# 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.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 3h3mA 126 3.06e-13 1or3A 165 3.10e-01 1nfn a.24.1.1 16522 1nfn 191 7.50e-01 1nfn 3hr0A 263 9.51e-01 2avkA 136 1.36e+00 2fkzA 155 1.42e+00 a.25.1.1 133688 1b68A 191 1.56e+00 1nfn a.24.1.1 59076 2fztA 79 1.99e+00 a.46.3.1 134476 2jx0A 135 2.25e+00 2oy9A 98 2.49e+00 a.276.1.1 149063 3k29A 169 2.50e+00 3mkxA 112 2.81e+00 2ccyA 128 3.38e+00 2ccyA a.24.3.2 16544 1gs9A 165 3.51e+00 a.24.1.1 83313 2r31A 239 3.63e+00 d.381.1.1 151546 1jkvA 266 3.73e+00 a.25.1.3 71719 2gf4A 100 3.92e+00 a.8.10.1 135074 2qkwA 164 4.03e+00 a.8.8.1 150848 1o9iA 266 4.05e+00 a.25.1.3 92671 3cjhB 64 4.27e+00 1vlgA 176 4.44e+00 a.25.1.1 108816 3lkeA 263 4.50e+00 2v6xA 85 4.62e+00 3e2cA 158 5.56e+00 2pjwV 91 5.79e+00 2vzbA 170 6.36e+00 2chpA 153 6.51e+00 2qqyA 149 6.79e+00 2rd3A 223 7.09e+00 2p22D 79 7.99e+00 1fe6C 52 8.20e+00 1fe6C h.1.19.1 45664 3ibxA 221 8.33e+00 1qkrA 188 9.31e+00 1qkrA a.24.9.1 16628 2wtlA 173 9.56e+00 1fe6A 52 9.64e+00 1fe6A h.1.19.1 45662 3dghA 483 1.06e+01 3favA 101 1.07e+01 1ybkA 52 1.08e+01 1gesA 450 1.10e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 3bc1B 59 1.15e+01 2ux0A 143 1.16e+01 d.17.4.7 152231 3lbxB 185 1.20e+01 1bcfA 158 1.20e+01 1bcfA a.25.1.1 16648 1edoA 244 1.24e+01 1ybvA c.2.1.2 29896 2rfpA 171 1.30e+01 3ez0A 225 1.31e+01 3a1gB 40 1.32e+01 2vdeA 460 1.32e+01 1pd3A 58 1.34e+01 a.30.3.1 94512 3mquA 171 1.36e+01 3e1qA 158 1.44e+01 3l9jC 134 1.45e+01 1ek9A 428 1.47e+01 1ek9A f.5.1.1 43809 1eztA 166 1.47e+01 1agrE a.91.1.1 18541 1nt2B 258 1.49e+01 a.183.1.1 86150 3evyA 239 1.49e+01 2vxiA 158 1.51e+01 1fjgM 126 1.55e+01 1fjfM a.156.1.1 16293 1bz4A 144 1.60e+01 1nfn a.24.1.1 16521 2crbA 97 1.66e+01 a.7.16.1 130737 1w33A 181 1.66e+01 1woqA 267 1.68e+01 c.55.1.10,c.55.1.10 109462,109463 2rpaA 78 1.69e+01 2ax8A 256 1.70e+01 2pocA 367 1.76e+01 1b9xC 246 1.76e+01 1b9yC c.47.1.6 33053 1kfrA 147 1.77e+01 a.1.1.2 72424 2ax9A 256 1.84e+01 a.123.1.1 127481 3hinA 275 1.85e+01 1iweA 457 1.89e+01 c.37.1.10 71486 1m5iA 125 1.90e+01 h.4.13.1 78648 3mq1A 103 1.91e+01 2ax6A 256 1.95e+01 a.123.1.1 127479 2r9zA 463 1.95e+01 1dkxA 219 1.97e+01 1dkzA a.8.4.1,b.130.1.1 90339,90340 3eb2A 300 2.00e+01 1t7rA 269 2.08e+01 a.123.1.1 106635 1ux8A 132 2.14e+01 a.1.1.1 113449 1htn 182 2.17e+01 1htn 1mu5A 471 2.27e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1dn1B 267 2.35e+01 1dn1B a.47.2.1 17771 1syyA 346 2.42e+01 a.25.1.2 106126 3khaA 95 2.62e+01 1n8vA 112 2.63e+01 a.118.21.1 85457 1gw5A 621 2.65e+01 a.118.1.10 70629 3m5wA 322 2.68e+01 1tzvA 142 2.69e+01 a.79.1.1 107526 1cii 602 2.71e+01 1cii 1ciiA 602 2.81e+01 f.1.1.1,h.4.3.1 43381,45787 3i00A 120 2.86e+01 1h97A 147 2.90e+01 1h97A a.1.1.2 60812 2qaiA 111 2.90e+01 2hkjA 469 2.97e+01 a.156.1.3,d.14.1.3,d.122.1.2 136553,136554,136555 2vj4A 294 2.99e+01 2vglA 621 3.00e+01 2gscA 128 3.03e+01 a.29.16.1 147169 2f2aC 100 3.04e+01 a.137.12.1 132804 1mx0A 472 3.13e+01 a.156.1.3,d.14.1.3,d.122.1.2 79618,79619,79620 1dkzA 219 3.16e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 3i0yA 140 3.26e+01 1gkzA 388 3.37e+01 a.29.5.1,d.122.1.4 65268,65269 1fxxA 482 3.38e+01 1fxxA c.55.3.5 33726 3c1mA 473 3.41e+01 1ez3A 127 3.44e+01 1dn1B a.47.2.1 17768 2fxoA 129 3.46e+01 h.1.26.1 134328 1y8oA 419 3.47e+01 a.29.5.1,d.122.1.4 144603,144604 2za8A 167 3.48e+01 a.25.1.1 154276 3gkuA 225 3.56e+01 1r4gA 53 3.57e+01 a.8.5.1 96996 1ohfA 644 3.64e+01 b.121.4.8 93014 1he1A 135 3.71e+01 1he1A a.24.11.1 16641 2pihA 151 3.74e+01 a.281.1.1 149511 3e6iA 476 3.76e+01 1h6gA 256 3.77e+01 1h6gA a.24.9.1,a.24.9.1 60669,60670 1io1A 398 3.79e+01 1io1A e.32.1.1 62611 3ip4C 100 3.83e+01 2weyA 343 3.89e+01 3f5hA 68 3.91e+01 1h0aA 158 3.96e+01 a.118.9.1 76434 1eduA 149 4.09e+01 1eduA a.118.9.1 19215 1b9yC 246 4.10e+01 1b9yC c.47.1.6 33052 3lq7A 240 4.20e+01 1z1bA 356 4.21e+01 d.10.1.4,d.163.1.1 124346,124347 3hh0A 146 4.21e+01 1tn3A 137 4.27e+01 d.169.1.1 42423 1cpqA 129 4.28e+01 a.24.3.2 16556 1cpq 129 4.30e+01 1cpq 1q67A 231 4.33e+01 b.55.1.7 95960 2z0qA 346 4.34e+01 2hueC 84 4.35e+01 a.22.1.1 136776 2nsaA 170 4.36e+01 2p54A 267 4.36e+01 a.123.1.1 139497 3fydA 263 4.37e+01 2clbA 188 4.42e+01 2ic6A 78 4.56e+01 3gruA 295 4.57e+01 1kx5B 102 4.58e+01 a.22.1.1 77594 2idlA 117 4.62e+01 d.64.2.1 147638 1aoiB 87 4.66e+01 1aoiB a.22.1.1 16470 2it9A 127 4.68e+01 d.18.1.3 137634 1dat 174 4.68e+01 2fha 1ihbA 162 4.81e+01 1bd8 d.211.1.1 19161 2v2pA 174 4.86e+01 2zdiC 151 4.86e+01 2w49A 277 4.88e+01 1ug7A 128 4.93e+01 a.24.24.1 107824 1mxsA 225 4.97e+01 c.1.10.1 91494 1it2A 146 4.99e+01 a.1.1.2 66365 1l8dA 112 4.99e+01 h.4.12.1 73687 2zovA 210 5.02e+01 2h0uA 217 5.06e+01 3f89A 92 5.07e+01 3gohA 315 5.07e+01 2dobA 83 5.07e+01 1ywmA 200 5.09e+01 3cl3D 130 5.09e+01 1u4qA 322 5.15e+01 a.7.1.1,a.7.1.1,a.7.1.1 113024,113025,113026 1s3qA 173 5.19e+01 a.25.1.1 118848 1hkxA 147 5.23e+01 d.17.4.7 83567 2q4xA 221 5.26e+01 a.132.1.3 139880 1r0dA 206 5.33e+01 a.216.1.1 104715 2eboA 74 5.33e+01 2eboA h.3.2.1 45754 2a9uA 144 5.50e+01 a.118.23.1 126450 1mx4A 168 5.52e+01 d.211.1.1 79640 2ovyA 362 5.64e+01 2faoA 309 5.67e+01 1xgwA 176 5.69e+01 2ousA 331 5.70e+01 3ilwA 470 5.77e+01 1ykhB 132 5.78e+01 a.252.1.1 123519 1wwmA 190 5.80e+01 a.132.1.3 121363 2p6vA 114 5.84e+01 a.277.1.1 149278 2kc8A 98 5.87e+01 2i76A 276 5.88e+01 a.100.1.10,c.2.1.6 147535,147536 3cjdA 198 5.95e+01 3kwqB 83 5.98e+01 1jl5A 454 6.02e+01 c.10.2.6 66830 1owfA 99 6.08e+01 a.55.1.1 87487 2g7rA 117 6.10e+01 1q60A 99 6.11e+01 d.288.1.1 111654 1ris 101 6.22e+01 1ris 1u6hB 31 6.22e+01 1xawA 140 6.29e+01 h.4.17.1 121831 3kphA 217 6.29e+01 3hp4A 185 6.32e+01 1lnwA 147 6.40e+01 a.4.5.28 78104 1sqwA 188 6.43e+01 b.122.1.1,d.17.6.3 119033,119034 1h7cA 108 6.46e+01 a.7.5.1 70914 2pd6A 264 6.47e+01 2btvA 901 6.55e+01 2btvA e.28.1.1 43376 2k37A 59 6.55e+01 3f4yD 40 6.57e+01 3hz6A 511 6.60e+01 3euhA 440 6.62e+01 1tzyD 103 6.70e+01 a.22.1.1 107533 1h6qA 168 6.74e+01 1h6qA b.88.1.2 60692 1cunA 213 6.75e+01 1cunA a.7.1.1,a.7.1.1 16313,16314 3ir2A 207 6.79e+01 1q08A 99 6.79e+01 a.6.1.3 95497 3lwtX 505 6.81e+01 3ce7A 107 6.85e+01 1yw5A 177 6.88e+01 2h8oA 335 6.93e+01 3kwsA 287 6.94e+01 1zeeA 403 6.99e+01 a.266.1.2 124981 1bjt 793 7.04e+01 1bjt 1bjtA 793 7.04e+01 e.11.1.1 43249 1slqA 278 7.05e+01 f.47.1.1 105719 3isaA 254 7.06e+01 3mhsC 99 7.06e+01 1uw0A 117 7.08e+01 g.39.1.12 108063 2z3yA 662 7.11e+01 a.4.1.18,c.3.1.2,d.16.1.5 154024,154025,154026 1ydxA 406 7.18e+01 d.287.1.2,d.287.1.2 123004,123005 1uj2A 252 7.19e+01 c.37.1.6 99452 2uubT 106 7.19e+01 a.7.6.1 139951 2i62A 265 7.19e+01 2r9iA 141 7.20e+01 1eyhA 144 7.23e+01 1eduA a.118.9.1 19214 3lecA 230 7.26e+01 2vqeM 126 7.31e+01 a.156.1.1 153437 2v6qA 173 7.42e+01 1fjgT 106 7.43e+01 1fjfT a.7.6.1 16338 3iq1A 159 7.46e+01 2jz2A 66 7.69e+01 2btzA 394 7.78e+01 3igfA 374 7.86e+01 2nwbA 400 7.90e+01 1b5tA 275 7.93e+01 1b5tA c.1.23.1 29676 1cqmA 101 7.98e+01 1ris d.58.14.1 39321