# List of top-scoring protein chains for t04-100-30-near-backbone-11-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.soe.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 2ebn 289 6.06e-09 2ebn 2ebnA 289 6.89e-09 c.1.8.5 28990 3flpA 217 2.09e-06 1ms9A 648 1.10e-04 b.29.1.15,b.68.1.1 85088,85089 1n1tA 641 2.19e-04 b.29.1.15,b.68.1.1 79821,79822 3hmyA 450 3.18e-04 1a8d 452 1.33e-03 1a8d 1a8dA 452 1.36e-03 b.29.1.6,b.42.4.2 24262,25607 3ginA 160 3.04e-03 2dpkA 152 1.17e-02 b.1.27.1 131616 1edtA 271 3.00e-02 c.1.8.5 28993 1c93A 265 3.22e-02 2ebn c.1.8.5 28998 1h6fA 193 5.74e-02 b.2.5.4 70901 2v73A 191 9.43e-02 1aohA 147 2.91e-01 1aohA b.2.2.2 22401 1d2sA 170 6.23e-01 1d2sA b.29.1.4 24221 2jd4A 383 6.70e-01 1f5fA 205 7.85e-01 1d2sA b.29.1.4 24222 2vxrA 482 8.53e-01 1sacA 204 1.02e+00 1sacA b.29.1.5 24237 1gbgA 214 1.04e+00 b.29.1.2 24171 1gbg 214 1.05e+00 1axkA 1kxvC 121 1.41e+00 b.1.1.1 73190 2erfA 209 1.53e+00 b.29.1.4 132287 2qvkA 192 1.73e+00 2jkbA 686 1.84e+00 2w08A 204 2.06e+00 2vw2A 697 2.10e+00 3lzfH 230 2.14e+00 1bf2A 750 2.16e+00 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1bf2 750 2.33e+00 1bf2 1xbrA 184 2.90e+00 1xbrA b.2.5.4 22458 2qt1A 207 3.38e+00 2z1pA 348 3.38e+00 3iflH 222 3.42e+00 3dhpA 496 3.47e+00 b.71.1.1,c.1.8.1 157725,157726 1lwjA 441 4.02e+00 b.71.1.1,c.1.8.1 74303,74304 1sddA 306 4.06e+00 b.6.1.3,b.6.1.3 105431,105432 1wyzA 242 4.14e+00 c.90.1.1 121471 1sh8A 154 4.39e+00 d.38.1.5 105549 1wb4A 297 4.50e+00 c.69.1.2 120827 2b59A 187 4.94e+00 b.2.2.2 127879 3fg4A 696 5.21e+00 1smdA 496 5.34e+00 b.71.1.1,c.1.8.1 27768,28755 2zouA 149 5.52e+00 2fwuA 157 6.05e+00 b.1.27.1 134262 3fg3A 696 6.26e+00 3immA 201 6.95e+00 1smd 496 7.07e+00 1smd 3fg1A 696 7.07e+00 2iciA 227 7.09e+00 2b0rA 202 7.15e+00 1g1kA 143 8.04e+00 1aohA b.2.2.2 22404 2ayhA 214 8.06e+00 b.29.1.2 24172 3if6A 266 8.10e+00 1mveA 243 8.17e+00 b.29.1.2 85140 2ayh 214 8.27e+00 1axkA 1ze3C 205 8.31e+00 b.1.11.1,b.7.2.1 124974,124975 2gopA 347 9.00e+00 1d7oA 297 9.03e+00 1enp c.2.1.2 29907 1acc 735 9.62e+00 1acc 3dcdA 307 9.65e+00 1zsoA 164 9.93e+00 b.166.1.1 125610 3h0oA 240 1.01e+01 2klsA 164 1.04e+01 2cspA 130 1.10e+01 b.1.2.1 130779 1ngr 85 1.11e+01 1ngr 2vn6A 151 1.14e+01 b.2.2.2 153332 1ngrA 85 1.15e+01 a.77.1.2 18422 3bwuC 205 1.16e+01 b.1.11.1,b.7.2.1 155699,155700 1oh4A 179 1.17e+01 b.18.1.18 92978 3hr9A 241 1.20e+01 2z4tA 514 1.23e+01 1enp 312 1.29e+01 1enp 1kn3A 183 1.29e+01 b.17.1.1 72764 1accA 735 1.30e+01 f.11.1.1 43828 2vdwA 302 1.32e+01 2zxqA 1376 1.37e+01 5rubA 490 1.37e+01 1burA c.1.14.1,d.58.9.1 29382,39288 2w3jA 145 1.38e+01 3llpA 493 1.39e+01 1t3uA 104 1.42e+01 d.244.1.1 99120 2kltA 163 1.44e+01 2wanA 921 1.44e+01 2g2nA 114 1.45e+01 1yoxA 250 1.54e+01 b.82.5.2 123789 3gldA 295 1.56e+01 1c1lA 136 1.61e+01 1c1lA b.29.1.3 24219 3i3uA 112 1.71e+01 1gu3A 149 1.72e+01 b.18.1.14 76350 2iouG 535 1.79e+01 1deuA 277 1.82e+01 1theB d.3.1.1 37085 3hwjA 172 1.91e+01 3h09A 989 1.93e+01 3ik2A 517 1.95e+01 1m4vA 204 1.97e+01 b.40.2.2,d.15.6.1 74459,74460 1czfA 362 2.00e+01 1czfA b.80.1.3 28031 3d48R 211 2.05e+01 b.1.2.1,b.1.2.1 157289,157290 2yz1A 120 2.07e+01 1pu1A 94 2.13e+01 d.266.1.1 104307 3eadA 137 2.18e+01 1c5cL 214 2.21e+01 32c2A b.1.1.1,b.1.1.2 20474,21438 1whmA 92 2.23e+01 b.34.10.1 114647 3gwfA 540 2.27e+01 3e9tA 114 2.38e+01 1b77A 228 2.40e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1um5L 219 2.44e+01 b.1.1.1,b.1.1.2 113304,113305 3ik5A 143 2.50e+01 1n91A 108 2.52e+01 d.206.1.1 80326 2vovA 336 2.52e+01 2bm3A 166 2.55e+01 b.2.2.2 128762 1n0xL 215 2.57e+01 b.1.1.1,b.1.1.2 91532,91533 1dypA 271 2.62e+01 1dypA b.29.1.2 24185 1qpxA 218 2.70e+01 1qpxA b.1.11.1,b.7.2.1 22318,23200 3achA 203 2.71e+01 3k2iA 422 2.72e+01 3l95A 214 2.74e+01 2hwzH 227 2.76e+01 1guuA 52 2.78e+01 a.4.1.3 83332 1qu0A 191 2.79e+01 1dykA b.29.1.4 24225 1rjwA 339 2.81e+01 b.35.1.2,c.2.1.1 97582,97583 2wk2A 540 2.82e+01 1uaiA 224 3.00e+01 b.29.1.18 107761 2dvyA 226 3.01e+01 3jz7A 214 3.03e+01 1ivgA 388 3.12e+01 b.68.1.1 27578 3adnA 294 3.14e+01 3b2mA 295 3.19e+01 2iqyA 190 3.20e+01 2czrA 226 3.30e+01 c.52.4.1 146440 1ngzA 213 3.30e+01 b.1.1.1,b.1.1.2 80500,80501 2z8lA 208 3.30e+01 b.40.2.2,d.15.6.1 154209,154210 2mcmA 112 3.31e+01 b.1.7.1 22207 1cl7I 82 3.31e+01 1igtB 3bwzA 181 3.40e+01 2wnxA 170 3.42e+01 3eysH 223 3.55e+01 3ivkB 213 3.59e+01 3g02A 408 3.63e+01 2p4mA 219 3.64e+01 1h9sA 140 3.65e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 3lsoA 489 3.73e+01 2h0bA 184 3.81e+01 3bp6B 202 3.92e+01 1ywkA 289 3.93e+01 b.82.1.13 124155 2wolA 562 3.94e+01 2vgeA 229 3.94e+01 2w07A 218 3.97e+01 1r8gA 372 3.99e+01 d.128.1.3 104845 1mbe 53 4.02e+01 1mbe 2vu9A 444 4.03e+01 1s1iF 162 4.08e+01 i.1.1.1 105180 1behA 187 4.13e+01 1a44 b.17.1.1 23700 2ovlA 371 4.17e+01 1wejH 223 4.18e+01 1igtB b.1.1.1,b.1.1.2 20361,21353 1vpkA 378 4.24e+01 d.131.1.1,d.131.1.1,d.131.1.1 113963,113964,113965 3gr5A 156 4.26e+01 3bqhA 193 4.26e+01 1jyhA 157 4.31e+01 d.60.1.3 71956 3bqfA 194 4.33e+01 2p1jA 186 4.35e+01 2a15A 139 4.40e+01 d.17.4.3 125973 1rurH 218 4.40e+01 b.1.1.1,b.1.1.2 97879,97880 1wfuA 120 4.45e+01 b.1.2.1 114593 2ie7A 318 4.45e+01 a.65.1.1 137293 2vxvL 214 4.60e+01 2chuA 296 4.63e+01 c.92.2.4 130485 1cqkA 101 4.66e+01 1cqkA b.1.1.2 21547 1zv9A 172 4.68e+01 b.2.2.2 125700 1tzyB 126 4.70e+01 a.22.1.1 107531 1hq3B 126 4.74e+01 1aoiD a.22.1.1 16444 3f65A 224 4.80e+01 3ij8A 496 4.88e+01 3ejkA 174 4.91e+01 2mcm 112 4.92e+01 2mcm 2ivxA 257 4.93e+01 a.74.1.1,a.74.1.1 147813,147814 1f00I 282 5.20e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 2wlzA 548 5.30e+01 1n0lA 224 5.31e+01 b.1.11.1,b.7.2.1 79744,79745 1zanH 224 5.37e+01 2cw8A 537 5.38e+01 3brnA 157 5.39e+01 2zw2A 92 5.41e+01 1qznA 173 5.45e+01 b.2.2.2 104669 1mexH 215 5.52e+01 b.1.1.1,b.1.1.2 91257,91258 2qn0A 430 5.58e+01 1epwA 1290 5.60e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 2j8gA 339 5.60e+01 b.109.1.1,c.1.8.8 147915,147916 3jxsA 174 5.63e+01 1yuwA 554 5.74e+01 b.130.1.1,c.55.1.1,c.55.1.1 124070,124071,124072 2wzpA 266 5.77e+01 1q1oA 98 5.87e+01 d.15.2.2 95596 2aqmA 154 5.87e+01 2ph7A 246 5.87e+01 3ho6A 267 5.92e+01 3kxxA 317 6.01e+01 1t4wA 196 6.01e+01 b.2.5.2 106427 1v3hA 495 6.06e+01 c.1.8.1 108303 2wlgA 215 6.07e+01 2fbjL 213 6.10e+01 8fabA b.1.1.1,b.1.1.2 19850,20954 1oflA 481 6.15e+01 b.80.1.4 103934 2bnqD 203 6.20e+01 b.1.1.1,b.1.1.2 144996,144997 1k38A 254 6.24e+01 e.3.1.1 84303 1cx1A 153 6.25e+01 1ulo b.18.1.14 23770 2j2zA 218 6.33e+01 b.1.11.1,b.7.2.1 137974,137975 2r61A 208 6.33e+01 b.40.2.2,d.15.6.1 151599,151600 3i9hA 88 6.42e+01 1jlyA 304 6.44e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 2w59A 231 6.49e+01 3b9eA 584 6.52e+01 3dsmA 328 6.55e+01 2bhoA 130 6.55e+01 1s31A 273 6.56e+01 2sliA 679 6.60e+01 b.29.1.9,b.68.1.1 24274,27611 1pmhX 185 6.63e+01 b.18.1.18 104193 3fsoA 123 6.63e+01 2sli 679 6.63e+01 2sli 1upsA 420 6.68e+01 b.29.1.2,b.42.2.3 113394,113395 2hazA 105 6.70e+01 b.1.2.1 136303 2bnuA 203 6.70e+01 1rr7A 129 6.72e+01 a.4.1.14 105075 1forL 210 6.76e+01 8fabA b.1.1.1,b.1.1.2 19988,21044 1h09A 338 6.77e+01 b.109.1.1,c.1.8.8 83420,83421 1xweA 151 6.85e+01 b.40.3.3 116125 1dboA 506 6.86e+01 1dbgA b.80.1.4 28034 1dbgA 506 6.91e+01 1dbgA b.80.1.4 28033 1ee6A 197 6.91e+01 1ee6A b.80.1.1 28024 1tyjA 170 6.96e+01 b.2.2.2 119390 2cclA 158 6.96e+01 b.2.2.2 130248 2qv2A 342 6.99e+01 2qzqA 152 7.04e+01 1bqcA 302 7.08e+01 1bqcA c.1.8.3 28831 2dy3A 361 7.10e+01 2d7eA 105 7.29e+01 2wkkA 150 7.30e+01 3kn3A 242 7.31e+01 3d9aH 210 7.36e+01 3idgA 214 7.37e+01 2eh6A 375 7.39e+01 1f6fB 210 7.40e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 2ipuG 226 7.49e+01 3cuiA 315 7.50e+01 1yqvL 211 7.56e+01 b.1.1.1,b.1.1.2 123900,123901 2x7lB 217 7.58e+01 1zb9A 143 7.79e+01 3bb7A 321 7.81e+01 1r17A 343 7.95e+01 b.2.3.4,b.2.3.4 96796,96797 1fgkA 310 8.00e+01 1fgkA d.144.1.7 41693