# List of top-scoring protein chains for t2k-100-30-dssp_ehl2 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 1ck9A 104 8.64e-14 1ck9A d.79.3.1 39806 1jj2F 119 1.24e-12 1ffkE d.79.3.1 63091 1ffkE 119 6.90e-12 1ffkE d.79.3.1 39812 1dt9A 437 2.58e-02 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1dbuA 158 3.19e-01 1dbuA d.116.1.1 40930 2hmiA 558 4.77e-01 1rthA c.55.3.1 33604 e.8.1.2 43106 1bw0A 416 5.36e-01 1bw0A c.67.1.1 34385 1hrhA 136 5.58e-01 1rthA c.55.3.1 33577 1dttA 560 6.08e-01 1rthA c.55.3.1 33611 e.8.1.2 43088 2liv 344 8.23e-01 2liv c.93.1.1 35708 1rthA 560 9.53e-01 1rthA c.55.3.1 33576 e.8.1.2 43028 1f2tB 148 1.31e+00 1f2tB 1kid 203 1.34e+00 1derA c.8.5.1 30771 1vrtA 560 1.57e+00 1rthA c.55.3.1 33574 e.8.1.2 43023 1jqaA 370 1.68e+00 e.22.1.2 67085 1tif 78 1.69e+00 1tif d.15.8.1 37836 3uagA 437 1.81e+00 4uagA c.5.1.1 30652 c.59.1.1 33953 c.72.2.1 34956 1f6yA 262 1.81e+00 1f6yA c.1.21.2 29673 1uag 437 1.81e+00 4uagA c.5.1.1 30653 c.59.1.1 33954 c.72.2.1 34957 1dbxA 158 1.86e+00 1dbuA d.116.1.1 40928 1jpnA 296 1.98e+00 a.24.13.1 67039 c.37.1.10 67040 1d3hA 367 2.10e+00 1d3gA c.1.4.1 28601 1ly1A 181 2.17e+00 2ng1 293 2.28e+00 1ng1 a.24.13.1 16962 c.37.1.10 32273 1ng1 294 2.38e+00 1ng1 a.24.13.1 16961 c.37.1.10 32272 1jj2X 240 2.48e+00 1ffkV c.9.2.1 63109 1d3gA 367 2.50e+00 1d3gA c.1.4.1 28600 1jq5A 370 2.54e+00 e.22.1.2 67084 1igs 248 2.72e+00 1a53 c.1.2.4 28565 1a53 247 2.77e+00 1a53 c.1.2.4 28564 4uagA 437 2.81e+00 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1bjx 110 2.88e+00 1bjx c.47.1.2 32774 2bjxA 110 2.88e+00 1bjx c.47.1.2 32776 1srvA 145 3.00e+00 1derA c.8.5.1 30817 1juk 248 3.08e+00 1a53 c.1.2.4 28567 1b93B 152 3.23e+00 1b93A c.24.1.2 31508 1b93A 152 3.49e+00 1b93A c.24.1.2 31507 1j8mF 297 3.63e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 1dcjA 81 3.74e+00 1dcjA d.68.3.1 59115 1f5sA 211 3.88e+00 1f5sA c.108.1.4 59656 1j97A 211 3.88e+00 1f5sA c.108.1.4 62753 1in4A 334 4.26e+00 1hqcA a.4.5.11 62597 c.37.1.13 62598 1l7mA 211 4.30e+00 1ko7A 314 4.37e+00 1g97A 459 4.49e+00 1fwyA b.81.1.4 60394 c.68.1.5 60395 1elqA 390 4.65e+00 1elqA c.67.1.3 34436 1eluA 390 4.65e+00 1elqA c.67.1.3 34434 1eluB 390 4.65e+00 1elqA c.67.1.3 34435 1pszA 303 4.85e+00 1toaA c.92.2.2 35600 1tbgA 340 4.94e+00 1tbgA b.69.4.1 27649 1derA 547 4.96e+00 1derA a.129.1.1 19459 c.8.5.1 30788 d.56.1.1 38907 1h2rS 267 5.22e+00 2frvA e.19.1.1 43310 1hv8A 367 5.28e+00 1hv8A c.37.1.13 32405 c.37.1.13 32406 1gc5A 467 5.39e+00 1gc5A c.72.1.3 60429 2lbp 346 5.51e+00 2liv c.93.1.1 35709 1f2dA 341 6.14e+00 1f2dA c.79.1.1 35298 1gnlA 544 6.17e+00 1gv4A 528 6.18e+00 1kq3A 376 6.27e+00 e.22.1.2 68790 1hm9A 468 6.31e+00 b.81.1.4 65866 c.68.1.5 65867 1arzC 273 6.38e+00 1drw c.2.1.3 30061 d.81.1.3 39976 1qc5A 192 6.56e+00 1aoxA c.62.1.1 34147 1ortA 335 6.73e+00 1othA c.78.1.1 35204 c.78.1.1 35205 1cs1C 386 6.99e+00 1ibjA c.67.1.3 34401 1gotB 340 7.32e+00 1tbgA b.69.4.1 27648 1dih 273 7.62e+00 1drw c.2.1.3 30056 d.81.1.3 39971 1bif 469 7.91e+00 1bif c.37.1.7 31961 c.60.1.4 34003 1cs1A 386 7.94e+00 1ibjA c.67.1.3 34399 1drw 273 8.02e+00 1drw c.2.1.3 30057 d.81.1.3 39972 1e1dA 553 8.17e+00 1e1dA e.26.1.1 43363 1e2uA 553 8.32e+00 1e1dA e.26.1.1 43362 1gntA 553 8.32e+00 1a8y 367 8.36e+00 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1byrA 155 9.14e+00 1byrA d.136.1.1 41450 1cyx 205 9.19e+00 1cyx b.6.1.2 23023 1db3A 372 9.36e+00 1db3A c.2.1.2 29813 1jjfA 268 9.75e+00 c.69.1.2 66765 1g5pA 289 9.85e+00 1cp2A c.37.1.10 32253 1jsrA 327 9.98e+00 c.88.1.1 67237 1dbiA 280 1.04e+01 1gci c.41.1.1 32543 1b74A 254 1.07e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1fzaB 328 1.07e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1ble 163 1.15e+01 1ble c.38.1.1 32475 1dd3A 128 1.18e+01 1dd3C a.108.1.1 19031 d.45.1.1 38760 1b73A 254 1.23e+01 1b74A c.78.2.1 35266 c.78.2.1 35267 1jg8A 347 1.24e+01 1jg8A c.67.1.1 62946 1b7gO 340 1.26e+01 1b7gO c.2.1.3 29992 d.81.1.1 39907 1kl1A 419 1.31e+01 1e8cA 498 1.31e+01 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 1fsz 372 1.35e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1yacA 208 1.36e+01 1yacA c.33.1.2 31757 1zrn 232 1.39e+01 1qq5A c.108.1.1 43323 1avaA 403 1.39e+01 1jdc b.71.1.1 27797 c.1.8.1 28784 1id1A 153 1.40e+01 1id1A c.2.1.9 62286 1iqrA 420 1.50e+01 a.99.1.1 66275 c.28.1.1 66276 1i7qB 193 1.55e+01 1qdlB c.23.16.1 61902 1hmy 327 1.55e+01 6mhtA c.66.1.10 34229 2hgsA 474 1.55e+01 2hgsA c.30.1.4 31722 d.142.1.6 41575 d.142.1.6 41576 1egaA 301 1.58e+01 1egaA c.37.1.8 32150 d.52.3.1 38836 1qtrA 317 1.60e+01 1qtrA c.69.1.7 34660 1cr6B 554 1.64e+01 1cr6B c.108.1.2 43338 c.69.1.11 34688 1yveI 524 1.74e+01 1qmgA a.100.1.2 18789 c.2.1.6 30186 1qmgA 524 1.74e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1fts 295 1.81e+01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1mil 104 1.82e+01 1d4tA d.93.1.1 40496 1qapA 296 1.83e+01 1qpoA c.1.17.1 29559 d.41.2.1 38595 2nacA 393 1.86e+01 2nadA c.2.1.4 30088 c.23.12.1 31348 1k75A 434 1.88e+01 c.82.1.2 68253 1eny 268 1.89e+01 1eny c.2.1.2 29910 2nadA 393 1.89e+01 2nadA c.2.1.4 30090 c.23.12.1 31350 1fqvD 149 1.91e+01 1fqvD a.122.1.1 19263 d.42.1.2 38667 1qfjA 232 1.92e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1kaeA 434 1.98e+01 1ek6A 348 2.03e+01 1xel c.2.1.2 29800 1fqvJ 149 2.04e+01 1fqvD a.122.1.1 19266 d.42.1.2 38670 1pii 452 2.11e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1i3kA 348 2.12e+01 1xel c.2.1.2 61595 1zid 268 2.13e+01 1eny c.2.1.2 29911 1ekfA 365 2.18e+01 1ekfA e.17.1.1 59445 1dqwA 267 2.21e+01 1dqwA c.1.2.3 28551 1rkd 309 2.28e+01 1rkd c.72.1.1 34928 2gd1O 334 2.32e+01 1dssG c.2.1.3 29978 d.81.1.1 39893 1i06A 180 2.32e+01 1mup b.60.1.1 27131 1jv4A 162 2.34e+01 b.60.1.1 67343 1dppA 507 2.41e+01 1dpe c.94.1.1 35800 2scuB 388 2.42e+01 2scuB c.23.4.1 31141 d.142.1.4 41562 1i05A 180 2.43e+01 1mup b.60.1.1 27130 1yrgA 385 2.46e+01 1yrgA c.10.1.2 30854 1yrgB 385 2.47e+01 1yrgA c.10.1.2 30855 1atzA 189 2.52e+01 1atzA c.62.1.1 34132 1b1a 137 2.54e+01 1be1 c.23.6.1 31242 1g7eA 122 2.55e+01 1g7eA c.47.1.7 33055 4pfk 319 2.57e+01 3pfk c.89.1.1 35582 1d7kA 421 2.60e+01 7odcA b.49.2.1 26486 c.1.6.1 28648 1dpe 507 2.60e+01 1dpe c.94.1.1 35799 1dosA 358 2.64e+01 1dosA c.1.10.2 29175 1iibA 106 2.68e+01 1iibA c.44.2.1 32648 1atzB 189 2.71e+01 1atzA c.62.1.1 34133 1c9kB 180 2.72e+01 1c9kB c.37.1.11 32364 1mup 166 2.74e+01 1mup b.60.1.1 27133 2ae2A 260 2.75e+01 1bdb c.2.1.2 29945 1hskA 326 2.80e+01 2mbr d.145.1.2 61241 d.146.1.1 61242 1dtgA 334 2.82e+01 1nnt c.94.1.2 35896 1jk7A 323 2.84e+01 1auiA d.159.1.3 63144 1mrp 309 2.85e+01 1mrp c.94.1.1 35796 1gk8A 475 2.89e+01 c.1.14.1 65234 d.58.9.1 65235 1jy8A 159 2.91e+01 d.79.5.1 67452 1g41A 444 2.94e+01 1do0A c.37.1.13 32450 1ffkV 143 2.95e+01 1ffkV c.9.2.1 30849 1uae 419 2.98e+01 1uae d.68.2.2 39574 1cqyA 99 2.99e+01 1b9zA b.3.1.1 22527 1jljA 189 3.01e+01 c.57.1.1 63169 1ihcA 188 3.01e+01 1di6A c.57.1.1 62379 1b57A 358 3.02e+01 1dosA c.1.10.2 29177 1e5eA 404 3.12e+01 1ibjA c.67.1.3 59265 1mdl 359 3.19e+01 2mnr c.1.11.2 29247 d.54.1.1 38891 2fokA 579 3.24e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1ha3A 405 3.29e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1gm6A 175 3.31e+01 1aipE 405 3.34e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1dliA 402 3.34e+01 1dliA a.100.1.4 18809 c.2.1.6 30213 c.26.3.1 31622 1hozA 339 3.36e+01 c.70.1.1 65898 1k6dA 220 3.36e+01 1l3kA 196 3.41e+01 1ecl 597 3.43e+01 1ecl e.10.1.1 43238 1im5A 180 3.43e+01 c.33.1.2 66211 1h2aS 317 3.44e+01 2frvA e.19.1.1 43311 4pgaA 337 3.49e+01 4pgaA c.88.1.1 35565 7timA 247 3.51e+01 1amk c.1.1.1 28457 1ezwA 349 3.54e+01 1ezwA c.1.16.3 29558 1ycqA 107 3.59e+01 1ycqA a.42.1.1 17419 3pfk 319 3.59e+01 3pfk c.89.1.1 35581 1b16A 254 3.60e+01 1b16A c.2.1.2 29875 1c0nA 406 3.60e+01 1c0nA c.67.1.3 34433 1cjcA 460 3.63e+01 1cjcA c.3.1.1 30319 c.4.1.1 30604 1cydA 244 3.63e+01 1cydA c.2.1.2 29825 7fd1A 106 3.64e+01 1a6l d.58.1.2 38953 1dar 691 3.68e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 2cba 260 3.68e+01 2cba b.74.1.1 27821 1caj 260 3.68e+01 2cba b.74.1.1 27841 1hp0A 339 3.73e+01 c.70.1.1 65900 1fd2 106 3.75e+01 1a6l d.58.1.2 38962 1d1vA 444 3.77e+01 1nseA d.174.1.1 59101 1fdd 106 3.78e+01 1a6l d.58.1.2 38960 1lxtA 561 3.82e+01 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 2mnr 357 3.84e+01 2mnr c.1.11.2 29245 d.54.1.1 38889 6pfkA 319 3.85e+01 3pfk c.89.1.1 35583 1a8e 329 3.85e+01 1cb6A c.94.1.2 35888 1fp6A 289 3.89e+01 1cp2A c.37.1.10 32243 1jf9A 408 3.98e+01 1c0nA c.67.1.3 62931