# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1.20e-31 1gp1A 198 2.50e-31 1gp1A c.47.1.10 33059 1xzoA 174 1.44e-14 1jfuA 186 9.63e-12 c.47.1.10 62940 1st9A 143 2.16e-11 c.47.1.10 98987 2f9sA 151 2.37e-11 2cvbA 188 3.73e-07 1kngA 156 3.88e-07 c.47.1.10 72777 1xvwA 160 1.07e-06 1lu4A 136 3.20e-06 c.47.1.10 91124 1qk8A 146 3.84e-06 1ewxA c.47.1.10 33061 2b7kA 200 4.64e-06 1o8xA 146 6.51e-06 c.47.1.10 86681 1z5yE 149 6.69e-06 1i5gA 144 1.12e-05 1ewxA c.47.1.10 61784 1zzoA 136 1.17e-05 1qmvA 197 1.84e-05 1qq2A c.47.1.10 33066 2fy6A 143 1.33e-04 1zyeA 220 3.86e-04 1t00A 112 4.57e-04 1f9mA 112 1.72e-03 1erv c.47.1.1 32736 1qxhA 167 2.48e-03 c.47.1.10 96528 1erv 105 2.91e-03 1erv c.47.1.1 32743 1aiu 105 3.07e-03 1erv c.47.1.1 32746 1faaA 124 4.10e-03 1erv c.47.1.1 32738 1thx 115 6.43e-03 1thx c.47.1.1 32732 2trxA 108 1.25e-02 1thx c.47.1.1 32719 1wmjA 130 1.93e-02 1nw2A 105 2.23e-02 c.47.1.1 92215 1q98A 165 3.12e-02 c.47.1.10 96253 1r4aA 165 3.20e-02 c.37.1.8 96986 1r26A 125 3.25e-02 c.47.1.1 96847 1xvqA 175 4.49e-02 1v98A 140 5.53e-02 1uvzA 119 5.89e-02 1w4vA 119 5.99e-02 1uptA 171 7.25e-02 c.37.1.8 99767 2f51A 118 7.35e-02 1uptC 170 9.30e-02 c.37.1.8 99769 1fb6A 105 1.10e-01 1thx c.47.1.1 32739 1nswA 105 1.11e-01 c.47.1.1 92097 1erw 105 1.49e-01 1erv c.47.1.1 32745 1kk1A 410 1.59e-01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1x0rA 249 1.67e-01 1bvoA 175 1.69e-01 1a3qA b.2.5.3 22457 2a5dA 175 1.93e-01 1xccA 220 2.08e-01 2bl1A 172 2.23e-01 1yvoA 172 2.24e-01 1o2dA 371 2.98e-01 e.22.1.2 86591 1n8jA 186 3.26e-01 c.47.1.10 85401 1uf5A 303 3.28e-01 d.160.1.2 107808 1erzA 303 3.30e-01 1erzA d.160.1.2 59498 1bzyA 217 3.91e-01 1qk3A c.61.1.1 34071 1egaA 301 4.84e-01 1egaA c.37.1.8,d.52.3.1 32150,38836 1zj6A 187 8.95e-01 1eejA 216 1.00e+00 1eejA c.47.1.9,d.17.3.1 33057,38071 1s0uA 408 1.04e+00 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1cjbA 231 1.19e+00 1qk3A c.61.1.1 34079 1vicA 262 1.28e+00 c.68.1.13 100756 1vhxA 150 1.30e+00 c.55.3.8 100712 2a4vA 159 1.36e+00 2axoA 270 1.45e+00 1t9xA 1049 1.62e+00 1vs0A 310 1.67e+00 1oyeA 1049 1.79e+00 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 1a8l 226 1.80e+00 1a8l c.47.1.2,c.47.1.2 32777,32778 1wvqA 167 1.84e+00 2trcP 217 2.10e+00 1b9yC c.47.1.6 33051 1g0cA 364 2.18e+00 7a3hA c.1.8.3 60165 1t71A 281 2.22e+00 1ek0A 170 2.41e+00 1ctqA c.37.1.8 32076 1f1uA 323 2.43e+00 d.32.1.3,d.32.1.3 83200,83201 2his 312 2.47e+00 1taxA c.1.8.3 28918 1qmgA 524 2.53e+00 1qmgA a.100.1.2,c.2.1.6 18785,30182 1vpqA 273 2.54e+00 1nu0A 138 2.64e+00 c.55.3.8 92165 1xi7A 61 2.75e+00 1rljA 139 3.03e+00 c.23.5.7 104983 2f2lA 167 3.07e+00 2c1iA 431 3.21e+00 1szwA 379 3.33e+00 d.265.1.4 99047 1e5dA 402 3.45e+00 1e5dA c.23.5.1,d.157.1.3 31208,42061 1j08A 226 3.54e+00 c.47.1.2,c.47.1.2 83855,83856 1go2A 304 3.69e+00 b.43.4.2,c.25.1.1 76243,76244 1w34A 304 3.70e+00 1eljA 381 3.84e+00 4mbp c.94.1.1 35791 1obfO 335 4.09e+00 c.2.1.3,d.81.1.1 86768,86769 2akrA 285 4.49e+00 1z5lA 285 4.69e+00 1kshA 186 4.79e+00 c.37.1.8 72914 1o5xA 248 4.99e+00 c.1.1.1 92528 2c1gA 431 5.08e+00 1skoA 143 5.14e+00 d.110.7.1 105676 1lyxA 248 5.21e+00 c.1.1.1 78304 1fhdA 312 5.22e+00 1taxA c.1.8.3 28915 2bsaA 303 5.33e+00 2b5eA 504 5.34e+00 1t5bA 201 5.47e+00 c.23.5.3 106433 1y9zA 441 5.72e+00 1a0rP 245 5.75e+00 1b9yC c.47.1.6 33054 1v6cA 441 5.77e+00 1w36D 608 6.02e+00 1ohvA 472 6.21e+00 c.67.1.4 93031 1fh9A 312 6.36e+00 1taxA c.1.8.3 28913 2czrA 226 6.84e+00 1ra0A 430 6.89e+00 1k6wA 426 7.06e+00 b.92.1.2,c.1.9.5 68236,68237 1tc5A 194 7.20e+00 c.110.1.1 106752 2f9lA 199 7.29e+00 1w3iA 293 7.29e+00 c.1.10.1 109152 1wybA 392 7.36e+00 2fqxA 318 7.44e+00 1m2dA 110 7.86e+00 c.47.1.11 78476 2b9wA 424 7.95e+00 1que 303 8.05e+00 1fnc b.43.4.2,c.25.1.1 25647,31537 1yzqA 170 8.24e+00 1wycA 392 8.33e+00 1f74A 293 8.34e+00 1nal3 c.1.10.1 29079 1f89A 291 8.35e+00 d.160.1.1 64988 1g3qA 237 8.51e+00 1hyqA c.37.1.10 60237 1vetA 124 8.68e+00 d.110.7.1 108553 1ogiA 303 8.72e+00 b.43.4.2,c.25.1.1 92914,92915 1jfrA 262 8.75e+00 1jfrA c.69.1.16 34724 1oboA 169 8.96e+00 c.23.5.1 86776 1vmeA 410 9.01e+00 c.23.5.1,d.157.1.3 108893,108894 1mo0A 275 9.13e+00 c.1.1.1 79329 3cla 213 9.24e+00 3cla c.43.1.1 32610 1bykA 255 9.49e+00 1bykA c.93.1.1 35706 1oacA 727 9.58e+00 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 3tmkA 216 9.63e+00 3tmkA c.37.1.1 31920 1z7gA 217 9.76e+00 1t7lA 766 9.77e+00 1xgyH 219 1.01e+01 1zkcA 197 1.12e+01 1gxuA 91 1.13e+01 d.58.10.1 76378 1xx6A 191 1.14e+01 1oywA 523 1.18e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1j05B 121 1.18e+01 b.1.1.1 90736 1up7A 417 1.21e+01 1yobA 179 1.25e+01 2f4qA 346 1.26e+01 2c1lA 358 1.27e+01 1rcf 169 1.28e+01 1rcf c.23.5.1 31170 1g61A 228 1.30e+01 1g61A d.126.1.1 41126 1hh1A 143 1.31e+01 1gefA c.52.1.18 61036 1iq4A 179 1.34e+01 1iq4A d.77.1.1 62641 1oz9A 150 1.39e+01 d.92.1.15 93808 1ofuA 320 1.41e+01 c.32.1.1,d.79.2.1 86972,86973 1t3bA 211 1.44e+01 c.47.1.9,d.17.3.1 106341,106342 1fxoA 293 1.47e+01 1g0rA c.68.1.6 34524 1dar 691 1.48e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1pud 386 1.49e+01 1pud c.1.20.1 29658 1befA 181 1.56e+01 1befA b.47.1.3 26419 1w77A 228 1.60e+01 1us5A 314 1.63e+01 c.94.1.1 99856 2cybA 323 1.73e+01 2ahqA 76 1.73e+01 1fo1A 271 1.74e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 8rucI 123 1.74e+01 1rboC d.73.1.1 39629 8rucA 475 1.75e+01 1burA c.1.14.1,d.58.9.1 29339,39245 2bcgY 206 1.75e+01 1zaiA 363 1.80e+01 2fcr 173 1.81e+01 1rcf c.23.5.1 31151 1tikA 213 1.81e+01 c.23.5.3 107003 1tv8A 340 1.82e+01 c.1.28.3 107352 1tmy 120 1.82e+01 1dbwA c.23.1.1 31083 1f0cA 305 1.82e+01 1c8oA e.1.1.1 42676 1bx1A 314 1.83e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1ymqA 261 1.83e+01 1k8wA 327 1.85e+01 b.122.1.1,d.265.1.2 83094,90388 1yrgA 385 1.87e+01 1yrgA c.10.1.2 30854 1tjyA 316 1.92e+01 c.93.1.1 107062 1u0sY 118 1.92e+01 c.23.1.1 107566 1ml4A 308 1.94e+01 c.78.1.1,c.78.1.1 79255,79256 1b74A 254 1.95e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1ve1A 304 1.97e+01 2jdxA 385 1.97e+01 1jdw d.126.1.2 41139 1wqaA 455 1.98e+01 1ea9C 583 2.02e+01 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 1hgxA 183 2.03e+01 1tc1A c.61.1.1 34027 1uayA 242 2.07e+01 c.2.1.2 88390 1r5yA 386 2.07e+01 c.1.20.1 97134 1e4fT 419 2.09e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 2bc4A 211 2.12e+01 1m1nA 491 2.13e+01 c.92.2.3 78417 1sq5A 308 2.14e+01 c.37.1.6 105882 1n7hA 381 2.16e+01 c.2.1.2 80250 1pxgA 382 2.16e+01 c.1.20.1 95287 1ovnA 248 2.17e+01 a.71.1.1,c.47.1.7 93602,93603 2ca6A 386 2.17e+01 1uxy 340 2.17e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1fy7A 278 2.27e+01 1fy7A d.108.1.1 40817 1ag9A 175 2.27e+01 1rcf c.23.5.1 31178 2fomB 185 2.28e+01 1uvjA 664 2.28e+01 e.8.1.6 100045 1v0lA 313 2.28e+01 c.1.8.3 108207 1dtwB 342 2.29e+01 1qs0B c.36.1.7,c.48.1.2 31828,33102 1h9sA 140 2.30e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 1lba 146 2.32e+01 1lba d.118.1.1 41062 1xk4C 113 2.36e+01 2b8tA 223 2.39e+01 1nsj 205 2.45e+01 1nsj c.1.2.4 28560 1cf2O 337 2.48e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 2gaeA 346 2.49e+01 1jkeA 145 2.51e+01 c.110.1.1 66791 1f35A 162 2.51e+01 1f35A b.94.1.1 59628 2plc 274 2.53e+01 2plc c.1.18.2 29614 2a5lA 200 2.56e+01 1mr3F 181 2.60e+01 c.37.1.8 79422 1ff9A 450 2.60e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1ezvB 352 2.61e+01 1ezvB d.185.1.1,d.185.1.1 59543,59544 1zuoA 186 2.61e+01 1n3lA 372 2.62e+01 c.26.1.1 79966 1iseA 185 2.63e+01 d.67.3.1 90691 1zckA 154 2.65e+01 1ex2A 189 2.68e+01 1ex2A c.51.4.2 33225 1txlA 215 2.71e+01 b.60.1.4 107429 1fw9A 164 2.71e+01 1fw9A d.190.1.1 60059 1tt8A 164 2.71e+01 1zx1A 231 2.72e+01 1mdbA 539 2.78e+01 e.23.1.1 79008 1ecfA 504 2.79e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1weyA 104 2.79e+01 1g4yR 148 2.80e+01 1cll a.39.1.5 60252 1x8hA 228 2.82e+01 1udzA 182 2.83e+01 b.51.1.1 99239 1xt8A 292 2.84e+01 1t1uA 639 2.87e+01 1qb7A 236 2.88e+01 1qb7A c.61.1.1 34087 1wnyA 186 2.88e+01 1x8gA 227 2.94e+01 1jdw 423 2.95e+01 1jdw d.126.1.2 41129 1vq0A 302 2.95e+01 1hfoA 113 2.98e+01 d.80.1.3 61006 1rxdA 159 2.98e+01 1c4oA 664 2.99e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1b5qA 472 3.00e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1t6cA 315 3.00e+01 c.55.1.8,c.55.1.8 106558,106559 1ugmA 125 3.01e+01 d.15.1.3 107827 1ecsA 126 3.01e+01 1ecsA d.32.1.2 59407 1xhfA 123 3.02e+01 2ga9A 297 3.03e+01 1y4lA 121 3.04e+01 1zq1A 438 3.05e+01 1va4A 279 3.06e+01 c.69.1.12 108458 1lwjA 441 3.06e+01 b.71.1.1,c.1.8.1 74303,74304 1m93B 245 3.09e+01 1nzaA 103 3.10e+01 d.58.5.2 86444 1mc2A 122 3.14e+01 a.133.1.2 74622 1a6s 87 3.15e+01 1a6s a.61.1.4 18134 1hzdA 272 3.15e+01 c.14.1.3 65969 1vmoA 163 3.15e+01 1vmoA b.77.1.1 27974 2ng1 293 3.17e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1um5H 217 3.20e+01 1w96A 554 3.23e+01 1o57A 291 3.25e+01 a.4.5.40,c.61.1.1 92483,92484 1jlwA 219 3.26e+01 a.45.1.1,c.47.1.5 71741,71742 1y0vH 146 3.32e+01 1ukvY 206 3.33e+01 c.37.1.8 107918 1hd2A 161 3.36e+01 c.47.1.10 60962 1oixA 191 3.37e+01 1fsgA 233 3.37e+01 1qk3A c.61.1.1 34029 1adoA 363 3.40e+01 1fbaA c.1.10.1 29124 1hhsA 664 3.41e+01 1hi0P e.8.1.6 61045 1ufoA 238 3.51e+01 c.69.1.27 99344 1xfxA 777 3.53e+01 1pea 385 3.57e+01 1pea c.93.1.1 35662 1u0tA 307 3.58e+01 e.52.1.1 107567 1ls1A 295 3.62e+01 a.24.13.1,c.37.1.10 78170,78171 1w1iE 357 3.63e+01 c.1.9.1 109051 1ad2 228 3.66e+01 1ad2 e.24.1.1 43353 1hurA 180 3.68e+01 1hurA c.37.1.8 32052 1wggA 96 3.68e+01 1rl6A 177 3.74e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1lqpA 135 3.75e+01 d.32.1.2 78151 1ttwA 138 3.75e+01 d.198.1.1 107308 1wvhA 134 3.77e+01 1jx2B 315 3.78e+01 c.37.1.8 67404 2a84A 300 3.80e+01 2c7pA 327 3.89e+01 1a05A 358 3.90e+01 1cnzA c.77.1.1 35059 1eo9B 241 3.92e+01 3pchM b.3.6.1 22826 1mnaA 298 3.94e+01 c.69.1.22 79322 1q25A 432 3.96e+01 b.64.1.1,b.64.1.1,b.64.1.1 104493,104494,104495 1wsrA 375 4.02e+01 1f1xA 322 4.03e+01 d.32.1.3,d.32.1.3 83208,83209 2bzsA 236 4.04e+01 1e6wA 260 4.04e+01 1e6wA c.2.1.2 59326 1m98A 317 4.09e+01 a.175.1.1,d.17.4.6 78866,78867 1bylA 125 4.09e+01 1bylA d.32.1.2 38495 1jtkA 136 4.11e+01 c.97.1.1 71862 1vflA 356 4.15e+01 1q2lA 939 4.15e+01 1kb9B 352 4.18e+01 d.185.1.1,d.185.1.1 77313,77314 1kllA 130 4.20e+01 d.32.1.2 72720 1qsgA 265 4.21e+01 1eny c.2.1.2 29935 1b9mA 265 4.23e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1up6A 416 4.30e+01 c.2.1.5,d.162.1.2 107976,107977 1l1jA 239 4.34e+01 b.47.1.1 84516 1ek8A 185 4.38e+01 1ek8A d.67.3.1 59444 1k8tA 510 4.38e+01 e.41.1.1 68316 1xg8A 111 4.39e+01 1mvuB 121 4.41e+01 b.1.1.1 91475 1px5A 349 4.43e+01 a.160.1.2,d.218.1.6 95277,95278 2bgcA 238 4.43e+01 2d1pB 119 4.44e+01 1uwzA 136 4.48e+01 c.97.1.1 108081 1i1jA 108 4.50e+01 1i1jA b.34.2.1 61531 1xxsA 122 4.54e+01 1ns5A 155 4.55e+01 c.116.1.3 80705 1gcoA 261 4.56e+01 1ybvA c.2.1.2 29884 1ktbA 405 4.57e+01 b.71.1.1,c.1.8.1 72960,72961 1s29A 92 4.57e+01 a.4.5.46 98373 2fneA 117 4.61e+01 1iibA 106 4.62e+01 1iibA c.44.2.1 32648 1b43A 340 4.63e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 2fhzB 108 4.64e+01 1mxmA 254 4.71e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1u1iA 392 4.72e+01 c.2.1.3,d.81.1.3 107582,107583 1dpgA 485 4.72e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1obbA 480 4.74e+01 c.2.1.5,d.162.1.2 86760,86761 1yo1A 260 4.75e+01 1t0yA 122 4.76e+01 d.15.1.1 99066 1vm6A 228 4.78e+01 c.2.1.3,d.81.1.3 108876,108877 1senA 164 4.79e+01 c.47.1.1 105465 1eceA 358 4.82e+01 1eceA c.1.8.3 28813 1oejA 193 4.85e+01 b.60.1.4 92798 1v1rB 342 4.86e+01 c.36.1.7,c.48.1.2 108273,108274 2fikA 287 4.91e+01 2cwpA 112 4.91e+01 1z06A 189 4.93e+01 1n2eA 300 4.96e+01 c.26.1.4 85268 1h5rA 293 4.98e+01 c.68.1.6 65623 2akzA 439 5.09e+01 1neyA 247 5.12e+01 c.1.1.1 80449 1b16A 254 5.13e+01 1b16A c.2.1.2 29875 1mexH 215 5.19e+01 b.1.1.1,b.1.1.2 91257,91258 2a4hA 126 5.22e+01 1vcbC 160 5.24e+01 1vcbC b.3.3.1 22535 1omiA 248 5.25e+01 b.82.3.3,a.4.5.4 87079,87080 1xx0A 127 5.25e+01 1u0kA 288 5.27e+01 d.21.1.2,d.21.1.2 107547,107548 1p0fA 373 5.27e+01 b.35.1.2,c.2.1.1 87642,87643 1gd1O 334 5.29e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 2ao0A 324 5.30e+01 1hyuA 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