# List of top-scoring protein chains for t06-100-30-near-backbone-11-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 1vkbA 161 8.02e-18 d.269.1.1 108643 2g0qA 173 2.12e-16 1v30A 124 1.13e-11 1ofcX 304 3.02e-01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1i2tA 61 7.93e-01 1i2tA a.144.1.1 61582 1wrmA 165 8.95e-01 1ku1A 230 9.41e-01 a.118.3.1 72996 1wb4A 297 9.79e-01 1mrzA 293 1.24e+00 b.43.5.1,c.26.1.3 91452,91453 1fnd 314 1.64e+00 1fnc b.43.4.2,c.25.1.1 25626,31516 1y2qA 143 1.78e+00 1bx1A 314 1.85e+00 1fnc b.43.4.2,c.25.1.1 25629,31519 2bmoA 447 1.96e+00 2fokA 579 2.31e+00 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1k66A 149 2.50e+00 c.23.1.1 90941 2a9dA 372 3.01e+00 1s1pA 331 3.14e+00 c.1.7.1 98350 1oyzA 280 3.24e+00 a.118.1.16 93775 2bzlA 325 3.57e+00 1b6a 478 3.60e+00 1bn5 a.4.5.25,d.127.1.1 16223,41160 1ecfA 504 4.03e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1m70A 190 4.15e+00 a.3.1.4,a.3.1.4 91200,91201 1i8fA 81 4.22e+00 1i8fA b.38.1.1 61959 1pbwA 216 4.44e+00 1pbwA a.116.1.1 19103 1wwtA 88 4.76e+00 1vg8A 207 4.93e+00 c.37.1.8 108606 1uc2A 481 5.03e+00 d.261.1.1 99161 1xzoA 174 5.19e+00 1ia6A 441 5.65e+00 a.102.1.2 76738 1s69A 124 5.87e+00 a.1.1.1 105305 1fvpA 231 5.90e+00 1nfp c.1.16.2 29556 1lldA 319 6.50e+00 3ldh c.2.1.5,d.162.1.1 30177,42144 1g5cA 170 6.85e+00 1g5cA c.53.2.1 60264 1eejA 216 7.04e+00 1eejA c.47.1.9,d.17.3.1 33057,38071 1c8uA 285 7.11e+00 1c8uA d.38.1.3,d.38.1.3 38547,38548 1mexH 215 7.50e+00 b.1.1.1,b.1.1.2 91257,91258 1ceo 343 7.58e+00 1ceo c.1.8.3 28808 1o7nA 449 8.33e+00 b.33.1.2,d.129.3.3 81162,81163 1ydyA 356 8.57e+00 1y7wA 291 9.17e+00 1q0xH 221 9.29e+00 b.1.1.1,b.1.1.2 95517,95518 1rurH 218 9.37e+00 b.1.1.1,b.1.1.2 97879,97880 2fdsA 352 9.51e+00 1juvA 193 9.53e+00 c.71.1.1 90912 2aq2B 237 9.54e+00 1ru3A 732 1.01e+01 e.26.1.3 97835 1nlbH 218 1.02e+01 b.1.1.1,b.1.1.2 80621,80622 1izmA 184 1.02e+01 a.199.1.1 90725 1v0aA 178 1.02e+01 1zanH 224 1.06e+01 2fqxA 318 1.10e+01 1ynlH 219 1.11e+01 1offA 97 1.27e+01 d.15.4.1 86947 2fh7A 595 1.30e+01 1uqrA 154 1.30e+01 c.23.13.1 99779 2d2eA 250 1.34e+01 1bfg 146 1.34e+01 1bfg b.42.1.1 25485 1hyxH 224 1.34e+01 1igtB b.1.1.1,b.1.1.2 20167,21191 1sgwA 214 1.36e+01 c.37.1.12 105541 1ts9A 102 1.36e+01 2g8yA 385 1.42e+01 1pv0A 46 1.45e+01 a.2.12.1 95141 1f74A 293 1.46e+01 1nal3 c.1.10.1 29079 1yqgA 263 1.47e+01 1q9rB 222 1.48e+01 b.1.1.1,b.1.1.2 96307,96308 1ae9A 179 1.49e+01 1ae9A d.163.1.1 42153 1xp8A 366 1.49e+01 2av4A 162 1.51e+01 1dxsA 80 1.54e+01 1cokA a.60.1.2 17944 1xyzA 347 1.59e+01 1taxA c.1.8.3 28804 1vgjA 184 1.60e+01 1uwsA 489 1.61e+01 c.1.8.4 108073 2bllA 345 1.64e+01 1ux8A 132 1.65e+01 1iu4A 331 1.67e+01 d.3.1.8 71430 1g8aA 227 1.68e+01 c.66.1.3 90506 1ua4A 455 1.70e+01 c.72.1.3 99128 2ajuH 219 1.71e+01 1rreA 200 1.73e+01 d.14.1.10 97791 1g4mA 393 1.73e+01 b.1.18.11,b.1.18.11 65143,65144 2f71A 298 1.95e+01 1f1xA 322 1.99e+01 d.32.1.3,d.32.1.3 83208,83209 1bf5A 545 2.05e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 2fsjA 346 2.05e+01 1hu3A 260 2.07e+01 1hu3A a.118.1.14 19137 1gtmA 419 2.12e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1t64A 377 2.20e+01 c.42.1.2 106543 1unkA 87 2.23e+01 1cei a.28.2.1 16935 1pa1A 310 2.28e+01 c.45.1.2 94404 2gk9A 426 2.35e+01 1awd 94 2.36e+01 1awd d.15.4.1 37673 2f7fA 494 2.38e+01 2g39A 497 2.39e+01 1cjxA 357 2.41e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1j4aA 333 2.47e+01 c.2.1.4,c.23.12.1 71502,71503 1y81A 138 2.48e+01 1j96A 323 2.51e+01 c.1.7.1 71616 1mjuH 227 2.54e+01 b.1.1.1,b.1.1.2 91302,91303 1dk8A 147 2.54e+01 1agrE a.91.1.1 18548 1puoA 170 2.60e+01 a.101.1.1,a.101.1.1 95134,95135 1wveC 80 2.60e+01 2bwnA 401 2.64e+01 1mkmA 249 2.73e+01 a.4.5.33,d.110.2.2 79242,79243 1i6pA 220 2.76e+01 1ddzA c.53.2.1 61848 1wt4A 73 2.80e+01 1azo 232 2.87e+01 1azo c.52.1.14 33329 2bv5A 282 2.88e+01 1jmxA 494 2.89e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1e9gA 286 3.05e+01 1wgjA b.40.5.1 59393 1ufiA 64 3.06e+01 a.30.4.1 99336 1umdB 324 3.08e+01 c.36.1.7,c.48.1.2 99600,99601 2g09A 297 3.10e+01 1hh8A 213 3.19e+01 1e96B a.118.8.1 61042 1jb9A 316 3.22e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1v9vA 114 3.23e+01 1ihkA 174 3.23e+01 1bfg b.42.1.1 62384 1mg4A 113 3.25e+01 d.15.11.1 84953 1utg 70 3.29e+01 1utg a.101.1.1 18813 2fkbA 180 3.36e+01 2cn3A 737 3.42e+01 1q1fA 151 3.42e+01 a.1.1.2 104476 1uliA 460 3.47e+01 b.33.1.2,d.129.3.3 107921,107922 2b0aA 186 3.47e+01 1o04A 500 3.49e+01 c.82.1.1 86508 1my6A 199 3.49e+01 a.2.11.1,d.44.1.1 85232,85233 1rvkA 382 3.53e+01 c.1.11.2,d.54.1.1 97928,97929 5nul 138 3.53e+01 5nul c.23.5.1 31191 1u1tA 82 3.58e+01 1wduA 245 3.58e+01 d.151.1.1 109286 1lugA 259 3.62e+01 b.74.1.1 91127 1j3bA 529 3.68e+01 c.91.1.1,c.109.1.1 77071,77072 1hyhA 309 3.69e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1jw2A 72 3.74e+01 a.23.5.1 67372 1ri6A 343 3.78e+01 b.69.11.1 97503 1id1A 153 3.84e+01 1id1A c.2.1.9 62286 1wzdA 215 3.92e+01 1zsqA 528 3.99e+01 2axtB 510 4.05e+01 2aiqA 231 4.14e+01 1tl9A 339 4.15e+01 1n9lA 109 4.24e+01 d.110.3.6 85468 1o97D 320 4.24e+01 c.26.2.3,c.31.1.2 81233,81234 1fs7A 485 4.29e+01 1qdbA a.138.1.3 19691 1tzzA 392 4.31e+01 1u1sA 82 4.31e+01 1pzgA 331 4.32e+01 c.2.1.5,d.162.1.1 95425,95426 1hfuA 503 4.36e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1yqfA 203 4.39e+01 1a8o 70 4.39e+01 1a8o a.28.3.1 16953 1i8dA 213 4.42e+01 b.43.4.3,b.43.4.3 61953,61954 1j5wA 298 4.44e+01 d.104.1.1 71589 1um5H 217 4.45e+01 1x82A 190 4.46e+01 1j0dA 341 4.46e+01 c.79.1.1 83902 1uwkA 557 4.46e+01 e.51.1.1 108065 1fljA 260 4.50e+01 2cba b.74.1.1 27954 1idk 359 4.55e+01 1qcxA b.80.1.2 28025 1fp2A 352 4.56e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 2g7uA 257 4.59e+01 1gegA 256 4.61e+01 1ybvA c.2.1.2 29888 2fvgA 340 4.63e+01 1wlsA 328 4.74e+01 1uwmA 106 4.77e+01 1bkb 136 4.79e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 1wv3A 238 4.80e+01 2basA 431 4.80e+01 1fgyA 127 4.84e+01 1faoA b.55.1.1 26976 1iw0A 215 4.88e+01 a.132.1.1 83720 2ew2A 316 4.91e+01 1qy1A 174 4.92e+01 b.60.1.1 96568 1ei5A 520 5.00e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1gtzA 156 5.01e+01 c.23.13.1 70539 1ovnA 248 5.03e+01 a.71.1.1,c.47.1.7 93602,93603 1kcvH 217 5.04e+01 b.1.1.1,b.1.1.2 72315,72316 1nxmA 197 5.06e+01 b.82.1.1 86385 3seb 238 5.07e+01 3seb b.40.2.2,d.15.6.1 25184,37773 2cw8A 537 5.08e+01 1fc4A 401 5.09e+01 1bs0A c.67.1.4 59760 1zd0A 150 5.11e+01 1up7A 417 5.15e+01 2foyA 260 5.23e+01 1vkmA 297 5.27e+01 c.138.1.1 108670 1lrzA 426 5.27e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1yzxA 226 5.30e+01 1uptA 171 5.33e+01 c.37.1.8 99767 2aamA 309 5.33e+01 1r6xA 395 5.38e+01 b.122.1.3,c.26.1.5 97167,97168 1sxrA 183 5.42e+01 d.118.1.1 106101 1xg7A 250 5.45e+01 1kxpD 458 5.54e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1khbA 625 5.58e+01 c.91.1.1,c.109.1.1 68606,68607 1f1eA 154 5.70e+01 a.22.1.2 64927 1xi1A 575 5.72e+01 1s68A 249 5.72e+01 d.142.2.4 98591 2aq5A 402 5.74e+01 1hbkA 94 5.79e+01 1aca a.11.1.1 60887 1yemA 179 5.84e+01 1wu7A 434 5.85e+01 2ai4A 119 5.87e+01 1lam 484 5.88e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1ad1A 266 5.94e+01 1aj2 c.1.21.1 29668 1c75A 71 5.99e+01 451c a.3.1.1 15796 1e7lA 157 6.02e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1r4vA 171 6.05e+01 a.197.1.1 97049 1v3wA 173 6.08e+01 b.81.1.5 100291 1czaN 917 6.20e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 2c5qA 240 6.32e+01 1tedA 393 6.41e+01 c.95.1.2 106807 2a6vA 226 6.43e+01 2b49A 287 6.43e+01 1oz9A 150 6.44e+01 d.92.1.15 93808 1t0iA 191 6.45e+01 c.23.5.4 106209 2cyeA 133 6.47e+01 1wteA 272 6.50e+01 2f4lA 297 6.50e+01 1lcyA 325 6.54e+01 b.36.1.4,b.47.1.1 73834,73835 1y7lA 316 6.57e+01 2gl5A 410 6.57e+01 1vr6A 350 6.59e+01 1t2dA 322 6.60e+01 c.2.1.5,d.162.1.1 99084,99085 1oneA 436 6.67e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1vkkA 154 6.70e+01 d.109.1.2 108669 1vbuA 328 6.71e+01 1jb7A 495 6.75e+01 1otcA b.40.4.3,b.40.4.3,b.40.4.3 62836,62837,62838 1rm6B 324 6.79e+01 2ffeA 311 6.81e+01 1lrv 244 6.83e+01 1lrv a.118.1.5 19146 1yr1A 119 6.93e+01 1s96A 219 7.02e+01 c.37.1.1 98740 1oshA 232 7.09e+01 a.123.1.1 93496 1uv7A 110 7.12e+01 d.67.4.1 100040 1oflA 481 7.21e+01 b.80.1.4 103934 1tqhA 247 7.22e+01 c.69.1.29 107225 2gaxA 135 7.23e+01 1p2fA 220 7.31e+01 a.4.6.1,c.23.1.1 87720,87721 1idaA 99 7.43e+01 1fmb b.50.1.1 26715 1n08A 163 7.44e+01 b.43.5.1 79730 1ls1A 295 7.44e+01 a.24.13.1,c.37.1.10 78170,78171 2ghjA 118 7.46e+01 1jfuA 186 7.55e+01 c.47.1.10 62940 1oqqA 106 7.65e+01 d.15.4.1 93422 1zchA 255 7.65e+01 1ngkA 128 7.66e+01 a.1.1.1 85673 1vhwA 253 7.66e+01 c.56.2.1 100706 1ydmA 187 7.71e+01 1wywA 230 7.75e+01 2ftzA 284 7.78e+01 1mixA 206 7.82e+01 a.11.2.1,b.55.1.5 79166,79167 1ukuA 102 7.82e+01 d.58.5.2 99533 1qgvA 142 7.88e+01 1qgvA c.47.1.8 33056 1vbkA 307 7.90e+01 1uzbA 516 7.98e+01 c.82.1.1 100220 1r6wA 322 7.99e+01 c.1.11.2,d.54.1.1 97165,97166 1xtmA 175 8.04e+01 2afdA 88 8.04e+01 1fjrA 195 8.05e+01 1fjrA b.102.1.1 59855 1in0A 163 8.08e+01 d.58.49.1,d.58.49.1 83694,83695 1vrtA 560 8.23e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1gwuA 309 8.24e+01 a.93.1.1 83351 1y96A 86 8.36e+01 1n4kA 381 8.40e+01 a.118.22.1,b.42.6.1 79992,79993 2al2A 436 8.43e+01 2al1A 436 8.46e+01 1u1iA 392 8.47e+01 c.2.1.3,d.81.1.3 107582,107583 1wy9A 147 8.48e+01 1xlqA 106 8.52e+01 1ypyA 184 8.53e+01 2govA 195 8.53e+01 1jyoA 130 8.53e+01 d.198.1.1 67483 1vf6C 72 8.54e+01 a.194.1.1 100602 1wixA 164 8.60e+01 1vmeA 410 8.61e+01 c.23.5.1,d.157.1.3 108893,108894 1y8aA 332 8.62e+01 1u09A 476 8.69e+01 e.8.1.4 107545 1r8eA 278 8.75e+01 a.6.1.3,d.60.1.1 104843,104844 1r9hA 135 8.94e+01 d.26.1.1 97260 1mxmA 254 8.99e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649