# List of top-scoring protein chains for T0317.t2k-w0.5 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 1wrmA 165 5.25e-29 1m3gA 145 8.08e-29 c.45.1.1 84783 1mkp 144 1.21e-27 1vhrA c.45.1.1 32654 1yz4A 160 2.85e-27 1vhrA 184 1.13e-26 1vhrA c.45.1.1 32651 1j4xA 184 8.40e-26 c.45.1.1 66392 1ohcA 348 5.51e-19 c.45.1.1,c.45.1.1 87009,87010 1oheA 348 5.16e-18 c.45.1.1,c.45.1.1 87013,87014 1d5rA 324 9.23e-15 1d5rA b.7.1.1,c.45.1.1 23181,32697 1rxdA 159 1.16e-12 1zckA 154 1.16e-12 1x24A 180 1.18e-12 1v3aA 173 8.19e-12 1r6hA 172 8.25e-12 c.45.1.1 97150 1xm2A 173 8.56e-12 1zclA 180 9.88e-12 2c46A 241 2.27e-11 1i9sA 210 2.51e-11 1i9sA c.45.1.1 62099 1yn9A 169 8.58e-11 1xriA 151 3.98e-10 1fpzA 212 7.44e-10 1fpzA c.45.1.1 59976 2b49A 287 1.34e-08 2shpA 525 1.73e-08 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1gwz 299 3.04e-08 2shpA c.45.1.2 32685 2b3oA 532 3.78e-08 1fprA 284 4.54e-07 2shpA c.45.1.2 59949 1nwlA 298 5.68e-07 c.45.1.2 86300 2fjmA 310 5.92e-07 1bzjA 297 6.25e-07 1pty c.45.1.2 32667 2f71A 298 6.25e-07 2azrA 299 6.25e-07 2f6fA 302 6.31e-07 1q6nA 310 6.48e-07 c.45.1.2 95984 1lqfA 295 6.54e-07 c.45.1.2 74187 1oemX 321 7.29e-07 c.45.1.2 86916 1c86A 298 8.31e-07 1pty c.45.1.2 32668 1c83A 298 9.48e-07 1pty c.45.1.2 32660 2bzlA 325 9.78e-07 1ywfA 296 1.06e-06 1l8gA 321 1.11e-06 c.45.1.2 73689 1gfyA 298 1.12e-06 1pty c.45.1.2 32666 2a8bA 283 1.12e-06 2cfvA 316 1.18e-06 1larA 575 1.24e-06 1larA c.45.1.2,c.45.1.2 32693,32694 1jlnA 297 1.28e-06 1pty c.45.1.2 63172 1bzhA 298 1.39e-06 1pty c.45.1.2 32664 1bzcA 321 1.62e-06 1pty c.45.1.2 32670 1a5y 330 2.19e-06 1pty c.45.1.2 32673 2ahsA 295 2.51e-06 2fh7A 595 3.48e-06 2gjtA 295 1.03e-05 1ptuA 321 1.03e-05 1pty c.45.1.2 32675 2g59A 297 1.05e-05 1i57A 310 1.09e-05 1pty c.45.1.2 61772 1aax 321 1.20e-05 1pty c.45.1.2 32657 1eeoA 321 1.24e-05 1pty c.45.1.2 32655 1l8kA 314 1.37e-05 c.45.1.2 73691 1pa1A 310 1.80e-05 c.45.1.2 94404 1ptvA 321 1.91e-05 1pty c.45.1.2 32665 1wchA 315 2.65e-05 2bijA 305 3.07e-05 1rpmA 278 3.50e-05 2shpA c.45.1.2 32679 2gp0A 309 3.73e-05 2a3kA 296 3.96e-05 1g1fA 298 4.16e-05 1pty c.45.1.2 32662 1zc0A 309 4.27e-05 1g4wR 383 9.08e-05 1g4uS a.24.11.1,c.45.1.2 16644,32692 2c7sA 313 1.32e-04 1p15A 253 1.51e-04 c.45.1.2 93894 1yfoA 302 1.91e-04 2shpA c.45.1.2 32681 1pa9A 284 2.98e-04 c.45.1.2 94411 1yptA 305 3.07e-04 1ytw c.45.1.2 32686 1qz0A 306 3.07e-04 c.45.1.2 96607 1xxvA 306 3.07e-04 2bv5A 282 5.82e-04 2f46A 156 5.96e-04 2cjzA 305 6.05e-04 1ygrA 610 9.91e-04 1yts 278 6.53e-03 1ytw c.45.1.2 32690 1lyvA 306 6.96e-03 c.45.1.2 74348 1xxpA 306 6.97e-03 1u24A 337 7.19e-02 1zsqA 528 9.73e-01 1lw3A 657 1.10e+00 b.55.1.8,c.45.1.3 91152,91153 1rcqA 357 1.51e+00 b.49.2.2,c.1.6.1 104882,104883 1g6oA 330 1.66e+00 1g6oA c.37.1.11 32430 1zvdA 380 1.87e+00 1mnuH 225 2.93e+00 1igtB b.1.1.1,b.1.1.2 20359,21351 1ojrA 274 3.04e+00 c.74.1.1 93147 1gt7A 274 3.16e+00 c.74.1.1 70398 2fsxA 148 3.55e+00 1qlwA 328 4.23e+00 1qlwA c.69.1.15 34722 1qlwB 328 4.55e+00 1qlwA c.69.1.15 34723 1zoiA 276 5.61e+00 1m3sA 186 6.37e+00 c.80.1.3 78573 1vivA 197 6.58e+00 c.80.1.3 100775 1yyaA 250 6.93e+00 1z6tA 591 8.01e+00 1moxA 501 8.16e+00 c.10.2.5,c.10.2.5,g.3.9.1,g.3.9.1 91372,91373,91374,91375 1w5tA 412 8.24e+00 1xdwA 331 8.50e+00 1cqjA 286 8.58e+00 2scuA c.2.1.8,c.23.4.1 30305,31133 2scuA 288 8.69e+00 2scuA c.2.1.8,c.23.4.1 30303,31131 2bxrA 527 9.47e+00 1dxgA 36 9.66e+00 1dxgA g.41.5.2 45247 1jeoA 180 1.00e+01 c.80.1.3 66611 1b9bA 255 1.23e+01 1amk c.1.1.1 28531 2d7dA 661 1.36e+01 1zxxA 319 1.36e+01 2gtrA 261 1.39e+01 1vimA 200 1.42e+01 c.80.1.3 100758 1flzA 228 1.54e+01 3eugA c.18.1.1 31027 3eugA 229 1.54e+01 3eugA c.18.1.1 31018 4eugA 229 1.55e+01 3eugA c.18.1.1 31019 1eugA 229 1.55e+01 3eugA c.18.1.1 31021 1uxvA 501 1.58e+01 c.82.1.1 108127 1ky8A 501 1.59e+01 c.82.1.1 77628 1uxtA 501 1.64e+01 c.82.1.1 108125 1yy9A 624 1.66e+01 1nqlA 624 1.69e+01 c.10.2.5,c.10.2.5,g.3.9.1,g.3.9.1 86033,86034,86035,86036 1nm2A 317 1.79e+01 c.19.1.1,d.58.23.1 80654,80655 1ivoA 622 1.81e+01 c.10.2.5,c.10.2.5,g.3.9.1,g.3.9.1 76845,76846,76847,76848 1euiA 228 1.84e+01 3eugA c.18.1.1 31028 1uugA 229 1.85e+01 3eugA c.18.1.1 31023 1suiA 247 1.87e+01 2uugA 229 1.88e+01 3eugA c.18.1.1 31025 2cf2B 304 1.90e+01 2cdh4 305 1.91e+01 2fmnA 304 1.98e+01 1pcfA 66 1.98e+01 1pcfA d.18.1.1 38142 1ujvA 96 2.05e+01 b.36.1.1 99470 2ahxA 617 2.08e+01 1eq2A 310 2.15e+01 1eq2A c.2.1.2 29814 1ehlH 219 2.19e+01 1igtB b.1.1.1,b.1.1.2 20503,21459 1aw2A 256 2.20e+01 1amk c.1.1.1 28523 1sxgA 280 2.22e+01 1kegH 220 2.22e+01 b.1.1.1,b.1.1.2 77345,77346 1t6t1 118 2.23e+01 1pjaA 302 2.44e+01 c.69.1.13 94758 1p9bA 442 2.46e+01 c.37.1.10 94385 1rzrA 332 2.48e+01 1a88A 275 2.51e+01 1brt c.69.1.12 34707 1treA 255 2.67e+01 1amk c.1.1.1 28505 1oi4A 193 2.68e+01 c.23.16.2 87047 1zvvA 332 2.69e+01 1fbtA 190 2.70e+01 1bif c.60.1.4 34004 1c80A 191 2.72e+01 c.60.1.4 83162 1tw3A 360 2.77e+01 a.4.5.29,c.66.1.12 107373,107374 1xm7A 195 2.80e+01 1nulA 152 2.84e+01 1nulA c.61.1.1 34011 1tmhA 254 2.84e+01 1amk c.1.1.1 28507 1tk9A 188 2.93e+01 c.80.1.3 107082 1f8fA 371 2.96e+01 b.35.1.2,c.2.1.1 83246,83247 2fw2A 260 3.01e+01 1dj2A 443 3.01e+01 1adeA c.37.1.10 32237 1h3fA 432 3.10e+01 c.26.1.1,d.66.1.4 76631,76632 1zjrA 211 3.14e+01 1ab4 493 3.22e+01 1ab4 e.11.1.1 43251 1qk8A 146 3.28e+01 1ewxA c.47.1.10 33061 1avqA 228 3.30e+01 1avqA c.52.1.13 33326 1ewxA 146 3.30e+01 1ewxA c.47.1.10 33062 1mo0A 275 3.30e+01 c.1.1.1 79329 1iu9A 111 3.35e+01 c.78.2.1 90694 1pjhA 280 3.45e+01 c.14.1.3 94761 1z5sD 83 3.52e+01 1yvbA 241 3.53e+01 1okdA 154 3.62e+01 c.47.1.10 93249 1xbtA 193 3.62e+01 2cbiA 594 3.67e+01 1ezkA 153 3.80e+01 1ewxA c.47.1.10 33063 1p9lA 245 3.81e+01 c.2.1.3,d.81.1.3 94393,94394 1o5wA 534 3.89e+01 c.3.1.2,d.16.1.5 92520,92521 1b5tA 275 4.03e+01 1b5tA c.1.23.1 29676 1kw3B 292 4.04e+01 d.32.1.3,d.32.1.3 77549,77550 1w4rA 195 4.04e+01 1xi1A 575 4.06e+01 1yl7A 245 4.20e+01 1yl5A 247 4.22e+01 1c1yA 167 4.40e+01 c.37.1.8 32012 1mgpA 313 4.40e+01 c.119.1.1 79098 1skz 119 4.43e+01 1skz g.3.15.1,g.3.15.1 44366,44367 1pv1A 299 4.47e+01 1o8xA 146 4.47e+01 c.47.1.10 86681 1kezA 300 4.54e+01 c.69.1.22 68546 4pfk 319 4.55e+01 3pfk c.89.1.1 35582 1mo2A 294 4.56e+01 c.69.1.22 79331 2bhgA 209 4.58e+01 1zp4A 304 4.60e+01 1zp3A 304 4.64e+01 1z8fA 228 4.74e+01 2btmA 252 4.85e+01 1amk c.1.1.1 28511 2ctzA 421 4.88e+01 2fbmA 291 4.93e+01 1guaA 167 4.96e+01 1ctqA c.37.1.8 32013 1em8A 147 4.99e+01 c.128.1.1 90457 1ciu 683 5.01e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21852,22521,27759,28746 1znwA 207 5.04e+01 1rn4 104 5.04e+01 9rnt d.1.1.4 36073 1btmA 252 5.11e+01 1amk c.1.1.1 28513 2hvm 273 5.19e+01 1cnv c.1.8.5 28985 2atvA 196 5.19e+01 1gnyA 153 5.28e+01 b.18.1.11 65404 1jflA 228 5.30e+01 c.78.2.1,c.78.2.1 71656,71657 1s4qA 228 5.34e+01 c.37.1.1 98507 1ru8A 232 5.50e+01 c.26.2.1 97849 2cybA 323 5.64e+01 1eysH 259 5.71e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 1qhhD 169 5.73e+01 1pjr 8cgtA 684 5.77e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21831,22500,27738,28725 5cgt 684 5.77e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21824,22493,27731,28718 6pfkA 319 5.80e+01 3pfk c.89.1.1 35583 1pjtA 457 6.01e+01 c.2.1.11,c.90.1.1,e.37.1.1 94778,94779,94780 1cgt 684 6.02e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21815,22484,27722,28709 1pjqA 457 6.02e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1a99A 344 6.11e+01 1pot c.94.1.1 35812 1v9nA 360 6.13e+01 1ir6A 424 6.19e+01 c.107.1.2 71342 1jlvA 209 6.22e+01 a.45.1.1,c.47.1.5 71729,71730 1cg1A 431 6.24e+01 1adeA c.37.1.10 32223 1a97A 148 6.28e+01 1nulA c.61.1.1 34023 1qf5A 431 6.28e+01 1adeA c.37.1.10 32212 1kkbA 432 6.30e+01 c.37.1.10 72643 2d13A 227 6.32e+01 1a98A 152 6.44e+01 1nulA c.61.1.1 34021 1mimH 215 6.48e+01 1mfa b.1.1.1,b.1.1.2 20129,21159 1cg3A 431 6.52e+01 1adeA c.37.1.10 32219 1cg4A 431 6.54e+01 1adeA c.37.1.10 32228 1ea6A 364 6.69e+01 d.14.1.3,d.122.1.2 64871,64872 1h7sA 365 6.70e+01 d.14.1.3,d.122.1.2 65705,65706 1lybB 241 6.79e+01 1smrA 1mabB 479 6.81e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18312,26477,32357 1t5lA 658 6.98e+01 c.37.1.19,c.37.1.19 106455,106456 1m6bA 621 7.04e+01 c.10.2.5,c.10.2.5,g.3.9.1,g.3.9.1 74521,74522,74523,74524 2fdcA 658 7.12e+01 1d9zA 657 7.15e+01 1d2mA c.37.1.19,c.37.1.19 32421,32422 1mtoA 319 7.30e+01 c.89.1.1 79458 2ga9D 469 7.43e+01 1d9xA 658 7.48e+01 1d2mA c.37.1.19,c.37.1.19 32419,32420 1vjoA 393 7.57e+01 c.67.1.3 100827 1an8 208 7.60e+01 1an8 b.40.2.2,d.15.6.1 25202,37791 2fv7A 331 7.84e+01 1lt8A 406 8.07e+01 c.1.26.1 78186 1vpaA 234 8.22e+01 1o17A 345 8.38e+01 a.46.2.1,c.27.1.1 80765,80766 1z98A 281 8.54e+01 1t9kA 347 8.55e+01 c.124.1.5 106721 2birA 104 8.62e+01 9rnt d.1.1.4 36133 2b5fA 303 8.67e+01 2a33A 215 8.93e+01