# List of top-scoring protein chains for t2k-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 2cpl 165 1.77e-32 2cpl b.62.1.1 27420 1yndA 165 2.25e-32 1awsA 164 2.26e-32 2cpl b.62.1.1 27431 1cwoA 165 2.32e-32 2cpl b.62.1.1 27445 2bitX 165 2.80e-32 1qoiA 177 3.52e-32 2cpl b.62.1.1 27490 1awqA 164 3.98e-32 2cpl b.62.1.1 27461 2rmcA 182 7.30e-32 2cpl b.62.1.1 27491 1dywA 173 8.30e-32 2cpl b.62.1.1 27505 1a58 177 1.31e-31 2cpl b.62.1.1 27495 1zcxA 178 1.62e-31 1ihgA 370 1.77e-31 2cpl a.118.8.1,b.62.1.1 62380,62381 1xo7A 166 1.84e-31 2cfeA 162 3.70e-31 1vdnA 162 1.17e-30 1h0pA 182 1.59e-30 b.62.1.1 76450 2a2nA 176 3.06e-29 1zkcA 197 8.03e-29 1xwnA 174 2.13e-28 2fu0A 160 5.02e-28 2b71A 196 2.41e-27 1lopA 164 7.59e-25 2cpl b.62.1.1 27510 1v9tA 166 7.97e-25 b.62.1.1 108451 1j2aA 166 1.30e-24 b.62.1.1 90779 1clh 166 1.38e-24 2cpl b.62.1.1 27512 1zx8A 136 6.41e-01 1icpA 376 6.92e-01 1oyc c.1.4.1 62270 1dgnA 89 1.93e+00 1dgnA a.77.1.3 18436 1yoxA 250 2.50e+00 1mxiA 160 2.56e+00 c.116.1.1 79646 1kq4A 232 3.84e+00 d.207.1.1 68791 1r3nA 462 4.56e+00 c.56.5.4,d.58.19.1 96945,96946 1q45A 391 5.11e+00 c.1.4.1 95780 1fj2A 232 5.39e+00 1auoA c.69.1.14 34720 1o26A 232 7.53e+00 d.207.1.1 86566 1vyrA 364 8.02e+00 c.1.4.1 108906 1sb8A 352 8.67e+00 c.2.1.2 105410 1h61A 364 8.93e+00 1oyc c.1.4.1 60657 1gvoA 364 8.93e+00 c.1.4.1 76357 2gk3A 256 9.11e+00 1vypX 364 9.94e+00 c.1.4.1 108905 2b4wA 315 1.05e+01 2abbA 364 1.17e+01 1a5dA 173 1.27e+01 1amm b.11.1.1,b.11.1.1 23614,23615 2gcuA 245 1.31e+01 1n25A 368 1.34e+01 c.37.1.20 85264 1bqcA 302 1.36e+01 1bqcA c.1.8.3 28831 1kbvA 327 1.41e+01 b.6.1.3,b.6.1.3 68395,68396 1o04A 500 1.41e+01 c.82.1.1 86508 1zirA 173 1.44e+01 1z2lA 423 1.50e+01 1ku2A 241 1.66e+01 a.4.13.1,a.177.1.1 83096,83097 1oktA 211 1.87e+01 a.45.1.1,c.47.1.5 93272,93273 1uocA 289 1.92e+01 c.55.3.9 99686 1qmpA 130 2.00e+01 1dz3A c.23.1.1 31106 1vqvA 306 2.02e+01 2mbr 340 2.14e+01 2mbr d.145.1.2,d.146.1.1 41749,41762 1r3sA 367 2.16e+01 c.1.22.1 96963 1rx0A 393 2.18e+01 a.29.3.1,e.6.1.1 98007,98008 1s31A 273 2.20e+01 1c8zA 265 2.25e+01 1c8zA d.23.1.1 38375 2jdxA 385 2.31e+01 1jdw d.126.1.2 41139 2fp8A 322 2.34e+01 1uxy 340 2.40e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1h8uA 117 2.42e+01 1h8uA d.169.1.1 60793 1uroA 367 2.53e+01 1uroA c.1.22.1 29675 1mdbA 539 2.53e+01 e.23.1.1 79008 2fug5 207 2.60e+01 1oy1A 228 2.75e+01 c.23.16.2 87548 1ag8A 499 3.19e+01 1bpwA c.82.1.1 35341 1b77A 228 3.31e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 2bi0A 337 3.40e+01 1z41A 338 3.45e+01 1x9uA 116 3.46e+01 1c0eA 157 3.47e+01 1dg9A c.44.1.1 32638 3crd 100 3.59e+01 3crd a.77.1.3 18429 2aawA 222 3.61e+01 1pfo 500 3.63e+01 1pfo f.9.1.1 43826 1tmy 120 3.64e+01 1dbwA c.23.1.1 31083 1qr0A 228 3.68e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1dz3A 130 3.76e+01 1dz3A c.23.1.1 31105 1jdw 423 3.80e+01 1jdw d.126.1.2 41129 1vhqA 232 3.81e+01 c.23.16.2 100696 1k66A 149 3.85e+01 c.23.1.1 90941 1a45 173 3.91e+01 1amm b.11.1.1,b.11.1.1 23602,23603 1m3jA 471 3.91e+01 f.9.1.1 91182 1ituA 369 3.95e+01 c.1.9.7 71423 6pfkA 319 3.96e+01 3pfk c.89.1.1 35583 1e2uA 553 3.97e+01 1e1dA e.26.1.1 43362 1m8uA 173 4.01e+01 b.11.1.1,b.11.1.1 91233,91234 1n83A 270 4.06e+01 a.123.1.1 80276 2dd8S 202 4.32e+01 2fug7 129 4.47e+01 1pswA 348 4.56e+01 c.87.1.7 88287 2gq1A 332 4.60e+01 1xm0A 147 4.73e+01 1ntr 124 4.74e+01 1dbwA c.23.1.1 31092 2gfhA 260 4.75e+01 1gntA 553 4.84e+01 e.26.1.1 70290 1dg9A 157 4.88e+01 1dg9A c.44.1.1 32637 2b7oA 464 4.96e+01 1gggA 226 5.02e+01 1lst c.94.1.1 35817 1g01A 364 5.06e+01 7a3hA c.1.8.3 60161 1ufbA 127 5.07e+01 a.24.16.3 99331 1m3iA 471 5.09e+01 f.9.1.1 91178 1stu 68 5.09e+01 1di2A d.50.1.1 38782 1kv9A 668 5.18e+01 a.3.1.6,b.70.1.1 73056,73057 2af4C 333 5.24e+01 1ffkD 176 5.31e+01 1ffkD d.77.1.1 39750 1agx 331 5.47e+01 4pgaA c.88.1.1 35564 1phr 157 5.61e+01 1dg9A c.44.1.1 32635 1svmA 377 5.68e+01 1bvh 157 5.72e+01 1dg9A c.44.1.1 32640 1vr0A 247 5.76e+01 1elpA 173 5.87e+01 1amm b.11.1.1,b.11.1.1 23596,23597 1bvsB 203 5.89e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16281,17956,25275 1gnlA 544 6.02e+01 e.26.1.1 70287 1q5fA 156 6.09e+01 d.24.1.1 104536 1yadA 221 6.16e+01 1zs9A 261 6.21e+01 1wn0A 145 6.24e+01 1si6X 282 6.32e+01 1tllA 688 6.36e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1vkcA 158 6.37e+01 1zr5A 214 6.49e+01 1j1iA 296 6.50e+01 c.69.1.10 83977 1h4aX 173 6.55e+01 b.11.1.1,b.11.1.1 83479,83480 1bqg 451 6.75e+01 1bqg c.1.11.2,d.54.1.1 29217,38861 1g0cA 364 6.85e+01 7a3hA c.1.8.3 60165 1b1cA 181 6.93e+01 1amoA c.23.5.2 31212 1v3rA 116 6.93e+01 1bvyF 191 7.49e+01 1bvyF c.23.5.1 31207 1xdwA 331 7.64e+01 2madH 373 7.69e+01 2bbkH b.69.2.1 27639 1vasA 137 7.78e+01 2end a.18.1.1 16404 1amm 174 7.82e+01 1amm b.11.1.1,b.11.1.1 23587,23588 1kzqA 289 7.88e+01 b.6.2.1,b.6.2.1 73374,73375 1htrB 329 7.99e+01 1smrA 4sli 679 8.09e+01 2sli b.29.1.9,b.68.1.1 24275,27612 1u0sY 118 8.40e+01 c.23.1.1 107566 2gefA 217 8.40e+01 2bdrA 175 8.43e+01 1vqrA 297 8.45e+01 1vhoA 346 8.47e+01 b.49.3.1,c.56.5.4 100694,100695 1g65K 211 8.51e+01 d.153.1.4 41907 1hf2A 210 8.78e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 2sli 679 8.99e+01 2sli b.29.1.9,b.68.1.1 24274,27611