# List of top-scoring protein chains for t06-100-30-alpha-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 1es9A 232 1.37e-21 1wab c.23.10.3 31340 1ivnA 190 5.18e-20 c.23.10.5 83719 1k7cA 233 1.27e-14 c.23.10.4 68267 1esc 306 1.70e-12 1esc c.23.10.1 31334 1ek6A 348 2.86e-03 1xel c.2.1.2 29800 1bn7A 294 4.67e-03 1bn6A c.69.1.8 34677 1mh1 186 6.16e-03 1eesA c.37.1.8 32002 1hdoA 206 6.16e-03 1he2A c.2.1.2 60965 1dljA 402 6.17e-03 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1bqcA 302 6.67e-03 1bqcA c.1.8.3 28831 1m7bA 184 7.58e-03 c.37.1.8 74572 1ytlA 174 8.39e-03 1j3bA 529 9.09e-03 c.91.1.1,c.109.1.1 77071,77072 1nvmB 312 1.14e-02 c.2.1.3,d.81.1.1 86251,86252 1bdb 277 1.23e-02 1bdb c.2.1.2 29874 1hl2A 297 1.25e-02 c.1.10.1 83581 1nf3A 195 1.54e-02 c.37.1.8 85594 1xu9A 286 1.64e-02 1ayl 541 1.99e-02 1ayl c.91.1.1,c.109.1.1 64718,64719 1cs1A 386 2.08e-02 1ibjA c.67.1.3 34399 1sbyA 254 2.40e-02 1ad2 228 2.41e-02 1ad2 e.24.1.1 43353 1i1qA 520 2.67e-02 1qdlA d.161.1.1 61543 1n2zA 245 2.68e-02 c.92.2.2 79865 1n82A 331 2.77e-02 c.1.8.3 91703 1nnsA 326 3.36e-02 c.88.1.1 85910 1v7zA 260 3.45e-02 c.125.1.1 100488 1e8gA 560 3.47e-02 1qltA d.58.32.1,d.145.1.1 39455,41718 1uuqA 440 3.48e-02 c.1.8.3 100015 1eny 268 3.51e-02 1eny c.2.1.2 29910 1rkd 309 3.59e-02 1rkd c.72.1.1 34928 2gqrA 237 3.61e-02 1pzgA 331 4.04e-02 c.2.1.5,d.162.1.1 95425,95426 1qf9A 194 4.13e-02 1zin c.37.1.1 31848 1chmA 401 4.56e-02 1chmA c.55.2.1,d.127.1.1 33545,41142 1kmqA 184 4.71e-02 c.37.1.8 84412 1fecA 490 4.83e-02 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1qgdA 662 4.94e-02 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1g0cA 364 5.04e-02 7a3hA c.1.8.3 60165 1t1gA 364 5.21e-02 c.41.1.2 106246 1t64A 377 5.31e-02 c.42.1.2 106543 1mjfA 281 5.36e-02 c.66.1.17 79198 1kwgA 645 5.52e-02 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1tmy 120 5.71e-02 1dbwA c.23.1.1 31083 1j0hA 588 5.77e-02 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1r6xA 395 5.77e-02 b.122.1.3,c.26.1.5 97167,97168 1mldA 314 6.06e-02 2cmd c.2.1.5,d.162.1.1 30122,42089 1jeoA 180 6.54e-02 c.80.1.3 66611 1t3qB 788 6.74e-02 d.41.1.1,d.133.1.1 106369,106370 1brwA 433 6.80e-02 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1w6uA 302 7.01e-02 1h65A 270 7.40e-02 c.37.1.8 65640 1q1rA 431 8.02e-02 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1qv9A 283 8.62e-02 c.127.1.1 96356 1edt 271 8.73e-02 2ebn c.1.8.5 28993 1ogiA 303 8.80e-02 b.43.4.2,c.25.1.1 92914,92915 1vjpA 394 8.85e-02 c.2.1.3,d.81.1.3 100828,100829 1b5pA 385 8.95e-02 c.67.1.1 90403 1m3uA 264 9.01e-02 c.1.12.8 84784 1c93A 265 9.02e-02 2ebn c.1.8.5 28998 1o7jA 327 9.12e-02 c.88.1.1 81140 1hqsA 423 9.73e-02 1iso c.77.1.1 61154 1gqiA 708 1.03e-01 c.1.8.10,d.92.2.2 76279,76280 1jjfA 268 1.04e-01 c.69.1.2 66765 1gq6A 313 1.10e-01 c.42.1.1 70341 1rypK 198 1.12e-01 d.153.1.4 41879 1lw7A 365 1.13e-01 c.26.1.3,c.37.1.1 74295,74296 1lhpA 312 1.14e-01 c.72.1.5 77960 1ako 268 1.14e-01 1ako d.151.1.1 41779 1jb9A 316 1.18e-01 1fnc b.43.4.2,c.25.1.1 62840,62841 1vbiA 344 1.19e-01 1uteA 313 1.21e-01 1uteA d.159.1.1 42078 1m7yA 435 1.25e-01 c.67.1.4 78761 1e19A 314 1.30e-01 1b7bA c.73.1.1 34967 1obbA 480 1.34e-01 c.2.1.5,d.162.1.2 86760,86761 1q1aA 289 1.40e-01 c.31.1.5 95561 1oaa 259 1.42e-01 1oaa c.2.1.2 29829 1odzA 386 1.43e-01 c.1.8.3 86889 1ktbA 405 1.52e-01 b.71.1.1,c.1.8.1 72960,72961 1qwnA 1045 1.53e-01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1kutA 230 1.58e-01 d.143.1.1 73017 1n2eA 300 1.59e-01 c.26.1.4 85268 1pwxA 254 1.64e-01 c.2.1.2 95262 1ppjA 446 1.73e-01 d.185.1.1,d.185.1.1 104252,104253 1itxA 419 1.76e-01 c.1.8.5,d.26.3.1 71425,71426 1geeA 261 1.79e-01 c.2.1.2 90509 1ars 396 1.81e-01 1ajsA c.67.1.1 34287 1ddgA 374 1.83e-01 1amoA b.43.4.1,c.25.1.4 25671,31559 1txgA 335 1.83e-01 1ornA 226 1.88e-01 a.96.1.1 87342 1o5kA 306 1.89e-01 c.1.10.1 92504 1rq2A 382 1.98e-01 c.32.1.1,d.79.2.1 105048,105049 1v4vA 376 2.05e-01 c.87.1.3 100313 1t2dA 322 2.15e-01 c.2.1.5,d.162.1.1 99084,99085 1rk6A 496 2.16e-01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 1b0uA 262 2.17e-01 1b0uA c.37.1.12 32370 1edqA 540 2.28e-01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1v77A 212 2.32e-01 c.6.3.2 108402 1ny1A 240 2.37e-01 c.6.2.3 86395 1mtzA 293 2.46e-01 c.69.1.7 79467 1ta9A 450 2.47e-01 1h3gA 601 2.47e-01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1reqB 637 2.53e-01 1reqB c.1.19.1,c.23.6.1 29621,31248 1nlfA 279 2.55e-01 c.37.1.11 85850 1ve1A 304 2.56e-01 1ceo 343 2.58e-01 1ceo c.1.8.3 28808 1o58A 303 2.72e-01 c.79.1.1 92491 1srrA 124 2.76e-01 1dz3A c.23.1.1 31110 1spxA 278 2.84e-01 c.2.1.2 98958 1eq2A 310 2.88e-01 1eq2A c.2.1.2 29814 1yn9A 169 2.88e-01 1bx1A 314 3.01e-01 1fnc b.43.4.2,c.25.1.1 25629,31519 1tjyA 316 3.01e-01 c.93.1.1 107062 1knwA 425 3.07e-01 b.49.2.3,c.1.6.1 90969,90970 1oaoA 674 3.08e-01 e.26.1.2 86744 1k77A 260 3.16e-01 c.1.15.5 72096 1bouB 302 3.23e-01 1bouB c.56.6.1 33859 1j93A 353 3.23e-01 c.1.22.1 66454 1uuyA 167 3.23e-01 c.57.1.1 108059 1c7sA 858 3.26e-01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1eceA 358 3.29e-01 1eceA c.1.8.3 28813 1hl9A 449 3.32e-01 b.71.1.3,c.1.8.11 90650,90651 1cfzA 162 3.38e-01 1cfzA c.56.1.1 33754 1g0oA 283 3.39e-01 1ybvA c.2.1.2 60181 1jndA 420 3.45e-01 c.1.8.5,d.26.3.1 71757,71758 1augA 215 3.47e-01 1a2zA c.56.4.1 33798 1m2oA 768 3.51e-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 1ajsA 412 3.53e-01 1ajsA c.67.1.1 34276 1i0dA 332 3.60e-01 1pscA c.1.9.3 61487 1php 394 3.64e-01 16pk c.86.1.1 35452 1nq6A 302 3.75e-01 c.1.8.3 92046 1mml 265 3.84e-01 1mml e.8.1.2 43015 1qnrA 344 3.93e-01 1qnoA c.1.8.3 28834 1gpuA 680 3.99e-01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1gg4A 452 4.04e-01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1gy8A 397 4.12e-01 c.2.1.2 83376 1p1mA 406 4.23e-01 b.92.1.4,c.1.9.9 87696,87697 1ag9A 175 4.26e-01 1rcf c.23.5.1 31178 1ewkA 490 4.29e-01 1ewkA c.93.1.1 35712 1r62A 160 4.34e-01 d.122.1.3 104816 1vybA 238 4.42e-01 d.151.1.1 108897 1luaA 287 4.43e-01 c.2.1.7,c.58.1.4 78216,78217 1h1nA 305 4.49e-01 c.1.8.3 70855 1cex 214 4.53e-01 1cex c.69.1.30 31285 1yacA 208 4.55e-01 1yacA c.33.1.3 31757 1m6eX 359 4.61e-01 c.66.1.35 91188 1sb8A 352 4.70e-01 c.2.1.2 105410 1kq3A 376 4.73e-01 e.22.1.2 68790 1bw0A 416 4.80e-01 1bw0A c.67.1.1 34385 1fnd 314 4.81e-01 1fnc b.43.4.2,c.25.1.1 25626,31516 1bdmA 327 4.93e-01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1h1yA 228 4.94e-01 c.1.2.2 76506 1l1eA 287 4.94e-01 c.66.1.18 73454 1jubA 311 5.01e-01 c.1.4.1 90908 1jq5A 370 5.06e-01 e.22.1.2 67084 1ijbA 202 5.06e-01 c.62.1.1 71229 1hrkA 359 5.12e-01 1hrkA c.92.1.1 61228 1a7tA 232 5.22e-01 1a7tA d.157.1.1 42041 1e0tA 470 5.25e-01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1t5bA 201 5.39e-01 c.23.5.3 106433 1h3fA 432 5.42e-01 c.26.1.1,d.66.1.4 76631,76632 1h6dA 433 5.43e-01 c.2.1.3,d.81.1.5 65656,65657 1j24A 143 5.43e-01 c.52.1.20 84008 1n2sA 299 5.50e-01 c.2.1.2 79857 1fobA 334 5.54e-01 c.1.8.3 83255 1gteA 1025 5.55e-01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1f74A 293 5.65e-01 1nal3 c.1.10.1 29079 1hkhA 279 5.74e-01 c.69.1.12 90628 1rjdA 334 5.80e-01 c.66.1.37 97558 1ta3B 303 5.82e-01 c.1.8.3 106732 1kfwA 435 5.92e-01 c.1.8.5,d.26.3.1 77376,77377 1a0cA 438 6.04e-01 1a0cA c.1.15.3 29529 1r85A 379 6.09e-01 c.1.8.3 104839 1m5wA 243 6.10e-01 c.1.24.1 84836 1fh9A 312 6.17e-01 1taxA c.1.8.3 28913 1kcfA 258 6.27e-01 a.140.2.1,c.55.3.7 68434,68435 1n1bA 549 6.29e-01 a.102.4.1,a.128.1.3 79799,79800 1cnzA 363 6.29e-01 1cnzA c.77.1.1 35061 1qw9A 502 6.30e-01 b.71.1.2,c.1.8.3 96466,96467 1t9hA 307 6.32e-01 1usgA 346 6.33e-01 c.93.1.1 99864 1jihA 531 6.40e-01 d.240.1.1,e.8.1.7 90374,90375 1q7zA 566 6.40e-01 c.1.21.2,c.1.26.1 96090,96091 1jx6A 342 6.41e-01 c.93.1.1 67406 1toaA 313 6.44e-01 1toaA c.92.2.2 35598 1j0dA 341 6.71e-01 c.79.1.1 83902 1hzdA 272 6.80e-01 c.14.1.3 65969 1t6nA 220 6.81e-01 c.37.1.19 106576 1fc4A 401 6.85e-01 1bs0A c.67.1.4 59760 1y80A 210 6.88e-01 1qz9A 416 6.91e-01 c.67.1.3 96621 1qj4A 257 7.03e-01 1qj4A c.69.1.20 34796 1p3dA 475 7.09e-01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1inlA 296 7.09e-01 c.66.1.17 66220 1cvl 319 7.14e-01 1cvl c.69.1.18 34786 1h2bA 359 7.20e-01 b.35.1.2,c.2.1.1 90543,90544 1jflA 228 7.34e-01 c.78.2.1,c.78.2.1 71656,71657 2gdjA 264 7.36e-01 1t3iA 420 7.36e-01 c.67.1.3 106354 1uwkA 557 7.39e-01 e.51.1.1 108065 1pg4A 652 7.47e-01 e.23.1.1 88067 1li4A 432 7.58e-01 c.2.1.4,c.23.12.3 84616,84617 1m1nB 522 7.59e-01 c.92.2.3 78418 1g66A 207 7.65e-01 1bs9 c.69.1.30 31329 1oapA 109 7.78e-01 d.79.7.1 92706 1pyfA 312 7.92e-01 c.1.7.1 95334 1r0rE 274 7.94e-01 c.41.1.1 96735 1wvfA 520 7.99e-01 1ed8A 449 8.01e-01 1b8jA c.76.1.1 34988 1pswA 348 8.03e-01 c.87.1.7 88287 1nf9A 207 8.10e-01 c.33.1.3 85631 1hjsA 332 8.11e-01 c.1.8.3 83492 1iruK 201 8.30e-01 d.153.1.4 71362 1edg 380 8.39e-01 1edg c.1.8.3 28807 1s96A 219 8.42e-01 c.37.1.1 98740 1eiwA 111 8.47e-01 1eiwA c.23.3.1 31130 1mucA 373 8.50e-01 1mucA c.1.11.2,d.54.1.1 29236,38880 1bykA 255 8.52e-01 1bykA c.93.1.1 35706 1sffA 426 8.53e-01 c.67.1.4 105482 1c9kA 180 8.58e-01 1c9kB c.37.1.11 32363 2cfuA 658 8.64e-01 1pq4A 291 8.84e-01 c.92.2.2 94995 1tib 269 8.88e-01 3tgl c.69.1.17 34738 1pea 385 8.88e-01 1pea c.93.1.1 35662 1puiA 210 9.01e-01 c.37.1.8 88292 1geqA 248 9.07e-01 2tysA c.1.2.4 28589 1vmeA 410 9.11e-01 c.23.5.1,d.157.1.3 108893,108894 1ccwB 483 9.13e-01 1cb7B c.1.19.2 29646 1iy8A 267 9.14e-01 c.2.1.2 83774 1nffA 260 9.17e-01 c.2.1.2 80457 1kewA 361 9.30e-01 c.2.1.2 68544 2d69A 430 9.42e-01 1rypG 244 9.52e-01 d.153.1.4 41938 1qh8A 478 9.53e-01 1qguA c.92.2.3 35633 1ftrA 296 9.53e-01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1szoA 257 9.62e-01 c.14.1.3 106164 1i6pA 220 9.75e-01 1ddzA c.53.2.1 61848 1fcqA 350 9.75e-01 c.1.8.9 65006 1rf6A 427 9.92e-01 d.68.2.2 97366 1rqbA 539 1.02e+00 a.5.7.2,c.1.10.5 105057,105058 1f0kA 364 1.02e+00 1f0kA c.87.1.2 35465 1ep3A 311 1.04e+00 2dorA c.1.4.1 28597 1tqhA 247 1.06e+00 c.69.1.29 107225 1iirA 415 1.06e+00 1iirA c.87.1.5 62453 1g8lA 411 1.10e+00 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1r3dA 264 1.11e+00 1r6fA 310 1.11e+00 e.46.1.1 97149 1nhs 447 1.11e+00 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1s8nA 205 1.15e+00 c.23.1.1 105374 1nn5A 215 1.15e+00 c.37.1.1 85892 1oc2A 348 1.16e+00 c.2.1.2 92765 1dpgA 485 1.16e+00 1dpgA c.2.1.3,d.81.1.5 30074,39989 1k0fA 277 1.18e+00 c.92.2.2 71974 1j5pA 253 1.19e+00 d.81.1.3,c.2.1.3 71577,83092 1jwqA 179 1.19e+00 c.56.5.6 90921 1ohlA 342 1.19e+00 c.1.10.3 87035 1ecfA 504 1.20e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1k0eA 453 1.20e+00 d.161.1.1 67938 1k07A 263 1.22e+00 d.157.1.1 77218 1mvoA 136 1.23e+00 c.23.1.1 79513 1gky 187 1.25e+00 1gky c.37.1.1 31839 2cdnA 201 1.26e+00 1o4sA 389 1.26e+00 c.67.1.1 86620 1duvG 333 1.26e+00 1othA c.78.1.1,c.78.1.1 35228,35229 1cs0A 1073 1.27e+00 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1ug6A 431 1.30e+00 c.1.8.4 88490 1jnyA 435 1.30e+00 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1rkbA 173 1.32e+00 1kao 167 1.32e+00 1ctqA c.37.1.8 32014 1lv7A 257 1.34e+00 c.37.1.20 78232 1o0sA 605 1.34e+00 c.2.1.7,c.58.1.3 86540,86541 1t13A 158 1.35e+00 1tkeA 224 1.36e+00 1kblA 873 1.36e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1vhh 162 1.38e+00 1vhh d.65.1.2 39550 1h8eD 482 1.39e+00 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1eu8A 409 1.41e+00 1eu8A c.94.1.1 59502 1qysA 106 1.42e+00 k.41.1.1 96603 1p1jA 533 1.42e+00 c.2.1.3,d.81.1.3 87687,87688 1jx4A 352 1.43e+00 d.240.1.1,e.8.1.7 90378,90379 1f7uA 607 1.43e+00 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1wd3A 482 1.44e+00 b.29.1.21,b.42.8.1 109233,109234 1qjcA 158 1.44e+00 1b6tA c.26.1.3 63328 1ej0A 180 1.45e+00 1ej0A c.66.1.2 34179 4uagA 437 1.48e+00 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1bg4 302 1.49e+00 1taxA c.1.8.3 28806 1fm0E 150 1.49e+00 1fmaE d.41.5.1 38629 1g8sA 230 1.50e+00 c.66.1.3 90507 1l6sA 323 1.51e+00 c.1.10.3 73627 1qmhA 347 1.52e+00 1qmhA c.47.2.1,d.68.2.1 33082,39568 1ekqA 272 1.54e+00 1c3qA c.72.1.2 34941 1a4iA 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