# 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.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 1bg2 325 6.93e-45 1bg2 c.37.1.9 32189 1i6iA 366 5.51e-42 1bg2 c.37.1.9 61844 1q0bA 367 2.82e-41 c.37.1.9 95502 1x88A 359 2.93e-41 1vfvA 366 5.70e-41 c.37.1.9 108592 1f9vA 347 4.79e-39 1bg2 c.37.1.9 59745 1ry6A 360 8.07e-37 c.37.1.9 98090 2kinA 238 7.90e-32 1bg2 c.37.1.9 32190 2kinB 100 1.46e-11 3kinB 1d2mA 665 9.03e-02 1d2mA c.37.1.19,c.37.1.19 32417,32418 1g6oA 330 3.97e-01 1g6oA c.37.1.11 32430 1odfA 290 4.34e-01 c.37.1.6 92782 1htjF 210 4.67e-01 1htjF a.91.1.1 61254 1xw8A 252 6.56e-01 5ukdA 194 7.12e-01 1zin c.37.1.1 31851 1c4oA 664 8.43e-01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1qf9A 194 9.08e-01 1zin c.37.1.1 31848 1pfkA 320 1.11e+00 3pfk c.89.1.1 35575 1g291 372 1.28e+00 1g291 1jx2B 315 1.30e+00 c.37.1.8 67404 2akaB 299 1.85e+00 2ghpA 292 2.00e+00 1np3A 338 2.20e+00 a.100.1.2,c.2.1.6 85946,85947 1yrbA 262 2.28e+00 2pfkA 320 2.42e+00 3pfk c.89.1.1 35577 1f5nA 592 2.47e+00 1dg3A a.114.1.1,c.37.1.8 19077,32152 1ooyA 481 2.63e+00 c.124.1.3,c.124.1.2 93388,93389 2cdnA 201 2.65e+00 3bamA 213 2.74e+00 1bam c.52.1.3 33288 1f60A 458 2.82e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1oywA 523 4.80e+00 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1p3jA 217 5.07e+00 c.37.1.1,g.41.2.1 94022,94023 1qhlA 227 5.15e+00 1qhlA c.37.1.12 32382 2azeA 155 5.31e+00 1h65A 270 5.47e+00 c.37.1.8 65640 1ihuA 589 5.76e+00 c.37.1.10,c.37.1.10 62394,62395 2ahuA 531 5.80e+00 1efvA 315 6.02e+00 1efvA c.26.2.3,c.31.1.2 31633,31728 1vljA 407 6.25e+00 e.22.1.2 108832 1xwiA 322 7.19e+00 1ofuA 320 7.24e+00 c.32.1.1,d.79.2.1 86972,86973 1z5vA 474 7.27e+00 1bouB 302 7.56e+00 1bouB c.56.6.1 33859 1vns 609 7.95e+00 1vns a.111.1.3 19061 1wi6A 88 8.12e+00 1yyaA 250 8.36e+00 1yobA 179 8.64e+00 1z83A 196 9.21e+00 2bycA 137 9.22e+00 1m33A 258 9.96e+00 c.69.1.26 78514 1u9iA 519 1.01e+01 1ji0A 240 1.05e+01 c.37.1.12 71665 1gvnB 287 1.07e+01 c.37.1.21 76354 1q5dA 419 1.10e+01 a.104.1.1 95891 1dekA 241 1.12e+01 1dekA c.37.1.1 31842 2aq4A 434 1.14e+01 2a5yB 549 1.16e+01 1fnnA 389 1.16e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1wdtA 665 1.18e+01 1eu1A 780 1.22e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1mvwA 840 1.29e+01 i.15.1.1 79523 1ve1A 304 1.33e+01 2ng1 293 1.36e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 2fpmA 322 1.42e+01 2ccjA 205 1.54e+01 2ak3A 226 1.57e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1qf5A 431 1.69e+01 1adeA c.37.1.10 32212 1h6kZ 98 1.76e+01 d.58.7.1 60686 2g03A 194 1.79e+01 1poxA 585 1.81e+01 1poxA c.31.1.3,c.36.1.5,c.36.1.9 31731,31793,31794 2bdeA 470 1.86e+01 1jjvA 206 1.89e+01 c.37.1.1 71698 1l1lA 739 1.89e+01 c.7.1.4 73470 1aerA 205 1.90e+01 1aerA d.166.1.1 42249 1qdeA 224 1.93e+01 1qvaA c.37.1.19 32410 1jffA 451 1.99e+01 c.32.1.1,d.79.2.1 62932,62933 1e3aB 560 2.04e+01 1ajqB 1r9cA 139 2.04e+01 d.32.1.2 97255 1sxjE 354 2.05e+01 a.80.1.1,c.37.1.20 106089,106090 1oxxK 353 2.09e+01 b.40.6.3,c.37.1.12 93715,93716 1fioA 196 2.13e+01 1fioA a.47.2.1 17773 1pzgA 331 2.20e+01 c.2.1.5,d.162.1.1 95425,95426 1xewY 172 2.21e+01 1y51A 88 2.26e+01 1esgA 213 2.30e+01 1bam c.52.1.3 33286 1tq4A 413 2.32e+01 c.37.1.8 107201 2aiqA 231 2.34e+01 1oxsC 353 2.35e+01 b.40.6.3,c.37.1.12 87519,87520 1mr3F 181 2.36e+01 c.37.1.8 79422 1vcaA 202 2.41e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 2fji1 399 2.45e+01 1bif 469 2.52e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1ls1A 295 2.53e+01 a.24.13.1,c.37.1.10 78170,78171 2bkaA 242 2.58e+01 1gpjA 404 2.58e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1j5pA 253 2.61e+01 d.81.1.3,c.2.1.3 71577,83092 2a65A 519 2.62e+01 1uluA 261 2.64e+01 1dl5A 317 2.70e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1lv7A 257 2.70e+01 c.37.1.20 78232 2gl5A 410 2.70e+01 1rypJ 204 2.72e+01 d.153.1.4 41878 1g8pA 350 2.74e+01 1g8pA c.37.1.20 60376 1ye8A 178 2.77e+01 1vplA 256 2.77e+01 1yr0A 175 2.81e+01 2ez9A 603 2.86e+01 1xw4X 110 2.90e+01 1gk9B 557 2.98e+01 1sheA 103 3.00e+01 d.274.1.1 105551 1t95A 240 3.02e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1xmiA 291 3.04e+01 1vz6A 393 3.04e+01 d.154.1.2 108949 1g2rA 100 3.09e+01 1g2rA d.192.1.1 60231 1tueA 212 3.12e+01 c.37.1.20 107323 1wmhA 89 3.20e+01 2b7oA 464 3.22e+01 1xriA 151 3.25e+01 1lyxA 248 3.32e+01 c.1.1.1 78304 1q0uA 219 3.33e+01 c.37.1.19 95512 1q60A 99 3.39e+01 1ii2A 524 3.40e+01 c.91.1.1,c.109.1.1 66146,66147 1zkoA 136 3.44e+01 1nv8A 284 3.47e+01 c.66.1.30 86224 1x6vA 630 3.51e+01 2fnaA 357 3.54e+01 1rxwA 336 3.58e+01 a.60.7.1,c.120.1.2 98059,98060 1xd8A 289 3.65e+01 2fx0A 201 3.73e+01 1g6hA 257 3.76e+01 1gajA c.37.1.12 60318 1hf8A 289 3.85e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1n3bA 216 3.86e+01 c.37.1.1 79959 1va6A 518 3.94e+01 1w78A 422 3.99e+01 1j8mF 297 4.00e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1k5cA 335 4.00e+01 b.80.1.3 72076 1mf7A 194 4.03e+01 c.62.1.1 84937 1h2eA 207 4.09e+01 c.60.1.1 70857 1cp2A 269 4.12e+01 1cp2A c.37.1.10 32269 1viaA 175 4.13e+01 c.37.1.2 100754 2napA 723 4.16e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1w1iE 357 4.19e+01 c.1.9.1 109051 1ih8A 271 4.21e+01 2nsyA c.26.2.1 62377 1xkyA 301 4.22e+01 1tvkA 440 4.24e+01 c.32.1.1,d.79.2.1 107362,107363 1ptf 88 4.27e+01 1ptf d.94.1.1 40549 1tlfA 301 4.29e+01 1tlfA c.93.1.1 35687 1rdfA 267 4.29e+01 c.108.1.3 104884 2cbzA 237 4.36e+01 2cmd 312 4.47e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1faeA 629 4.50e+01 1fce a.102.1.2 18837 1qhfA 240 4.55e+01 1qhfA c.60.1.1 33960 1mrzA 293 4.62e+01 b.43.5.1,c.26.1.3 91452,91453 1c0eA 157 4.77e+01 1dg9A c.44.1.1 32638 1hm9A 468 4.89e+01 b.81.1.4,c.68.1.5 65866,65867 1g9gA 629 4.92e+01 a.102.1.2 83279 1r0wA 286 4.93e+01 c.37.1.12 96754 1v5eA 590 4.95e+01 1ed1A 135 4.96e+01 1hiwA a.61.1.1 18130 1tvjA 166 4.98e+01 1hl2A 297 5.01e+01 c.1.10.1 83581 1o5xA 248 5.04e+01 c.1.1.1 92528 1ukz 203 5.07e+01 1zin c.37.1.1 31840 1e94F 449 5.07e+01 1do0A c.37.1.20 32443 1oe9A 795 5.08e+01 b.34.3.1,c.37.1.9 92792,92793 1g7sA 594 5.09e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 2bbsA 290 5.10e+01 1yf2A 425 5.19e+01 1gwiA 411 5.32e+01 a.104.1.1 76364 1vd2A 89 5.40e+01 d.15.2.2 108517 1rkbA 173 5.40e+01 1jyeA 349 5.41e+01 c.93.1.1 67455 1s7kA 182 5.42e+01 1f42A 306 5.43e+01 1f42A b.1.1.4,b.1.2.1,b.1.2.1 59636,59637,59638 1bxkA 355 5.53e+01 1bxkA c.2.1.2 29803 1uptC 170 5.61e+01 c.37.1.8 99769 1vflA 356 5.68e+01 1g97A 459 5.73e+01 1fwyA b.81.1.4,c.68.1.5 60394,60395 1v5wA 343 5.79e+01 c.37.1.11 108387 2polA 366 5.83e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 1rqlA 267 5.86e+01 c.108.1.3 97750 1zin 217 5.87e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2gdjA 264 5.88e+01 1vdxA 184 5.96e+01 1ld8A 382 6.05e+01 a.118.6.1 73838 2fqxA 318 6.07e+01 1e4yA 214 6.12e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1w36B 1180 6.13e+01 1o17A 345 6.39e+01 a.46.2.1,c.27.1.1 80765,80766 1vq0A 302 6.49e+01 1t4gA 322 6.51e+01 a.60.4.1,c.37.1.11 106418,106419 1w6uA 302 6.57e+01 1dmgA 225 6.60e+01 1dmgA c.22.1.1 31036 1xwwA 157 6.64e+01 1g3qA 237 6.67e+01 1hyqA c.37.1.10 60237 2d00A 109 6.69e+01 1i6pA 220 6.81e+01 1ddzA c.53.2.1 61848 1ky3A 182 6.82e+01 c.37.1.8 73193 2b67A 204 6.82e+01 1vhtA 218 6.83e+01 c.37.1.1 100700 1rj9A 304 6.86e+01 a.24.13.1,c.37.1.10 97553,97554 1mldA 314 6.89e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1s5lU 134 6.95e+01 1dhn 121 6.95e+01 1dhn d.96.1.3 40663 1ny6A 267 7.02e+01 c.37.1.20 92321 1w24A 182 7.06e+01 1dg9A 157 7.06e+01 1dg9A c.44.1.1 32637 1kqpA 271 7.28e+01 c.26.2.1 72883 1rypB 250 7.30e+01 1rypB d.153.1.4 41933 4pfk 319 7.34e+01 3pfk c.89.1.1 35582 1fts 295 7.36e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 2b8wA 328 7.37e+01 1ido 192 7.45e+01 1ido c.62.1.1 34139 1knqA 175 7.48e+01 c.37.1.17 72786 1lwjA 441 7.53e+01 b.71.1.1,c.1.8.1 74303,74304 1ikpA 613 7.57e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1mmiA 366 7.57e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1tn6A 382 7.57e+01 1dofA 403 7.62e+01 1c3cA a.127.1.1 19429 1sphA 88 7.72e+01 1ptf d.94.1.1 40544 1swvA 267 7.83e+01 1hurA 180 7.86e+01 1hurA c.37.1.8 32052 1t5yA 190 7.87e+01 b.122.1.1,d.17.6.3 106495,106496 1p9qC 256 7.90e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1mkfA 382 7.90e+01 b.116.1.1 79232 1kafA 108 7.91e+01 d.199.1.1 68372 1fhuA 320 7.91e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1poiA 317 7.95e+01 1poiA c.124.1.2 34153 1svsA 353 7.95e+01 c.37.1.8 106051 1zip 217 7.98e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1cipA 353 8.09e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1mhqA 148 8.17e+01 a.118.9.2 84973 1r4xA 275 8.19e+01 b.1.10.3,d.105.1.2 97054,97055 1fa0A 537 8.23e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1ok7A 366 8.25e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 2irfG 113 8.46e+01 2irfG a.4.5.23 16185 1dljA 402 8.59e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1jj2I 145 8.68e+01 1ffkG c.21.1.1 63094 1vf8A 377 8.69e+01 1i6aA 219 8.77e+01 c.94.1.1 61827 1uj2A 252 8.81e+01 c.37.1.6 99452 2bwvA 440 8.90e+01 2pia 321 8.93e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1lmb3 92 8.95e+01 1lmb3 1xrjA 261 8.98e+01 1tph1 247 9.00e+01 1amk