# 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 1qd1A 325 7.20e-02 1qd1A d.58.34.1 39493 d.58.34.1 39494 1hf2A 210 5.18e-01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1b8aA 438 5.27e-01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1dd3A 128 5.53e-01 1dd3C a.108.1.1 19031 d.45.1.1 38760 1efcA 393 6.81e-01 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1id0A 152 1.08e+00 d.122.1.3 66111 1d2eA 397 1.10e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1pea 385 1.13e+00 1pea c.93.1.1 35662 1bak 119 1.17e+00 1bak b.55.1.1 26973 1d2iA 223 1.35e+00 1d2iA c.52.1.5 33297 1eudB 396 1.38e+00 2scuB c.23.4.1 31150 d.142.1.4 41571 1smlA 269 1.43e+00 1smlA d.157.1.1 42053 1kvoA 124 1.54e+00 1poa a.133.1.2 19564 1c1yB 77 1.57e+00 1c1yB d.15.1.5 37618 1etu 394 1.68e+00 1efcA c.37.1.8 64737 1pytA 94 1.73e+00 1pytA d.58.3.1 39064 1ctf 74 1.77e+00 1ctf d.45.1.1 38759 1evlA 401 2.07e+00 1qf6A c.51.1.1 33202 d.104.1.1 40751 1jdpA 441 2.09e+00 c.93.1.1 62906 1fecA 490 2.32e+00 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 3ladA 476 2.35e+00 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1dfmA 223 2.42e+00 1d2iA c.52.1.5 33295 1faoA 126 2.47e+00 1faoA b.55.1.1 26974 1kvkA 395 3.04e+00 1psdA 409 3.04e+00 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1rypJ 204 3.39e+00 d.153.1.4 41878 1dc1A 323 3.53e+00 1dc1A c.52.1.11 33321 2oatA 439 3.62e+00 2dkb c.67.1.4 34452 1k0rA 366 3.77e+00 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1im5A 180 3.87e+00 c.33.1.2 66211 1bed 181 4.03e+00 1fvkA a.44.1.1 17514 c.47.1.4 32808 1aisA 182 4.17e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1f08A 148 4.27e+00 1f08A d.89.1.2 59564 1nsyA 271 4.46e+00 2nsyA c.26.2.1 31614 1kqpA 271 4.46e+00 2nsyA 271 4.46e+00 2nsyA c.26.2.1 31612 1ih8A 271 4.46e+00 2nsyA c.26.2.1 62377 1f4pA 147 4.70e+00 5nul c.23.5.1 59651 1gsa 316 4.96e+00 1gsa c.30.1.3 31718 d.142.1.1 41477 2fx2 147 5.07e+00 1rcf c.23.5.1 31158 1lfpA 249 5.14e+00 1ejhA 190 5.19e+00 1ejhA d.86.1.1 40147 2if1 126 5.21e+00 2if1 d.64.1.1 39547 1jg8A 347 5.23e+00 1jg8A c.67.1.1 62946 1qf6A 642 5.42e+00 1qf6A c.51.1.1 33210 d.66.1.1 39551 d.67.1.1 39562 d.104.1.1 40759 1oatA 439 5.49e+00 2dkb c.67.1.4 34461 1g61A 228 5.54e+00 1g61A d.126.1.1 41126 1a6q 382 5.67e+00 1a6q d.158.1.1 42063 1fe0A 68 5.88e+00 1cc8A d.58.17.1 39345 2lbp 346 5.96e+00 2liv c.93.1.1 35709 1tadA 324 6.48e+00 1cipA a.66.1.1 18194 c.37.1.8 32077 1bu5A 147 6.66e+00 5nul c.23.5.1 31155 1j9eA 147 6.81e+00 c.23.5.1 62756 1aipE 405 6.84e+00 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1chuA 540 7.14e+00 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1qpzA 340 7.19e+00 1qpzA a.35.1.5 17097 c.93.1.1 35673 1hufA 140 7.22e+00 1hufA d.195.1.1 61272 1akr 147 7.26e+00 1rcf c.23.5.1 31152 1e5dA 402 7.34e+00 1e5dA c.23.5.1 31208 d.157.1.3 42061 1gx3A 284 7.49e+00 1v39 322 7.50e+00 3mag c.66.1.9 34206 1vp9 322 7.50e+00 3mag c.66.1.9 34210 1pru 56 7.60e+00 1pru a.35.1.5 17104 3mag 307 7.82e+00 3mag c.66.1.9 34205 1ir6A 424 7.86e+00 1rdr 461 7.88e+00 1rdr e.8.1.4 43116 1k75A 434 8.13e+00 c.82.1.2 68253 1wetA 340 8.14e+00 1qpzA a.35.1.5 17093 c.93.1.1 35670 1jpmA 366 8.78e+00 c.1.11.2 67031 d.54.1.1 67032 1qqgA 264 8.84e+00 1qqgA b.55.1.2 26987 b.55.1.2 26988 1nfp 228 8.87e+00 1nfp c.1.16.2 29555 1ecpA 238 8.91e+00 1ecpA c.56.2.1 33775 1qm4A 396 8.92e+00 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1kaeA 434 8.99e+00 2lfb 100 9.24e+00 1lfb a.4.1.1 15990 1exmA 405 9.27e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1bvyF 191 9.42e+00 1bvyF c.23.5.1 31207 1jjtA 228 9.52e+00 1a7tA d.157.1.1 63139 1vpt 348 9.63e+00 3mag c.66.1.9 34207 1delA 241 9.76e+00 1dekA c.37.1.1 31844 1ffk1 177 9.85e+00 1ffk1 1dd6A 228 1.00e+01 1a7tA d.157.1.1 42054 1eluA 390 1.01e+01 1elqA c.67.1.3 34434 1aye 401 1.05e+01 1aye c.56.5.1 33824 d.58.3.1 39065 1dekA 241 1.06e+01 1dekA c.37.1.1 31842 1dbqA 289 1.07e+01 1qpzA c.93.1.1 35666 1ha3A 405 1.08e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1ejdA 419 1.10e+01 1uae d.68.2.2 39576 1maz 221 1.11e+01 1maz f.1.4.1 43393 1gegA 256 1.11e+01 1ybvA c.2.1.2 29888 1k9sA 237 1.11e+01 c.56.2.1 68359 1hnjA 317 1.11e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1hn9A 317 1.13e+01 1hn9A c.95.1.1 35977 c.95.1.1 35978 1f2tA 149 1.15e+01 1f2tA c.37.1.12 32373 1fg7A 356 1.17e+01 1gewA c.67.1.1 59819 1g7sA 594 1.17e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1elqA 390 1.17e+01 1elqA c.67.1.3 34436 1b16A 254 1.18e+01 1b16A c.2.1.2 29875 1qisA 396 1.22e+01 1ajsA c.67.1.1 34284 1eazA 125 1.24e+01 1ihjA 98 1.25e+01 1pdr b.36.1.1 62382 1h8eA 510 1.27e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1ipcA 217 1.36e+01 1rvv1 154 1.37e+01 1rvv1 1rvvA 154 1.37e+01 1rvv1 c.16.1.1 30927 3vub 101 1.37e+01 3vub b.34.6.1 24613 1gewA 356 1.39e+01 1gewA c.67.1.1 60470 1art 396 1.40e+01 1ajsA c.67.1.1 34285 1fpkA 335 1.44e+01 1frpA e.7.1.1 42930 1jj2E 177 1.45e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1eluB 390 1.47e+01 1elqA c.67.1.3 34435 1ew3A 159 1.49e+01 1mup b.60.1.1 27114 1e79A 510 1.50e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1j98A 157 1.51e+01 1j98A d.185.1.2 62755 1h6dA 433 1.52e+01 c.2.1.3 65656 d.81.1.5 65657 1jltA 122 1.56e+01 a.133.1.2 66867 1fezA 256 1.57e+01 1fezA c.108.1.3 43343 1ek8A 185 1.58e+01 1ek8A d.67.3.1 59444 1d4oA 184 1.59e+01 1d4oA c.31.1.4 31748 1spbP 78 1.59e+01 1scjB d.58.3.2 39068 1f60B 94 1.64e+01 1b64 d.58.12.1 39307 1btn 106 1.67e+01 1btn b.55.1.1 26952 1jsuC 84 1.69e+01 1jsuC j.55.1.1 46339 2gmfA 127 1.70e+01 2gmfA a.26.1.2 16849 1dro 122 1.73e+01 1btn b.55.1.1 26954 1hv8A 367 1.74e+01 1hv8A c.37.1.13 32405 c.37.1.13 32406 1ofgA 381 1.76e+01 1ofgA c.2.1.3 30064 d.81.1.5 39979 1hn2A 159 1.80e+01 b.60.1.1 65890 1hh2P 344 1.81e+01 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1l8bA 190 1.86e+01 1ktjA 129 1.87e+01 1dtwB 342 1.89e+01 1qs0B c.36.1.3 31828 c.48.1.2 33102 1lucB 324 1.89e+01 1lucA c.1.16.1 29548 1obpA 159 1.91e+01 1obpA b.60.1.1 27092 1tag 324 1.96e+01 1cipA a.66.1.1 18197 c.37.1.8 32080 1ej1A 190 1.96e+01 1ejhA d.86.1.1 40144 1cc8A 73 1.97e+01 1cc8A d.58.17.1 39343 1gmuA 143 2.02e+01 b.107.1.1 65335 d.58.38.1 65336 2fmr 65 2.07e+01 2fmr d.51.1.1 38808 1ad3A 452 2.08e+01 1ad3A c.82.1.1 35335 1iatA 557 2.12e+01 1dqrA c.80.1.2 62123 1hwyA 501 2.15e+01 1hwyA c.2.1.7 30262 c.58.1.1 33910 1rypK 198 2.17e+01 d.153.1.4 41879 1vpi 122 2.18e+01 1poa a.133.1.2 19559 1a4uA 254 2.22e+01 1b16A c.2.1.2 29878 1cf9A 753 2.34e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1g5hA 454 2.37e+01 1g5hA c.51.1.1 60270 d.104.1.1 60271 1ahxA 396 2.39e+01 1ajsA c.67.1.1 34293 1csgA 127 2.40e+01 2gmfA a.26.1.2 16851 1g6sA 427 2.42e+01 1eps d.68.2.2 39584 1kyqA 274 2.49e+01 1a75A 108 2.50e+01 1a75A a.39.1.4 17216 1d3gA 367 2.52e+01 1d3gA c.1.4.1 28600 1cipA 353 2.53e+01 1cipA a.66.1.1 18210 c.37.1.8 32093 1xyzA 347 2.54e+01 1taxA c.1.8.3 28804 2minB 522 2.55e+01 1qguB c.92.2.3 35610 1e6bA 221 2.57e+01 1e6bA a.45.1.1 59294 c.47.1.5 59295 1af3 196 2.57e+01 1maz f.1.4.1 43397 1dzkA 157 2.62e+01 1obpA b.60.1.1 27096 1cdwA 179 2.63e+01 1ytbA d.129.1.1 41212 d.129.1.1 41213 1din 236 2.66e+01 1din c.69.1.9 34682 1fmaE 150 2.69e+01 1fmaE d.41.5.1 38630 1bpoA 494 2.70e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1ble 163 2.71e+01 1ble c.38.1.1 32475 1e39A 571 2.73e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1i1kA 309 2.74e+01 1daaA e.17.1.1 61533 1qltA 560 2.75e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 1rypA 243 2.76e+01 1pmaA d.153.1.4 41932 2liv 344 2.78e+01 2liv c.93.1.1 35708 2fox 138 2.80e+01 5nul c.23.5.1 31197 1jy8A 159 2.80e+01 d.79.5.1 67452 1ba1 386 2.86e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1vaoA 560 2.87e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 1e8gA 560 2.88e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1fm0E 150 2.93e+01 1fmaE d.41.5.1 38629 1bmfA 510 2.96e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1b6cB 342 2.96e+01 1b6cB d.144.1.1 41673 1bjaA 95 2.98e+01 1bjaA a.4.5.9 16122 1h9dB 134 3.00e+01 2jhbA b.54.1.1 60822 1a3yA 149 3.03e+01 1obpA b.60.1.1 27110 2ae2A 260 3.04e+01 1bdb c.2.1.2 29945 1a53 247 3.06e+01 1a53 c.1.2.4 28564 1fxiA 96 3.08e+01 1awd d.15.4.1 37664 1pjbA 361 3.15e+01 1sayA c.2.1.4 30103 c.23.12.2 31363 1d3hA 367 3.16e+01 1d3gA c.1.4.1 28601 1c4oA 664 3.17e+01 1d2mA c.37.1.13 32415 c.37.1.13 32416 1dkxA 219 3.24e+01 1dkzA e.20.1.1 43315 1e19A 314 3.25e+01 1b7bA c.73.1.1 34967 1a9v 129 3.32e+01 1a9v b.1.1.5 21946 1j8wB 273 3.33e+01 c.68.1.2 66441 1dkzA 219 3.35e+01 1dkzA e.20.1.1 43314 1ej5A 107 3.35e+01 1ej5A a.68.1.1 18268 1fzrA 138 3.35e+01 1fzrA c.52.1.17 33336 1qjdA 571 3.36e+01 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 5nul 138 3.38e+01 5nul c.23.5.1 31191 1fmjA 351 3.41e+01 c.37.1.5 59879 1hzpA 335 3.43e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 9gafA 295 3.45e+01 1apyA d.153.1.5 42008 1a8h 500 3.48e+01 1a8h a.27.1.1 16922 c.26.1.1 31589 3nll 138 3.48e+01 5nul c.23.5.1 31206 1g3qA 237 3.49e+01 1hyqA c.37.1.10 60237 8abp 306 3.49e+01 8abp c.93.1.1 35647 1rpxA 230 3.54e+01 1rpxA c.1.2.2 28536 1g7rA 594 3.54e+01 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 3minB 522 3.56e+01 1qguB c.92.2.3 35606 2end 138 3.58e+01 2end a.18.1.1 16400 1cby 259 3.59e+01 1cby d.103.1.1 40705 1by9 81 3.62e+01 2bopA d.58.8.1 39223 1rvaA 244 3.63e+01 1rvaA c.52.1.2 33240 1lvl 458 3.64e+01 1lvl c.3.1.5 30567 c.3.1.5 30568 d.87.1.1 40205 1kay 381 3.69e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1rkd 309 3.72e+01 1rkd c.72.1.1 34928 1vasA 137 3.73e+01 2end a.18.1.1 16404 2pth 193 3.78e+01 2pth c.56.3.1 33793 1lf7A 182 3.79e+01 1pszA 303 3.79e+01 1toaA c.92.2.2 35600 1j8dA 180 3.80e+01 c.108.1.5 66433 1iibA 106 3.81e+01 1iibA c.44.2.1 32648 1d2mA 665 3.82e+01 1d2mA c.37.1.13 32417 c.37.1.13 32418 1iw2A 182 3.82e+01 1ybvA 283 3.83e+01 1ybvA c.2.1.2 29948 1qguB 519 3.85e+01 1qguB c.92.2.3 35626 1d1qA 161 3.90e+01 1dg9A c.44.1.1 32642 1g7tA 594 3.90e+01 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1kwmA 402 3.91e+01 1ff9A 450 3.92e+01 1ff9A c.2.1.3 30039 d.81.1.2 39954 1k1eA 180 3.98e+01 c.108.1.5 67995 1ewkA 490 3.99e+01 1ewkA c.93.1.1 35712