# List of top-scoring protein chains for t04-100-30-dssp-ehl2-scores 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 2f8aA 208 1.82e-32 1gp1A 198 2.87e-32 1gp1A c.47.1.10 33059 1xzoA 174 1.31e-14 1st9A 143 7.39e-12 c.47.1.10 98987 2f9sA 151 1.93e-11 1jfuA 186 4.06e-11 c.47.1.10 62940 2cvbA 188 1.83e-07 1xvwA 160 4.96e-07 1kngA 156 1.42e-06 c.47.1.10 72777 2b7kA 200 3.12e-06 1z5yE 149 4.33e-06 1lu4A 136 1.42e-05 c.47.1.10 91124 1qk8A 146 1.46e-05 1ewxA c.47.1.10 33061 1zzoA 136 1.51e-05 1qmvA 197 1.92e-05 1qq2A c.47.1.10 33066 2fy6A 143 3.00e-05 1o8xA 146 3.54e-05 c.47.1.10 86681 1i5gA 144 4.32e-05 1ewxA c.47.1.10 61784 1zyeA 220 1.16e-04 1t00A 112 4.21e-04 1aiu 105 1.39e-03 1erv c.47.1.1 32746 1x0rA 249 2.71e-03 1thx 115 3.23e-03 1thx c.47.1.1 32732 1erv 105 3.42e-03 1erv c.47.1.1 32743 1wmjA 130 4.11e-03 1qxhA 167 7.52e-03 c.47.1.10 96528 1faaA 124 7.57e-03 1erv c.47.1.1 32738 1f9mA 112 8.55e-03 1erv c.47.1.1 32736 1r26A 125 1.00e-02 c.47.1.1 96847 1n8jA 186 1.31e-02 c.47.1.10 85401 1xccA 220 1.86e-02 2trxA 108 2.25e-02 1thx c.47.1.1 32719 1uvzA 119 2.88e-02 1v98A 140 3.27e-02 1w4vA 119 3.68e-02 2f51A 118 5.34e-02 1xvqA 175 5.34e-02 1erw 105 6.53e-02 1erv c.47.1.1 32745 2a4vA 159 7.04e-02 1bvoA 175 8.92e-02 1a3qA b.2.5.3 22457 1nw2A 105 9.41e-02 c.47.1.1 92215 1yvoA 172 1.18e-01 1fb6A 105 1.42e-01 1thx c.47.1.1 32739 2bl1A 172 1.46e-01 1nswA 105 1.99e-01 c.47.1.1 92097 1q98A 165 2.03e-01 c.47.1.10 96253 1r4aA 165 2.63e-01 c.37.1.8 96986 1uf5A 303 2.80e-01 d.160.1.2 107808 1erzA 303 2.92e-01 1erzA d.160.1.2 59498 2his 312 4.94e-01 1taxA c.1.8.3 28918 1o2dA 371 4.98e-01 e.22.1.2 86591 1vs0A 310 5.43e-01 1uptC 170 5.61e-01 c.37.1.8 99769 2b5eA 504 5.96e-01 1uptA 171 6.57e-01 c.37.1.8 99767 1kk1A 410 6.68e-01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1eejA 216 7.62e-01 1eejA c.47.1.9,d.17.3.1 33057,38071 1t3bA 211 8.01e-01 c.47.1.9,d.17.3.1 106341,106342 1vicA 262 8.16e-01 c.68.1.13 100756 2axoA 270 8.21e-01 1hd2A 161 9.76e-01 c.47.1.10 60962 1vhxA 150 1.07e+00 c.55.3.8 100712 1vpqA 273 1.22e+00 1egaA 301 1.24e+00 1egaA c.37.1.8,d.52.3.1 32150,38836 3cla 213 1.34e+00 3cla c.43.1.1 32610 1g3qA 237 1.46e+00 1hyqA c.37.1.10 60237 1fhdA 312 1.48e+00 1taxA c.1.8.3 28915 1fh9A 312 1.54e+00 1taxA c.1.8.3 28913 1a8l 226 1.64e+00 1a8l c.47.1.2,c.47.1.2 32777,32778 1hh1A 143 1.75e+00 1gefA c.52.1.18 61036 1j08A 226 1.97e+00 c.47.1.2,c.47.1.2 83855,83856 1e4fT 419 2.00e+00 1e4fT c.55.1.1,c.55.1.1 33453,33454 1zj6A 187 2.25e+00 1s0uA 408 2.56e+00 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1szwA 379 2.60e+00 d.265.1.4 99047 1xi7A 61 2.87e+00 1e5dA 402 3.16e+00 1e5dA c.23.5.1,d.157.1.3 31208,42061 1t5bA 201 3.23e+00 c.23.5.3 106433 1vmeA 410 3.62e+00 c.23.5.1,d.157.1.3 108893,108894 1nu0A 138 3.72e+00 c.55.3.8 92165 2a5lA 200 3.77e+00 1ahxA 396 3.88e+00 1ajsA c.67.1.1 34293 1jfrA 262 4.04e+00 1jfrA c.69.1.16 34724 1f1uA 323 4.17e+00 d.32.1.3,d.32.1.3 83200,83201 1oywA 523 4.23e+00 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1wvqA 167 4.70e+00 1oacA 727 4.75e+00 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1mdbA 539 4.86e+00 e.23.1.1 79008 1pea 385 4.86e+00 1pea c.93.1.1 35662 1rz3A 201 4.93e+00 c.37.1.6 98132 2c1gA 431 5.45e+00 1n3lA 372 5.48e+00 c.26.1.1 79966 2c1iA 431 5.60e+00 1w8sA 263 5.74e+00 2cokA 113 5.79e+00 2f1rA 171 6.27e+00 1w77A 228 6.52e+00 1bykA 255 6.57e+00 1bykA c.93.1.1 35706 1ad2 228 6.72e+00 1ad2 e.24.1.1 43353 1d2fA 390 6.78e+00 1d2fA c.67.1.3 34411 3tmkA 216 6.85e+00 3tmkA c.37.1.1 31920 1ars 396 7.08e+00 1ajsA c.67.1.1 34287 1oz9A 150 7.15e+00 d.92.1.15 93808 1eudB 396 7.82e+00 2scuB c.23.4.1,d.142.1.4 31150,41571 1xhbA 472 8.01e+00 1cjbA 231 8.17e+00 1qk3A c.61.1.1 34079 1pch 88 8.48e+00 1ptf d.94.1.1 40564 2akrA 285 8.65e+00 1f74A 293 8.93e+00 1nal3 c.1.10.1 29079 1jhdA 396 8.99e+00 b.122.1.3,c.26.1.5 66712,66713 1tikA 213 9.14e+00 c.23.5.3 107003 1t1uA 639 9.14e+00 2trcP 217 9.17e+00 1b9yC c.47.1.6 33051 1ra0A 430 9.27e+00 1bzyA 217 9.29e+00 1qk3A c.61.1.1 34071 1oj7A 408 9.31e+00 e.22.1.2 103971 1zclA 180 9.46e+00 1g0cA 364 9.77e+00 7a3hA c.1.8.3 60165 1lyxA 248 9.84e+00 c.1.1.1 78304 1k6wA 426 9.91e+00 b.92.1.2,c.1.9.5 68236,68237 1zckA 154 9.91e+00 1yymG 313 1.04e+01 1rzjG 321 1.13e+01 d.172.1.1 98200 2b9wA 424 1.14e+01 1dtwB 342 1.14e+01 1qs0B c.36.1.7,c.48.1.2 31828,33102 1prxA 224 1.16e+01 1prxA c.47.1.10 33076 1ovnA 248 1.17e+01 a.71.1.1,c.47.1.7 93602,93603 2c5qA 240 1.18e+01 1h7wA 1025 1.22e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1obfO 335 1.25e+01 c.2.1.3,d.81.1.1 86768,86769 1ojxA 263 1.26e+01 c.1.10.1 93164 1vl8A 267 1.26e+01 c.2.1.2 108733 1t9xA 1049 1.27e+01 2fqxA 318 1.30e+01 1t71A 281 1.31e+01 1vdmA 153 1.32e+01 1z5lA 285 1.33e+01 1x24A 180 1.35e+01 1tp9A 162 1.35e+01 1wqaA 455 1.38e+01 1qbgA 272 1.51e+01 1d4aA c.23.5.3 31227 1senA 164 1.53e+01 c.47.1.1 105465 2czrA 226 1.54e+01 1oyeA 1049 1.54e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1io2A 213 1.56e+01 1ekeA c.55.3.1 62612 1fkx 349 1.56e+01 1a4mA c.1.9.1 29018 2fp4B 395 1.58e+01 2c46A 241 1.58e+01 1qsgA 265 1.58e+01 1eny c.2.1.2 29935 2c1lA 358 1.60e+01 1z7gA 217 1.60e+01 1u0kA 288 1.61e+01 d.21.1.2,d.21.1.2 107547,107548 1hgxA 183 1.61e+01 1tc1A c.61.1.1 34027 1mxmA 254 1.65e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1y0vH 146 1.66e+01 1vixA 420 1.67e+01 c.56.5.4,d.58.19.1 100777,100778 1m1nA 491 1.69e+01 c.92.2.3 78417 1i52A 236 1.72e+01 1i52A c.68.1.13 61767 1w1iE 357 1.72e+01 c.1.9.1 109051 2a5dA 175 1.73e+01 1ohvA 472 1.83e+01 c.67.1.4 93031 1g9mG 321 1.86e+01 1gc1G d.172.1.1 42492 1x8hA 228 1.91e+01 1n7hA 381 1.99e+01 c.2.1.2 80250 1q42A 201 2.03e+01 d.17.4.2 95776 1gz6A 319 2.08e+01 c.2.1.2 76410 1v6cA 441 2.08e+01 8rucI 123 2.10e+01 1rboC d.73.1.1 39629 1y9zA 441 2.10e+01 1u1iA 392 2.11e+01 c.2.1.3,d.81.1.3 107582,107583 1yvrA 538 2.12e+01 1vk9A 151 2.12e+01 c.139.1.1 108640 1i9sA 210 2.16e+01 1i9sA c.45.1.1 62099 1zbqA 327 2.16e+01 1o5xA 248 2.19e+01 c.1.1.1 92528 1befA 181 2.19e+01 1befA b.47.1.3 26419 2c0cA 362 2.19e+01 2g5cA 281 2.21e+01 1zr6A 503 2.21e+01 1gheA 177 2.23e+01 d.108.1.1 76222 1zkcA 197 2.24e+01 1nsj 205 2.25e+01 1nsj c.1.2.4 28560 1sbyA 254 2.28e+01 1hdcA 253 2.29e+01 1e6wA c.2.1.2 29862 1b16A 254 2.32e+01 1b16A c.2.1.2 29875 1w3iA 293 2.34e+01 c.1.10.1 109152 1yobA 179 2.35e+01 1x8gA 227 2.38e+01 1ohtA 215 2.39e+01 d.118.1.1 87036 1hrhA 136 2.44e+01 1rthA c.55.3.1 33577 1rj9A 304 2.47e+01 a.24.13.1,c.37.1.10 97553,97554 1xhfA 123 2.49e+01 1qqp2 218 2.49e+01 1qqp2 2bleA 367 2.49e+01 1up6A 416 2.49e+01 c.2.1.5,d.162.1.2 107976,107977 1fy7A 278 2.52e+01 1fy7A d.108.1.1 40817 1ek0A 170 2.52e+01 1ctqA c.37.1.8 32076 1pdo 135 2.54e+01 1pdo c.54.1.1 33376 1qmgA 524 2.55e+01 1qmgA a.100.1.2,c.2.1.6 18785,30182 1gcoA 261 2.60e+01 1ybvA c.2.1.2 29884 1geeA 261 2.60e+01 c.2.1.2 90509 1gteA 1025 2.60e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1eljA 381 2.63e+01 4mbp c.94.1.1 35791 2fcr 173 2.65e+01 1rcf c.23.5.1 31151 1b8gA 429 2.69e+01 1b8gA c.67.1.4 34499 1uc7A 125 2.73e+01 c.47.1.1 99163 1sg0A 230 2.77e+01 1q25A 432 2.80e+01 b.64.1.1,b.64.1.1,b.64.1.1 104493,104494,104495 1d4aA 273 2.81e+01 1d4aA c.23.5.3 31219 1nn5A 215 2.84e+01 c.37.1.1 85892 1fa0A 537 2.87e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1gqzA 274 2.88e+01 d.21.1.1,d.21.1.1 83311,83312 1tv8A 340 2.88e+01 c.1.28.3 107352 1y4lA 121 2.90e+01 2erxA 172 2.90e+01 1wh5A 80 2.94e+01 1fsz 372 2.95e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1aba 87 2.96e+01 1aba c.47.1.1 32760 1xxsA 122 2.96e+01 1cozA 129 2.98e+01 1cozA c.26.1.2 31598 1jakA 512 3.04e+01 c.1.8.6,d.92.2.1 66472,66473 2f2lA 167 3.05e+01 1rcf 169 3.06e+01 1rcf c.23.5.1 31170 1ei9A 279 3.09e+01 1ei9A c.69.1.13 34713 1ta3B 303 3.09e+01 c.1.8.3 106732 1hp5A 512 3.10e+01 1hp4A c.1.8.6,d.92.2.1 61113,61114 1a0rP 245 3.10e+01 1b9yC c.47.1.6 33054 1t7lA 766 3.17e+01 2bznA 351 3.17e+01 1vflA 356 3.18e+01 1e2gA 215 3.20e+01 3tmkA c.37.1.1 59165 2bzsA 236 3.22e+01 1b5qA 472 3.23e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 2azpA 318 3.23e+01 1v1rB 342 3.25e+01 c.36.1.7,c.48.1.2 108273,108274 2c6qA 351 3.31e+01 1dcjA 81 3.31e+01 1dcjA d.68.3.3 59115 1vq0A 302 3.32e+01 1nf2A 268 3.34e+01 c.108.1.10 91849 2f9lA 199 3.37e+01 1j09A 468 3.39e+01 a.97.1.1,c.26.1.1 77025,77026 1up7A 417 3.41e+01 2cu5A 129 3.42e+01 1ixh 321 3.47e+01 1ixh c.94.1.1 35761 1xfuA 747 3.47e+01 2bw0A 329 3.47e+01 1wsrA 375 3.50e+01 1zx1A 231 3.50e+01 1wggA 96 3.60e+01 1cl1A 395 3.62e+01 1cl2A c.67.1.3 34395 1e6wA 260 3.62e+01 1e6wA c.2.1.2 59326 1q3iA 214 3.63e+01 d.220.1.1 104524 1nal1 297 3.65e+01 1nal3 1n2eA 300 3.66e+01 c.26.1.4 85268 1tmy 120 3.70e+01 1dbwA c.23.1.1 31083 1nowA 507 3.71e+01 c.1.8.6,d.92.2.1 85936,85937 1ns5A 155 3.71e+01 c.116.1.3 80705 1hurA 180 3.72e+01 1hurA c.37.1.8 32052 1eg5A 384 3.76e+01 1ecxA c.67.1.3 34429 1w1hA 151 3.78e+01 1oboA 169 3.81e+01 c.23.5.1 86776 1m2dA 110 3.81e+01 c.47.1.11 78476 1m7yA 435 3.84e+01 c.67.1.4 78761 1ye8A 178 3.89e+01 1wryA 121 3.90e+01 1f89A 291 3.90e+01 d.160.1.1 64988 2plc 274 3.92e+01 2plc c.1.18.2 29614 1eceA 358 3.94e+01 1eceA c.1.8.3 28813 1fxoA 293 3.95e+01 1g0rA c.68.1.6 34524 1uwzA 136 3.95e+01 c.97.1.1 108081 2cybA 323 4.01e+01 1u0tA 307 4.04e+01 e.52.1.1 107567 1t6cA 315 4.05e+01 c.55.1.8,c.55.1.8 106558,106559 1e2fA 215 4.07e+01 3tmkA c.37.1.1 59164 1tiiD 99 4.08e+01 1tiiD b.40.2.1 24965 1yrgA 385 4.09e+01 1yrgA c.10.1.2 30854 1s8nA 205 4.14e+01 c.23.1.1 105374 1ob8A 135 4.16e+01 1ls1A 295 4.18e+01 a.24.13.1,c.37.1.10 78170,78171 1f37A 110 4.19e+01 1f37A c.47.1.11 33088 1bwzA 274 4.21e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 2a0mA 316 4.23e+01 1lugA 259 4.23e+01 b.74.1.1 91127 2fneA 117 4.25e+01 1skoA 143 4.27e+01 d.110.7.1 105676 2a84A 300 4.27e+01 1a8y 367 4.35e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 2ca6A 386 4.38e+01 1mc2A 122 4.39e+01 a.133.1.2 74622 1bw0A 416 4.40e+01 1bw0A c.67.1.1 34385 1ynuA 473 4.42e+01 1r9jA 673 4.42e+01 2f4nA 273 4.45e+01 1a4mA 349 4.50e+01 1a4mA c.1.9.1 29014 1mwmA 320 4.51e+01 c.55.1.1,c.55.1.1 79580,79581 1yo1A 260 4.54e+01 2fomB 185 4.57e+01 1g5cA 170 4.57e+01 1g5cA c.53.2.1 60264 1es9A 232 4.59e+01 1wab c.23.10.3 31340 1px5A 349 4.61e+01 a.160.1.2,d.218.1.6 95277,95278 1rqpA 299 4.67e+01 b.141.1.1,c.132.1.1 97754,97755 1ni9A 338 4.68e+01 e.7.1.2 85739 1ag9A 175 4.68e+01 1rcf c.23.5.1 31178 1wybA 392 4.69e+01 1wab 232 4.69e+01 1wab c.23.10.3 31341 1fsgA 233 4.70e+01 1qk3A c.61.1.1 34029 1obbA 480 4.76e+01 c.2.1.5,d.162.1.2 86760,86761 2givA 295 4.79e+01 2bpa1 426 4.85e+01 2bpa1 1eokA 290 4.85e+01 1eokA c.1.8.5 28991 1zuoA 186 4.86e+01 1rxdA 159 4.88e+01 2ciaA 102 4.88e+01 1vd2A 89 4.88e+01 d.15.2.2 108517 1k8wA 327 4.91e+01 b.122.1.1,d.265.1.2 83094,90388 1gxuA 91 4.94e+01 d.58.10.1 76378 1n55A 251 4.94e+01 c.1.1.1 80007 1nwbA 124 4.95e+01 b.124.1.1 86296 1v3vA 333 4.95e+01 b.35.1.2,c.2.1.1 108345,108346 1edg 380 4.96e+01 1edg c.1.8.3 28807 1yasA 257 5.02e+01 1qj4A c.69.1.20 34801 1pfkA 320 5.02e+01 3pfk c.89.1.1 35575 2ae6A 166 5.06e+01 1dfoA 417 5.07e+01 1bj4A c.67.1.4 34480 1u0sY 118 5.10e+01 c.23.1.1 107566 1jd0A 263 5.10e+01 2cba b.74.1.1 62888 1qb5D 99 5.11e+01 b.40.2.1 88357 2az4A 429 5.13e+01 1ef1A 294 5.14e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1lwdA 413 5.16e+01 c.77.1.1 78265 2b9eA 303 5.16e+01 1jtkA 136 5.21e+01 c.97.1.1 71862 1s3sG 127 5.23e+01 d.15.1.2 98457 1kllA 130 5.23e+01 d.32.1.2 72720 1m6kA 251 5.24e+01 e.3.1.1 78695 1yx1A 264 5.26e+01 1olsB 342 5.31e+01 c.36.1.7,c.48.1.2 93332,93333 1pcfA 66 5.33e+01 1pcfA d.18.1.1 38142 1b74A 254 5.35e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1r5yA 386 5.37e+01 c.1.20.1 97134 1pud 386 5.42e+01 1pud c.1.20.1 29658 1twdA 256 5.43e+01 c.1.30.1 107397 1xewX 182 5.44e+01 1fgs 428 5.44e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 1pxgA 382 5.45e+01 c.1.20.1 95287 1ufoA 238 5.45e+01 c.69.1.27 99344 1in0A 163 5.46e+01 d.58.49.1,d.58.49.1 83694,83695 1ea9C 583 5.46e+01 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 1z3eA 132 5.46e+01 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