# List of top-scoring protein chains for t06-100-30-bys-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 2.01e-27 1wab c.23.10.3 31340 1ivnA 190 1.03e-25 c.23.10.5 83719 1k7cA 233 9.94e-19 c.23.10.4 68267 1esc 306 1.04e-16 1esc c.23.10.1 31334 1mh1 186 2.86e-04 1eesA c.37.1.8 32002 1bqcA 302 3.59e-04 1bqcA c.1.8.3 28831 1ek6A 348 4.54e-04 1xel c.2.1.2 29800 1m7bA 184 1.05e-03 c.37.1.8 74572 1edt 271 1.32e-03 2ebn c.1.8.5 28993 1c93A 265 1.37e-03 2ebn c.1.8.5 28998 1hdoA 206 1.45e-03 1he2A c.2.1.2 60965 1nf3A 195 1.74e-03 c.37.1.8 85594 1uuqA 440 2.38e-03 c.1.8.3 100015 1ogiA 303 2.53e-03 b.43.4.2,c.25.1.1 92914,92915 1bdb 277 5.07e-03 1bdb c.2.1.2 29874 1r6xA 395 5.41e-03 b.122.1.3,c.26.1.5 97167,97168 1txgA 335 5.70e-03 1fnd 314 5.80e-03 1fnc b.43.4.2,c.25.1.1 25626,31516 1kmqA 184 6.03e-03 c.37.1.8 84412 1bx1A 314 6.29e-03 1fnc b.43.4.2,c.25.1.1 25629,31519 1j3bA 529 7.12e-03 c.91.1.1,c.109.1.1 77071,77072 1bn7A 294 7.92e-03 1bn6A c.69.1.8 34677 1jjfA 268 8.22e-03 c.69.1.2 66765 1cs1A 386 8.55e-03 1ibjA c.67.1.3 34399 1rkd 309 9.65e-03 1rkd c.72.1.1 34928 1ytlA 174 1.03e-02 1ayl 541 1.11e-02 1ayl c.91.1.1,c.109.1.1 64718,64719 1t1gA 364 1.18e-02 c.41.1.2 106246 1qf9A 194 1.18e-02 1zin c.37.1.1 31848 1ad2 228 1.24e-02 1ad2 e.24.1.1 43353 1bykA 255 1.36e-02 1bykA c.93.1.1 35706 1brwA 433 1.57e-02 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1gqiA 708 1.58e-02 c.1.8.10,d.92.2.2 76279,76280 1v7zA 260 1.66e-02 c.125.1.1 100488 1jb9A 316 1.69e-02 1fnc b.43.4.2,c.25.1.1 62840,62841 1pzgA 331 1.86e-02 c.2.1.5,d.162.1.1 95425,95426 1h6dA 433 2.03e-02 c.2.1.3,d.81.1.5 65656,65657 1qv9A 283 2.08e-02 c.127.1.1 96356 1pwxA 254 2.17e-02 c.2.1.2 95262 1y80A 210 2.20e-02 1tmy 120 2.35e-02 1dbwA c.23.1.1 31083 1uwkA 557 2.37e-02 e.51.1.1 108065 1n82A 331 2.75e-02 c.1.8.3 91703 1ihoA 283 2.80e-02 1ihoA c.26.1.4 62390 1t64A 377 2.92e-02 c.42.1.2 106543 1b0uA 262 2.93e-02 1b0uA c.37.1.12 32370 1n2eA 300 2.98e-02 c.26.1.4 85268 1qgdA 662 3.13e-02 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1odzA 386 3.38e-02 c.1.8.3 86889 1m5wA 243 3.39e-02 c.1.24.1 84836 1pyfA 312 3.41e-02 c.1.7.1 95334 1ag9A 175 3.41e-02 1rcf c.23.5.1 31178 1gy8A 397 3.44e-02 c.2.1.2 83376 1t3qB 788 3.58e-02 d.41.1.1,d.133.1.1 106369,106370 1kwgA 645 3.74e-02 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1j93A 353 3.75e-02 c.1.22.1 66454 1t6nA 220 3.89e-02 c.37.1.19 106576 1sb8A 352 3.92e-02 c.2.1.2 105410 1m3uA 264 4.10e-02 c.1.12.8 84784 1yacA 208 4.15e-02 1yacA c.33.1.3 31757 1jndA 420 4.17e-02 c.1.8.5,d.26.3.1 71757,71758 1edg 380 4.30e-02 1edg c.1.8.3 28807 1itxA 419 4.30e-02 c.1.8.5,d.26.3.1 71425,71426 1w6uA 302 4.56e-02 1bw0A 416 4.63e-02 1bw0A c.67.1.1 34385 1oaoA 674 4.64e-02 e.26.1.2 86744 1i6pA 220 4.70e-02 1ddzA c.53.2.1 61848 1qmhA 347 4.84e-02 1qmhA c.47.2.1,d.68.2.1 33082,39568 1m7yA 435 4.91e-02 c.67.1.4 78761 1xq6A 253 5.05e-02 1jq5A 370 5.29e-02 e.22.1.2 67084 1o5kA 306 5.47e-02 c.1.10.1 92504 1vybA 238 5.52e-02 d.151.1.1 108897 1oaa 259 5.68e-02 1oaa c.2.1.2 29829 1rf6A 427 6.01e-02 d.68.2.2 97366 2gqrA 237 6.19e-02 1kfwA 435 6.34e-02 c.1.8.5,d.26.3.1 77376,77377 1kutA 230 6.61e-02 d.143.1.1 73017 1v4vA 376 6.66e-02 c.87.1.3 100313 1lw7A 365 6.67e-02 c.26.1.3,c.37.1.1 74295,74296 1gntA 553 6.67e-02 e.26.1.1 70290 1hjsA 332 6.69e-02 c.1.8.3 83492 1g0cA 364 6.74e-02 7a3hA c.1.8.3 60165 1szoA 257 6.87e-02 c.14.1.3 106164 1eny 268 6.91e-02 1eny c.2.1.2 29910 1hzdA 272 7.00e-02 c.14.1.3 65969 1geqA 248 7.30e-02 2tysA c.1.2.4 28589 1gnlA 544 7.33e-02 e.26.1.1 70287 1hqsA 423 7.38e-02 1iso c.77.1.1 61154 1hl2A 297 7.57e-02 c.1.10.1 83581 1nvmB 312 7.71e-02 c.2.1.3,d.81.1.1 86251,86252 1fecA 490 7.86e-02 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1mi3A 322 7.94e-02 c.1.7.1 91274 1dljA 402 8.12e-02 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1vjpA 394 8.45e-02 c.2.1.3,d.81.1.3 100828,100829 1kao 167 8.83e-02 1ctqA c.37.1.8 32014 1b63A 333 9.01e-02 1b63A d.14.1.3,d.122.1.2 37566,41107 1p1jA 533 9.26e-02 c.2.1.3,d.81.1.3 87687,87688 1n2zA 245 9.33e-02 c.92.2.2 79865 1hkhA 279 9.49e-02 c.69.1.12 90628 1k77A 260 9.56e-02 c.1.15.5 72096 1t2dA 322 9.77e-02 c.2.1.5,d.162.1.1 99084,99085 1ktbA 405 9.94e-02 b.71.1.1,c.1.8.1 72960,72961 1je0A 236 1.01e-01 c.56.2.1 66581 1geeA 261 1.02e-01 c.2.1.2 90509 1uteA 313 1.04e-01 1uteA d.159.1.1 42078 1ny1A 240 1.16e-01 c.6.2.3 86395 1nq6A 302 1.17e-01 c.1.8.3 92046 1ornA 226 1.17e-01 a.96.1.1 87342 1ijbA 202 1.18e-01 c.62.1.1 71229 1php 394 1.18e-01 16pk c.86.1.1 35452 1ug6A 431 1.25e-01 c.1.8.4 88490 1b6g 310 1.25e-01 1b6g c.69.1.8 34661 4uagA 437 1.26e-01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1inlA 296 1.27e-01 c.66.1.17 66220 1i0dA 332 1.28e-01 1pscA c.1.9.3 61487 2gdjA 264 1.29e-01 1nar 290 1.30e-01 1nar c.1.8.5 28988 1spxA 278 1.32e-01 c.2.1.2 98958 7a3hA 303 1.32e-01 7a3hA c.1.8.3 28817 1mldA 314 1.32e-01 2cmd c.2.1.5,d.162.1.1 30122,42089 1ohlA 342 1.32e-01 c.1.10.3 87035 1o7jA 327 1.36e-01 c.88.1.1 81140 1n1bA 549 1.38e-01 a.102.4.1,a.128.1.3 79799,79800 1c7sA 858 1.41e-01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1su8A 636 1.43e-01 e.26.1.2 98999 1ccwB 483 1.49e-01 1cb7B c.1.19.2 29646 1li4A 432 1.55e-01 c.2.1.4,c.23.12.3 84616,84617 1lc5A 364 1.57e-01 c.67.1.1 73827 1h1nA 305 1.59e-01 c.1.8.3 70855 1r0rE 274 1.63e-01 c.41.1.1 96735 1augA 215 1.65e-01 1a2zA c.56.4.1 33798 1xu9A 286 1.74e-01 1jdc 429 1.77e-01 1jdc b.71.1.1,c.1.8.1 27789,28776 1j6oA 268 1.84e-01 c.1.9.12 77088 1lhpA 312 1.87e-01 c.72.1.5 77960 1jflA 228 1.90e-01 c.78.2.1,c.78.2.1 71656,71657 1h09A 338 1.95e-01 b.109.1.1,c.1.8.8 83420,83421 1jeoA 180 1.96e-01 c.80.1.3 66611 1gq6A 313 1.96e-01 c.42.1.1 70341 1ako 268 2.01e-01 1ako d.151.1.1 41779 1fc4A 401 2.02e-01 1bs0A c.67.1.4 59760 1uuyA 167 2.03e-01 c.57.1.1 108059 1a7tA 232 2.06e-01 1a7tA d.157.1.1 42041 1nhs 447 2.09e-01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1j0dA 341 2.10e-01 c.79.1.1 83902 1bg6 359 2.12e-01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1cfzA 162 2.12e-01 1cfzA c.56.1.1 33754 1i1qA 520 2.13e-01 1qdlA d.161.1.1 61543 1c9kA 180 2.14e-01 1c9kB c.37.1.11 32363 1reqB 637 2.16e-01 1reqB c.1.19.1,c.23.6.1 29621,31248 1rypK 198 2.25e-01 d.153.1.4 41879 1m6yA 301 2.31e-01 a.60.13.1,c.66.1.23 78716,78717 1cs0A 1073 2.32e-01 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 1kkoA 413 2.33e-01 c.1.11.2,d.54.1.1 68675,68676 1g0oA 283 2.33e-01 1ybvA c.2.1.2 60181 1e4iA 447 2.37e-01 1e70M c.1.8.4 59225 1ta9A 450 2.40e-01 1jihA 531 2.43e-01 d.240.1.1,e.8.1.7 90374,90375 1e0tA 470 2.46e-01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 2cdnA 201 2.52e-01 1h8eD 482 2.54e-01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1pswA 348 2.58e-01 c.87.1.7 88287 1usgA 346 2.59e-01 c.93.1.1 99864 1t6t1 118 2.60e-01 1ff9A 450 2.61e-01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1khtA 192 2.62e-01 c.37.1.1 84401 1qwnA 1045 2.63e-01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1a9xA 1058 2.65e-01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1nnsA 326 2.67e-01 c.88.1.1 85910 1heiA 451 2.69e-01 1heiA c.37.1.14,c.37.1.14 32463,32464 1fm0E 150 2.69e-01 1fmaE d.41.5.1 38629 1lc0A 294 2.70e-01 c.2.1.3,d.81.1.4 73823,73824 1b5pA 385 2.71e-01 c.67.1.1 90403 1j0hA 588 2.73e-01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1f7uA 607 2.76e-01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1kq3A 376 2.76e-01 e.22.1.2 68790 1o58A 303 2.79e-01 c.79.1.1 92491 1n4wA 504 2.79e-01 c.3.1.2,d.16.1.1 91676,91677 1luaA 287 2.86e-01 c.2.1.7,c.58.1.4 78216,78217 1s8nA 205 2.88e-01 c.23.1.1 105374 1r85A 379 2.90e-01 c.1.8.3 104839 1j6rA 214 2.92e-01 d.173.1.2 71598 1eq2A 310 2.95e-01 1eq2A c.2.1.2 29814 1r62A 160 3.05e-01 d.122.1.3 104816 1h65A 270 3.05e-01 c.37.1.8 65640 1l6sA 323 3.08e-01 c.1.10.3 73627 1qf5A 431 3.10e-01 1adeA c.37.1.10 32212 1p2xA 159 3.13e-01 a.40.1.1 104062 1k8kA 418 3.21e-01 c.55.1.1,c.55.1.1 68305,68306 1ceo 343 3.23e-01 1ceo c.1.8.3 28808 1h3gA 601 3.24e-01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1f0kA 364 3.32e-01 1f0kA c.87.1.2 35465 1mjfA 281 3.32e-01 c.66.1.17 79198 1rjdA 334 3.39e-01 c.66.1.37 97558 1sznA 417 3.47e-01 b.71.1.1,c.1.8.1 106162,106163 1ta3B 303 3.51e-01 c.1.8.3 106732 1lqtA 456 3.52e-01 c.3.1.1,c.4.1.1 74198,74199 1lj8A 493 3.53e-01 a.100.1.9,c.2.1.6 90392,90393 1gmlA 178 3.55e-01 c.8.5.2 70273 1rqbA 539 3.56e-01 a.5.7.2,c.1.10.5 105057,105058 1ei6A 406 3.62e-01 c.76.1.4 90443 1c7gA 456 3.65e-01 c.67.1.2 90415 1cnzA 363 3.71e-01 1cnzA c.77.1.1 35061 1o4vA 183 3.71e-01 c.23.8.1 86628 1gpuA 680 3.82e-01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1m22A 503 3.82e-01 c.117.1.1 78464 1toaA 313 3.85e-01 1toaA c.92.2.2 35598 1v77A 212 3.85e-01 c.6.3.2 108402 1kblA 873 3.86e-01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1izcA 339 3.90e-01 c.1.12.5 83838 1t3iA 420 3.92e-01 c.67.1.3 106354 1tqjA 230 3.94e-01 c.1.2.2 107228 1kqpA 271 3.94e-01 c.26.2.1 72883 1ekqA 272 3.96e-01 1c3qA c.72.1.2 34941 1ja1A 622 4.08e-01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1qysA 106 4.11e-01 k.41.1.1 96603 1yn9A 169 4.11e-01 1chmA 401 4.13e-01 1chmA c.55.2.1,d.127.1.1 33545,41142 1m2oA 768 4.25e-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 1s96A 219 4.25e-01 c.37.1.1 98740 1q1rA 431 4.25e-01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1j31A 262 4.30e-01 d.160.1.2 90808 1h1yA 228 4.30e-01 c.1.2.2 76506 1eceA 358 4.34e-01 1eceA c.1.8.3 28813 1gwiA 411 4.35e-01 a.104.1.1 76364 1rtqA 299 4.46e-01 c.56.5.4 97819 1czaN 917 4.54e-01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1lt8A 406 4.57e-01 c.1.26.1 78186 1rk6A 496 4.57e-01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 1pg4A 652 4.58e-01 e.23.1.1 88067 1l1eA 287 4.64e-01 c.66.1.18 73454 1aop 497 4.65e-01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1ddgA 374 4.68e-01 1amoA b.43.4.1,c.25.1.4 25671,31559 1f74A 293 4.69e-01 1nal3 c.1.10.1 29079 1o97C 264 4.69e-01 c.26.2.3 81232 1m6iA 493 4.83e-01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1b7yB 785 4.88e-01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1tkeA 224 4.91e-01 1sffA 426 4.91e-01 c.67.1.4 105482 1n2sA 299 4.97e-01 c.2.1.2 79857 1o4sA 389 4.99e-01 c.67.1.1 86620 1ki9A 192 5.06e-01 c.37.1.1 84404 1s2dA 167 5.16e-01 c.23.14.1 98377 1in6A 334 5.20e-01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1gteA 1025 5.23e-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 1q7zA 566 5.46e-01 c.1.21.2,c.1.26.1 96090,96091 1jubA 311 5.46e-01 c.1.4.1 90908 1gg4A 452 5.51e-01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1gcyA 527 5.54e-01 1jdc b.71.1.1,c.1.8.1 27788,28775 1oc2A 348 5.56e-01 c.2.1.2 92765 1rq2A 382 5.57e-01 c.32.1.1,d.79.2.1 105048,105049 2ck3D 482 5.66e-01 1b8oA 284 5.71e-01 1b8oA c.56.2.1 33762 1dqzA 280 5.72e-01 1dqyA c.69.1.3 34638 1r5yA 386 5.72e-01 c.1.20.1 97134 1wcv1 257 5.74e-01 1srrA 124 5.91e-01 1dz3A c.23.1.1 31110 1eswA 500 5.95e-01 1cwyA c.1.8.1 59500 1bif 469 5.96e-01 1bif c.37.1.7,c.60.1.4 31961,34003 1mtzA 293 5.97e-01 c.69.1.7 79467 1fmjA 351 5.98e-01 c.37.1.5 59879 1xg5A 279 6.07e-01 1hrkA 359 6.08e-01 1hrkA c.92.1.1 61228 1xfiA 367 6.08e-01 e.50.1.1 109584 1qhtA 775 6.55e-01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1qz9A 416 6.58e-01 c.67.1.3 96621 1rkbA 173 6.61e-01 1ihuA 589 6.72e-01 c.37.1.10,c.37.1.10 62394,62395 1sbyA 254 6.78e-01 1in4A 334 6.78e-01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1ojrA 274 6.91e-01 c.74.1.1 93147 1k0iA 394 6.97e-01 c.3.1.2,d.16.1.2 67942,67943 1dtdA 303 7.01e-01 1aye c.56.5.1 33823 1vkpA 383 7.18e-01 d.126.1.6 108686 1m1nB 522 7.21e-01 c.92.2.3 78418 1aa6 715 7.25e-01 2napA b.52.2.2,c.81.1.1 26916,35324 1e6uA 321 7.33e-01 1bsvA c.2.1.2 29805 1a0cA 438 7.35e-01 1a0cA c.1.15.3 29529 1ad1A 266 7.38e-01 1aj2 c.1.21.1 29668 1to2E 281 7.42e-01 1vmeA 410 7.45e-01 c.23.5.1,d.157.1.3 108893,108894 1y0yA 353 7.48e-01 1efvB 255 7.59e-01 1efvB c.26.2.3 31634 1cvl 319 7.65e-01 1cvl c.69.1.18 34786 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