# 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 1woqA 267 5.45e-02 c.55.1.10,c.55.1.10 109462,109463 1r1hA 696 6.59e-01 d.92.1.4 104756 1o7fA 469 6.97e-01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 2c1vA 338 1.19e+00 1reqA 727 1.36e+00 1reqA c.1.19.1,c.23.6.1 29620,31247 1j09A 468 1.57e+00 a.97.1.1,c.26.1.1 77025,77026 1rypI 222 2.00e+00 d.153.1.4 41877 1nd4A 264 2.01e+00 d.144.1.6 91815 1lv7A 257 2.05e+00 c.37.1.20 78232 1ejxC 567 2.32e+00 b.92.1.1,c.1.9.2 83184,83185 1ak0 270 2.33e+00 1ak0 a.124.1.2 19345 1i0dA 332 2.57e+00 1pscA c.1.9.3 61487 1p1mA 406 2.84e+00 b.92.1.4,c.1.9.9 87696,87697 1hh1A 143 2.84e+00 1gefA c.52.1.18 61036 1wiwA 290 2.93e+00 1ct9A 553 3.06e+00 1ct9A c.26.2.1,d.153.1.1 31616,41834 1x0rA 249 5.01e+00 1zy9A 564 5.04e+00 1g8aA 227 5.08e+00 c.66.1.3 90506 1q0eA 152 5.18e+00 b.1.8.1 95504 1mrg 263 5.71e+00 1mrj d.165.1.1 42183 1h0hA 977 5.75e+00 b.52.2.2,c.81.1.1 76435,76436 1wljA 189 5.80e+00 1gr0A 367 5.95e+00 c.2.1.3,d.81.1.3 70379,70380 1pc3A 350 6.29e+00 c.94.1.1 104102 1rypL 212 6.45e+00 d.153.1.4 41880 1zc6A 305 6.75e+00 1on3A 523 6.90e+00 c.14.1.4,c.14.1.4 87107,87108 1ihuA 589 7.24e+00 c.37.1.10,c.37.1.10 62394,62395 1vprA 374 7.39e+00 1to4A 156 7.92e+00 b.1.8.1 107162 2furA 209 7.93e+00 1e9pA 151 7.97e+00 1mfmA b.1.8.1 22215 1c93A 265 7.99e+00 2ebn c.1.8.5 28998 1ox0A 430 8.01e+00 c.95.1.1,c.95.1.1 87495,87496 1a0cA 438 8.37e+00 1a0cA c.1.15.3 29529 1g87A 614 8.60e+00 a.102.1.2,b.2.2.2 83275,83276 4ubpC 570 8.63e+00 1ubpC b.92.1.1,c.1.9.2 28431,29053 1n82A 331 8.84e+00 c.1.8.3 91703 2bwvA 440 9.19e+00 1ej6B 1275 9.30e+00 i.7.1.1 45968 1b35B 255 9.72e+00 1b35B b.121.4.1 23334 2al2A 436 1.01e+01 2cxaA 256 1.05e+01 1kolA 398 1.05e+01 b.35.1.2,c.2.1.1 77474,77475 1kshA 186 1.06e+01 c.37.1.8 72914 1u3dA 509 1.10e+01 a.99.1.1,c.28.1.1 107638,107639 1din 236 1.16e+01 1din c.69.1.9 34682 1ceo 343 1.19e+01 1ceo c.1.8.3 28808 2b59B 172 1.19e+01 1xahA 354 1.20e+01 2aaoA 166 1.22e+01 1lldA 319 1.24e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1eu8A 409 1.24e+01 1eu8A c.94.1.1 59502 1zi8A 236 1.25e+01 1zj8A 566 1.25e+01 1qw9A 502 1.27e+01 b.71.1.2,c.1.8.3 96466,96467 1f1uA 323 1.30e+01 d.32.1.3,d.32.1.3 83200,83201 1o50A 157 1.32e+01 d.37.1.1,d.37.1.1 92478,92479 1pixA 587 1.33e+01 c.14.1.4 94708 1jftA 340 1.33e+01 a.35.1.5,c.93.1.1 66652,66653 2gfaA 119 1.33e+01 1k8kA 418 1.34e+01 c.55.1.1,c.55.1.1 68305,68306 1zzmA 259 1.37e+01 1t5oA 351 1.40e+01 c.124.1.5 106459 1lu4A 136 1.41e+01 c.47.1.10 91124 1zybA 232 1.49e+01 1m22A 503 1.51e+01 c.117.1.1 78464 1bf6A 291 1.56e+01 1pscA c.1.9.3 29065 1yphC 131 1.67e+01 1obdA 306 1.68e+01 d.143.1.1 86767 1e5mA 416 1.70e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 2f1kA 279 1.74e+01 2asbA 251 1.76e+01 1azo 232 1.77e+01 1azo c.52.1.14 33329 1c0pA 363 1.81e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1yh2A 175 1.81e+01 1zmdA 474 1.83e+01 1ta8A 332 1.83e+01 1wdcC 156 1.86e+01 1wdcC a.39.1.5 17317 1wjxA 122 1.90e+01 1k0wA 231 1.93e+01 c.74.1.1 77220 1qhlA 227 1.96e+01 1qhlA c.37.1.12 32382 1vhoA 346 1.98e+01 b.49.3.1,c.56.5.4 100694,100695 1ojrA 274 2.07e+01 c.74.1.1 93147 1mf7A 194 2.22e+01 c.62.1.1 84937 1xsoA 150 2.26e+01 1mfmA b.1.8.1 22273 1o66A 275 2.31e+01 c.1.12.8 92547 1a7s 221 2.31e+01 1a7s b.47.1.2 26284 1p42A 270 2.31e+01 d.14.1.7,d.14.1.7 87754,87755 1zd9A 188 2.32e+01 1hqsA 423 2.35e+01 1iso c.77.1.1 61154 2sak 121 2.35e+01 2sak d.15.5.1 37711 1qtwA 285 2.41e+01 1qumA c.1.15.1 29392 1ctt 294 2.41e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1p1jA 533 2.41e+01 c.2.1.3,d.81.1.3 87687,87688 1qmeA 702 2.42e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1aop 497 2.53e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1iyjB 817 2.56e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 1j4aA 333 2.59e+01 c.2.1.4,c.23.12.1 71502,71503 1icpA 376 2.59e+01 1oyc c.1.4.1 62270 1gnxA 479 2.64e+01 c.1.8.4 76241 1sgvA 316 2.64e+01 b.122.1.1,d.265.1.2 98858,98859 2gdnA 267 2.65e+01 1j1lA 290 2.67e+01 b.82.1.12 90766 1tf5A 844 2.69e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 2gfoA 396 2.70e+01 1czaN 917 2.73e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1v7wA 807 2.76e+01 a.102.1.4,b.30.5.3 108411,108412 2ae5B 528 2.77e+01 1or0B 528 2.79e+01 1vf8A 377 2.81e+01 1e3dB 542 2.81e+01 1h2rL e.18.1.1 59189 1vgjA 184 2.85e+01 1e7uA 961 2.87e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1qx4A 274 3.03e+01 b.43.4.2,c.25.1.1 104624,104625 1o1zA 234 3.07e+01 c.1.18.3 86555 1qyiA 384 3.09e+01 c.108.1.13 96595 1vp4A 425 3.14e+01 1jhdA 396 3.15e+01 b.122.1.3,c.26.1.5 66712,66713 1rypK 198 3.15e+01 d.153.1.4 41879 1wcgA 464 3.17e+01 1rqwA 207 3.22e+01 b.25.1.1 97781 1qfgA 725 3.24e+01 1by5A f.4.3.3 43803 1hj9A 226 3.25e+01 b.47.1.2 65845 1yifA 533 3.30e+01 1d4xG 126 3.33e+01 1d0nA d.109.1.1 59109 1j7gA 144 3.34e+01 c.110.1.1 84130 1ve3A 227 3.36e+01 1fcdA 401 3.37e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1f6bA 198 3.38e+01 c.37.1.8 64986 1kqfB 294 3.40e+01 d.58.1.5,f.23.22.1 75900,75901 1vybA 238 3.43e+01 d.151.1.1 108897 2ganA 190 3.43e+01 2d0iA 333 3.45e+01 1mr3F 181 3.49e+01 c.37.1.8 79422 2cvhA 220 3.50e+01 1xpkC 388 3.52e+01 1up8A 598 3.53e+01 a.111.1.2 99710 1p32A 209 3.54e+01 1p32A d.25.1.1 38379 1bn7A 294 3.54e+01 1bn6A c.69.1.8 34677 1e4mM 501 3.54e+01 1e70M c.1.8.4 59226 1xh3A 276 3.56e+01 1lam 484 3.58e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1wmhA 89 3.63e+01 1fy7A 278 3.66e+01 1fy7A d.108.1.1 40817 1qxoA 388 3.71e+01 d.258.1.1 96539 2dkaA 544 3.74e+01 1tp9A 162 3.78e+01 2napA 723 3.80e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1xesA 413 3.83e+01 1jy1A 464 3.83e+01 d.136.1.3,d.136.1.3 67438,67439 1k4iA 233 3.85e+01 d.115.1.2 72056 1wlsA 328 3.85e+01 1d7uA 433 3.87e+01 2dkb c.67.1.4 34439 1yumA 242 3.88e+01 3chbD 104 3.92e+01 3chbD b.40.2.1 24970 1f1gA 154 3.99e+01 b.1.8.1 76153 1h5qA 265 4.03e+01 1cydA c.2.1.2 60643 1gvjA 146 4.04e+01 a.4.5.21 90525 1tqnA 486 4.08e+01 a.104.1.1 107238 1rc6A 261 4.11e+01 b.82.1.11 97287 1cnzA 363 4.16e+01 1cnzA c.77.1.1 35061 1v04A 355 4.22e+01 b.68.6.2 100240 1w9pA 433 4.31e+01 1nthA 458 4.32e+01 c.1.25.1 80730 1auoA 218 4.32e+01 1auoA c.69.1.14 34716 1qzgA 187 4.33e+01 b.40.4.3 96643 3eipA 84 4.33e+01 3eipA d.26.2.1 38434 1h8dH 260 4.34e+01 5ptp 1tuoA 464 4.35e+01 3bamA 213 4.38e+01 1bam c.52.1.3 33288 1wxrA 1048 4.38e+01 1qwgA 251 4.38e+01 c.1.27.1 96473 1bf2 750 4.38e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 2fymA 431 4.41e+01 1puiA 210 4.42e+01 c.37.1.8 88292 1a99A 344 4.43e+01 1pot c.94.1.1 35812 1xfkA 336 4.48e+01 1iq8A 582 4.48e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1h9hE 223 4.49e+01 b.47.1.2 103810 1o3yA 166 4.49e+01 c.37.1.8 86618 1r0vA 305 4.56e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1o59A 355 4.57e+01 b.18.1.22,b.18.1.22 92495,92496 1jalA 363 4.58e+01 c.37.1.8,d.15.10.2 84138,84139 1a8rA 221 4.59e+01 1a8rA d.96.1.1 40587 1u0mA 382 4.60e+01 c.95.1.2,c.95.1.2 107557,107558 2bj0A 203 4.61e+01 1id0A 152 4.61e+01 d.122.1.3 66111 1zd0A 150 4.62e+01 1wdyA 285 4.63e+01 1r62A 160 4.66e+01 d.122.1.3 104816 1w2fA 276 4.71e+01 d.143.1.3 109125 1sqsA 242 4.76e+01 c.23.5.5 98968 1s83A 223 4.77e+01 b.47.1.2 98718 1d3vA 323 4.80e+01 1d3vA c.42.1.1 32559 1exrA 148 4.81e+01 1cll a.39.1.5 17299 1ikpA 613 4.84e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1zt2B 212 4.85e+01 1eejA 216 4.86e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1o5zA 442 4.86e+01 c.59.1.2,c.72.2.2 92530,92531 2fpqA 444 4.90e+01 1yr2A 741 4.92e+01 1djrD 103 4.94e+01 3chbD b.40.2.1 24865 2gl5A 410 4.94e+01 1t2jA 116 4.95e+01 1ywnA 316 5.04e+01 1lopA 164 5.05e+01 2cpl b.62.1.1 27510 2gdzA 267 5.12e+01 1sddA 306 5.13e+01 b.6.1.3,b.6.1.3 105431,105432 1h4pA 408 5.13e+01 c.1.8.3 90617 1zcbA 362 5.14e+01 1qh4A 380 5.15e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1n62C 288 5.15e+01 d.87.2.1,d.145.1.3 80094,80095 1iq4A 179 5.17e+01 1iq4A d.77.1.1 62641 1bb8 71 5.22e+01 2bb8 d.10.1.1 37478 1t8hA 277 5.33e+01 d.194.1.2 106664 1ujnA 348 5.34e+01 e.22.1.1 99460 1xcbA 211 5.36e+01 a.4.5.38,c.2.1.12 109552,109553 2bvfA 459 5.37e+01 1gwuA 309 5.38e+01 a.93.1.1 83351 1rw7A 243 5.43e+01 c.23.16.2 97963 1kqfC 217 5.45e+01 f.21.1.1 72874 1j5xA 342 5.46e+01 c.80.1.1 71591 1clc 639 5.47e+01 1clc a.102.1.2,b.1.18.2 18835,21872 2cw8A 537 5.48e+01 1cvrA 435 5.50e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1j1iA 296 5.50e+01 c.69.1.10 83977 1dpo 223 5.52e+01 5ptp b.47.1.2 25975 1m3sA 186 5.56e+01 c.80.1.3 78573 1fobA 334 5.57e+01 c.1.8.3 83255 1i4yA 114 5.60e+01 2mhr a.24.4.1 61738 2gkeA 274 5.62e+01 1yw5A 177 5.70e+01 2av4A 162 5.71e+01 1u8xX 472 5.72e+01 c.2.1.5,d.162.1.2 107741,107742 1voqa 90 5.72e+01 1jnrA 643 5.76e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1gteA 1025 5.77e+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 1pcfA 66 5.78e+01 1pcfA d.18.1.1 38142 1fi4A 416 5.81e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 1byfA 125 5.81e+01 1byfA d.169.1.1 42419 1r8sA 164 5.83e+01 c.37.1.8 97247 1wb0A 445 5.84e+01 1y7bA 542 5.94e+01 1q59A 172 6.05e+01 f.1.4.1 95881 1b65A 375 6.07e+01 1b65A d.154.1.1 42020 1iejA 332 6.09e+01 1nnt c.94.1.2 62328 1ivnA 190 6.11e+01 c.23.10.5 83719 1xrsA 516 6.12e+01 1zejA 293 6.12e+01 1f9zA 135 6.19e+01 1qipA d.32.1.1 38484 1t17A 148 6.19e+01 2absA 383 6.22e+01 1jmuB 666 6.25e+01 1t1gA 364 6.26e+01 c.41.1.2 106246 1c30B 382 6.29e+01 c.8.3.1,c.23.16.1 30736,31413 2bzlA 325 6.30e+01 1s21A 206 6.34e+01 d.166.1.4 105222 2cw6A 298 6.37e+01 1ia8A 289 6.41e+01 1ia8A d.144.1.7 62112 1l1qA 186 6.45e+01 c.61.1.1 77653 2fjbA 643 6.55e+01 2fug1 438 6.57e+01 1zkpA 268 6.57e+01 1mqoA 227 6.59e+01 d.157.1.1 103846 1pguA 615 6.60e+01 b.69.4.1,b.69.4.1 88069,88070 1u9iA 519 6.62e+01 1k87A 669 6.66e+01 a.176.1.1,c.1.23.2 77286,77287 1vqoE 178 6.71e+01 2as0A 396 6.76e+01 2fbqA 235 6.79e+01 1ixh 321 6.82e+01 1ixh c.94.1.1 35761 1xqaA 113 6.86e+01 1wd7A 261 6.86e+01 1tfzA 424 6.93e+01 d.32.1.3,d.32.1.3 106886,106887 2b3hA 329 6.97e+01 1n0qA 93 6.97e+01 k.37.1.1 79754 1ohlA 342 6.97e+01 c.1.10.3 87035 1pjr 724 7.00e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1lml 478 7.02e+01 1lml d.92.1.3 40295 1nbaA 264 7.06e+01 1nbaA c.33.1.3 31753 1kmoA 774 7.13e+01 f.4.3.3 72753 1lf6A 684 7.16e+01 a.102.1.5,b.30.5.5 77918,77919 1reqB 637 7.24e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 2b0jA 358 7.26e+01 2bghA 421 7.27e+01 1rvgA 305 7.28e+01 c.1.10.2 97920 1ht6A 405 7.40e+01 b.71.1.1,c.1.8.1 83629,83630 1r5mA 425 7.41e+01 2fsrA 195 7.47e+01 1lqaA 346 7.50e+01 c.1.7.1 84674 1p4kA 295 7.54e+01 d.153.1.5 87772 1eq2A 310 7.54e+01 1eq2A c.2.1.2 29814 1riiA 265 7.61e+01 1ujcA 161 7.62e+01 1y93A 159 7.64e+01 1o4rA 108 7.69e+01 d.93.1.1 92469 1k5nA 276 7.73e+01 b.1.1.2,d.19.1.1 77266,77267 1whzA 70 7.75e+01 2f0aA 98 7.80e+01 1kfwA 435 7.88e+01 c.1.8.5,d.26.3.1 77376,77377 1vlpA 441 7.95e+01 d.41.2.2,d.41.2.3 108840,108841 1v8bA 479 7.95e+01 2acy 98 8.03e+01 2acy d.58.10.1 39298 1ytvA 366 8.05e+01 1sf8A 126 8.12e+01 d.271.1.1 105472 1d7pM 159 8.15e+01 1cztA b.18.1.2 23718 1ed8A 449 8.15e+01 1b8jA c.76.1.1 34988 1qpaA 345 8.16e+01 1arv a.93.1.1 18585 2a5dA 175 8.19e+01 1x72A 334 8.33e+01 d.126.1.6 109495 1ig5A 75 8.34e+01 4icb a.39.1.1 62363 1ei6A 406 8.35e+01 c.76.1.4 90443 1iicA 422 8.38e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 2bjfA 329 8.40e+01 2g5cA 281 8.41e+01 1hbnC 248 8.49e+01 1mroC d.58.31.1 60902 1mrzA 293 8.53e+01 b.43.5.1,c.26.1.3 91452,91453 1jltA 122 8.55e+01 a.133.1.2 66867 2b8nA 429 8.55e+01 1i3zA 103 8.71e+01 d.93.1.1 83667 1goiA 499 8.76e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1fxlA 167 8.81e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1fwxA 595 8.88e+01 b.6.1.4,b.69.3.1 60069,60070 1l7aA 318 8.89e+01 c.69.1.25 77772 1rgyA 360 8.95e+01 e.3.1.1 97456 1nkgA 508 8.97e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 2acaA 189 8.99e+01