# 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 1i12A 160 3.23e-17 1i21A d.108.1.1 61515 1i1dA 161 3.60e-17 1i21A d.108.1.1 61526 1i21A 159 4.36e-17 1i21A d.108.1.1 61549 1qsmA 152 2.79e-16 1qsmA d.108.1.1 40808 1cjwA 166 2.62e-14 1cjwA d.108.1.1 40818 1b87A 181 3.30e-14 1b87A d.108.1.1 40797 1bo4A 168 1.10e-13 1bo4A d.108.1.1 40798 1bo4B 168 1.93e-13 1bo4A d.108.1.1 40799 1qstA 160 8.87e-12 1yghA d.108.1.1 40804 1yghA 164 4.85e-09 1yghA d.108.1.1 40802 1nmtA 392 2.24e-06 1nmtA d.108.1.2 40823 d.108.1.2 40824 1bob 320 1.15e-05 1bob d.108.1.1 40816 1iicA 422 1.08e-04 1nmtA d.108.1.2 62422 d.108.1.2 62423 1fy7A 278 2.38e-04 1fy7A d.108.1.1 40817 1pxtB 390 1.17e-01 1afwA c.95.1.1 35906 c.95.1.1 35907 1afwA 393 4.71e-01 1afwA c.95.1.1 35900 c.95.1.1 35901 1j7iA 264 1.08e+00 1j7iA d.144.1.6 62694 1tib 269 1.49e+00 3tgl c.69.1.17 34738 1j5eK 129 1.71e+00 1i0rA 169 1.71e+00 1i0rA b.45.1.2 61489 1i0sA 169 1.71e+00 1i0rA b.45.1.2 61491 1opr 213 2.07e+00 1opr c.61.1.1 34091 1dik 874 2.19e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1poiA 317 2.19e+00 1poiA c.63.1.1 34153 1jmrA 249 2.28e+00 1gqeA 365 2.29e+00 1cqqA 180 2.38e+00 1cqqA b.47.1.4 26422 1gsa 316 2.49e+00 1gsa c.30.1.3 31718 d.142.1.1 41477 1hqsA 423 2.52e+00 1iso c.77.1.1 61154 1jykA 254 2.81e+00 c.68.1.13 67458 1yagA 375 2.86e+00 1yagA c.55.1.1 33449 c.55.1.1 33450 1shdA 107 2.95e+00 1fmk d.93.1.1 40440 1lh0A 213 3.00e+00 1j7lA 264 3.01e+00 d.144.1.6 62697 1j6zA 376 3.05e+00 1yagA c.55.1.1 62667 c.55.1.1 62668 1stfI 98 3.20e+00 1stfI d.17.1.2 38006 1fjgK 129 3.23e+00 1fjfK c.55.4.1 33733 1dgaA 375 3.44e+00 1yagA c.55.1.1 33441 c.55.1.1 33442 1a0i 348 4.14e+00 1a0i b.40.4.6 25363 d.142.2.1 41577 2btfA 375 4.14e+00 1yagA c.55.1.1 33429 c.55.1.1 33430 1d4xA 375 4.25e+00 1yagA c.55.1.1 59107 c.55.1.1 59108 1hrkA 359 4.45e+00 1hrkA c.92.1.1 61228 1gt8C 1025 4.82e+00 1aop 497 5.18e+00 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1gt8A 1025 5.26e+00 2aop 497 5.87e+00 2aop d.58.36.1 39503 d.58.36.1 39504 d.134.1.1 41427 d.134.1.1 41428 1fxqA 267 5.88e+00 1d9eA c.1.10.4 60108 1cr1A 296 5.96e+00 1cr1A c.37.1.11 32286 3pfk 319 5.98e+00 3pfk c.89.1.1 35581 1jcxA 267 6.10e+00 c.1.10.4 66510 6pfkA 319 6.34e+00 3pfk c.89.1.1 35583 1fwsA 267 6.36e+00 1d9eA c.1.10.4 60063 1ffkE 119 6.50e+00 1ffkE d.79.3.1 39812 1aa8A 347 6.50e+00 1an9A c.4.1.2 30619 d.16.1.3 37906 4pfk 319 6.53e+00 3pfk c.89.1.1 35582 2std 172 6.65e+00 3stdA d.17.4.1 38085 1h7xD 1025 6.98e+00 a.1.2.2 15690 c.1.4.1 28635 c.3.1.1 30331 c.4.1.1 30616 d.58.1.5 39014 1h7xC 1025 6.99e+00 a.1.2.2 15689 c.1.4.1 28634 c.3.1.1 30330 c.4.1.1 30615 d.58.1.5 39013 1h7xA 1025 6.99e+00 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 1h7xB 1025 7.04e+00 a.1.2.2 15688 c.1.4.1 28633 c.3.1.1 30329 c.4.1.1 30614 d.58.1.5 39012 1pot 325 7.05e+00 1pot c.94.1.1 35807 1gteA 1025 7.15e+00 1gthD 1025 7.17e+00 1h7wB 1025 7.24e+00 a.1.2.2 15684 c.1.4.1 28629 c.3.1.1 30325 c.4.1.1 30610 d.58.1.5 39008 1gt8B 1025 7.31e+00 1gt8D 1025 7.35e+00 1h7wD 1025 7.37e+00 a.1.2.2 15686 c.1.4.1 28631 c.3.1.1 30327 c.4.1.1 30612 d.58.1.5 39010 1gteD 1025 7.52e+00 1han 297 7.55e+00 1han d.32.1.3 38506 d.32.1.3 38507 1an9A 340 7.58e+00 1an9A c.4.1.2 30617 d.16.1.3 37904 1h7wA 1025 7.60e+00 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1gthA 1025 7.69e+00 1gthB 1025 8.12e+00 1gthC 1025 8.25e+00 1thfD 253 8.68e+00 1thfD c.1.2.1 28535 1flcA 432 8.81e+00 1flcA b.19.1.3 23837 c.23.10.2 31337 1gr8A 412 9.09e+00 1ndk 155 9.39e+00 1npk d.58.6.1 39118 1cr0A 296 9.45e+00 1cr1A c.37.1.11 32287 1qrdA 273 9.75e+00 1d4aA c.23.5.3 31217 1npk 154 9.76e+00 1npk d.58.6.1 39099 1jyeA 349 9.78e+00 c.93.1.1 67455 1k4jA 230 9.90e+00 1f5sA 211 1.00e+01 1f5sA c.108.1.4 59656 1j97A 211 1.00e+01 1f5sA c.108.1.4 62753 1hfoA 113 1.01e+01 d.80.1.3 61006 1jatA 155 1.07e+01 1u9aA d.20.1.1 62818 1d5tA 433 1.08e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1k9vF 201 1.10e+01 c.23.16.1 68365 1ewjA 126 1.15e+01 1ecsA d.32.1.2 59526 1gox 370 1.21e+01 1gox c.1.4.1 28607 1skyE 473 1.24e+01 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1ecfA 504 1.27e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1qcsA 211 1.28e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1eulA 994 1.29e+01 1eulA f.2.1.10 43726 5er2E 330 1.36e+01 2er7E b.50.1.2 26783 1kblA 873 1.36e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1dorA 311 1.38e+01 2dorA c.1.4.1 28595 1ecsA 126 1.38e+01 1ecsA d.32.1.2 59407 1gefA 123 1.39e+01 1gefA c.52.1.18 60465 1aj6 219 1.39e+01 1aj6 d.122.1.2 41106 1std 172 1.39e+01 3stdA d.17.4.1 38089 1dxrH 258 1.45e+01 6prcH b.41.1.1 25456 f.2.1.2 43433 6prcH 258 1.45e+01 6prcH b.41.1.1 25457 f.2.1.2 43436 1l7mA 211 1.47e+01 1ecfB 504 1.47e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1ixh 321 1.50e+01 1ixh c.94.1.1 35761 1gt7A 274 1.52e+01 1fnoA 417 1.58e+01 1a53 247 1.58e+01 1a53 c.1.2.4 28564 1rypH 205 1.59e+01 d.153.1.4 41876 1k8cA 322 1.59e+01 1cvjB 190 1.60e+01 1cvjB d.58.7.1 39193 d.58.7.1 39194 1ksiA 642 1.65e+01 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1ksiB 642 1.66e+01 1ksiB b.30.2.1 24409 d.17.2.1 38045 d.17.2.1 38046 1gpwB 201 1.76e+01 c.23.16.1 65461 1ee9A 320 1.84e+01 1ee9A c.2.1.7 30288 c.58.1.2 33936 1cvl 319 1.85e+01 1cvl c.69.1.18 34786 1hi0P 664 1.86e+01 1hi0P e.8.1.6 61051 1pkp 150 1.91e+01 1pkp d.14.1.1 37551 d.50.1.2 38787 1cg2A 393 1.92e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1edzA 320 2.01e+01 1ee9A c.2.1.7 30287 c.58.1.2 33935 1bsmA 201 2.04e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1zfjA 491 2.04e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1b34B 118 2.04e+01 1b34B b.38.1.1 24797 1agjA 242 2.04e+01 1agjA b.47.1.1 25827 8abp 306 2.05e+01 8abp c.93.1.1 35647 1avmA 201 2.09e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 2dorA 311 2.09e+01 2dorA c.1.4.1 28593 1qr6A 584 2.10e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1i9zA 347 2.13e+01 1i9yA d.151.1.2 62102 1i9yA 347 2.14e+01 1i9yA d.151.1.2 62101 2pna 104 2.21e+01 1qadA d.93.1.1 40501 1bdg 451 2.30e+01 1qhaA c.55.1.3 33461 c.55.1.3 33462 1kafA 108 2.31e+01 d.199.1.1 68372 1pbp 321 2.33e+01 1ixh c.94.1.1 35768 1hhsA 664 2.37e+01 1hi0P e.8.1.6 61045 1i0vA 104 2.38e+01 9rnt d.1.1.1 36054 9rnt 104 2.39e+01 9rnt d.1.1.1 36055 1svr 114 2.41e+01 1svy d.109.1.1 40833 1yrgB 385 2.48e+01 1yrgA c.10.1.2 30855 1juk 248 2.54e+01 1a53 c.1.2.4 28567 1hzmA 154 2.58e+01 c.46.1.1 65975 1hynP 379 2.61e+01 1hynP d.112.1.2 61408 1igs 248 2.62e+01 1a53 c.1.2.4 28565 3stdA 165 2.63e+01 3stdA d.17.4.1 38073 1d3bA 75 2.67e+01 1d3bA b.38.1.1 24798 1yrgA 385 2.73e+01 1yrgA c.10.1.2 30854 3rnt 104 2.76e+01 9rnt d.1.1.1 36069 1cwoA 165 2.76e+01 2cpl b.62.1.1 27445 1brwA 433 2.79e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1qjgA 125 2.81e+01 1opy d.17.4.3 38102 1fknA 391 2.84e+01 1fknA b.50.1.2 26879 1rpl 251 2.85e+01 1bpyA e.9.1.1 43212 1ak1 310 2.86e+01 1ak1 c.92.1.1 35594 1dozA 309 2.86e+01 1ak1 c.92.1.1 35592 2cpl 165 2.93e+01 2cpl b.62.1.1 27420 1b78A 193 2.95e+01 1b78A c.51.4.1 33221 1ao0A 459 2.99e+01 1ecfB c.61.1.1 34049 d.153.1.1 41816 1gd0A 122 3.01e+01 1dptA d.80.1.3 39834 2minA 491 3.02e+01 1qguA c.92.2.3 35609 1fl2A 310 3.03e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1czaN 917 3.03e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1jilA 420 3.09e+01 c.26.1.1 66745 1a73A 163 3.15e+01 1a73A d.4.1.3 37145 8cho 125 3.19e+01 1opy d.17.4.3 38108 1l3kA 196 3.20e+01 1j8mF 297 3.29e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1a58 177 3.29e+01 2cpl b.62.1.1 27495 1qflA 389 3.30e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1evxA 162 3.31e+01 1a73A d.4.1.3 37149 1gq2A 555 3.44e+01 1dgkN 917 3.47e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1jflA 228 3.48e+01 1nhkL 144 3.50e+01 1npk d.58.6.1 39142 1whsB 153 3.56e+01 1whtB 1whtB 153 3.56e+01 1whtB 1jj2F 119 3.62e+01 1ffkE d.79.3.1 63091 1svy 114 3.71e+01 1svy d.109.1.1 40831 1dguA 183 3.72e+01 1dguA a.39.1.5 17333 1e79D 482 3.89e+01 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 2pfkA 320 3.95e+01 3pfk c.89.1.1 35577 1dywA 173 3.95e+01 2cpl b.62.1.1 27505 1pfkA 320 3.95e+01 3pfk c.89.1.1 35575 1awqA 164 3.98e+01 2cpl b.62.1.1 27461 1isiA 265 3.99e+01