# List of top-scoring protein chains for T0305.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 2fh7A 595 1.69e-50 2c7sA 313 3.62e-50 1yfoA 302 7.30e-50 2shpA c.45.1.2 32681 1larA 575 8.98e-50 1larA c.45.1.2,c.45.1.2 32693,32694 1rpmA 278 6.96e-49 2shpA c.45.1.2 32679 2ahsA 295 1.02e-48 2cfvA 316 3.96e-48 2g59A 297 2.27e-47 2gjtA 295 2.28e-47 1ygrA 610 3.17e-47 1p15A 253 3.26e-47 c.45.1.2 93894 2shpA 525 9.51e-46 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 2fjmA 310 1.66e-45 1lqfA 295 2.13e-45 c.45.1.2 74187 1q6nA 310 2.15e-45 c.45.1.2 95984 2f6fA 302 2.70e-45 1bzhA 298 3.09e-45 1pty c.45.1.2 32664 1bzcA 321 3.21e-45 1pty c.45.1.2 32670 2f71A 298 3.28e-45 2azrA 299 3.29e-45 1oemX 321 3.40e-45 c.45.1.2 86916 1bzjA 297 3.50e-45 1pty c.45.1.2 32667 1l8kA 314 3.82e-45 c.45.1.2 73691 1c83A 298 3.88e-45 1pty c.45.1.2 32660 1c86A 298 3.89e-45 1pty c.45.1.2 32668 1l8gA 321 4.03e-45 c.45.1.2 73689 1i57A 310 6.02e-45 1pty c.45.1.2 61772 1gwz 299 6.53e-45 2shpA c.45.1.2 32685 1gfyA 298 6.73e-45 1pty c.45.1.2 32666 1pa1A 310 7.38e-45 c.45.1.2 94404 1a5y 330 8.14e-45 1pty c.45.1.2 32673 1nwlA 298 8.40e-45 c.45.1.2 86300 1eeoA 321 9.53e-45 1pty c.45.1.2 32655 1aax 321 9.65e-45 1pty c.45.1.2 32657 1ptvA 321 1.13e-44 1pty c.45.1.2 32665 1ptuA 321 1.17e-44 1pty c.45.1.2 32675 2b3oA 532 1.24e-44 1g1fA 298 1.47e-44 1pty c.45.1.2 32662 1fprA 284 1.64e-44 2shpA c.45.1.2 59949 2b49A 287 3.03e-44 1wchA 315 1.38e-42 2bzlA 325 1.43e-42 2a3kA 296 1.83e-42 1zc0A 309 2.19e-42 2gp0A 309 2.64e-42 2a8bA 283 7.68e-42 2bijA 305 1.54e-41 1jlnA 297 1.93e-41 1pty c.45.1.2 63172 2bv5A 282 6.08e-41 1pa9A 284 2.24e-19 c.45.1.2 94411 1yptA 305 2.25e-19 1ytw c.45.1.2 32686 1qz0A 306 2.25e-19 c.45.1.2 96607 1xxvA 306 2.25e-19 1yts 278 8.48e-19 1ytw c.45.1.2 32690 1lyvA 306 8.49e-19 c.45.1.2 74348 1xxpA 306 8.49e-19 1g4wR 383 3.36e-12 1g4uS a.24.11.1,c.45.1.2 16644,32692 1ohcA 348 8.35e-09 c.45.1.1,c.45.1.1 87009,87010 1oheA 348 4.19e-08 c.45.1.1,c.45.1.1 87013,87014 1x24A 180 4.74e-08 1rxdA 159 4.85e-08 1zckA 154 5.03e-08 1zclA 180 2.54e-07 1xm2A 173 2.65e-07 1v3aA 173 2.01e-06 1r6hA 172 2.03e-06 c.45.1.1 97150 1fpzA 212 3.28e-05 1fpzA c.45.1.1 59976 1d5rA 324 1.64e-04 1d5rA b.7.1.1,c.45.1.1 23181,32697 1m3gA 145 6.47e-04 c.45.1.1 84783 1yn9A 169 9.32e-04 2c46A 241 1.12e-03 1i9sA 210 1.32e-03 1i9sA c.45.1.1 62099 1wrmA 165 1.34e-03 1vhrA 184 1.83e-03 1vhrA c.45.1.1 32651 1xriA 151 4.70e-03 1yz4A 160 8.41e-03 1ywfA 296 1.30e-02 1j4xA 184 1.32e-02 c.45.1.1 66392 1zsqA 528 2.09e-02 1lw3A 657 2.10e-02 b.55.1.8,c.45.1.3 91152,91153 1mkp 144 3.31e-02 1vhrA c.45.1.1 32654 1u24A 337 2.33e-01 2d5cA 263 7.10e-01 1ciu 683 1.03e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21852,22521,27759,28746 1z6tA 591 1.14e+00 1ot1A 686 1.55e+00 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87392,87393,87394,87395 1ot2A 686 1.83e+00 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87396,87397,87398,87399 1dtuA 686 1.91e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21840,22509,27747,28734 1v3jA 686 1.99e+00 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 108305,108306,108307,108308 1d7fA 686 1.99e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21848,22517,27755,28742 1pamA 686 1.99e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 1v3kA 686 1.99e+00 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 108313,108314,108315,108316 1uksA 686 1.99e+00 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 99517,99518,99519,99520 1tcmA 686 2.07e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21833,22502,27740,28727 1pezA 686 2.08e+00 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 94600,94601,94602,94603 1pj9A 686 2.08e+00 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 94754,94755,94756,94757 1cgw 686 2.10e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21822,22491,27729,28716 1cxlA 686 2.10e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21829,22498,27736,28723 1d3cA 686 2.10e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1cdg 686 2.10e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21816,22485,27723,28710 1cgy 686 2.10e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21823,22492,27730,28717 1eo5A 686 2.10e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21828,22497,27735,28722 1kckA 686 2.10e+00 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 68441,68442,68443,68444 1cgx 686 2.10e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21832,22501,27739,28726 1cgv 686 2.10e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21820,22489,27727,28714 1kclA 686 2.11e+00 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 68445,68446,68447,68448 1uktA 686 3.43e+00 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 99525,99526,99527,99528 1h4jA 599 4.79e+00 4aahA b.70.1.1 60590 1w6sA 599 4.83e+00 1h4iA 599 4.83e+00 4aahA b.70.1.1 60586 1zbxB 141 5.66e+00 1jroB 777 7.60e+00 d.41.1.1,d.133.1.1 67141,67142 1zhiB 138 1.01e+01 1z1aA 142 1.07e+01 1pr9A 244 1.30e+01 c.2.1.2 95060 1wj7A 104 1.54e+01 1tw3A 360 1.63e+01 a.4.5.29,c.66.1.12 107373,107374 2fnqA 699 1.78e+01 1erjA 393 1.82e+01 1erjA b.69.4.1 27660 1p0iA 529 1.93e+01 c.69.1.1 93867 1fu5A 111 2.00e+01 1qadA d.93.1.1 40505 1cyg 680 2.05e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21843,22512,27750,28737 2pna 104 2.31e+01 1qadA d.93.1.1 40501 1qfzA 308 2.43e+01 1fnc b.43.4.2,c.25.1.1 25633,31523 1qg0A 308 2.44e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1cgt 684 2.44e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21815,22484,27722,28709 8cgtA 684 2.44e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21831,22500,27738,28725 6cgt 684 2.44e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21837,22506,27744,28731 1qgaA 308 2.44e+01 1fnc b.43.4.2,c.25.1.1 25637,31527 5cgt 684 2.44e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21824,22493,27731,28718 1ex9A 285 2.48e+01 1cvl c.69.1.18 34785 1mg2A 390 2.55e+01 b.69.2.1 79059 1xb8A 128 2.56e+01 2b9lA 394 2.57e+01 1xb3A 128 2.67e+01 1lrwA 600 2.89e+01 b.70.1.1 91111 1gl5A 67 2.90e+01 b.34.2.1 65289 4cgt 678 2.90e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21825,22494,27732,28719 1md4A 209 2.91e+01 a.45.1.1,c.47.1.5 74632,74633 1u5uA 374 2.95e+01 1maaA 547 3.08e+01 2bce c.69.1.1 34615 1n5mA 541 3.10e+01 c.69.1.1 80031 1n5rA 543 3.12e+01 c.69.1.1 80037 2c0pA 548 3.15e+01 1ku6A 549 3.17e+01 c.69.1.1 91037 1urhA 280 3.23e+01 c.46.1.2,c.46.1.2 99829,99830 1c2bA 540 3.28e+01 2bce c.69.1.1 34614 1c2oA 539 3.32e+01 2bce c.69.1.1 34610 2cryA 122 3.35e+01 1vkrA 125 3.45e+01 c.44.2.1 108689 1q84A 580 3.45e+01 c.69.1.1 96156 1pkyA 470 3.57e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27068,29296,33150 1e0tA 470 3.57e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1e0uA 470 3.60e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27072,29300,33154 1di6A 195 3.70e+01 1di6A c.57.1.1 33863 1ihuA 589 3.73e+01 c.37.1.10,c.37.1.10 62394,62395 1dleA 298 3.74e+01 1dleA b.47.1.2 26312 1vzoA 355 3.88e+01 d.144.1.7 108971 4gssA 209 3.94e+01 1pgtA a.45.1.1,c.47.1.5 17570,32864 2d1tA 548 4.09e+01 1qhhA 167 4.11e+01 1pjr c.37.1.19 32393 1z6vA 49 4.22e+01 1t3gA 159 4.23e+01 2mtaH 373 4.34e+01 2bbkH b.69.2.1 27636 1e9zA 238 4.57e+01 b.85.3.1,d.8.1.1 64850,64851 2g2bA 150 4.60e+01 1gvhA 396 4.63e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 145l 164 4.66e+01 1l92 d.2.1.3 36860 2d1sA 548 4.88e+01 1op0A 234 4.96e+01 b.47.1.2 104019 2f9nA 245 5.02e+01 1aqwA 209 5.03e+01 1pgtA a.45.1.1,c.47.1.5 17517,32811 1lbkA 208 5.03e+01 a.45.1.1,c.47.1.5 73809,73810 18gsA 210 5.04e+01 1pgtA a.45.1.1,c.47.1.5 17528,32822 2f9oA 245 5.06e+01 1fadA 99 5.10e+01 1fadA a.77.1.2 18428 1gzkA 315 5.30e+01 d.144.1.7 83406 1wh2A 78 5.41e+01 1zsyA 357 5.46e+01 1gznA 335 5.77e+01 d.144.1.7 83407 1ltoA 245 5.77e+01 b.47.1.2 84707 1o6kA 336 5.81e+01 d.144.1.7 81091 1mryA 339 5.84e+01 d.144.1.7 91451 22gsA 210 5.84e+01 1pgtA a.45.1.1,c.47.1.5 17542,32836 1g83A 165 5.86e+01 1fmk b.34.2.1,d.93.1.1 60341,60342 1md3A 209 5.91e+01 a.45.1.1,c.47.1.5 74628,74629 1eogA 208 5.94e+01 1pgtA a.45.1.1,c.47.1.5 17560,32854 1xhlA 297 6.07e+01 c.2.1.2 109591 1pp2L 122 6.07e+01 1poa a.133.1.2 19525 1x4zA 121 6.18e+01 2c9kA 612 6.22e+01 1j58A 385 6.33e+01 b.82.1.2 71531 2pgd 482 6.36e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1dyg 164 6.37e+01 1l92 d.2.1.3 36896 1o6lA 337 6.40e+01 d.144.1.7 81092 1rrkA 497 6.47e+01 1b6iA 164 6.59e+01 1l92 d.2.1.3 36945 1tedA 393 6.68e+01 c.95.1.2 106807 1d8cA 723 6.70e+01 1d8cA c.1.13.1 29325 1teeA 393 6.72e+01 c.95.1.2 106811 1wy9A 147 6.81e+01 1y6iA 233 6.96e+01 1s1iR 137 7.11e+01 i.1.1.1 105192 1px7A 209 7.12e+01 a.45.1.1,c.47.1.5 88337,88338 1suoA 476 7.12e+01 a.104.1.1 106026 2mev1 277 7.14e+01 2mev1 1px6A 209 7.16e+01 a.45.1.1,c.47.1.5 88333,88334 1po5A 476 7.20e+01 a.104.1.1 94963 2g6yA 217 7.28e+01 1t31A 226 7.29e+01 1mhcA 282 7.32e+01 1agdA b.1.1.2,d.19.1.1 20831,38305 1p7tA 731 7.36e+01 c.1.13.1 94319 2ft6A 124 7.36e+01 1nn6A 228 7.37e+01 b.47.1.2 85893 1l72 164 7.45e+01 1l92 d.2.1.3 36817 2amuA 143 7.52e+01 1op2A 234 7.58e+01 b.47.1.2 104020 2bbkH 355 7.61e+01 2bbkH b.69.2.1 27634 1r3sA 367 7.78e+01 c.1.22.1 96963 144l 164 7.84e+01 1l92 d.2.1.3 36893 2essA 248 7.85e+01 1l08 164 7.87e+01 1l92 d.2.1.3 36795 1eohA 209 7.91e+01 1pgtA a.45.1.1,c.47.1.5 17574,32868 1sly 618 8.08e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1mswD 883 8.09e+01 e.8.1.3 79427 1aroP 883 8.10e+01 1cezA e.8.1.3 43112 1r3wA 367 8.21e+01 c.1.22.1 96966 1klt 226 8.22e+01 5ptp b.47.1.2 26300 1r3qA 367 8.32e+01 c.1.22.1 96961 1rj9A 304 8.41e+01 a.24.13.1,c.37.1.10 97553,97554 1eu8A 409 8.42e+01 1eu8A c.94.1.1 59502 2pkaB 152 8.45e+01 5ptp 1l04 164 8.49e+01 1l92 d.2.1.3 36783 1oqcA 125 8.51e+01 a.24.15.1 87264 1ijlA 123 8.54e+01 a.133.1.2 66163 1r3rA 367 8.66e+01 c.1.22.1 96962 1agi 125 8.82e+01 7rsa d.5.1.1 37303 1okkD 303 8.85e+01 a.24.13.1,c.37.1.10 93261,93262 1r3vA 367 8.90e+01 c.1.22.1 96965 1oi1A 221 8.92e+01 b.34.9.3,b.34.9.3 87037,87038