# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1ja9A 274 6.61e-01 c.2.1.2 62817 1jhdA 396 1.32e+00 b.58.1.2 66712 c.26.1.5 66713 1ldg 316 1.62e+00 1ceqA c.2.1.5 30165 d.162.1.1 42132 1cqzA 554 1.68e+00 1cr6B c.108.1.2 43339 c.69.1.11 34689 1ybvA 283 1.79e+00 1ybvA c.2.1.2 29948 1jsbA 73 2.01e+00 d.15.3.2 67223 1kk1A 410 2.21e+00 1g0oA 283 2.32e+00 1ybvA c.2.1.2 60181 1i12A 160 2.54e+00 1i21A d.108.1.1 61515 3hmgA 328 2.57e+00 1hgeA b.19.1.2 23825 2viuA 328 2.61e+00 1hgeA b.19.1.2 23797 1add 349 2.66e+00 1a4mA c.1.9.1 29020 1cr6B 554 2.73e+00 1cr6B c.108.1.2 43338 c.69.1.11 34688 1hgeA 328 2.77e+00 1hgeA b.19.1.2 23816 1in4A 334 2.77e+00 1hqcA a.4.5.11 62597 c.37.1.13 62598 1i1dA 161 3.02e+00 1i21A d.108.1.1 61526 1ceqA 316 3.33e+00 1ceqA c.2.1.5 30163 d.162.1.1 42130 1a4mA 349 3.40e+00 1a4mA c.1.9.1 29014 1jdqA 98 3.69e+00 d.68.3.2 66559 1efpB 252 3.99e+00 1efvB c.29.1.1 31636 1pjcA 361 4.39e+00 1sayA c.2.1.4 30101 c.23.12.2 31361 1sayA 361 4.51e+00 1sayA c.2.1.4 30102 c.23.12.2 31362 1pfkA 320 4.67e+00 3pfk c.89.1.1 35575 1i21A 159 5.41e+00 1i21A d.108.1.1 61549 1pjbA 361 5.49e+00 1sayA c.2.1.4 30103 c.23.12.2 31363 1lkzA 219 5.84e+00 1jztA 246 6.10e+00 c.104.1.1 63319 1dkuA 317 6.10e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1psdA 409 6.19e+00 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 2pfkA 320 6.21e+00 3pfk c.89.1.1 35577 1tmy 120 6.28e+00 1dbwA c.23.1.1 31083 1gpjA 404 6.31e+00 a.151.1.1 65451 c.2.1.10 65452 d.58.39.1 65453 1kblA 873 6.43e+00 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1onrA 316 6.59e+00 1onrA c.1.10.1 29169 1bw9A 356 6.88e+00 1bw9A c.2.1.7 30274 c.58.1.1 33922 1hg3A 225 6.99e+00 1hg3A c.1.1.1 61025 1c1dA 355 7.08e+00 1bw9A c.2.1.7 30270 c.58.1.1 33918 1cx8A 639 7.12e+00 1cx8B a.48.2.1 17782 c.8.4.1 30763 c.56.5.5 33851 1spa 396 7.16e+00 1ajsA c.67.1.1 34291 1cx8B 639 7.33e+00 1cx8B a.48.2.1 17783 c.8.4.1 30764 c.56.5.5 33852 1qgvA 142 7.73e+00 1qgvA c.47.1.8 33056 2hrvA 142 7.83e+00 2hrvA b.47.1.4 26429 1bvp1 349 8.18e+00 1bvp1 1ad3A 452 8.26e+00 1ad3A c.82.1.1 35335 1k32A 1045 8.41e+00 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1jkmA 358 8.47e+00 1jkmA c.69.1.2 34633 1g4uS 383 8.59e+00 1g4uS a.24.11.1 16643 c.45.1.2 32691 1iloA 77 8.81e+00 c.47.1.1 66205 1dxy 333 8.98e+00 1dxy c.2.1.4 30094 c.23.12.1 31354 1kte 105 9.83e+00 1kte c.47.1.1 32771 1f74A 293 9.84e+00 1nal3 c.1.10.1 29079 1byrA 155 1.00e+01 1byrA d.136.1.1 41450 1gox 370 1.04e+01 1gox c.1.4.1 28607 1icpA 376 1.04e+01 1oyc c.1.4.1 62270 1othA 321 1.06e+01 1othA c.78.1.1 35260 c.78.1.1 35261 1ipaA 274 1.07e+01 1dhpA 292 1.08e+01 1dhpA c.1.10.1 29097 1gegA 256 1.09e+01 1ybvA c.2.1.2 29888 2nacA 393 1.10e+01 2nadA c.2.1.4 30088 c.23.12.1 31348 3minC 491 1.10e+01 1qguA c.92.2.3 35607 1gps 47 1.13e+01 1gpt g.3.7.5 44176 7aatA 401 1.14e+01 1ajsA c.67.1.1 34250 1bob 320 1.19e+01 1bob d.108.1.1 40816 1gdhA 320 1.20e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 1dl0A 37 1.21e+01 1dl0A g.3.6.2 44112 1gdtA 183 1.21e+01 2rslA a.4.1.2 16021 c.53.1.1 33348 2minA 491 1.22e+01 1qguA c.92.2.3 35609 1b1a 137 1.24e+01 1be1 c.23.6.1 31242 3pmgA 561 1.27e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1qisA 396 1.29e+01 1ajsA c.67.1.1 34284 1gkpA 458 1.31e+01 3adk 195 1.32e+01 1zin c.37.1.1 31885 1jp4A 308 1.32e+01 1jp4A e.7.1.1 63223 1qguA 478 1.33e+01 1qguA c.92.2.3 35625 1ek6A 348 1.33e+01 1xel c.2.1.2 29800 1iirA 415 1.33e+01 1iirA c.87.1.5 62453 1qh8A 478 1.35e+01 1qguA c.92.2.3 35633 1dboA 506 1.37e+01 1dbgA b.80.1.4 28034 1jkmB 361 1.40e+01 1jkmA c.69.1.2 34634 1f5vA 240 1.40e+01 1bkjA d.90.1.1 40255 1yacA 208 1.40e+01 1yacA c.33.1.2 31757 1irxA 523 1.44e+01 1dbgA 506 1.44e+01 1dbgA b.80.1.4 28033 1eudA 311 1.47e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1pii 452 1.48e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1eg7A 557 1.49e+01 1eg7A c.37.1.10 32241 1io7A 368 1.49e+01 1f4tA a.104.1.1 18971 1ars 396 1.49e+01 1ajsA c.67.1.1 34287 2tnfA 156 1.54e+01 2tnfA b.22.1.1 23880 1ahxA 396 1.54e+01 1ajsA c.67.1.1 34293 1d2eA 397 1.55e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1art 396 1.60e+01 1ajsA c.67.1.1 34285 1dqpA 230 1.63e+01 1dqnA c.61.1.1 34069 1jpdX 324 1.63e+01 c.1.11.2 67014 d.54.1.1 67015 2udpA 338 1.64e+01 1xel c.2.1.2 29791 1bnkA 216 1.65e+01 1bnkA b.46.1.2 25765 1lxtA 561 1.65e+01 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1j8mF 297 1.71e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1qhhA 167 1.72e+01 1pjr c.37.1.13 32393 1eemA 241 1.73e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 2at2A 300 1.73e+01 3csuA c.78.1.1 35196 c.78.1.1 35197 1g4wR 383 1.75e+01 1g4uS a.24.11.1 16644 c.45.1.2 32692 2liv 344 1.76e+01 2liv c.93.1.1 35708 1ewnA 219 1.76e+01 1bnkA b.46.1.2 25762 3mag 307 1.77e+01 3mag c.66.1.9 34205 1f4tA 368 1.80e+01 1f4tA a.104.1.1 18973 1aw5 326 1.81e+01 1b4kA c.1.10.3 29181 1ylvA 342 1.84e+01 1b4kA c.1.10.3 29180 1gcoA 261 1.84e+01 1ybvA c.2.1.2 29884 1h7nA 342 1.87e+01 1b4kA c.1.10.3 60726 1gn0A 108 1.89e+01 c.46.1.3 65358 4tsvA 150 1.95e+01 2tnfA b.22.1.1 23860 3nll 138 1.96e+01 5nul c.23.5.1 31206 1je3A 97 1.96e+01 1kvs 338 1.96e+01 1xel c.2.1.2 29799 1xel 338 1.96e+01 1xel c.2.1.2 29786 1udc 338 1.96e+01 1xel c.2.1.2 29785 1udb 338 1.97e+01 1xel c.2.1.2 29787 1e5dA 402 1.97e+01 1e5dA c.23.5.1 31208 d.157.1.3 42061 1qrrA 394 1.99e+01 1qrrA c.2.1.2 29824 1b25A 619 2.01e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1rl6A 177 2.02e+01 1rl6A d.141.1.1 41473 d.141.1.1 41474 1dqnA 230 2.03e+01 1dqnA c.61.1.1 34067 1g5cA 170 2.04e+01 1g5cA c.53.2.1 60264 1thfD 253 2.04e+01 1thfD c.1.2.1 28535 5nul 138 2.07e+01 5nul c.23.5.1 31191 1a04A 215 2.09e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1lbvA 252 2.13e+01 1e2fA 215 2.13e+01 3tmkA c.37.1.1 59164 1grj 158 2.15e+01 1grj a.2.1.1 15691 d.26.1.2 38433 1e9eA 215 2.16e+01 c.37.1.1 64810 1jpnA 296 2.18e+01 a.24.13.1 67039 c.37.1.10 67040 1qklA 127 2.18e+01 1qklA d.78.1.2 39754 2pgd 482 2.28e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1hs6A 611 2.30e+01 1hs6A a.118.1.7 61233 b.98.1.1 61234 d.92.1.13 61235 1lk5A 229 2.33e+01 1tnfA 158 2.35e+01 2tnfA b.22.1.1 23871 1dcjA 81 2.36e+01 1dcjA d.68.3.1 59115 1hf2A 210 2.36e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 2fvx 138 2.37e+01 5nul c.23.5.1 31200 2dtr 226 2.38e+01 1bi0 a.4.5.24 16193 a.76.1.1 18399 b.34.1.2 24450 1kgsA 225 2.42e+01 a.4.6.1 68596 c.23.1.1 68597 1i88A 389 2.42e+01 c.95.1.2 66070 c.95.1.2 66071 1pymA 295 2.44e+01 1pymA c.1.12.4 29308 2bopA 85 2.47e+01 2bopA d.58.8.1 39217 1d3gA 367 2.49e+01 1d3gA c.1.4.1 28600 1bi0 226 2.51e+01 1bi0 a.4.5.24 16202 a.76.1.1 18408 b.34.1.2 24453 1hqcA 324 2.52e+01 1hqcA a.4.5.11 16127 c.37.1.13 32424 2lbp 346 2.54e+01 2liv c.93.1.1 35709 1i3kA 348 2.54e+01 1xel c.2.1.2 61595 1v39 322 2.56e+01 3mag c.66.1.9 34206 1vp9 322 2.56e+01 3mag c.66.1.9 34210 1b1cA 181 2.58e+01 1amoA c.23.5.2 31212 1jyeA 349 2.66e+01 c.93.1.1 67455 2nadA 393 2.67e+01 2nadA c.2.1.4 30090 c.23.12.1 31350 1sacA 204 2.72e+01 1sacA b.29.1.5 24237 1ik6A 369 2.73e+01 c.36.1.3 66174 c.48.1.2 66175 1a53 247 2.73e+01 1a53 c.1.2.4 28564 1hyqA 263 2.74e+01 1hyqA c.37.1.10 61412 1rhs 296 2.76e+01 1rhs c.46.1.2 32703 c.46.1.2 32704 1fiqC 763 2.79e+01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1dkrA 317 2.80e+01 1dkuA c.61.1.2 34114 c.61.1.2 34115 2fua 215 2.80e+01 2fua c.74.1.1 34977 1aozA 552 2.81e+01 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1atzA 189 2.82e+01 1atzA c.62.1.1 34132 2fox 138 2.83e+01 5nul c.23.5.1 31197 1igs 248 2.85e+01 1a53 c.1.2.4 28565 1f39A 101 2.87e+01 1umuA b.87.1.1 28386 1fg7A 356 2.90e+01 1gewA c.67.1.1 59819 1fua 215 2.90e+01 2fua c.74.1.1 34973 1jmtA 104 2.92e+01 d.58.7.3 63180 1skyE 473 2.92e+01 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1lam 484 2.93e+01 1lam c.50.1.1 33166 c.56.5.3 33829 1jwiB 125 2.93e+01 d.169.1.1 67384 1gca 309 2.99e+01 1gca c.93.1.1 35659 1qdlB 195 3.01e+01 1qdlB c.23.16.1 31437 1juk 248 3.01e+01 1a53 c.1.2.4 28567 1jb9A 316 3.02e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 2aaa 484 3.03e+01 7taa b.71.1.1 27777 c.1.8.1 28764 1db3A 372 3.05e+01 1db3A c.2.1.2 29813 1moq 368 3.07e+01 1moq c.80.1.1 35302 1e2gA 215 3.11e+01 3tmkA c.37.1.1 59165 1kewA 361 3.15e+01 c.2.1.2 68544 1ahsA 126 3.16e+01 1ahsA b.19.1.1 23794 1lap 488 3.17e+01 1lam c.50.1.1 33171 c.56.5.3 33834 1gewA 356 3.18e+01 1gewA c.67.1.1 60470 1fdyA 297 3.19e+01 1nal3 c.1.10.1 29071 1lqvA 193 3.19e+01 1b7gO 340 3.21e+01 1b7gO c.2.1.3 29992 d.81.1.1 39907 1d3hA 367 3.23e+01 1d3gA c.1.4.1 28601 1atzB 189 3.23e+01 1atzA c.62.1.1 34133 1lldA 319 3.26e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 1kb0A 677 3.32e+01 a.3.1.6 68378 b.70.1.1 68379 1edoA 244 3.32e+01 1ybvA c.2.1.2 29896 1kc0A 299 3.32e+01 3dni 260 3.45e+01 3dni d.151.1.1 41791 1vpt 348 3.49e+01 3mag c.66.1.9 34207 1ddbA 195 3.49e+01 1ddbA f.1.4.1 43399 1ekjB 221 3.51e+01 1ekjB c.53.2.1 33365 1bia 321 3.55e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1l0wA 580 3.57e+01 1qi6A 475 3.62e+01 1euhA c.82.1.1 35373 1nal1 297 3.67e+01 1nal3 1f7uA 607 3.69e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1opd 85 3.69e+01 1ptf d.94.1.1 40560 1e0cA 271 3.71e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 2gbp 309 3.83e+01 1gca c.93.1.1 35657 1fmcA 255 3.83e+01 1cydA c.2.1.2 29856 1e4cP 215 3.88e+01 2fua c.74.1.1 34969 1a7j 290 3.90e+01 1a7j c.37.1.6 31952 1eq2A 310 3.94e+01 1eq2A c.2.1.2 29814 2bpa1 426 3.97e+01 2bpa1 1d9eA 284 3.97e+01 1d9eA c.1.10.4 29195 1eo1A 124 3.98e+01 1eo1A c.55.5.1 33739 1phr 157 4.00e+01 1dg9A c.44.1.1 32635 1bib 321 4.00e+01 1bia a.4.5.1 16084 b.34.1.1 24448 d.104.1.2 40788