# 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 1sur 215 7.42e-23 1sur c.26.2.2 31620 1gpmA 525 3.25e-05 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1xngA 268 7.09e-03 1wy5A 317 8.43e-03 1ni5A 433 1.09e-02 c.26.2.5,d.229.1.1 80533,80534 1q15A 503 1.44e-02 c.26.2.1,d.153.1.1 95538,95539 1vl2A 421 1.02e-01 c.26.2.1,d.210.1.1 108708,108709 2d13A 227 5.46e-01 1k92A 455 5.68e-01 c.26.2.1,d.210.1.1 68325,68326 1m1zA 513 6.29e-01 c.26.2.1,d.153.1.1 78457,78458 1ru8A 232 8.53e-01 c.26.2.1 97849 1jgtA 513 8.64e-01 c.26.2.1,d.153.1.1 66684,66685 1r9jA 673 1.21e+00 1korA 400 1.40e+00 c.26.2.1,d.210.1.1 72824,72825 1jdiA 231 2.48e+00 c.74.1.1 66551 1kw4A 89 2.79e+00 a.60.1.2 73077 1k0wA 231 2.93e+00 c.74.1.1 77220 1pk1B 89 3.15e+00 1s6cA 183 4.89e+00 a.39.1.5 98594 1im5A 180 5.63e+00 c.33.1.3 66211 1gt6A 269 5.97e+00 c.69.1.17 76342 2bkyX 89 6.26e+00 1tib 269 6.60e+00 3tgl c.69.1.17 34738 1udvA 89 7.11e+00 d.68.6.1 99224 1nar 290 8.11e+00 1nar c.1.8.5 28988 1iakA 199 8.17e+00 1iakA b.1.1.2,d.19.1.1 21625,38199 1kicA 339 8.65e+00 c.70.1.1 72510 1cl4A 60 8.67e+00 1cl4A g.40.1.1 45171 1jk7A 323 8.67e+00 1auiA d.159.1.3 63144 1yzsA 121 9.04e+00 1v7lA 163 9.14e+00 1tlqA 189 9.16e+00 a.195.1.1 107134 1o7kA 131 9.36e+00 d.189.1.1 81144 1xtqA 177 9.85e+00 1pbtA 244 9.99e+00 c.124.1.1 94416 1mp9A 198 1.01e+01 d.129.1.1,d.129.1.1 91385,91386 1u32A 293 1.06e+01 d.159.1.3 107631 1uarA 285 1.10e+01 c.46.1.2,c.46.1.2 107762,107763 1g8pA 350 1.13e+01 1g8pA c.37.1.20 60376 1fjmA 330 1.18e+01 1auiA d.159.1.3 42082 1vl1A 232 1.21e+01 c.124.1.1 108707 2f05A 105 1.30e+01 1wxiA 275 1.32e+01 1qmyA 167 1.34e+01 1qmyA d.3.1.2 37094 1vl7A 157 1.46e+01 b.45.1.1 108732 1kq6A 141 1.47e+01 d.189.1.1 91020 2cx6A 90 1.52e+01 1xrtA 467 1.54e+01 1t0aA 159 1.62e+01 1mioA 534 1.62e+01 1qguA c.92.2.3 35601 1jdlA 121 1.77e+01 a.3.1.1 66557 1wbeA 209 1.80e+01 2b4gA 317 1.84e+01 1lplA 95 2.07e+01 b.34.10.1 74173 1d7qA 143 2.10e+01 1d7qA b.40.4.5 25331 1b0nA 111 2.13e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1yzqA 170 2.18e+01 1sxgA 280 2.20e+01 1hp0A 339 2.21e+01 c.70.1.1 65900 1pvmA 184 2.24e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1xqiA 195 2.27e+01 2c1dA 264 2.28e+01 1gd5A 130 2.33e+01 1gd5A d.189.1.1 60439 1w8iA 156 2.34e+01 1cseI 71 2.37e+01 1egpA d.40.1.1 38559 1tovA 98 2.50e+01 b.34.10.1 107179 1iyxA 432 2.55e+01 c.1.11.1,d.54.1.1 83815,83816 1tbxA 99 2.60e+01 a.4.5.48 106748 1sv0C 82 2.64e+01 a.60.1.1 106037 2masA 314 2.71e+01 2masA c.70.1.1 34810 2a74A 643 2.87e+01 1tfjA 219 2.89e+01 1od5A 492 2.95e+01 b.82.1.2,b.82.1.2 86832,86833 1epnE 330 3.01e+01 2er7E b.50.1.2 26780 1mh1 186 3.12e+01 1eesA c.37.1.8 32002 1swxA 209 3.18e+01 a.224.1.1 106075 1c2rA 116 3.21e+01 1ycc a.3.1.1 15887 1g6wA 261 3.23e+01 1hqoA a.45.1.1,c.47.1.5 17751,33045 1tdzA 272 3.31e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1g84A 105 3.35e+01 1g84A b.1.1.2 60345 1rzrA 332 3.38e+01 2er7E 330 3.43e+01 2er7E b.50.1.2 26779 2erxA 172 3.61e+01 5er2E 330 3.67e+01 2er7E b.50.1.2 26783 1hozA 339 3.67e+01 c.70.1.1 65898 1nnjA 271 3.70e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1wvfA 520 3.84e+01 1uv7A 110 3.91e+01 d.67.4.1 100040 1do6A 124 3.91e+01 1do6A b.1.13.1 22361 2nsyA 271 3.95e+01 2nsyA c.26.2.1 31612 1ox6A 555 3.96e+01 c.1.2.1,c.23.16.1 87505,87506 1gvuA 329 4.04e+01 b.50.1.2 70619 1h30A 422 4.04e+01 b.29.1.4,b.29.1.4 76604,76605 1nsyA 271 4.29e+01 2nsyA c.26.2.1 31614 1jvnA 555 4.31e+01 c.1.2.1,c.23.16.1 67355,67356 1al8 359 4.32e+01 1gox c.1.4.1 28608 1oewA 329 4.40e+01 b.50.1.2 86924 1q01A 38 4.43e+01 3ncmA 92 4.48e+01 3ncmA b.1.1.4 21702 2axtK 37 4.51e+01 1h67A 108 4.61e+01 a.40.1.1 65643 1xw4X 110 4.72e+01 1ars 396 4.73e+01 1ajsA c.67.1.1 34287 1dqiA 124 4.80e+01 1do6A b.1.13.1 22357 1crzA 403 4.86e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1kqpA 271 4.86e+01 c.26.2.1 72883 1h7mA 102 4.87e+01 d.79.3.1 83485 1j5eN 60 4.98e+01 g.39.1.7 71557 1cnpA 90 5.30e+01 4icb a.39.1.2 17161 1hqoA 258 5.31e+01 1hqoA a.45.1.1,c.47.1.5 17749,33043 1ata 62 5.32e+01 1eaiC g.22.1.1 44893 1wkyA 464 5.34e+01 2sas 185 5.35e+01 2sas a.39.1.5 17258 1nksA 194 5.36e+01 1nksA c.37.1.1 31886 1c2n 137 5.41e+01 1ycc a.3.1.1 15889 1gm5A 780 5.59e+01 a.24.21.1,b.40.4.9,c.37.1.19,c.37.1.19 65298,65299,65300,65301 1ipaA 274 5.59e+01 c.116.1.1,d.79.3.3 71254,71255 1xm7A 195 5.64e+01 1epfA 191 5.70e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1kmnD 424 5.75e+01 1adjA c.51.1.1,d.104.1.1 33185,40734 1o17A 345 5.82e+01 a.46.2.1,c.27.1.1 80765,80766 1fjgN 61 5.86e+01 1fjfN g.39.1.7 45154 5p21 166 5.87e+01 1ctqA c.37.1.8 31966 2ah5A 210 5.93e+01 1yqzA 438 5.97e+01 2adr 60 6.10e+01 2adr g.37.1.1,g.37.1.1 45030,45031 1ih8A 271 6.17e+01 2nsyA c.26.2.1 62377 1he2A 206 6.17e+01 1he2A c.2.1.2 60966 1ctqA 166 6.21e+01 1ctqA c.37.1.8 31965 1w36B 1180 6.23e+01 1dsvA 31 6.23e+01 1dsvA g.40.1.1 45174 1jy5A 212 6.26e+01 d.124.1.1 71940 2az2A 73 6.30e+01 1rcuA 195 6.33e+01 c.129.1.1 97295 1w41A 101 6.41e+01 1ny9A 143 6.44e+01 a.181.1.1 86401 1rqbA 539 6.54e+01 a.5.7.2,c.1.10.5 105057,105058 1thfD 253 6.60e+01 1thfD c.1.2.1 28535 1ko7A 314 6.62e+01 c.98.2.1,c.91.1.2 72797,72798 1agp 166 6.68e+01 1ctqA c.37.1.8 31985 1t6nA 220 6.80e+01 c.37.1.19 106576 1c5kA 439 6.84e+01 1crzA b.68.4.1,c.51.2.1 27630,33212 1spa 396 6.88e+01 1ajsA c.67.1.1 34291 821p 166 6.89e+01 1ctqA c.37.1.8 31969 1d02A 202 6.93e+01 1d02A c.52.1.8 33313 1u3aA 189 6.94e+01 1k0dA 260 6.95e+01 a.45.1.1,c.47.1.5 67930,67931 2tmkA 216 7.11e+01 3tmkA c.37.1.1 31928 1f94A 63 7.14e+01 1f94A g.7.1.1 44435 2az0A 73 7.14e+01 2af8 86 7.16e+01 2af8 a.28.1.1 16933 1uohA 226 7.20e+01 d.211.1.1 99690 2afwA 329 7.22e+01 1it2A 146 7.23e+01 a.1.1.2 66365 1a03A 90 7.29e+01 4icb a.39.1.2 17157 1xw3A 110 7.34e+01 1cdzA 96 7.37e+01 1cdzA c.15.1.1 30925 1egnA 434 7.39e+01 1celA b.29.1.10 59411 1fcdA 401 7.46e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1jagA 241 7.47e+01 c.37.1.1 66463 1dg6A 191 7.66e+01 1d4vB b.22.1.1 23883 1m2eA 135 7.69e+01 c.23.1.5 78478 1nstA 325 7.69e+01 1nstA c.37.1.5 31951 1jy8A 159 7.74e+01 d.79.5.1 67452 1tdj 514 7.75e+01 1tdj c.79.1.1,d.58.18.2,d.58.18.2 35297,39356,39357 1v2zA 111 7.86e+01 a.186.1.1 108300 1a79A 171 7.90e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1aihA 170 7.96e+01 1aihA d.163.1.1 42149 1a5r 103 8.05e+01 1a5r d.15.1.1 37597 1a23 189 8.21e+01 1fvkA c.47.1.13 90319 2faoA 309 8.24e+01 1efcA 393 8.28e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 2ftrA 108 8.37e+01 1vg8A 207 8.37e+01 c.37.1.8 108606 1dt7X 22 8.41e+01 j.69.1.1 46362 1aisA 182 8.55e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1u7pA 164 8.59e+01 1nb8A 353 8.72e+01 d.3.1.9 80385 1kmmA 424 8.81e+01 1adjA c.51.1.1,d.104.1.1 33174,40723 1wp5A 323 8.93e+01 1celA 434 8.95e+01 1celA b.29.1.10 24280 1jeoA 180 8.96e+01 c.80.1.3 66611 1lkyA 77 8.97e+01 a.60.1.1 73985 1hdoA 206 8.98e+01 1he2A c.2.1.2 60965