01 1aisB 200 4.38e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1kl7A 514 4.40e+01 c.79.1.1 72678 1umkA 275 4.45e+01 1j4aA 333 4.47e+01 c.2.1.4,c.23.12.1 71502,71503 1qh3A 260 4.50e+01 1qh5A d.157.1.2 42059 1yyqA 374 4.53e+01 1iyeA 309 4.53e+01 e.17.1.1 83786 1b5l 172 4.56e+01 1b5l a.26.1.3 16900 1sg4A 260 4.64e+01 1qhoA 686 4.67e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1mh1 186 4.70e+01 1eesA c.37.1.8 32002 1tx2A 297 4.77e+01 c.1.21.1 107420 1q7zA 566 4.82e+01 c.1.21.2,c.1.26.1 96090,96091 1rkd 309 4.83e+01 1rkd c.72.1.1 34928 1i1kA 309 4.83e+01 1daaA e.17.1.1 61533 2cbiA 594 4.86e+01 1cxqA 162 4.88e+01 1cxqA c.55.3.2 33621 1j6oA 268 4.90e+01 c.1.9.12 77088 1tlfA 301 4.90e+01 1tlfA c.93.1.1 35687 1oygA 447 4.91e+01 b.67.2.2 93726 2aioA 269 4.91e+01 1qusA 322 4.93e+01 1ltm d.2.1.6 36991 2c2hA 192 4.98e+01 1gewA 356 5.02e+01 1gewA c.67.1.1 60470 2fv7A 331 5.02e+01 1eg2A 319 5.03e+01 1eg2A c.66.1.11 34249 1qw9A 502 5.08e+01 b.71.1.2,c.1.8.3 96466,96467 1smlA 269 5.15e+01 1smlA d.157.1.1 42053 2d0iA 333 5.15e+01 2gzqA 200 5.15e+01 2c4wA 176 5.17e+01 1sg6A 393 5.18e+01 e.22.1.1 105522 1jxhA 288 5.18e+01 c.72.1.2 67415 1wmbA 260 5.19e+01 1mswD 883 5.42e+01 e.8.1.3 79427 1io2A 213 5.45e+01 1ekeA c.55.3.1 62612 1qdeA 224 5.45e+01 1qvaA c.37.1.19 32410 2f6kA 307 5.51e+01 1km4A 247 5.51e+01 c.1.2.3 72740 1j5vA 351 5.54e+01 c.72.1.1 71585 1ecfA 504 5.54e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1l2tA 235 5.55e+01 c.37.1.12 73514 1cipA 353 5.57e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1gp6A 356 5.65e+01 b.82.2.1 65441 2a33A 215 5.67e+01 1yqdA 366 5.69e+01 1w5tA 412 5.72e+01 1tikA 213 5.74e+01 c.23.5.3 107003 1zxxA 319 5.81e+01 1hv9A 456 5.84e+01 1fwyA b.81.1.4,c.68.1.5 28060,34518 1te5A 257 5.84e+01 d.153.1.1 106795 1pvgA 418 5.88e+01 d.14.1.3,d.122.1.2 95161,95162 1rw7A 243 5.89e+01 c.23.16.2 97963 2ffuA 501 5.95e+01 1o66A 275 5.96e+01 c.1.12.8 92547 1z3iX 644 6.01e+01 1dqwA 267 6.04e+01 1dqwA c.1.2.3 28551 1uj6A 227 6.05e+01 c.124.1.4,d.58.40.1 107898,107899 1mh9A 197 6.07e+01 c.108.1.8 79118 2gwgA 350 6.11e+01 1duvG 333 6.19e+01 1othA c.78.1.1,c.78.1.1 35228,35229 1d7oA 297 6.27e+01 1enp c.2.1.2 29907 1yfsA 465 6.31e+01 1i7pA 274 6.35e+01 b.43.4.2,c.25.1.1 66048,66049 1x1tA 260 6.35e+01 1bw0A 416 6.37e+01 1bw0A c.67.1.1 34385 1ja9A 274 6.40e+01 c.2.1.2 62817 1e2wA 251 6.41e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1gx1A 160 6.45e+01 d.79.5.1 70675 1vc4A 254 6.46e+01 c.1.2.4 100557 1twyA 290 6.48e+01 1fpzA 212 6.51e+01 1fpzA c.45.1.1 59976 1uwvA 433 6.52e+01 b.40.4.12,c.66.1.40 100128,100129 1bi5A 389 6.54e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1vgwA 231 6.54e+01 c.68.1.13 100612 1enp 312 6.54e+01 1enp c.2.1.2 29906 1fwsA 267 6.62e+01 1d9eA c.1.10.4 60063 1vflA 356 6.65e+01 2gasA 307 6.71e+01 1z63A 500 6.73e+01 1o98A 511 6.73e+01 c.105.1.1,c.76.1.3 86684,86685 1geqA 248 6.74e+01 2tysA c.1.2.4 28589 1ui0A 205 6.79e+01 c.18.1.2 99411 1xkpC 143 6.85e+01 1ydmA 187 6.89e+01 1fyeA 229 6.97e+01 1fyeA c.23.16.4 31477 1yrtA 364 7.00e+01 1i2aA 219 7.03e+01 e.24.1.1 90660 1fsz 372 7.06e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1qo2A 241 7.10e+01 1qo2A c.1.2.1 28533 1aocA 175 7.14e+01 1aocA g.17.1.5 44817 1yruA 364 7.18e+01 1uxjA 309 7.21e+01 c.2.1.5,d.162.1.1 108112,108113 1yacA 208 7.25e+01 1yacA c.33.1.3 31757 1z5hA 780 7.30e+01 2ajgA 196 7.37e+01 2blkA 122 7.42e+01 1cqxA 403 7.43e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1mnaA 298 7.53e+01 c.69.1.22 79322 2ax3A 502 7.63e+01 1qx4A 274 7.63e+01 b.43.4.2,c.25.1.1 104624,104625 2cc0A 195 7.65e+01 1wtyA 119 7.66e+01 1x42A 232 7.72e+01 1eqjA 511 7.72e+01 1ejjA c.105.1.1,c.76.1.3 59495,59496 1yxyA 234 7.86e+01 2c4nA 250 8.04e+01 1p1mA 406 8.06e+01 b.92.1.4,c.1.9.9 87696,87697 1vhqA 232 8.07e+01 c.23.16.2 100696 1ivnA 190 8.17e+01 c.23.10.5 83719 1stzA 338 8.17e+01 a.4.5.51,d.110.2.3 106009,106010 1ypxA 375 8.19e+01 1ogdA 131 8.21e+01 c.133.1.1 92893 2an1A 292 8.23e+01 1nar 290 8.23e+01 1nar c.1.8.5 28988 1jqeA 292 8.28e+01 c.66.1.19 71789 1r13A 148 8.29e+01 d.169.1.1,h.1.1.1 96782,96783 1z5bA 469 8.29e+01 1pe1A 267 8.31e+01 c.1.10.4 94591 1xvaA 292 8.31e+01 1xvaA c.66.1.5 34183 2chnA 716 8.33e+01 1ghpA 258 8.35e+01 1btl e.3.1.1 60520 2c3mA 1231 8.35e+01 2bfxA 284 8.35e+01 1e3jA 352 8.37e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1vybA 238 8.39e+01 d.151.1.1 108897 2citA 282 8.55e+01 1jcxA 267 8.56e+01 c.1.10.4 66510 1c4kA 730 8.57e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31273,34502,41123 1k30A 368 8.63e+01 c.112.1.1 68067 1k4iA 233 8.66e+01 d.115.1.2 72056 1ys1X 320 8.77e+01 1qh5A 260 8.78e+01 1qh5A d.157.1.2 42057 2bikB 313 8.80e+01 1j0hA 588 8.81e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1x0rA 249 8.92e+01 1fo3A 460 8.94e+01 1dl2A a.102.2.1 18845 1iyxA 432 8.95e+01 c.1.11.1,d.54.1.1 83815,83816 1twdA 256 8.95e+01 c.1.30.1 107397 1xwsA 313 8.96e+01 1fkx 349 8.97e+01 1a4mA c.1.9.1 29018