# List of top-scoring protein chains for t06-100-30-n_notor2-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 2f22A 144 2.93e-04 1rxqA 178 4.96e-02 a.213.1.1 105118 2bryA 497 1.50e+00 2a74A 643 1.59e+00 1mdbA 539 2.69e+00 e.23.1.1 79008 1jb7A 495 3.12e+00 1otcA b.40.4.3,b.40.4.3,b.40.4.3 62836,62837,62838 1w6kA 732 4.95e+00 1bif 469 5.30e+00 1bif c.37.1.7,c.60.1.4 31961,34003 1ixh 321 5.96e+00 1ixh c.94.1.1 35761 1n82A 331 6.41e+00 c.1.8.3 91703 1u9iA 519 6.75e+00 1ci9A 392 6.85e+00 e.3.1.1 64767 1cb8A 678 6.93e+00 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1t7lA 766 7.38e+00 2fug1 438 7.49e+00 4tmkA 213 7.53e+00 5tmpA c.37.1.1 31930 1goiA 499 8.15e+00 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1ux5A 411 8.21e+00 a.207.1.1 100144 1eu1A 780 8.94e+00 1dmr b.52.2.2,c.81.1.1 26903,35311 1p9bA 442 9.03e+00 c.37.1.10 94385 1u4bA 580 9.15e+00 c.55.3.5,e.8.1.1 107664,107665 2cqsA 842 1.01e+01 2b81A 323 1.02e+01 1v4aA 440 1.02e+01 a.24.16.4,d.218.1.9 108350,108351 2essA 248 1.02e+01 1pguA 615 1.05e+01 b.69.4.1,b.69.4.1 88069,88070 1n35A 1267 1.06e+01 e.8.1.4 79935 1n2aA 201 1.07e+01 a.45.1.1,c.47.1.5 91553,91554 1p80A 753 1.10e+01 c.23.16.3,e.5.1.1 94337,94338 1gy8A 397 1.11e+01 c.2.1.2 83376 1muwA 386 1.15e+01 c.1.15.3 79495 1jvbA 347 1.26e+01 b.35.1.2,c.2.1.1 77181,77182 1mxgA 435 1.42e+01 b.71.1.1,c.1.8.1 85193,85194 1vi0A 206 1.43e+01 a.4.1.9,a.121.1.1 100720,100721 1upaA 573 1.45e+01 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 1kqpA 271 1.50e+01 c.26.2.1 72883 1gesA 450 1.51e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1ejxC 567 1.55e+01 b.92.1.1,c.1.9.2 83184,83185 1oywA 523 1.57e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1l5oA 356 1.58e+01 c.39.1.1 77711 1ovlA 271 1.64e+01 a.123.1.1 87455 1y8qA 346 1.65e+01 1d2nA 272 1.66e+01 1d2nA c.37.1.20 32428 1y9aA 360 1.67e+01 1y42X 392 1.71e+01 1reqB 637 1.71e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 2napA 723 1.72e+01 2napA b.52.2.2,c.81.1.1 26926,35334 2bcgG 453 1.73e+01 1wcgA 464 1.75e+01 1ia6A 441 1.81e+01 a.102.1.2 76738 1yyaA 250 1.87e+01 1jihA 531 1.92e+01 d.240.1.1,e.8.1.7 90374,90375 1p1xA 260 1.94e+01 c.1.10.1 104060 2btvA 901 1.97e+01 2btvA e.28.1.1 43376 1j5xA 342 2.02e+01 c.80.1.1 71591 1k8kC 372 2.13e+01 b.69.4.1 68308 1t7rA 269 2.14e+01 a.123.1.1 106635 1lj8A 493 2.15e+01 a.100.1.9,c.2.1.6 90392,90393 1t1uA 639 2.18e+01 1t5oA 351 2.23e+01 c.124.1.5 106459 1ojrA 274 2.24e+01 c.74.1.1 93147 3gcb 470 2.33e+01 3gcb d.3.1.1 37032 2c3mA 1231 2.37e+01 1ht6A 405 2.38e+01 b.71.1.1,c.1.8.1 83629,83630 1j7xA 302 2.39e+01 c.14.1.2 66425 2bcjB 340 2.40e+01 1cnv 299 2.44e+01 1cnv c.1.8.5 28989 2fdsA 352 2.46e+01 1el5A 389 2.52e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1pa2A 306 2.59e+01 1bgp a.93.1.1 18693 1nni1 174 2.59e+01 1q74A 303 2.62e+01 c.134.1.1 96019 1s58A 554 2.64e+01 b.121.5.2 105262 1nthA 458 2.69e+01 c.1.25.1 80730 1b79A 119 2.69e+01 1b79A a.81.1.1 18451 1pfvA 551 2.69e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1l1lA 739 2.70e+01 c.7.1.4 73470 1n2sA 299 2.72e+01 c.2.1.2 79857 1pieA 419 2.75e+01 d.14.1.5,d.58.26.7 94706,94707 1wyuB 474 2.79e+01 1gwuA 309 2.85e+01 a.93.1.1 83351 1hq0A 295 2.91e+01 1hzgA d.194.1.1 61122 1wy5A 317 2.94e+01 1v5eA 590 2.95e+01 1zzgA 415 3.01e+01 1m15A 357 3.05e+01 a.83.1.1,d.128.1.2 78368,78369 2bogX 286 3.07e+01 2fokA 579 3.07e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1h4pA 408 3.08e+01 c.1.8.3 90617 1ed8A 449 3.08e+01 1b8jA c.76.1.1 34988 1w9hA 427 3.09e+01 1l3iA 192 3.10e+01 c.66.1.22 77676 1orvA 728 3.10e+01 b.70.3.1,c.69.1.24 87354,87355 1jdc 429 3.10e+01 1jdc b.71.1.1,c.1.8.1 27789,28776 1xf1A 926 3.14e+01 2fv1A 377 3.18e+01 2b5eA 504 3.19e+01 1ex0A 731 3.24e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1aj2 282 3.28e+01 1aj2 c.1.21.1 29665 1qw9A 502 3.29e+01 b.71.1.2,c.1.8.3 96466,96467 2bkxA 242 3.29e+01 2g8mA 264 3.31e+01 1qf5A 431 3.34e+01 1adeA c.37.1.10 32212 2fm9A 215 3.34e+01 1p3dA 475 3.34e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2bh4X 134 3.40e+01 1gpjA 404 3.40e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1a6cA 513 3.41e+01 1a6cA b.121.4.2,b.121.4.2,b.121.4.2 23296,23297,23298 2gviA 204 3.41e+01 1vjxA 157 3.41e+01 a.25.1.1 100837 1x7dA 350 3.43e+01 2c6cA 707 3.46e+01 1nw1A 429 3.48e+01 d.144.1.8 86286 1j8fA 323 3.49e+01 1j8fA c.31.1.5 62738 1ys4A 354 3.55e+01 1w7lA 422 3.57e+01 c.67.1.1 109226 2bwrA 401 3.59e+01 1lucB 324 3.62e+01 1lucA c.1.16.1 29548 1wzlA 585 3.67e+01 1u24A 337 3.67e+01 1jv1A 505 3.67e+01 c.68.1.5 71892 2f3yA 148 3.68e+01 1sw5B 275 3.75e+01 c.94.1.1 106070 1x38A 602 3.75e+01 3tmkA 216 3.75e+01 3tmkA c.37.1.1 31920 1hs6A 611 3.77e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1qtwA 285 3.81e+01 1qumA c.1.15.1 29392 2bw3A 534 3.82e+01 1ceo 343 3.83e+01 1ceo c.1.8.3 28808 2g7sA 194 3.85e+01 1sziA 247 3.86e+01 a.24.23.1 106159 1bf2 750 3.89e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1qtqA 553 3.90e+01 1gtrA b.53.1.2,c.26.1.1 26940,31579 1vr5A 547 3.90e+01 1qb2A 109 3.91e+01 1qb2A a.36.1.1 17125 1arb 268 3.92e+01 1arb b.47.1.1 25766 1uzbA 516 4.06e+01 c.82.1.1 100220 1rhs 296 4.07e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1ct9A 553 4.10e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 2aamA 309 4.12e+01 1m3qA 317 4.13e+01 a.96.1.3,d.129.1.2 91184,91185 1y2qA 143 4.16e+01 2ez6A 221 4.17e+01 1gcyA 527 4.18e+01 1jdc b.71.1.1,c.1.8.1 27788,28775 1woqA 267 4.20e+01 c.55.1.10,c.55.1.10 109462,109463 1k77A 260 4.23e+01 c.1.15.5 72096 1aop 497 4.28e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 2d8aA 348 4.30e+01 1wmwA 330 4.31e+01 1r6vA 671 4.32e+01 1k8kE 178 4.32e+01 a.148.1.1 68311 1ypyA 184 4.38e+01 1ccwB 483 4.39e+01 1cb7B c.1.19.2 29646 1aky 221 4.43e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1iqcA 308 4.44e+01 a.3.1.5,a.3.1.5 66266,66267 1ep3B 262 4.44e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 4uagA 437 4.46e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1us7B 265 4.50e+01 a.205.1.1 99858 1uteA 313 4.54e+01 1uteA d.159.1.1 42078 2dh4A 340 4.54e+01 1sw5A 275 4.59e+01 c.94.1.1 106069 1w0dA 337 4.62e+01 1ykuA 136 4.63e+01 1bg6 359 4.64e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 2fgtA 417 4.68e+01 1xdpA 687 4.71e+01 1v97A 1332 4.75e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 2au3A 407 4.76e+01 1tzzA 392 4.76e+01 1xdwA 331 4.79e+01 1cnzA 363 4.81e+01 1cnzA c.77.1.1 35061 1lurA 339 4.87e+01 b.30.5.4 84717 1uhkA 191 4.92e+01 1k7kA 221 4.94e+01 c.51.4.1 72104 1x3lA 440 4.94e+01 1ufoA 238 4.99e+01 c.69.1.27 99344 2d0oA 610 5.02e+01 1ntyA 311 5.04e+01 a.87.1.1,b.55.1.1 103873,103874 1w2fA 276 5.05e+01 d.143.1.3 109125 2csgA 424 5.05e+01 1ouvA 273 5.06e+01 a.118.18.1 93570 2g0wA 296 5.10e+01 2cvhA 220 5.12e+01 1z7aA 308 5.13e+01 1dekA 241 5.14e+01 1dekA c.37.1.1 31842 1t9bA 677 5.18e+01 1lf6A 684 5.22e+01 a.102.1.5,b.30.5.5 77918,77919 1n1cA 217 5.23e+01 a.184.1.1 85254 2g30A 258 5.28e+01 1vj0A 380 5.29e+01 b.35.1.2,c.2.1.1 100786,100787 1neyA 247 5.33e+01 c.1.1.1 80449 2d83A 363 5.34e+01 1kmoA 774 5.35e+01 f.4.3.3 72753 1le6A 123 5.43e+01 a.133.1.2 73862 1jb0A 755 5.45e+01 1jb0A f.29.1.1 62820 1e58A 249 5.51e+01 1qhfA c.60.1.1 59262 1ks9A 291 5.56e+01 a.100.1.7,c.2.1.6 68857,68858 2f1cX 286 5.56e+01 1pvdA 537 5.59e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1ri6A 343 5.61e+01 b.69.11.1 97503 1k20A 310 5.63e+01 c.107.1.1 68027 1ne7A 289 5.64e+01 c.124.1.1 91833 1fecA 490 5.69e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1bf6A 291 5.71e+01 1pscA c.1.9.3 29065 3tdt 274 5.74e+01 3tdt b.81.1.2 28053 1gg4A 452 5.79e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1s35A 214 5.81e+01 a.7.1.1,a.7.1.1 98420,98421 1d0cA 444 5.98e+01 d.174.1.1 64769 1oq1A 223 6.00e+01 b.29.1.17 93408 1d4aA 273 6.01e+01 1d4aA c.23.5.3 31219 1nu5A 370 6.07e+01 c.1.11.2,d.54.1.1 92183,92184 1z5zA 271 6.07e+01 1u8vA 490 6.07e+01 1e6yB 433 6.08e+01 1mroB a.89.1.1,d.58.31.2 18535,39453 1kqfA 1015 6.11e+01 b.52.2.2,c.81.1.1 72871,72872 1u04A 771 6.17e+01 b.34.14.1,c.55.3.10 107539,107540 1un7A 400 6.18e+01 b.92.1.5,c.1.9.10 99657,99658 1fgkA 310 6.19e+01 1fgkA d.144.1.7 41693 1j09A 468 6.20e+01 a.97.1.1,c.26.1.1 77025,77026 1k1aA 241 6.21e+01 d.211.1.1 67992 1wy0A 342 6.29e+01 1jndA 420 6.30e+01 c.1.8.5,d.26.3.1 71757,71758 1tueB 218 6.32e+01 b.91.1.1 107324 1odfA 290 6.40e+01 c.37.1.6 92782 2fkzA 155 6.44e+01 1kaeA 434 6.46e+01 c.82.1.2 72247 1ni4A 365 6.46e+01 c.36.1.11 85728 1vizA 240 6.48e+01 c.1.4.1 100784 1vkyA 347 6.48e+01 e.53.1.1 108696 1n5uA 585 6.49e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 1gnlA 544 6.51e+01 e.26.1.1 70287 1r2rA 248 6.55e+01 c.1.1.1 96875 1q0qA 406 6.55e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1aisA 182 6.56e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1jz8A 1023 6.58e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1yw5A 177 6.60e+01 1xdzA 240 6.63e+01 1moq 368 6.64e+01 1moq c.80.1.1 35302 1uhgA 385 6.70e+01 e.1.1.1 88491 1d2zA 108 6.71e+01 1d2zA a.77.1.2 18437 1j8mF 297 6.73e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1a41 234 6.78e+01 1a41 d.163.1.2 42174 2pgd 482 6.86e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1g6aA 271 6.97e+01 1btl e.3.1.1 42704 1pjr 724 6.98e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1rlmA 271 7.05e+01 1e9rA 437 7.12e+01 c.37.1.11 64827 1jboB 172 7.13e+01 a.1.1.3 84151 2d1sA 548 7.13e+01 1mtpA 323 7.27e+01 e.1.1.1 85107 2aaoA 166 7.31e+01 1yyqA 374 7.32e+01 1l8aA 886 7.42e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1vg0A 650 7.42e+01 c.3.1.3,d.16.1.6 108596,108597 1oc7A 364 7.44e+01 c.6.1.1 86794 1zruA 264 7.45e+01 2bb6A 414 7.46e+01 1f8vA 355 7.48e+01 2bbvA b.121.4.4 23329 1gpuA 680 7.48e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1zhxA 438 7.50e+01 1xtyA 120 7.53e+01 1bsg 266 7.54e+01 1btl e.3.1.1 42729 1lnsA 763 7.54e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1f5vA 240 7.55e+01 1bkjA d.90.1.1 40255 1pzlA 237 7.58e+01 a.123.1.1 104393 2aaxA 275 7.63e+01 2gfhA 260 7.69e+01 1jfbA 404 7.70e+01 a.104.1.1 66624 1qy6A 274 7.73e+01 b.47.1.1 96574 1vgmA 378 7.79e+01 1uwvA 433 7.80e+01 b.40.4.12,c.66.1.40 100128,100129 1yfsA 465 7.81e+01 1yf2A 425 7.88e+01 1cuk 203 7.98e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1xx1A 285 7.99e+01 1ypfA 336 8.00e+01 1r6fA 310 8.02e+01 e.46.1.1 97149 2basA 431 8.04e+01 2gdnA 267 8.06e+01 1ku0A 388 8.11e+01 c.69.1.18 72994 1lam 484 8.31e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1j1lA 290 8.31e+01 b.82.1.12 90766 2tpt 440 8.31e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1s3eA 520 8.33e+01 c.3.1.2,d.16.1.5 98426,98427 1kn1B 161 8.37e+01 a.1.1.3 77456 1s69A 124 8.38e+01 a.1.1.1 105305 1kqfB 294 8.39e+01 d.58.1.5,f.23.22.1 75900,75901 1kmiZ 214 8.40e+01 h.4.11.1 72752 1ej6D 418 8.46e+01 i.7.1.1 45970 1kktA 511 8.49e+01 a.102.2.1 68687 1gx3A 284 8.50e+01 d.3.1.5 70678 1yvhA 329 8.51e+01 1y10A 407 8.53e+01 1o6zA 303 8.58e+01 c.2.1.5,d.162.1.1 81107,81108 1bouB 302 8.58e+01 1bouB c.56.6.1 33859 1hlb 158 8.58e+01 1hlb a.1.1.2 15625 1ea5A 537 8.59e+01 2bce c.69.1.1 34592 2fbaA 492 8.59e+01 1mrzA 293 8.63e+01 b.43.5.1,c.26.1.3 91452,91453 1z8gA 372 8.63e+01 2cxnA 557 8.69e+01 1vpt 348 8.78e+01 3mag c.66.1.25 34207 1elkA 157 8.84e+01 1dvpA a.118.9.2 19217 1h6pA 203 8.84e+01 a.146.1.1 60690 1ixmA 192 8.86e+01 1ixmA d.123.1.1 41114 2gn4A 344 8.90e+01 2g8oA 264 8.95e+01 1to6A 371 8.99e+01 c.141.1.1 107170 1up8A 598 8.99e+01 a.111.1.2 99710 1vf8A 377 8.99e+01